Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1822
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: 1013428
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
File 3 of 7
Found at i:249019 original size:19 final size:19
Alignment explanation
Indices: 248995--249044 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
248985 TAGCTTATAT
248995 TGTATCGATACAAAACCTA
1 TGTATCGATACAAAACCTA
* *
249014 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACCTA
249033 TGTATCGATACA
1 TGTATCGATACA
249045 TTGTATTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAAAACCTA
Found at i:249056 original size:32 final size:33
Alignment explanation
Indices: 249014--249077 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
249004 ACAAAACCTA
249014 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
*
249046 TGTATTGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
249078 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:249887 original size:49 final size:49
Alignment explanation
Indices: 249764--249890 Score: 218
Period size: 49 Copynumber: 2.6 Consensus size: 49
249754 GCCAATATGC
* * *
249764 GGCTAGCGATATTGGACTTAAAGATAAAGGTGGCAATGTGCTGATTCAA
1 GGCTAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
*
249813 GGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 GGCTAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
249862 GGCTAGCGACATTGGACTTAAAGATGAAG
1 GGCTAGCGACATTGGACTTAAAGATGAAG
249891 ATGAGAAAAG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (49 bp):
GGCTAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
Found at i:250059 original size:223 final size:219
Alignment explanation
Indices: 249623--250110 Score: 579
Period size: 223 Copynumber: 2.2 Consensus size: 219
249613 GTTTTGCAAT
* * * * * * *
249623 GTGCCACTGTGCAGATTCAAGGCTTGCCACACTGGACTTAAAGATGATGAGGATGAAGAGCGATA
1 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATA
* * *
249688 AAAGGACCAATACGTTGATTCATGACCAACGATATTGGGTTTGAAGATGAGAAAAAGGATAAAAG
66 AAAGGACCAATACGTTGATTCACGACCAACGATATTGGGCTTAAAGATGAGAAAAAGGATAAAAG
* * * * * *
249753 AGCCAATATGCGGCTAGCGATATTGGACTTAAAGATAAAGGTGGCAATGTGCTGATTCAAGGCCA
131 AGCCAATATGCGGCCAGCGACATTGAACTCAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
249818 GCGACATTGGACTTAAAGATGAAG
196 GCGACATTGGACTTAAAGATGAAG
* *
249842 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGATA
1 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATA
* * * * *
249906 AAGATG-CCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGGAAAAGGATGTCA
66 AA-AGGACCAATACGTTGATTCACGACCAACGATATTGGGCTTAAAGATGAGAAAAAGGA--TAA
* * ** *
249970 ATGTGCTGAT-T-CAAGGCCAGCTACATTGAACTCAAAGATGGAAAAGGTGCCAATATGCTGATT
128 AAGAGCCAATATGC--GGCCAGCGACATTGAACTCAAAGAT---AAAGGTGCCAATATGCTGATT
* *
250033 CAAGGCCAGCTATATTGGACTTAAAGATGAAG
188 CAAGGCCAGCGACATTGGACTTAAAGATGAAG
* * *
250065 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTAGACTTAAAGATG
1 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATG
250111 CCAATGTGCT
Statistics
Matches: 228, Mismatches: 33, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
218 59 0.26
219 49 0.21
220 28 0.12
223 92 0.40
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (219 bp):
GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATA
AAAGGACCAATACGTTGATTCACGACCAACGATATTGGGCTTAAAGATGAGAAAAAGGATAAAAG
AGCCAATATGCGGCCAGCGACATTGAACTCAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
GCGACATTGGACTTAAAGATGAAG
Found at i:250085 original size:49 final size:49
Alignment explanation
Indices: 249968--250642 Score: 699
Period size: 49 Copynumber: 14.5 Consensus size: 49
249958 AAAAGGATGT
* * *
249968 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTCAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
*
250020 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
250069 CAATGTGTTGATTCAAGGCCAGCGACATTAGACTT-AA-A-G-A--TGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
250112 CAATGTGCTGATTCAAGG-CAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
** *
250160 CAATATGCTGATTCAAGGCCAGAGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
250203 CAATGTGCTAATTCAAGGACAGCTACATTTGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
250252 CAATATGTTGCTTCAAGGCCAG-TGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTGC
* *
250295 CAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
250344 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
250387 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
250436 CAATATGCTGATTCAAGGCCAACTATATTGCACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
250479 CATTGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
250528 CAATATGCTGATTCAAGGCCAG-TGATATTGGACTT---G--G-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTGC
* * *
250571 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
250620 CAATATGCTGATTCAAGGCCAGC
1 CAATATGCTGATTCAAGGCCAGC
250643 GATATTGGGC
Statistics
Matches: 521, Mismatches: 61, Indels: 85
0.78 0.09 0.13
Matches are distributed among these distances:
42 14 0.03
43 205 0.39
44 5 0.01
45 4 0.01
46 4 0.01
47 4 0.01
48 25 0.05
49 222 0.43
51 1 0.00
52 37 0.07
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:250269 original size:92 final size:92
Alignment explanation
Indices: 250012--250660 Score: 1005
Period size: 92 Copynumber: 7.1 Consensus size: 92
250002 CAAAGATGGA
* * * * *
250012 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* *
250077 TGATTCAAGGCCAGCGACATTAGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
250104 AAAGATGCCAATGTGCTGATTCAAGG-CAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
*
250168 TGATTCAAGGCCAGAGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * * *
250195 AAAGGTGCCAATGTGCTAATTCAAGGACAGCTACATTTGACTTAAAGATAAAGGTGCCAATATGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* *
250260 TGCTTCAAGGCCAGTGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
250287 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
250352 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
250379 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATG
* * *
250443 CTGATTCAAGGCCAACTATATTGCACTT
65 CTGATTCAAGGCCAGCGATATTGGACTT
* * *
250471 AAAGGTGCCATTGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
*
250536 TGATTCAAGGCCAGTGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
** *
250563 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
*
250628 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
250655 AGAAGG
1 A-AAGG
250661 GTTGCCACCG
Statistics
Matches: 508, Mismatches: 45, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
91 82 0.16
92 423 0.83
93 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:250312 original size:21 final size:21
Alignment explanation
Indices: 250245--250312 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
250235 CTTAAAGATA
* *
250245 AAGGTGCCAATATGTTGCTTC
1 AAGGTGCCAATGTGTTGATTC
* * *
250266 AA-G-GCCAGTGATATTGGACTTA
1 AAGGTGCCAATG-TGTT-GA-TTC
250288 AAGGTGCCAATGTGTTGATTC
1 AAGGTGCCAATGTGTTGATTC
250309 AAGG
1 AAGG
250313 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 5 0.15
20 4 0.12
21 9 0.26
22 6 0.18
23 4 0.12
24 6 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (21 bp):
AAGGTGCCAATGTGTTGATTC
Found at i:250734 original size:32 final size:33
Alignment explanation
Indices: 250655--250854 Score: 313
Period size: 32 Copynumber: 6.2 Consensus size: 33
250645 TATTGGGCTT
*
250655 AGAAGGGTTGCCACCGACTTATGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
250688 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
250721 AG-AGGGTTGCCACCGAGTTGTGTGAGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
250752 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
250784 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
250816 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTA-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
250848 A-AAGGGT
1 AGAAGGGT
250855 GAAAGATGCC
Statistics
Matches: 156, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
31 9 0.06
32 115 0.74
33 32 0.21
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:250965 original size:100 final size:98
Alignment explanation
Indices: 250869--251408 Score: 521
Period size: 100 Copynumber: 5.4 Consensus size: 98
250859 GATGCCACAA
* *
250869 AGTTGTGGAC-TTAAAATGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAATAGTGC
1 AGTTGTGGACTTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAA-GG-AAAA-GGTGC
* *
250933 CACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAG
63 CACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGG
* * * * * *
250969 AGTCGCGAACTTTGAAAGG---AAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGGTGCCA
1 AGTTGTGGACTTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAA-AAGGTGCCA
* *
251030 TGGGGTTGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGG
65 CGGAGTTGTGGACTTTGAAAA--G---AAG-GTGCCACGG
*
251069 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G--AAGGTGC
1 AGTTGTGGACTTTAAAA-GGAACAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAAGGTGC
* ** * *
251131 CACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCATGG
63 CACGGAGTTGTGGACTTTGAA--AAGAAGGTGCCACGG
*
251169 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G--AAGGTGC
1 AGTTGTGGACTTTAAAA-GGAACAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAAGGTGC
* * * *
251231 CACGGAGTCGCGGACTTTGAAAGGAAGGTGCCATGG
63 CACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGG
* * * *
251267 AGTCGTGGAC-TTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTATAAGGGAAAAAGAGTGC
1 AGTTGTGGACTTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTA-AAAGG-AAAAG-GTGC
* *
251331 CACTGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGG
63 CACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGG
* *
251367 AGTTGTGGACTTTGAAAGGAACAAGGTGCCACGGGGTTGTGG
1 AGTTGTGGACTTTAAAAGGAACAAGGTGCCACGGAGTTGTGG
251409 AATTTGATGC
Statistics
Matches: 373, Mismatches: 42, Indels: 49
0.80 0.09 0.11
Matches are distributed among these distances:
94 5 0.01
95 43 0.12
96 13 0.03
97 12 0.03
98 42 0.11
99 6 0.02
100 159 0.43
101 41 0.11
103 21 0.06
104 5 0.01
105 17 0.05
106 5 0.01
107 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.21
Consensus pattern (98 bp):
AGTTGTGGACTTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAGGTGCCAC
GGAGTTGTGGACTTTGAAAAGAAGGTGCCACGG
Found at i:251008 original size:131 final size:131
Alignment explanation
Indices: 250873--251387 Score: 798
Period size: 131 Copynumber: 3.9 Consensus size: 131
250863 CCACAAAGTT
* * *
250873 GTGGACTTAAAATGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAATAGTGCCACGG
1 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
* *
250938 AGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGCGAACTTTGAAAGGAAGGTGCCACGGAGT
66 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTTGAAAGGAAGGTGCCACGGAGT
251003 C
131 C
* *
251004 GTGGACTTAAAAGGAACAAGGTGCCATGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
1 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
* * * * *
251069 AGTTGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCA
66 AGTTGTGGGCTTTGAAAA--G---AAG-GTGCCACGGAGTCGCGGACTTTGAAAGGAAGGTGCCA
251133 CGGAGTC
125 CGGAGTC
*
251140 GTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
1 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
*
251205 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTTGAAAGGAAGGTGCCATGGAGT
66 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTTGAAAGGAAGGTGCCACGGAGT
251270 C
131 C
* * *
251271 GTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTATAAGGGAAAAAGAGTGCCACTG
1 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
* *
251336 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTTGAAAGGAA
66 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTTGAAAGGAA
251388 CAAGGTGCCA
Statistics
Matches: 352, Mismatches: 25, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
130 4 0.01
131 222 0.63
132 4 0.01
135 4 0.01
136 114 0.32
137 4 0.01
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.20
Consensus pattern (131 bp):
GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTTGAAAGGAAGGTGCCACGGAGT
C
Found at i:251479 original size:30 final size:31
Alignment explanation
Indices: 251415--251656 Score: 242
Period size: 30 Copynumber: 7.7 Consensus size: 31
251405 GTGGAATTTG
** *
251415 ATGCCACTGAGTCGTGGACTTTGAAAAGAAA
1 ATGCCACTGAGTCGTGGACTTTGAGGACAAA
251446 ATGCCACTGAGTCGTGGACTTT-AGGACAAA
1 ATGCCACTGAGTCGTGGACTTTGAGGACAAA
* *
251476 ATGCCACTGATTCGTGGGCTTTGAGAAGA-AAA
1 ATGCCACTGAGTCGTGGACTTTGAG--GACAAA
*
251508 AGGTGCCACGGAGTCGTGGACTTT-AGGACAAA
1 A--TGCCACTGAGTCGTGGACTTTGAGGACAAA
* *
251540 ATGCCACTGATTCGTGGGCTTTGAGAAGA-AAA
1 ATGCCACTGAGTCGTGGACTTTGAG--GACAAA
*
251572 AGGTGCCACAGAGTCGTGGACTTT-AGGACAAA
1 A--TGCCACTGAGTCGTGGACTTTGAGGACAAA
* * * * *
251604 ATGCCACTGATTCGTGGGCTTTGAGAAGAGA
1 ATGCCACTGAGTCGTGGACTTTGAGGACAAA
*
251635 TTGCCACTGAGTCGTGGACTTT
1 ATGCCACTGAGTCGTGGACTTT
251657 AAGAAGGTAT
Statistics
Matches: 175, Mismatches: 23, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
30 61 0.35
31 54 0.31
32 16 0.09
33 8 0.05
34 36 0.21
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (31 bp):
ATGCCACTGAGTCGTGGACTTTGAGGACAAA
Found at i:251540 original size:64 final size:62
Alignment explanation
Indices: 251415--251657 Score: 373
Period size: 64 Copynumber: 3.9 Consensus size: 62
251405 GTGGAATTTG
* * *
251415 ATGCCACTGAGTCGTGGACTTTGAAAAGAAAA-TGCCACTGAGTCGTGGACTTTAGGACAAA
1 ATGCCACTGATTCGTGGGCTTTGAGAAGAAAAGTGCCACTGAGTCGTGGACTTTAGGACAAA
*
251476 ATGCCACTGATTCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCGTGGACTTTAGGACAAA
1 ATGCCACTGATTCGTGGGCTTTGAGAAG-AAAA-GTGCCACTGAGTCGTGGACTTTAGGACAAA
*
251540 ATGCCACTGATTCGTGGGCTTTGAGAAGAAAAAGGTGCCACAGAGTCGTGGACTTTAGGACAAA
1 ATGCCACTGATTCGTGGGCTTTGAGAAG-AAAA-GTGCCACTGAGTCGTGGACTTTAGGACAAA
* *
251604 ATGCCACTGATTCGTGGGCTTTGAGAAG-AGATTGCCACTGAGTCGTGGACTTTA
1 ATGCCACTGATTCGTGGGCTTTGAGAAGAAAAGTGCCACTGAGTCGTGGACTTTA
251658 AGAAGGTATT
Statistics
Matches: 171, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
61 46 0.27
62 6 0.04
64 119 0.70
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (62 bp):
ATGCCACTGATTCGTGGGCTTTGAGAAGAAAAGTGCCACTGAGTCGTGGACTTTAGGACAAA
Found at i:252438 original size:10 final size:10
Alignment explanation
Indices: 252425--252464 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
252415 TTCACTTTTT
252425 TCACTGTTCA
1 TCACTGTTCA
*
252435 TCACTATTCA
1 TCACTGTTCA
252445 TCACTGTTCA
1 TCACTGTTCA
*
252455 T-ATTGTTCA
1 TCACTGTTCA
252464 T
1 T
252465 GTATCGATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:252668 original size:20 final size:21
Alignment explanation
Indices: 252622--252668 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
252612 AATTTCAAAT
*
252622 GCATGTATCGATACATTATGA
1 GCATGTATCGATACATTAGGA
252643 --ATTGTATCGATACA-TAGGA
1 GCA-TGTATCGATACATTAGGA
252662 GCATGTA
1 GCATGTA
252669 AGTGCGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
19 5 0.23
20 16 0.73
21 1 0.05
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (21 bp):
GCATGTATCGATACATTAGGA
Found at i:261856 original size:52 final size:52
Alignment explanation
Indices: 261778--261905 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
261768 CGAAATATGA
*
261778 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
261830 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
261882 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
261906 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:261932 original size:13 final size:13
Alignment explanation
Indices: 261914--261938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
261904 CAAAGATCAG
261914 TGTATCGATACAA
1 TGTATCGATACAA
261927 TGTATCGATACA
1 TGTATCGATACA
261939 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:262016 original size:33 final size:33
Alignment explanation
Indices: 261979--262045 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
261969 AGTAGCTTAA
261979 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
262012 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
262045 A
1 A
262046 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:262019 original size:13 final size:13
Alignment explanation
Indices: 262001--262025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
261991 CAAAAAAATA
262001 TGTATCGATACAT
1 TGTATCGATACAT
262014 TGTATCGATACA
1 TGTATCGATACA
262026 ACATTTTATG
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:264704 original size:62 final size:62
Alignment explanation
Indices: 264544--264918 Score: 434
Period size: 62 Copynumber: 6.1 Consensus size: 62
264534 GTAGGACGTC
* *
264544 TTTCAAAGCCCATACAAGTTGGTGGCACC-CTTGAGTCCTCAAAGAGCAGGACGCTTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTCTT-AGTCCTCAAAGAGCAGGACGCCTTTTTCT
* * * * * *
264606 TTT-GAAGCCCACACGAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAAGACACCTTTTTCA
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTCT-TAGTCCTCAAAGAGCAGGACGCCTTTTTCT
* *
264668 TTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGATGCTTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGACGCCTTTTTCT
* * *
264730 TTTCAAAGCCCACATAAGCTGGTGGCACC-CTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTC-TTAGTCCTCAAAGAGCAGGACGCCTTTTTCT
** * * * * *
264792 TTTTGAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTAAAAGAGCAAGACGTC-TTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGACGCCTTTTTCT
* ** * ** * * *
264853 TTTCAAAGTCCACATGAGTTGGTGGTAATTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGACGCCTTTTTCT
264915 TTTC
1 TTTC
264919 TCCTTTGCCC
Statistics
Matches: 264, Mismatches: 43, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
61 73 0.28
62 165 0.62
63 26 0.10
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (62 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGACGCCTTTTTCT
Found at i:264766 original size:124 final size:124
Alignment explanation
Indices: 264544--264900 Score: 495
Period size: 124 Copynumber: 2.9 Consensus size: 124
264534 GTAGGACGTC
*
264544 TTTCAAAGCCCATACAAGTTGGTGGCACC-CTTGAGTCCTCAAAGAGCAGGACGCTTTTTTCTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTCTT-AGTCCTCAAAGAGCAGGACGCTTTTTTCTTT
* *
264608 T-GAAGCCCACACGAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAAGACACCTTTTTCA
65 TCAAAGCCCACATGAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAAGACACCTTTTTCA
*
264668 TTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGATGCTTTTTTCTTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTT
* * * * *
264733 CAAAGCCCACATAAGCTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
66 CAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACACCTTTTTCA
** * * * * *
264792 TTTTGAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTAAAAGAGCAAGACG-TCTTTTCTTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTT
* * **
264856 CAAAGTCCACATGAGTTGGTGGTAATTTTTAGTCCTCAAAGAGCA
66 CAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA
264901 GGATGCCTTT
Statistics
Matches: 207, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
123 48 0.23
124 133 0.64
125 26 0.13
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (124 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTT
CAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACACCTTTTTCA
Found at i:265106 original size:41 final size:42
Alignment explanation
Indices: 264911--265236 Score: 186
Period size: 41 Copynumber: 7.7 Consensus size: 42
264901 GGATGCCTTT
*
264911 TCCTTTTCTCCTTTGCCCTCAAAGAGCAGGACACA-TTTCATT-
1 TCCTTTT-TCCTTTGTCCTCAAAGAGCAGGACACACTTT-ATTC
** ** *
264953 TCCTTCTTTTCCTTTTTGTCCTCAAAGATTAGG--ATGCTTT-TTT
1 TCC-T-TTTTCC--TTTGTCCTCAAAGAGCAGGACACACTTTATTC
* * * * *
264996 TCTTTTTTCCTTTATCCTTAAAGAGCAGGACGCACTTCATTTGC
1 TCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTTA-TT-C
* * * *
265040 TTCTTTTCCCTTCTAGTTCTCAAAAAGCAGGACACACTTTATTC
1 TCCTTTTTCCTT-T-GTCCTCAAAGAGCAGGACACACTTTATTC
* * *
265084 TCCTTTTTCCTTTGTCCTAAAAAAGCATGACACA-TTTAATT-
1 TCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTT-ATTC
* * * * ** *
265125 TCCTTTTTCTTTTGTCTTC-AAGGGTAGGATGCATTTTATT-
1 TCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTTATTC
* * * * *
265165 TCTTTTTTTCTTTTGTCCTCAAGGAGCAGGACCCATTTTATTC
1 TC-CTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTTATTC
* *
265208 T-CTTTTTCCTTTGTCCTTAAAGAGTAGGA
1 TCCTTTTTCCTTTGTCCTCAAAGAGCAGGA
265237 TGCCCCTTTC
Statistics
Matches: 216, Mismatches: 50, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
39 15 0.07
40 13 0.06
41 69 0.32
42 43 0.20
43 11 0.05
44 26 0.12
45 19 0.09
46 20 0.09
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (42 bp):
TCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTTATTC
Found at i:265173 original size:82 final size:83
Alignment explanation
Indices: 264909--265239 Score: 208
Period size: 82 Copynumber: 3.9 Consensus size: 83
264899 CAGGATGCCT
* * * * * *
264909 TTTCCTTTTCTCCTTTGCCCTCAAAGAGCAGGACACATTTCATT-TCCTTCTTTTCCTTTTTGTC
1 TTTCTTTTTTTCCTTTGTCCTAAAAAAGCAGGACACATTTAATTCT-C-T-TTTTCC--TTTGTC
* *
264973 CTCAAAGATTAGGATGC-TTTT-
61 CTTAAAGAGTAGGATGCATTTTA
* * * * * * * *
264994 TTTC-TTTTTTCCTTTATCCTTAAAGAGCAGGACGCACTTCATTTGCTTCTTTTCCCTTCTAGTT
1 TTTCTTTTTTTCCTTTGTCCTAAAAAAGCAGGACACA-TTTAATT-C-TCTTTTTCCTT-T-GTC
* * * ** *
265058 CTCAAAAAGCAGGACACACTTTA
61 CTTAAAGAGTAGGATGCATTTTA
* * *
265081 -TTCTCCTTTTTCCTTTGTCCTAAAAAAGCATGACACATTTAATT-TCCTTTTTCTTTTGT-CTT
1 TTTCT-TTTTTTCCTTTGTCCTAAAAAAGCAGGACACATTTAATTCT-CTTTTTCCTTTGTCCTT
* *
265143 CAAGGGTAGGATGCATTTTA
64 AAAGAGTAGGATGCATTTTA
* * ** * *
265163 TTTCTTTTTTTCTTTTGTCCTCAAGGAGCAGGACCCATTTTATTCTCTTTTTCCTTTGTCCTTAA
1 TTTCTTTTTTTCCTTTGTCCTAAAAAAGCAGGACACATTTAATTCTCTTTTTCCTTTGTCCTTAA
265228 AGAGTAGGATGC
66 AGAGTAGGATGC
265240 CCCTTTCCTT
Statistics
Matches: 187, Mismatches: 45, Indels: 30
0.71 0.17 0.11
Matches are distributed among these distances:
82 58 0.31
83 24 0.13
84 30 0.16
85 35 0.19
86 7 0.04
87 6 0.03
88 27 0.14
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (83 bp):
TTTCTTTTTTTCCTTTGTCCTAAAAAAGCAGGACACATTTAATTCTCTTTTTCCTTTGTCCTTAA
AGAGTAGGATGCATTTTA
Found at i:265728 original size:11 final size:11
Alignment explanation
Indices: 265708--265737 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
265698 CGTGTTTAGG
265708 ATGCAAAAAGT
1 ATGCAAAAAGT
*
265719 ATGGAAAAAGT
1 ATGCAAAAAGT
265730 ATGCAAAA
1 ATGCAAAA
265738 CTCCACCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.20, T:0.17
Consensus pattern (11 bp):
ATGCAAAAAGT
Found at i:271025 original size:13 final size:13
Alignment explanation
Indices: 271007--271032 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
270997 CAATTTTTTG
271007 TGTATCGATACAT
1 TGTATCGATACAT
271020 TGTATCGATACAT
1 TGTATCGATACAT
271033 ACTTGCTGTA
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:271097 original size:21 final size:21
Alignment explanation
Indices: 271071--271146 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
271061 CTGCCAAGAA
*
271071 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
271092 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
271112 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
271133 ATGTATCGATACAT
1 ATGTATCGATACAT
271147 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:271117 original size:20 final size:20
Alignment explanation
Indices: 271092--271164 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
271082 CATCTTTTTT
271092 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
271112 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
271133 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
271153 ATGTATCGATAC
1 ATGTATCGATAC
271165 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:271128 original size:41 final size:41
Alignment explanation
Indices: 271071--271164 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
271061 CTGCCAAGAA
*
271071 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
271112 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
271153 ATGTATCGATAC
1 ATGTATCGATAC
271165 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:273622 original size:13 final size:13
Alignment explanation
Indices: 273604--273642 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
273594 ATAATCACCC
*
273604 TGTATCGATACAG
1 TGTATCGATACAA
273617 TGTATCGATACAA
1 TGTATCGATACAA
273630 TGTATCGATACAA
1 TGTATCGATACAA
273643 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:273653 original size:20 final size:20
Alignment explanation
Indices: 273628--273706 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
273618 GTATCGATAC
273628 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
273648 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
273673 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
273693 CATGTATCGATACA
1 AATGTATCGATACA
273707 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:275741 original size:15 final size:15
Alignment explanation
Indices: 275721--275751 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
275711 ATTTCGTTTG
*
275721 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
275736 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
275751 G
1 G
275752 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:279829 original size:13 final size:13
Alignment explanation
Indices: 279811--279836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
279801 CAATTTTTTG
279811 TGTATCGATACAT
1 TGTATCGATACAT
279824 TGTATCGATACAT
1 TGTATCGATACAT
279837 ACTTGCTGTA
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:279901 original size:21 final size:21
Alignment explanation
Indices: 279875--279950 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
279865 CTGCCAAGAA
*
279875 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
279896 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
279916 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
279937 ATGTATCGATACAT
1 ATGTATCGATACAT
279951 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:279921 original size:20 final size:20
Alignment explanation
Indices: 279896--279968 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
279886 CATCTTTTTT
279896 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
279916 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
279937 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
279957 ATGTATCGATAC
1 ATGTATCGATAC
279969 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:279932 original size:41 final size:41
Alignment explanation
Indices: 279875--279968 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
279865 CTGCCAAGAA
*
279875 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
279916 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
279957 ATGTATCGATAC
1 ATGTATCGATAC
279969 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:281770 original size:13 final size:13
Alignment explanation
Indices: 281752--281789 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
281742 CATTTTTCTT
281752 TGTATCGATACAA
1 TGTATCGATACAA
*
281765 TGTATCGATACAC
1 TGTATCGATACAA
281778 TGTATCGATACA
1 TGTATCGATACA
281790 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:281944 original size:20 final size:19
Alignment explanation
Indices: 281903--281945 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
281893 ATCTTTTGCA
281903 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
281923 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
281943 AAA
1 AAA
281946 ACCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:284419 original size:34 final size:34
Alignment explanation
Indices: 284376--284440 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
284366 TAGCCAAACT
284376 TGTATCGATACACAAAAAATATGTATCGATATAA
1 TGTATCGATACACAAAAAATATGTATCGATATAA
284410 TGTATCGATACACAAAAAATATGTATCGATA
1 TGTATCGATACACAAAAAATATGTATCGATA
284441 CATTGGCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (34 bp):
TGTATCGATACACAAAAAATATGTATCGATATAA
Found at i:289309 original size:52 final size:51
Alignment explanation
Indices: 289231--289379 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
289221 CGAAATATGA
289231 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
289283 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
289335 AAATTTACCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
289380 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:289386 original size:13 final size:13
Alignment explanation
Indices: 289368--289392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
289358 CAAAGATCAG
289368 TGTATCGATACAA
1 TGTATCGATACAA
289381 TGTATCGATACA
1 TGTATCGATACA
289393 TTTAAGTAAT
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:289460 original size:20 final size:19
Alignment explanation
Indices: 289431--289499 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
289421 GCAGTAGCTT
289431 AAATTGTATCGATACAAAA
1 AAATTGTATCGATACAAAA
289450 AAATATGTATCGATAC----
1 AAAT-TGTATCGATACAAAA
289466 --ATTGTATCGATACAAAA
1 AAATTGTATCGATACAAAA
289483 AAATATGTATCGATACA
1 AAAT-TGTATCGATACA
289500 TTGTATCGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.26
14 2 0.05
19 6 0.14
20 23 0.55
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (19 bp):
AAATTGTATCGATACAAAA
Found at i:289470 original size:33 final size:33
Alignment explanation
Indices: 289433--289532 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
289423 AGTAGCTTAA
289433 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
289466 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
289499 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
289532 A
1 A
289533 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:289473 original size:13 final size:13
Alignment explanation
Indices: 289455--289512 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
289445 CAAAAAAATA
289455 TGTATCGATACAT
1 TGTATCGATACAT
289468 TGTATCGATACAAAAAAAT
1 TGTATCGATAC------AT
289487 ATGTATCGATACAT
1 -TGTATCGATACAT
289501 TGTATCGATACA
1 TGTATCGATACA
289513 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
14 2 0.05
19 2 0.05
20 11 0.29
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:290427 original size:22 final size:22
Alignment explanation
Indices: 290402--290470 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
290392 ATGCTGATTC
290402 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
290424 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
290445 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
290467 AAGG
1 AAGG
290471 TGAAGGTGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:290496 original size:49 final size:49
Alignment explanation
Indices: 290278--290564 Score: 318
Period size: 49 Copynumber: 5.8 Consensus size: 49
290268 GTGATAAAGA
* * * *
290278 TGCCAATATG-TCGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCT-GATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* * * *
290332 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
290385 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
290428 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
290477 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
290526 TGCCAATATGGTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
290565 GAAGGGTTGC
Statistics
Matches: 205, Mismatches: 20, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
43 41 0.20
48 1 0.00
49 87 0.42
52 34 0.17
53 6 0.03
54 1 0.00
55 34 0.17
56 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:290695 original size:30 final size:29
Alignment explanation
Indices: 290570--291038 Score: 330
Period size: 30 Copynumber: 15.9 Consensus size: 29
290560 GCTTAGAAGG
* *
290570 GTTGCCACCGACTTGTGTGGGCTTTGGAAAA
1 GTTGCCACTGAC-T-TGTGGGCTTTTGAAAA
* * *
290601 GGGTGCCACTGATTTGTGGGC-TTTG-AAG
1 -GTTGCCACTGACTTGTGGGCTTTTGAAAA
*
290629 GTTGCCACTGACTTGTGGGCTTTT-AAAG
1 GTTGCCACTGACTTGTGGGCTTTTGAAAA
*
290657 GTTGCCACTGACTTATGGGCTTTTGAAAA
1 GTTGCCACTGACTTGTGGGCTTTTGAAAA
* *
290686 ATATGCCACTGACTTGTGGGCTTTTGAACAG
1 GT-TGCCACTGACTTGTGGGCTTTTGAA-AA
* * *
290717 GGTGCCACTAACTTGTGGGCTTTT-AAAG
1 GTTGCCACTGACTTGTGGGCTTTTGAAAA
*
290745 GTTGCCACTAACTTGTGGGCTTTTGAAAA
1 GTTGCCACTGACTTGTGGGCTTTTGAAAA
*
290774 ATATGCCACTGACTTGTGGGCTTTTGAAAA
1 GT-TGCCACTGACTTGTGGGCTTTTGAAAA
* *
290804 GGGTGCCACTAACTTGTGGGC---TGAAAA
1 -GTTGCCACTGACTTGTGGGCTTTTGAAAA
* * * * **
290831 GAGTGCTA-TAGAGTTGTGAGCTTACAAAAGAAAAA
1 G-TTGCCACT-GACTTGTGGGCTT----TTG-AAAA
* * * * *
290866 GAGTGCCACGGAGTTGTGGACTTTGGAAAA
1 G-TTGCCACTGACTTGTGGGCTTTTGAAAA
* * **
290896 GATGCCACCGACTTGTGGGCTTCGGAAAA
1 GTTGCCACTGACTTGTGGGCTTTTGAAAA
* * *
290925 GGGTGCCACTGATTTGTGGGC-TTTG-AAG
1 -GTTGCCACTGACTTGTGGGCTTTTGAAAA
* *
290953 GTTGCCACTAACTTGTGGGCTTTCGAAAAA
1 GTTGCCACTGACTTGTGGGCTTTTG-AAAA
**
290983 AATGCCACTGACTTGTGGGC-TTTGAAAAA
1 GTTGCCACTGACTTGTGGGCTTTTG-AAAA
** *
291012 AATGCCACTGACTTGTGGACTTTTGAA
1 GTTGCCACTGACTTGTGGGCTTTTGAA
291039 GGGTGATGAA
Statistics
Matches: 359, Mismatches: 54, Indels: 51
0.77 0.12 0.11
Matches are distributed among these distances:
26 2 0.01
27 54 0.15
28 61 0.17
29 67 0.19
30 140 0.39
31 3 0.01
32 9 0.03
34 1 0.00
35 22 0.06
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (29 bp):
GTTGCCACTGACTTGTGGGCTTTTGAAAA
Found at i:290710 original size:58 final size:58
Alignment explanation
Indices: 290598--291038 Score: 315
Period size: 58 Copynumber: 7.5 Consensus size: 58
290588 GGGCTTTGGA
* * *
290598 AAAGGGTGCCACTGATTTGTGGGC-TTTG--AAGGTTGCCACTGACTTGTGGGCTTTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACTTGTGGGCTTTT
* **
290653 AAAGGTTGCCACTGACTTATGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACTTGTGGGCTTTT
* * * *
290711 GAACAGGGTGCCACTAACTTGTGGGCTTTT--AAAGGTTGCCACTAACTTGTGGGCTTTT
1 -AA-AGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACTTGTGGGCTTTT
** * * **
290769 GAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGC-TGA
1 -AAAGGT-TGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACTTGTGGGCTTTT
* * * ** * * * *
290828 AAAGAG-TGCTA-TAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTG
1 AAAG-GTTGCCACT-GACTTGTGGGCTT----TTGAAAAGGA-TGCCACTGACTTGTGGGCTTT-
*
290891 G
58 T
* * * ** * *
290892 AAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTT
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACTTGTGGGCTTTT
* * * ** *
290949 GAAGGTTGCCACTAACTTGTGGGCTTTCGAAAAAAATGCCACTGACTTGTGGGCTTTGA
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACTTGTGGGCTTT-T
*** *
291008 AAAAAATGCCACTGACTTGTGGACTTTTGAA
1 AAAGGTTGCCACTGACTTGTGGGCTTTTGAA
291039 GGGTGATGAA
Statistics
Matches: 298, Mismatches: 67, Indels: 38
0.74 0.17 0.09
Matches are distributed among these distances:
55 21 0.07
56 5 0.02
57 59 0.20
58 79 0.27
59 42 0.14
60 52 0.17
61 6 0.02
62 14 0.05
63 2 0.01
64 18 0.06
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (58 bp):
AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGATGCCACTGACTTGTGGGCTTTT
Found at i:290752 original size:88 final size:87
Alignment explanation
Indices: 290604--290825 Score: 367
Period size: 88 Copynumber: 2.6 Consensus size: 87
290594 TGGAAAAGGG
* * * *
290604 TGCCACTGATTTGTGGGC-TTTG-AAGGTTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTG
1 TGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTAAAGGTTGCCACTA
290667 ACTTATGGGCTTTTGAAAAATA
66 ACTTATGGGCTTTTGAAAAATA
290689 TGCCACTGACTTGTGGGCTTTTGAACAGGGTGCCACTAACTTGTGGGCTTTTAAAGGTTGCCACT
1 TGCCACTGACTTGTGGGCTTTTGAA-AGGGTGCCACTAACTTGTGGGCTTTTAAAGGTTGCCACT
*
290754 AACTTGTGGGCTTTTGAAAAATA
65 AACTTATGGGCTTTTGAAAAATA
290777 TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCT
1 TGCCACTGACTTGTGGGCTTTTG-AAAGGGTGCCACTAACTTGTGGGCT
290826 GAAAAGAGTG
Statistics
Matches: 128, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
85 17 0.13
86 4 0.03
87 1 0.01
88 104 0.81
89 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (87 bp):
TGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTAACTTGTGGGCTTTTAAAGGTTGCCACTA
ACTTATGGGCTTTTGAAAAATA
Found at i:290911 original size:29 final size:29
Alignment explanation
Indices: 290862--291034 Score: 170
Period size: 29 Copynumber: 5.9 Consensus size: 29
290852 TTACAAAAGA
* * *
290862 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* *
290892 AAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
290921 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * * *
290950 -AAGGTTGCCACTAACTTGTGGGCTTTCGA
1 AAAAGATGCCACTGACTTGTGGGCTTT-GG
* *
290979 AAAAAATGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
291008 AAAAAATGCCACTGACTTGTGGACTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
291035 TGAAGGGTGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
27 20 0.17
28 2 0.02
29 52 0.43
30 47 0.39
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:290969 original size:121 final size:116
Alignment explanation
Indices: 290755--291029 Score: 293
Period size: 121 Copynumber: 2.3 Consensus size: 116
290745 GTTGCCACTA
* **
290755 ACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTG
1 ACTTGTGGGC-TTTGAAAAAAATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTAACTTG
* * *
290820 TGGGCTGAAAAGAGTGCTATAGAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGG
65 TGGGCTGAAAAGAGTGCCATAGACTTGTGAGCTTAC----GAAAAA-AATGCCACGG
* * * * * * *
290877 AGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGT
1 ACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTAACTTGT
*** * * *
290942 GGGCTTTGAAG-GTTGCCACTA-ACTTGTGGGCTTTCGAAAAAAATGCCACTG
66 GGGCTGAAAAGAG-TGCCA-TAGACTTGTGAGCTTACGAAAAAAATGCCACGG
290993 ACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGG
1 ACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGG
291030 ACTTTTGAAG
Statistics
Matches: 128, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
116 40 0.31
117 6 0.05
120 1 0.01
121 71 0.55
122 10 0.08
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (116 bp):
ACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACTAACTTGT
GGGCTGAAAAGAGTGCCATAGACTTGTGAGCTTACGAAAAAAATGCCACGG
Found at i:292481 original size:1 final size:1
Alignment explanation
Indices: 292477--292582 Score: 68
Period size: 1 Copynumber: 106.0 Consensus size: 1
292467 CCGGACCCCC
* * * * * * ** * *
292477 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTTCCTTTTGTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** **
292542 TTTTTTTTTTTTTGGTTTTTCATTTTTTTCGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
292583 GGAGGACGCC
Statistics
Matches: 79, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (1 bp):
T
Found at i:292497 original size:17 final size:15
Alignment explanation
Indices: 292477--292582 Score: 106
Period size: 17 Copynumber: 6.7 Consensus size: 15
292467 CCGGACCCCC
292477 TTTTTTGTTTTTGTTTG
1 TTTTTT-TTTTT-TTTG
292494 TTTTTTTATTGTTTTTG
1 TTTTTTT-TT-TTTTTG
292511 TTTTTTTTTTCCTTTTG
1 TTTTTTTTTT--TTTTG
*
292528 TTTTTTTGTTTTTT-
1 TTTTTTTTTTTTTTG
*
292542 TTTTTTTTTTTTTGG
1 TTTTTTTTTTTTTTG
* *
292557 TTTTTCATTTTTTTCG
1 TTTTT-TTTTTTTTTG
292573 TTTTTTTTTT
1 TTTTTTTTTT
292583 GGAGGACGCC
Statistics
Matches: 77, Mismatches: 6, Indels: 14
0.79 0.06 0.14
Matches are distributed among these distances:
14 12 0.16
15 14 0.18
16 16 0.21
17 33 0.43
18 2 0.03
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTTTTTG
Found at i:292509 original size:27 final size:26
Alignment explanation
Indices: 292478--292579 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 26
292468 CGGACCCCCT
292478 TTTTTGTTTTTGTTTGTTTTTTTATTG
1 TTTTTGTTTTT-TTTGTTTTTTTATTG
* *
292505 TTTTTGTTTTTTTT-TTCCTTTTGTT-
1 TTTTTGTTTTTTTTGTT-TTTTTATTG
* *
292530 TTTTTGTTTTTTTTTTTTTTTTTTTGG
1 TTTTTGTTTTTTTTGTTTTTTTATT-G
* *
292557 TTTTTCATTTTTTTCGTTTTTTT
1 TTTTT-GTTTTTTTTGTTTTTTT
292580 TTTGGAGGAC
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
25 22 0.35
26 11 0.17
27 16 0.25
28 14 0.22
ACGTcount: A:0.02, C:0.04, G:0.10, T:0.84
Consensus pattern (26 bp):
TTTTTGTTTTTTTTGTTTTTTTATTG
Found at i:292515 original size:34 final size:32
Alignment explanation
Indices: 292477--292582 Score: 114
Period size: 30 Copynumber: 3.3 Consensus size: 32
292467 CCGGACCCCC
292477 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTG
1 TTTTTT-TTTTT-TTTGTTTTTTTATTGTTTTTG
292511 TTTTTTTTTTCCTTTTG--TTTTT-TTGTTTTT-
1 TTTTTTTTTT--TTTTGTTTTTTTATTGTTTTTG
* *
292541 TTTTTTTTTTTTTTGGTTTTTCATT-TTTTTCG
1 TTTTTTTTTTTTTTGTTTTTTTATTGTTTTT-G
292573 TTTTTTTTTT
1 TTTTTTTTTT
292583 GGAGGACGCC
Statistics
Matches: 64, Mismatches: 1, Indels: 16
0.79 0.01 0.20
Matches are distributed among these distances:
28 5 0.08
30 19 0.30
31 10 0.16
32 15 0.23
33 4 0.06
34 10 0.16
35 1 0.02
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (32 bp):
TTTTTTTTTTTTTTGTTTTTTTATTGTTTTTG
Found at i:292534 original size:46 final size:45
Alignment explanation
Indices: 292475--292561 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 45
292465 ATCCGGACCC
*
292475 CCTTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTT
1 CCTTTTTTGTTTTTGTTT-TTTTTTTATTGTTTTTGGTTTTTTTTT
* *
292521 CCTTTTGTT-TTTTTGTTTTTTTTTTTTTTTTTTTGGTTTTT
1 CCTTTT-TTGTTTTTGTTTTTTTTTTATTGTTTTTGGTTTTT
292562 CATTTTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 20 0.54
46 15 0.41
47 2 0.05
ACGTcount: A:0.01, C:0.05, G:0.10, T:0.84
Consensus pattern (45 bp):
CCTTTTTTGTTTTTGTTTTTTTTTTATTGTTTTTGGTTTTTTTTT
Found at i:302288 original size:10 final size:10
Alignment explanation
Indices: 302273--302299 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
302263 ATGTATCAAG
302273 CAAAAACAAA
1 CAAAAACAAA
302283 CAAAAACAAA
1 CAAAAACAAA
302293 CAAAAAC
1 CAAAAAC
302300 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:306519 original size:52 final size:51
Alignment explanation
Indices: 306441--306556 Score: 205
Period size: 52 Copynumber: 2.3 Consensus size: 51
306431 AGTTGCTTGT
*
306441 ATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
1 ATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTGCCTGC
*
306493 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTGCCTGC
1 ATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGCCTGC
306544 ATGTATCGATACA
1 ATGTATCGATACA
306557 AAGATCAGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 21 0.34
52 41 0.66
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
ATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTGCCTGC
Found at i:306569 original size:51 final size:52
Alignment explanation
Indices: 306441--306576 Score: 188
Period size: 52 Copynumber: 2.6 Consensus size: 52
306431 AGTTGCTTGT
*
306441 ATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
1 ATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
*** *
306493 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-TTGCCTGC
1 ATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
306544 ATGTATCGATACA-AAGATCAGTGTATCGATACA
1 ATGTATCGATACATAAGAT-AGTGTATCGATACA
306577 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
50 2 0.03
51 36 0.47
52 38 0.50
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
ATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGC
Found at i:306583 original size:13 final size:13
Alignment explanation
Indices: 306565--306589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
306555 CAAAGATCAG
306565 TGTATCGATACAA
1 TGTATCGATACAA
306578 TGTATCGATACA
1 TGTATCGATACA
306590 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:306667 original size:33 final size:33
Alignment explanation
Indices: 306630--306696 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
306620 AGTAGCTTAA
306630 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
306663 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
306696 A
1 A
306697 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:306670 original size:13 final size:13
Alignment explanation
Indices: 306652--306676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
306642 CAAAAAAATA
306652 TGTATCGATACAT
1 TGTATCGATACAT
306665 TGTATCGATACA
1 TGTATCGATACA
306677 ACATTTTATG
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:312964 original size:78 final size:78
Alignment explanation
Indices: 312874--313059 Score: 230
Period size: 79 Copynumber: 2.4 Consensus size: 78
312864 GTGTTTCCTT
* * * *
312874 GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTACAAAAAAAATCGGGAT
1 GAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTACAAAAAAAATCGGGAT
*
312938 TGGAGTATCCCCTC
65 TAGAGTATCCCCTC
* *** * * *
312952 GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGTCGGGGT
1 GAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTACAAAAAAAATCGGGAT
*
313017 TAGAGTATCTCCTC
65 TAGAGTATCCCCTC
313031 GAAAATAACGGGGTTGGAGTATCCCCGAT
1 GAAAATAACGGGGTTGGAGTATCCCCGAT
313060 GATTAACGGG
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
77 1 0.01
78 38 0.41
79 53 0.58
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (78 bp):
GAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTACAAAAAAAATCGGGATT
AGAGTATCCCCTC
Found at i:313042 original size:79 final size:78
Alignment explanation
Indices: 312854--313056 Score: 237
Period size: 78 Copynumber: 2.6 Consensus size: 78
312844 GAGATAATAA
* * * * ** * *
312854 CGGGGTTGGAGTGTTTCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
312919 TTACAAAAAAAAT
66 TTACAAAAAAAAT
* *
312932 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
1 CGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
*** * *
312996 TTTTGGGAATAAAGT
66 --TTACAAAAAAAAT
*
313011 CGGGGTTAGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCC
313057 GATGATTAAC
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
77 1 0.01
78 53 0.50
79 51 0.49
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (78 bp):
CGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
TTACAAAAAAAAT
Found at i:313050 original size:28 final size:27
Alignment explanation
Indices: 313011--313086 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
313001 GGAATAAAGT
*
313011 CGGGGTTAGAGTATCTCCTCGA-AAATAA
1 CGGGGTTGGAGTATC-CC-CGATAAATAA
* *
313039 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
313066 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
313087 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.07
27 27 0.61
28 14 0.32
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:313132 original size:54 final size:51
Alignment explanation
Indices: 313070--313200 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 51
313060 GATTAACGGG
* *
313070 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TTTTGAAAATAAAATCGGA
*
313124 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGTGTTTTGAAAATAAAATCGGA
* *
313175 ATTGGAATATCCCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
313201 TTGAGAAACT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
51 35 0.51
52 4 0.06
53 10 0.15
54 19 0.28
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:315020 original size:12 final size:11
Alignment explanation
Indices: 314997--315029 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
314987 CAATGGAATA
314997 GTGTTTTTTTT
1 GTGTTTTTTTT
315008 GTGTTTTTCTTT
1 GTGTTTTT-TTT
315020 G-GTTTTTTTT
1 GTGTTTTTTTT
315030 TTTGCTAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 14 0.67
12 4 0.19
ACGTcount: A:0.00, C:0.03, G:0.18, T:0.79
Consensus pattern (11 bp):
GTGTTTTTTTT
Found at i:315563 original size:13 final size:13
Alignment explanation
Indices: 315545--315570 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
315535 AACTTCCTAG
315545 ATGTATCGATACA
1 ATGTATCGATACA
315558 ATGTATCGATACA
1 ATGTATCGATACA
315571 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:315646 original size:19 final size:16
Alignment explanation
Indices: 315621--315720 Score: 75
Period size: 19 Copynumber: 6.0 Consensus size: 16
315611 TAGCGATACA
315621 TTGTATCGATACAAAACT
1 TTGTATCGATAC-AAA-T
315639 TGTGTATCGATAC--A-
1 T-TGTATCGATACAAAT
*
315653 TTGTATCGATATAACACT
1 TTGTATCGATACAA-A-T
315671 TATGTATCGATAC--AT
1 T-TGTATCGATACAAAT
315686 TTGTATCGATACAACATT
1 TTGTATCGATACAA-A-T
315704 TATGTATCGATACAAAT
1 T-TGTATCGATACAAAT
315721 CGCTAAAATT
Statistics
Matches: 68, Mismatches: 2, Indels: 25
0.72 0.02 0.26
Matches are distributed among these distances:
13 10 0.15
14 12 0.18
15 2 0.03
16 3 0.04
17 2 0.03
18 5 0.07
19 34 0.50
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (16 bp):
TTGTATCGATACAAAT
Found at i:315655 original size:32 final size:32
Alignment explanation
Indices: 315614--315717 Score: 163
Period size: 32 Copynumber: 3.2 Consensus size: 32
315604 AGCTTCCTAG
* *
315614 CGATACATTGTATCGATACAAAACTTGTGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
315646 CGATACATTGTATCGATATAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
315678 CGATACATTTGTATCGATACAACATTTATGTAT
1 CGATACA-TTGTATCGATACAACACTTATGTAT
315711 CGATACA
1 CGATACA
315718 AATCGCTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
32 36 0.55
33 30 0.45
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:316996 original size:20 final size:20
Alignment explanation
Indices: 316970--317024 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
316960 AAAAATACAG
*
316970 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
316990 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
317010 AATGTATCGATACAT
1 AATGTATCGATACAT
317025 CTGGGTACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:317162 original size:10 final size:10
Alignment explanation
Indices: 317129--317174 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
317119 TGCATTTGCC
317129 AAAAAGCTCT
1 AAAAAGCTCT
*
317139 AATAA--TCT
1 AAAAAGCTCT
317147 -AAAAGCTCT
1 AAAAAGCTCT
*
317156 AAAAAGCTCC
1 AAAAAGCTCT
317166 AAAAAGCTC
1 AAAAAGCTC
317175 CACGAAGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
7 3 0.10
8 3 0.10
9 3 0.10
10 21 0.70
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.20
Consensus pattern (10 bp):
AAAAAGCTCT
Found at i:317960 original size:28 final size:28
Alignment explanation
Indices: 317872--318289 Score: 494
Period size: 28 Copynumber: 14.5 Consensus size: 28
317862 CATTAACTTG
* *
317872 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
*
317902 CGTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * * *
317933 TGTGGGCTTTGAAAGGTTACAATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
317961 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
317989 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
318017 TGTGGGCTTTGAAAATAGTTGCCACCGACT
1 TGTGGGCTTTG-AAA-GGGTGCCACTGACT
* * *
318047 CGTGGGCTTTGAAAGGAATTCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
* *
318076 CGTGGGCTTTGAAAGGAATGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
* *
318105 CGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
318133 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
318161 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
318189 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
318217 TGTGGGCTTCGAAAAGCGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
*
318247 CGTATGGGCTTTGAAAGGGTGCCACTGACT
1 --TGTGGGCTTTGAAAGGGTGCCACTGACT
318277 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
318290 GATATAAACA
Statistics
Matches: 340, Mismatches: 39, Indels: 18
0.86 0.10 0.05
Matches are distributed among these distances:
28 185 0.54
29 73 0.21
30 43 0.13
31 14 0.04
32 25 0.07
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:318135 original size:200 final size:203
Alignment explanation
Indices: 317873--318289 Score: 644
Period size: 200 Copynumber: 2.1 Consensus size: 203
317863 ATTAACTTGT
*
317873 GTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
1 GTGGGCTTTGAAAAGAGATGCCACCGACTCG-GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
* *
317938 GCTTTGAAAGGTTACAATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAA
65 GCTTTGAAAGGGTACAACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAA
* * *
318003 GGATGCCACTGACTTGTGGGCTTTGAAAATAGTTGCCACCGACTCG-TGGGCTTTGAAAGGAATT
130 GGATGCCACTGACTTGTGGGCTTCGAAAAGAGTTGCCACCGACTCGATGGGCTTTGAAAGG-ATG
318067 CCACTGACTC
194 CCACTGACTC
* *
318077 GTGGGCTTTGAAAGGA-ATGCCACTGACTC-GTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGG
1 GTGGGCTTTGAAAAGAGATGCCACCGACTCGGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
* * * *
318139 CTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAAG
66 CTTTGAAAGGGTACAACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAG
* *
318204 GATGCCACTGACTTGTGGGCTTCGAAAAGCGTTGCCACCGACTCGTATGGGCTTTGAAAGGGTGC
131 GATGCCACTGACTTGTGGGCTTCGAAAAGAGTTGCCACCGACTCG-ATGGGCTTTGAAAGGATGC
*
318269 CACTGACTT
195 CACTGACTC
318278 GTGGGCTTTGAA
1 GTGGGCTTTGAA
318290 GATATAAACA
Statistics
Matches: 196, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
200 119 0.61
201 37 0.19
202 14 0.07
203 11 0.06
204 15 0.08
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.28
Consensus pattern (203 bp):
GTGGGCTTTGAAAAGAGATGCCACCGACTCGGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGG
CTTTGAAAGGGTACAACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAG
GATGCCACTGACTTGTGGGCTTCGAAAAGAGTTGCCACCGACTCGATGGGCTTTGAAAGGATGCC
ACTGACTC
Found at i:318191 original size:172 final size:172
Alignment explanation
Indices: 317873--318289 Score: 590
Period size: 172 Copynumber: 2.4 Consensus size: 172
317863 ATTAACTTGT
*
317873 GTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
1 GTGGGCTTTGAAAAGAGTTGCCACCGACTC--GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGG
*
317938 GCTTTG-AAAGGTTACAATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAA
64 GCTTTGAAAAGGTTACAACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAA
*
318002 AGGATGCCACTGACTTGTGGGCTTTGAAAATAGTTGCCACCGACTC
129 AGGATGCCACTGACTTGTGGGCTTTG-AAA-AGATGCCACCGACTC
* * * * *
318048 GTGGGCTTTGAAAGGAATT-CCACTGACTCGTGGGCTTTGAAAGGAATGCCACTGACTCGTGGGC
1 GTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
* * *
318112 TTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
66 TTTGAAAAGGTTACAACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAG
* * * * *
318176 GGTGCCATTGACTTGTGGGCTTTGAAAGGATGCCACTGACTT
131 GATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACCGACTC
* *
318218 GTGGGCTTCGAAAAGCGTTGCCACCGACTCGTATGGGCTTTGAAAGG-GTGCCACTGACTTGTGG
1 GTGGGCTTTGAAAAGAGTTGCCACCGACTCG--TGGGCTTTGAAAGGAGTGCCACTGACTTGTGG
318282 GCTTTGAA
64 GCTTTGAA
318290 GATATAAACA
Statistics
Matches: 215, Mismatches: 23, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
170 26 0.12
171 13 0.06
172 131 0.61
173 19 0.09
174 9 0.04
175 17 0.08
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.28
Consensus pattern (172 bp):
GTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
TTTGAAAAGGTTACAACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAG
GATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACCGACTC
Found at i:319540 original size:1 final size:1
Alignment explanation
Indices: 319534--319616 Score: 58
Period size: 1 Copynumber: 83.0 Consensus size: 1
319524 TTATCCTTGG
* ** * * * * ** *
319534 TTTTTTTGTTTTTTTTGGTTTTTTCTTTTTTCTTTTTTGTTTTTTCTGGTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
319599 TGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTT
319617 GGGTATGAAG
Statistics
Matches: 62, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:319544 original size:8 final size:8
Alignment explanation
Indices: 319533--319615 Score: 80
Period size: 8 Copynumber: 10.0 Consensus size: 8
319523 TTTATCCTTG
319533 GTTTTTTT
1 GTTTTTTT
319541 GTTTTTTTT
1 G-TTTTTTT
*
319550 GGTTTTTT
1 GTTTTTTT
*
319558 -CTTTTTT
1 GTTTTTTT
*
319565 -CTTTTTT
1 GTTTTTTT
319572 GTTTTTTCT
1 GTTTTTT-T
319581 GGTTTTTTTT
1 -G-TTTTTTT
319591 GTTTTTTTT
1 G-TTTTTTT
319600 GTTTTTTT
1 GTTTTTTT
319608 GTTTTTTT
1 GTTTTTTT
319616 TGGGTATGAA
Statistics
Matches: 67, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
7 13 0.19
8 27 0.40
9 19 0.28
10 2 0.03
11 6 0.09
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (8 bp):
GTTTTTTT
Found at i:319548 original size:9 final size:9
Alignment explanation
Indices: 319534--319617 Score: 98
Period size: 9 Copynumber: 8.9 Consensus size: 9
319524 TTATCCTTGG
319534 TTTTTTTGT
1 TTTTTTTGT
319543 TTTTTTTGGTT
1 TTTTTTT-G-T
*
319554 TTTTCTTTTT
1 TTTT-TTTGT
319564 TCTTTTTTGT
1 T-TTTTTTGT
*
319574 TTTTTCTGGT
1 TTTTT-TTGT
319584 TTTTTTTGT
1 TTTTTTTGT
319593 TTTTTTTG-
1 TTTTTTTGT
319601 TTTTTTTGT
1 TTTTTTTGT
319610 TTTTTTTG
1 TTTTTTTG
319618 GGTATGAAGG
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
8 8 0.12
9 30 0.46
10 16 0.25
11 8 0.12
12 3 0.05
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.85
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:319984 original size:21 final size:21
Alignment explanation
Indices: 319951--319991 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
319941 CTAAGTAAAA
319951 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
319972 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
319992 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:320154 original size:53 final size:53
Alignment explanation
Indices: 320071--320207 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
320061 AAATTGCATA
320071 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
320125 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
320178 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
320208 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:320283 original size:21 final size:22
Alignment explanation
Indices: 320249--320309 Score: 97
Period size: 21 Copynumber: 2.8 Consensus size: 22
320239 CATCACTATT
*
320249 CATCACAGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
320271 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
*
320292 CATCACTGTTCACGTATC
1 CATCACTGTTCATGTATC
320310 ACTATTCATG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 21 0.58
22 15 0.42
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.34
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:324607 original size:26 final size:26
Alignment explanation
Indices: 324571--324624 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
324561 ACGTACAACC
324571 AAGGGGTTTGAATAGCAATAGAGGCA
1 AAGGGGTTTGAATAGCAATAGAGGCA
*
324597 AAGGGGTTTGAATAGTAATAGAGGCA
1 AAGGGGTTTGAATAGCAATAGAGGCA
324623 AA
1 AA
324625 AGACAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (26 bp):
AAGGGGTTTGAATAGCAATAGAGGCA
Found at i:330799 original size:42 final size:42
Alignment explanation
Indices: 330753--330871 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
330743 TAGCCCTCAA
* * * *
330753 AGAGAAAGAAGAGGGAGGATGGATGATAGGAGTAGAGACAGG
1 AGAGAAAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
330795 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACATG
1 AGAGAAAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
330837 AGAGATAA-TAGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGA-AAGTAGAGAGAGGAGGGATGATAGGAGGAG
330872 GAGAGAAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 66 0.99
43 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.12
Consensus pattern (42 bp):
AGAGAAAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:330865 original size:18 final size:18
Alignment explanation
Indices: 330785--330877 Score: 55
Period size: 18 Copynumber: 4.8 Consensus size: 18
330775 ATGATAGGAG
*
330785 TAGAGACAGGAGAGAT-A
1 TAGAGAGAGGAGAGATGA
* *
330802 GTAGAGATAGGAGGGATGA
1 -TAGAGAGAGGAGAGATGA
*
330821 TAGGAGGAGAGACATGAGAGATAA
1 TA-GA-GAGAG----GAGAGATGA
*
330845 TAGAGAGAGGAGGGATGA
1 TAGAGAGAGGAGAGATGA
330863 TAG-GAGGAGGAGAGA
1 TAGAGA-GAGGAGAGA
330878 AAAAGATGGA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
17 2 0.03
18 34 0.58
19 3 0.05
20 4 0.07
22 5 0.08
23 2 0.03
24 9 0.15
ACGTcount: A:0.42, C:0.02, G:0.44, T:0.12
Consensus pattern (18 bp):
TAGAGAGAGGAGAGATGA
Found at i:337835 original size:158 final size:157
Alignment explanation
Indices: 337198--338393 Score: 655
Period size: 159 Copynumber: 7.6 Consensus size: 157
337188 GTCGCATTGT
* ** * *
337198 TTTCCACCATTTTCCTTGGAAT--TAGTTTGTCTTTCAAATGAGACAAACTTGGATTTTCA-TAA
1 TTTCCACCATTTTCCTT-GAATAAAAGTTCATCCTTCAAATGAGACAAACTTGGATTCT-AGTAA
* * * * * * * * *
337260 TAATCTGCATTATATTCATGATTGGGCAACAA-AAATACATTATTCTCATTGGGATAGA-AGATA
64 TAATCTCCATTCTTTTCATGATTAGGC-ACAATAAAT-CGTTCTCCTCATTAGGATACATA-ATA
** * *
337323 TTGATGCATTGGTTTTGTAATAAAAGCTTTTTC
126 TTGATGGTTTGGTTTTGCAAGAAAAG-TTTTTC
* ** * ** * * * *
337356 -TACCACCATTTTCCTTAGAATCGATGTTTGTCCCTT-AAATGAGACAAACATAGATTTTGGTAA
1 TTTCCACCATTTTCCTT-GAATAAAAGTTCAT-CCTTCAAATGAGACAAACTTGGATTCTAGTAA
* * * * * * * ** * * * *
337419 -AATCTCTAGTATGTTCCTAATT-GGCCCCTTTAATACTTTCTCCTCA-TAGGGATAAATGATAT
64 TAATCTCCATTCTTTTCATGATTAGGCACAATAAAT-CGTTCTCCTCATTA-GGATACATAATAT
* ** *
337481 TGATGCTTTGGTTTCACAAGAAAAGCTTTTC
127 TGATGGTTTGGTTTTGCAAGAAAAGTTTTTC
* * * * * * * * **
337512 -TTCTCGCCATTTTCCTTAGATTCAAATTTCATCCCTT-AAATAAGATAGACATGGATTC-CCTC
1 TTTC-CACCATTTTCCTT-GAATAAAAGTTCAT-CCTTCAAATGAGACAAACTTGGATTCTAGT-
* ** * * * * * * * *
337574 AATAATCACCATTCTTTTTGTG-TT-CGCACATTGAAAACATTTTCACCACATTGGGATACATGA
62 AATAATCTCCATTCTTTTCATGATTAGGCACAAT-AAATC--GTTCTCCTCATTAGGATACATAA
* *
337637 TATTGATGGTTTAGTTTTGCAAAAAAAGTTTTTC
124 TATTGATGGTTTGGTTTTGCAAGAAAAGTTTTTC
* * * * * *
337671 TTTCCACCATTTTCCTTGCAATCAAAGTTTATCCTTCCAATGAGACAAACTTGGATTATGGTAGT
1 TTTCCACCATTTTCCTTG-AATAAAAGTTCATCCTTCAAATGAGACAAACTTGGATTCTAGTAAT
* * *
337736 AATGTCCATTC-TTTCATGATTAGGCACTATAAATGCGTTCTCCTCATTAGGATACATGATATTG
65 AATCTCCATTCTTTTCATGATTAGGCACAATAAAT-CGTTCTCCTCATTAGGATACATAATATTG
* *
337800 GTGGATTGGTTTTGCAAGAAAAGCTTTTT-
129 ATGGTTTGGTTTTGCAAGAAAAG-TTTTTC
* * * * * *
337829 TTTCCACTATTTTCCTCAGAATAAAAGTTCATCCTTTAAATGAGACCAACATGGATTCTCA-AAA
1 TTTCCACCATTTTCCT-TGAATAAAAGTTCATCCTTCAAATGAGACAAACTTGGATTCT-AGTAA
** * * * * * *
337893 TAATCTCCATTCTTTTTGTGTTTAGGCAACAAAAACAT-GTTCTACTCATTGGGTTACACAATAT
64 TAATCTCCATTCTTTTCATGATTAGGC-ACAATAA-ATCGTTCTCCTCATTAGGATACATAATAT
* *
337957 TGATGCG-TTGATTTTGCAA-AAATGTTTTTC
127 TGATG-GTTTGGTTTTGCAAGAAAAGTTTTTC
* * *
337987 TTTCCACCATTTTCCTTAGATTAAAAGTTCATCCCTCAAATGGGACAAACTTGGATTCTAGTAAT
1 TTTCCACCATTTTCCTT-GAATAAAAGTTCATCCTTCAAATGAGACAAACTTGGATTCTAGTAAT
* * * * * *
338052 AATCTTCATTCTTTTCTTGATTAGGCACCATAAACACATTCTCCTCATTAGGATATATAATATTG
65 AATCTCCATTCTTTTCATGATTAGGCACAATAAA-TCGTTCTCCTCATTAGGATACATAATATTG
* * * *
338117 ATGCTTTGGTTTTGCAAGAATAGCTTCTC
129 ATGGTTTGGTTTTGCAAGAAAAGTTTTTC
* * * *
338146 TTTCCATCATTTTCTATTGAATAAAATTTTAT-CTCTCAAATGAGACAAACTTGGATTCTAGTAA
1 TTTCCACCATTTTC-CTTGAATAAAAGTTCATCCT-TCAAATGAGACAAACTTGGATTCTAGTAA
* ** * * * * * * * *
338210 TAATCTCTATTCTTTTTGTAATT-GCCCACCATAAAATCATTCTCTTTATTGGGATACATGATAT
64 TAATCTCCATTCTTTTCATGATTAG-GCACAAT-AAATCGTTCTCCTCATTAGGATACATAATAT
* * * **
338274 TGATGCTTTGG-ATT-CATAGGAAAAGCTTTGG
127 TGATGGTTTGGTTTTGCA-A-GAAAAGTTTTTC
* * * * * *
338305 TTTCTACCATTTTTCTTAGAATCAAAGTTTATCCCTT-AAATGAGACAAACTCGGACTCTCA-TA
1 TTTCCACCATTTTCCTT-GAATAAAAGTTCAT-CCTTCAAATGAGACAAACTTGGATTCT-AGTA
* *
338368 ATAATCTCCATTCCTTTCCTGATTAG
63 ATAATCTCCATTCTTTTCATGATTAG
338394 CTAGACACCA
Statistics
Matches: 804, Mismatches: 188, Indels: 90
0.74 0.17 0.08
Matches are distributed among these distances:
156 11 0.01
157 129 0.16
158 264 0.33
159 368 0.46
160 28 0.03
161 4 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (157 bp):
TTTCCACCATTTTCCTTGAATAAAAGTTCATCCTTCAAATGAGACAAACTTGGATTCTAGTAATA
ATCTCCATTCTTTTCATGATTAGGCACAATAAATCGTTCTCCTCATTAGGATACATAATATTGAT
GGTTTGGTTTTGCAAGAAAAGTTTTTC
Found at i:337862 original size:317 final size:317
Alignment explanation
Indices: 337306--338507 Score: 822
Period size: 317 Copynumber: 3.8 Consensus size: 317
337296 ACATTATTCT
* * * * *
337306 CATTGGGATAGA-AGATATTGATGCATTGGTTTTGTAATAAAAGCTTTTTC-TACCACCATTTTC
1 CATTGGGATACACA-ATATTGATGCGTTGATTTTGCAA-AAAAG-TTTTTCTTTCCACCATTTTC
** * ** * * * * * * * * *
337369 CTTAGAATCGATGTTTGTCCCTTAAATGAGACAAACATAGATTTTGGTAA-AATCTCTAGTATGT
63 CTTAGAATAAAAGTTCATCCCTCAAATGAGACAAACTTGGATTATAGTAATAATCTCCATTCTTT
* * * * * * * *
337433 TCCTAATT-GGCCCCTTTAATACTTTCTCCTCA-TAGGGATAAATGATATTGATGCTTTGGTTTC
128 TCATGATTAGGCACCATAAACACATTCTCCTCATTA-GGATAAATGATATTGATGCTTTGGTTTT
* * * * * * *
337496 ACAAGAAAAGCTTTTCTTCTCGC-C-ATTTTCCTTAGATTCAAATTTCATCCCTTAAATAAGA-T
192 GCAAGAAAAGCTTTT-TTTTC-CACTATTTTCCTCAGAATAAAAGTTCATCCCTTAAATAAGACC
** *
337558 AGACATGGATTCCCTCAATAATCACCATTCTTTTTGTG-TT-CGC-ACATTGAAAACATTTTC-A
255 A-ACATGGATTCCCAAAATAATCACCATTCTTTTTGTGTTTACGCAACA---AAAACATGTTCTA
337619 CCA
316 -CA
** *
337622 CATTGGGATACATGATATTGATG-GTTTAGTTTTGCAAAAAAAGTTTTTCTTTCCACCATTTTCC
1 CATTGGGATACACAATATTGATGCGTTGA-TTTTGC-AAAAAAGTTTTTCTTTCCACCATTTTCC
* * * * * * *
337686 TT-GCAATCAAAGTTTATCCTTCCAATGAGACAAACTTGGATTATGGTAGTAATGTCCATTC-TT
64 TTAG-AATAAAAGTTCATCCCTCAAATGAGACAAACTTGGATTATAGTAATAATCTCCATTCTTT
* ** * * * **
337749 TCATGATTAGGCACTATAAATGCGTTCTCCTCATTAGGATACATGATATTGGTGGATTGGTTTTG
128 TCATGATTAGGCACCATAAACACATTCTCCTCATTAGGATAAATGATATTGATGCTTTGGTTTTG
* *
337814 CAAGAAAAGCTTTTTTTTCCACTATTTTCCTCAGAATAAAAGTTCATCCTTTAAATGAGACCAAC
193 CAAGAAAAGCTTTTTTTTCCACTATTTTCCTCAGAATAAAAGTTCATCCCTTAAATAAGACCAAC
* * * *
337879 ATGGATTCTCAAAATAATCTCCATTCTTTTTGTGTTTAGGCAACAAAAACATGTTCTACT
258 ATGGATTCCCAAAATAATCACCATTCTTTTTGTGTTTACGCAACAAAAACATGTTCTACA
* *
337939 CATTGGGTTACACAATATTGATGCGTTGATTTTGCAAAAATGTTTTTCTTTCCACCATTTTCCTT
1 CATTGGGATACACAATATTGATGCGTTGATTTTGCAAAAAAGTTTTTCTTTCCACCATTTTCCTT
* * * * *
338004 AGATTAAAAGTTCATCCCTCAAATGGGACAAACTTGGATTCTAGTAATAATCTTCATTCTTTTCT
66 AGAATAAAAGTTCATCCCTCAAATGAGACAAACTTGGATTATAGTAATAATCTCCATTCTTTTCA
* *
338069 TGATTAGGCACCATAAACACATTCTCCTCATTAGGATATATAATATTGATGCTTTGGTTTTGCAA
131 TGATTAGGCACCATAAACACATTCTCCTCATTAGGATAAATGATATTGATGCTTTGGTTTTGCAA
* * * * * * * * *
338134 GAATAGCTTCTCTTTCCA-TCATTTT-CT-ATTGAATAAAATTTTATCTCTCAAATGAGACAAAC
196 GAAAAGCTTTTTTTTCCACT-ATTTTCCTCA--GAATAAAAGTTCATCCCTTAAATAAGACCAAC
* * * * * ** * * * *
338196 TTGGATT-CTAGTAATAATCTCTATTCTTTTTGTAATTGCCCACCATAAAATCA--TTCT-CTT
258 ATGGATTCCCA-AAATAATCACCATTCTTTTTGTGTTTACGCAACA-AAAA-CATGTTCTAC-A
* ** * * ** *
338256 TATTGGGATACATGATATTGATGCTTTGGA--TT-CATAGGAAAAGCTTTGGTTTCTACCATTTT
1 CATTGGGATACACAATATTGATGCGTT-GATTTTGCA-A--AAAAGTTTTTCTTTCCACCATTTT
* * * * * * * *
338318 TCTTAGAATCAAAGTTTATCCCTTAAATGAGACAAACTCGGACTCTCA-TAATAATCTCCATTCC
62 CCTTAGAATAAAAGTTCATCCCTCAAATGAGACAAACTTGGATTAT-AGTAATAATCTCCATTCT
* * * * * * * * *
338382 TTTCCTGATTAGCTAGACACCATAACCGCATTATCCTTATTGGGATATATGATATTGATGATTTA
126 TTTCATGATTAG---G-CACCATAAACACATTCTCCTCATTAGGATAAATGATATTGATGCTTTG
* * ** * * * *
338447 GTTTTGTAGGAAATTCTTTTTTTT-CA-TGATTTACCTTAGAATCAAAGTTCATCCCTCAAAT
187 GTTTTGCAAGAAAAGCTTTTTTTTCCACT-ATTTTCCTCAGAATAAAAGTTCATCCCTTAAAT
338508 GACATAAACA
Statistics
Matches: 711, Mismatches: 139, Indels: 67
0.78 0.15 0.07
Matches are distributed among these distances:
315 13 0.02
316 175 0.25
317 330 0.46
318 98 0.14
319 5 0.01
320 3 0.00
321 27 0.04
322 59 0.08
323 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (317 bp):
CATTGGGATACACAATATTGATGCGTTGATTTTGCAAAAAAGTTTTTCTTTCCACCATTTTCCTT
AGAATAAAAGTTCATCCCTCAAATGAGACAAACTTGGATTATAGTAATAATCTCCATTCTTTTCA
TGATTAGGCACCATAAACACATTCTCCTCATTAGGATAAATGATATTGATGCTTTGGTTTTGCAA
GAAAAGCTTTTTTTTCCACTATTTTCCTCAGAATAAAAGTTCATCCCTTAAATAAGACCAACATG
GATTCCCAAAATAATCACCATTCTTTTTGTGTTTACGCAACAAAAACATGTTCTACA
Found at i:339053 original size:44 final size:44
Alignment explanation
Indices: 339004--339140 Score: 247
Period size: 44 Copynumber: 3.1 Consensus size: 44
338994 ACATTAACAC
339004 AAACCCTAATGGACTTATTATGCTAACAAGCCCAATTCTAAATT
1 AAACCCTAATGGACTTATTATGCTAACAAGCCCAATTCTAAATT
339048 AAACCCTAATGGACTTATTATGCTAACAAGCCCAATTCTAAATT
1 AAACCCTAATGGACTTATTATGCTAACAAGCCCAATTCTAAATT
* **
339092 AAACCCTAATGGACTTATTATGCTAACAAGCCCACTTCTTGATT
1 AAACCCTAATGGACTTATTATGCTAACAAGCCCAATTCTAAATT
339136 AAACC
1 AAACC
339141 AAAATAACAA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 90 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.29
Consensus pattern (44 bp):
AAACCCTAATGGACTTATTATGCTAACAAGCCCAATTCTAAATT
Found at i:344284 original size:12 final size:11
Alignment explanation
Indices: 344265--344340 Score: 79
Period size: 12 Copynumber: 6.9 Consensus size: 11
344255 AAAGAAAGAA
344265 GAGATAGGAGG
1 GAGATAGGAGG
344276 GATGATAGGAGG
1 GA-GATAGGAGG
344288 AGAGATAGGA--
1 -GAGATAGGAGG
*
344298 GAGATAGTA--
1 GAGATAGGAGG
344307 GAGATAGGAGG
1 GAGATAGGAGG
344318 GATGATAGGAGG
1 GA-GATAGGAGG
344330 AGAGATAGGAG
1 -GAGATAGGAG
344341 AGATAATAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
9 16 0.28
11 4 0.07
12 33 0.58
13 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:344299 original size:9 final size:9
Alignment explanation
Indices: 344285--344345 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
344275 GGATGATAGG
344285 AGGAGAGAT
1 AGGAGAGAT
344294 AGGAGAGAT
1 AGGAGAGAT
*
344303 AGTAGAGAT
1 AGGAGAGAT
*
344312 AGGAGGGAT
1 AGGAGAGAT
* *
344321 --GATAG-G
1 AGGAGAGAT
344327 AGGAGAGAT
1 AGGAGAGAT
344336 AGGAGAGAT
1 AGGAGAGAT
344345 A
1 A
344346 ATAGAGAGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
7 3 0.07
8 4 0.10
9 34 0.83
ACGTcount: A:0.43, C:0.00, G:0.44, T:0.13
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:344323 original size:42 final size:42
Alignment explanation
Indices: 344264--344373 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
344254 AAAAGAAAGA
*
344264 AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAGT
1 AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAAT
344306 AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAAT
1 AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAAT
* *
344348 AGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGGAGGGATGATAGGAGGAG
344374 GAGAGAAGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.41, C:0.01, G:0.46, T:0.12
Consensus pattern (42 bp):
AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAAT
Found at i:344349 original size:12 final size:12
Alignment explanation
Indices: 344267--344354 Score: 59
Period size: 12 Copynumber: 7.9 Consensus size: 12
344257 AGAAAGAAGA
*
344267 GATAGGAGGGAT
1 GATAGGAGAGAT
344279 GATAGGAGGAGA-
1 GATAGGA-GAGAT
344291 GATA-G-GAGA-
1 GATAGGAGAGAT
*
344300 GATA-G-TAGA-
1 GATAGGAGAGAT
*
344309 GATAGGAGGGAT
1 GATAGGAGAGAT
344321 GATAGGAGGAGA-
1 GATAGGA-GAGAT
344333 GATAGGAGAGAT
1 GATAGGAGAGAT
*
344345 AATA-GAGAGA
1 GATAGGAGAGA
344355 GGAGGGATGA
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
9 16 0.25
10 1 0.02
11 13 0.20
12 28 0.44
13 6 0.09
ACGTcount: A:0.42, C:0.00, G:0.44, T:0.14
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:348704 original size:154 final size:154
Alignment explanation
Indices: 348192--348751 Score: 457
Period size: 159 Copynumber: 3.6 Consensus size: 154
348182 AGCTCATCTT
* ** * *
348192 TCAAATGAGACAAACTTGGATTCCGGTTGTAATGTCCATTCTTTTCATGATTAGGTACCATAAAC
1 TCAAATGAGACAAACTTGGATTCTGGTAATAATCTCCATTCTTTTCATGATTAGGCACCATAAAC
* ** ** * * * *
348257 ACATTCTTCTCATTAGGGCACATGATATTAATGCTTTGGTTGTGTAAGAAAAGCTTTTCTTTCCA
66 ACATTCTCCTCATTAGGATACACAATATTGAT-CATT--TTG-GTAATAAAAGTTTTTCTTTCCA
* * *
348322 CCACTTTCCTTACAATCAAAGTTTGTCTC
127 -CATTTTCCTTAGAATCAAAGTTTGTCCC
* * *** * * * *
348351 TCAAATGAGTCAAACATT-GATTTTCACAATAATCTCCATTCTTTTAATGTTTTA-GCAACAAAA
1 TCAAATGAGACAAAC-TTGGATTCTGGTAATAATCTCCATTCTTTTCATG-ATTAGGCACCATAA
** * * * *
348414 ACATGTTATCCTCATTGGGATACACAATATTGATGCATAGGTTTTGCAATAAAAGCTTTGTT-TT
64 ACACATTCTCCTCATTAGGATACACAATATTGAT-CAT---TTTGGTAATAAAAG-TTT-TTCTT
348478 TCGC-CATTTTCCTTAGAATCAAAGTTTGTCCC
123 TC-CACATTTTCCTTAGAATCAAAGTTTGTCCC
* * * * * * * * *
348510 TCAAAAGGGACAAACTTTGATTCTGGTAATAGTATTCATTCTTGTCCTGATTAGGCACCATAGAC
1 TCAAATGAGACAAACTTGGATTCTGGTAATAATCTCCATTCTTTTCATGATTAGGCACCATAAAC
*
348575 ACGTTCTCCTCATTAGGATACACAATATTGAT-ATTTTGGTAATAAAAGTTTTTCTTTCCATCAT
66 ACATTCTCCTCATTAGGATACACAATATTGATCATTTTGGTAATAAAAGTTTTTCTTTCCA-CAT
* * *
348639 TTTCCATAGAATAAAAGTTTATCCC
130 TTTCCTTAGAATCAAAGTTTGTCCC
* * ** * *
348664 TTAAATCAGACAAACTTGGATTCTGGTAATAATCTCCATTCTTTTTGTGATTGGGCACTATAAGA
1 TCAAATGAGACAAACTTGGATTCTGGTAATAATCTCCATTCTTTTCATGATTAGGCACCATAA-A
* *
348729 -ACATTCTTCTCATTGGGATACAC
65 CACATTCTCCTCATTAGGATACAC
348752 TAATTAGCCT
Statistics
Matches: 313, Mismatches: 74, Indels: 33
0.75 0.18 0.08
Matches are distributed among these distances:
152 3 0.01
153 7 0.02
154 106 0.34
155 1 0.00
157 2 0.01
158 5 0.02
159 172 0.55
160 13 0.04
161 3 0.01
162 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (154 bp):
TCAAATGAGACAAACTTGGATTCTGGTAATAATCTCCATTCTTTTCATGATTAGGCACCATAAAC
ACATTCTCCTCATTAGGATACACAATATTGATCATTTTGGTAATAAAAGTTTTTCTTTCCACATT
TTCCTTAGAATCAAAGTTTGTCCC
Found at i:349212 original size:29 final size:29
Alignment explanation
Indices: 349173--349256 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
349163 ATATAAAGCC
* *
349173 AAGGAATTAAACGTTAACTAAAACACAAA
1 AAGGAATTAAAAGTCAACTAAAACACAAA
* *
349202 AAGGAATTAAAAGCCAACCAAAACACAAA
1 AAGGAATTAAAAGTCAACTAAAACACAAA
*
349231 AAGAAATTAAAAGTCAACTAAAACAC
1 AAGGAATTAAAAGTCAACTAAAACAC
349257 CAGAACCTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.61, C:0.17, G:0.10, T:0.13
Consensus pattern (29 bp):
AAGGAATTAAAAGTCAACTAAAACACAAA
Found at i:351323 original size:52 final size:52
Alignment explanation
Indices: 351245--351401 Score: 287
Period size: 52 Copynumber: 3.0 Consensus size: 52
351235 GAATTAGATG
351245 TTAGATGCATTACCAAGATTGATCACTTTTCTACATTGTGTTGGGGCTGGAA
1 TTAGATGCATTACCAAGATTGATCACTTTTCTACATTGTGTTGGGGCTGGAA
351297 TTAGATGCATTACCAAGATTGATCACTTTTCTACATTGTGTTGGGGCTGGAA
1 TTAGATGCATTACCAAGATTGATCACTTTTCTACATTGTGTTGGGGCTGGAA
* * *
351349 TCAGATGCATTATCAAGATTGATCACTTTTCTACATTGTGTTGGGGATGGAA
1 TTAGATGCATTACCAAGATTGATCACTTTTCTACATTGTGTTGGGGCTGGAA
351401 T
1 T
351402 ATACTCAAAA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 102 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (52 bp):
TTAGATGCATTACCAAGATTGATCACTTTTCTACATTGTGTTGGGGCTGGAA
Found at i:356128 original size:18 final size:18
Alignment explanation
Indices: 356102--356174 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
356092 AGTCTAAATC
*
356102 AAATAAAATAAAACTCCT
1 AAATCAAATAAAACTCCT
****
356120 AAATCAAATAAAAAAAGTT
1 AAATCAAAT-AAAACTCCT
*
356139 AGACACCAAATAAAACTCCT
1 A-A-ATCAAATAAAACTCCT
356159 AAATCAAATAAAACTC
1 AAATCAAATAAAACTC
356175 TTTCATCTTG
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
18 21 0.51
19 7 0.17
20 7 0.17
21 6 0.15
ACGTcount: A:0.60, C:0.18, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAATAAAACTCCT
Found at i:356411 original size:17 final size:17
Alignment explanation
Indices: 356363--356420 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
356353 ATTTAAACTT
*
356363 TATATTTATCTTAATAAA
1 TATAATTATC-TAATAAA
356381 TACT-ATTCATCTAATAAA
1 TA-TAATT-ATCTAATAAA
*
356399 TATAATTATCTAATAAT
1 TATAATTATCTAATAAA
356416 TATAA
1 TATAA
356421 AACTAGATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 15 0.43
18 16 0.46
19 4 0.11
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
TATAATTATCTAATAAA
Found at i:357940 original size:217 final size:219
Alignment explanation
Indices: 357527--357941 Score: 579
Period size: 217 Copynumber: 1.9 Consensus size: 219
357517 CTTCAACCTA
* * * * *
357527 TAATGCAAACCTTAGGCTGAAAATAACTTAAAACCTAATTGGATGGAATTAGAACCCTAGGATCG
1 TAATGCAAACCTTAGGCTGAAAACAACCTAAAACCCAATTGGATGGAATTAGAACCCTAGAATCA
* * *
357592 TCTTCAAAAAATCAAGCAAAGAGAACATTACCCCACTCAAACCTATTGATTAGAACCAAAGTTAT
66 TCTTC-AAAAATCAAGCAAAAAGAACATTACCCCAATCAAACCTATTAATTAGAACCAAAGTTAT
** *
357657 AAGGATCTTGATCGCCACAAGTTGCCGAGATAAGATCAAATTGAGTTGTTGTTTAAAAAACAAAG
130 AAAAATCTTGATCGCCACAAGTTGCCGAGATAAGATCAAATTGAGTTCTTGTTTAAAAAACAAAG
357722 AAGTTCTCACAAAGTGAAGAAACTC
195 AAGTTCTCACAAAGTGAAGAAACTC
* *
357747 TAATGCGAACCTTAGGCTGAAAACAACCT-AAACCCAATTGGATGGAATTAGACCCCTAGAATCA
1 TAATGCAAACCTTAGGCTGAAAACAACCTAAAACCCAATTGGATGGAATTAGAACCCTAGAATCA
* * * *
357811 TCTTC-AAAATTAAGCAAAAAGAAC-TTAATCCTAATCAAACCTGTTAATTAGAACCAGAA-TTA
66 TCTTCAAAAATCAAGCAAAAAGAACATT-ACCCCAATCAAACCTATTAATTAGAACCA-AAGTTA
* * *
357873 TAAAAATCTTGATTGCCACAAGTTGCCTTA-ATAAGATCAAATTGAGTTCTTGTTTAAAGAACAA
129 TAAAAATCTTGATCGCCACAAGTTGCC-GAGATAAGATCAAATTGAGTTCTTGTTTAAAAAACAA
357937 AGAAG
193 AGAAG
357942 AAGTTGTAAA
Statistics
Matches: 172, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
216 2 0.01
217 105 0.61
218 3 0.02
219 36 0.21
220 26 0.15
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (219 bp):
TAATGCAAACCTTAGGCTGAAAACAACCTAAAACCCAATTGGATGGAATTAGAACCCTAGAATCA
TCTTCAAAAATCAAGCAAAAAGAACATTACCCCAATCAAACCTATTAATTAGAACCAAAGTTATA
AAAATCTTGATCGCCACAAGTTGCCGAGATAAGATCAAATTGAGTTCTTGTTTAAAAAACAAAGA
AGTTCTCACAAAGTGAAGAAACTC
Found at i:358103 original size:51 final size:51
Alignment explanation
Indices: 358047--358143 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
358037 TAGACCCCTG
* * *
358047 ACTAAACAAGGATAATCCTGATCACAGTCCTAATTGTAATCAATAATCTAA
1 ACTAAACAAGGACAATCCTAATCACAGTCCTAATAGTAATCAATAATCTAA
* *
358098 ACTAAATAAGGACAATCCTAATCATAGTCCTAATAGTAATCAATAA
1 ACTAAACAAGGACAATCCTAATCACAGTCCTAATAGTAATCAATAA
358144 GATAAATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (51 bp):
ACTAAACAAGGACAATCCTAATCACAGTCCTAATAGTAATCAATAATCTAA
Found at i:359586 original size:41 final size:41
Alignment explanation
Indices: 359529--359610 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
359519 GAACTTCTTC
359529 TTTGTTCTTTAAACAAAAACTCAAATTAATCTTATGAAGGT
1 TTTGTTCTTTAAACAAAAACTCAAATTAATCTTATGAAGGT
* *
359570 TTTGTT-TCTTAAACAAAAACTCAAATTTATCTTATTAAGGT
1 TTTGTTCT-TTAAACAAAAACTCAAATTAATCTTATGAAGGT
359611 AACTTGTGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (41 bp):
TTTGTTCTTTAAACAAAAACTCAAATTAATCTTATGAAGGT
Found at i:360086 original size:28 final size:28
Alignment explanation
Indices: 360045--360122 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
360035 TCTTTATCTG
360045 TCTTCATTGATTTCTCTTCCTTTAATATT
1 TCTTC-TTGATTTCTCTTCCTTTAATATT
* *
360074 TCTTACTTG-TTTCAT-TTCCCTTCATATT
1 TCTT-CTTGATTTC-TCTTCCTTTAATATT
* *
360102 TCTTGTTGATTTCACTTCCTT
1 TCTTCTTGATTTCTCTTCCTT
360123 GATCTTTCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
27 3 0.08
28 28 0.70
29 8 0.20
30 1 0.03
ACGTcount: A:0.14, C:0.23, G:0.05, T:0.58
Consensus pattern (28 bp):
TCTTCTTGATTTCTCTTCCTTTAATATT
Found at i:364615 original size:11 final size:9
Alignment explanation
Indices: 364590--364650 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
364580 GGATGATAAG
364590 AGGAGAGAT
1 AGGAGAGAT
364599 AGGAGAGAT
1 AGGAGAGAT
*
364608 AGCAGAGAT
1 AGGAGAGAT
*
364617 AGGAGGGAT
1 AGGAGAGAT
* *
364626 --GATAG-G
1 AGGAGAGAT
364632 AGGAGAGAT
1 AGGAGAGAT
364641 AGGAGAGAT
1 AGGAGAGAT
364650 A
1 A
364651 ATAGAGAGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
7 3 0.07
8 4 0.10
9 34 0.83
ACGTcount: A:0.43, C:0.02, G:0.44, T:0.11
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:364623 original size:42 final size:42
Alignment explanation
Indices: 364560--364678 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
364550 TAGCCCTCAA
* * *
364560 AGAGAAAGAAGAGATATGAGGGATGATAAGAGGAGAGATAGG
1 AGAGATAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
*
364602 AGAGATAGCAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* * *
364644 AGAGATA-ATAGAGAGAGAAGGGATGACAGGAGGAG
1 AGAGATAGA-AGAGATAGGAGGGATGATAGGAGGAG
364679 GAGAGAAGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.45, C:0.02, G:0.43, T:0.11
Consensus pattern (42 bp):
AGAGATAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:364631 original size:12 final size:12
Alignment explanation
Indices: 364611--364645 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
364601 GAGAGATAGC
364611 AGAGATAGGAGG
1 AGAGATAGGAGG
364623 -GATGATAGGAGG
1 AGA-GATAGGAGG
364635 AGAGATAGGAG
1 AGAGATAGGAG
364646 AGATAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.11
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:364639 original size:24 final size:23
Alignment explanation
Indices: 364569--364661 Score: 90
Period size: 24 Copynumber: 4.2 Consensus size: 23
364559 AAGAGAAAGA
*
364569 AGAGATATGAGGGATGATAAGAGG
1 AGAGATAGGAGGGATGAT-AGAGG
*
364593 AGAGATAGGA--GA-GAT--AGC
1 AGAGATAGGAGGGATGATAGAGG
364611 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATA-GAGG
* *
364635 AGAGATAGGAGAGATAATAGA-G
1 AGAGATAGGAGGGATGATAGAGG
364657 AGAGA
1 AGAGA
364662 AGGGATGACA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
18 12 0.21
20 2 0.03
21 6 0.10
22 8 0.14
23 2 0.03
24 28 0.48
ACGTcount: A:0.44, C:0.01, G:0.42, T:0.13
Consensus pattern (23 bp):
AGAGATAGGAGGGATGATAGAGG
Found at i:364654 original size:12 final size:12
Alignment explanation
Indices: 364614--364661 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
364604 AGATAGCAGA
*
364614 GATAGGAGGGAT
1 GATAGGAGAGAT
364626 GATAGGAGGAGA-
1 GATAGGA-GAGAT
364638 GATAGGAGAGAT
1 GATAGGAGAGAT
*
364650 AATAGAGAGAGA
1 GATAG-GAGAGA
364662 AGGGATGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 4 0.13
12 18 0.58
13 9 0.29
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:371692 original size:28 final size:28
Alignment explanation
Indices: 371661--371728 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
371651 AATTAATGCA
371661 AATTGGGCTCCATTCATCTTGAAATGTG
1 AATTGGGCTCCATTCATCTTGAAATGTG
*
371689 AATTAGGCTCCATTCATCTTGAAATGTG
1 AATTGGGCTCCATTCATCTTGAAATGTG
371717 AATTGGGCTCCA
1 AATTGGGCTCCA
371729 GGCTTTATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (28 bp):
AATTGGGCTCCATTCATCTTGAAATGTG
Found at i:372092 original size:33 final size:33
Alignment explanation
Indices: 372055--372162 Score: 80
Period size: 33 Copynumber: 3.2 Consensus size: 33
372045 AATGATGACC
372055 AAGAATGTATTAAGGAATTTGGCTTTGATGCAT
1 AAGAATGTATTAAGGAATTTGGCTTTGATGCAT
* * ** *
372088 AAGAA--TCTT-AGGCCCAATCTTGACAAAATGATG-ACC
1 AAGAATGTATTAAGG---AAT-TTGGC--TTTGATGCA-T
372124 AAGAATGTATTAAGGAATTTGGCTTTGATGCAT
1 AAGAATGTATTAAGGAATTTGGCTTTGATGCAT
372157 AAGAAT
1 AAGAAT
372163 CTTATAATTC
Statistics
Matches: 54, Mismatches: 10, Indels: 22
0.63 0.12 0.26
Matches are distributed among these distances:
30 3 0.06
31 3 0.06
33 19 0.35
34 5 0.09
35 5 0.09
36 13 0.24
38 3 0.06
39 3 0.06
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (33 bp):
AAGAATGTATTAAGGAATTTGGCTTTGATGCAT
Found at i:372110 original size:69 final size:69
Alignment explanation
Indices: 372028--372166 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
372018 AACAATGCCA
*
372028 AGGCCCAGTCTTGACAAAATGATGACCAAGAATGTATTAAGGAATTTGGCTTTGATGCATAAGAA
1 AGGCCCAATCTTGACAAAATGATGACCAAGAATGTATTAAGGAATTTGGCTTTGATGCATAAGAA
372093 TCTT
66 TCTT
372097 AGGCCCAATCTTGACAAAATGATGACCAAGAATGTATTAAGGAATTTGGCTTTGATGCATAAGAA
1 AGGCCCAATCTTGACAAAATGATGACCAAGAATGTATTAAGGAATTTGGCTTTGATGCATAAGAA
372162 TCTT
66 TCTT
372166 A
1 A
372167 TAATTCAACA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (69 bp):
AGGCCCAATCTTGACAAAATGATGACCAAGAATGTATTAAGGAATTTGGCTTTGATGCATAAGAA
TCTT
Found at i:373550 original size:17 final size:15
Alignment explanation
Indices: 373509--373552 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
373499 ATTCTTGTCT
373509 TAAATAAATATTTAC
1 TAAATAAATATTTAC
373524 TCAAATTAAATATATGTAC
1 T-AAA-TAAATAT-T-TAC
373543 TAAATAAATA
1 TAAATAAATA
373553 ATACAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 3 0.12
17 13 0.52
18 4 0.16
19 4 0.16
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (15 bp):
TAAATAAATATTTAC
Found at i:382245 original size:18 final size:18
Alignment explanation
Indices: 382224--382258 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
382214 CCTCCTCCTG
382224 TCATCCCTCCTCTCTCTA
1 TCATCCCTCCTCTCTCTA
* *
382242 TCATCTCTCCTGTCTCT
1 TCATCCCTCCTCTCTCT
382259 CCTCCTATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.46, G:0.03, T:0.43
Consensus pattern (18 bp):
TCATCCCTCCTCTCTCTA
Found at i:389364 original size:44 final size:44
Alignment explanation
Indices: 389315--389407 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
389305 ACATTAACAC
* * *
389315 AAACCCTAATGGACTTATTATGCTAACAAGCCCAGTTCTTAATT
1 AAACCCCAATGGACCTATTATGCTAACAAGCCCAATTCTTAATT
* * *
389359 AAACCCCAGTGGACCTATTGTTCTAACAAGCCCAATTCTTAATT
1 AAACCCCAATGGACCTATTATGCTAACAAGCCCAATTCTTAATT
389403 AAACC
1 AAACC
389408 AAAATAACAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (44 bp):
AAACCCCAATGGACCTATTATGCTAACAAGCCCAATTCTTAATT
Found at i:393720 original size:12 final size:11
Alignment explanation
Indices: 393698--393773 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
393688 AGAGAAAGAA
*
393698 GAGAGAGGAGG
1 GAGATAGGAGG
393709 GATGATAGGAGG
1 GA-GATAGGAGG
*
393721 AGAGACAGGA--
1 -GAGATAGGAGG
*
393731 GAGATAGTA--
1 GAGATAGGAGG
393740 GAGATAGGAGG
1 GAGATAGGAGG
*
393751 GATGATAGGAAGA
1 GA-GATAGG-AGG
393764 GAGATAGGAG
1 GAGATAGGAG
393774 AGATAATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 15 0.28
11 6 0.11
12 26 0.49
13 6 0.11
ACGTcount: A:0.41, C:0.01, G:0.47, T:0.11
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:393730 original size:24 final size:24
Alignment explanation
Indices: 393697--393773 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
393687 AAGAGAAAGA
*
393697 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATAGGAGG
* *
393721 AGAGACAGGA--GA-GAT---AGT
1 AGAGATAGGAGGGATGATAGGAGG
*
393739 AGAGATAGGAGGGATGATAGGAAG
1 AGAGATAGGAGGGATGATAGGAGG
393763 AGAGATAGGAG
1 AGAGATAGGAG
393774 AGATAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
18 11 0.26
20 2 0.05
21 6 0.14
22 2 0.05
24 21 0.50
ACGTcount: A:0.42, C:0.01, G:0.47, T:0.10
Consensus pattern (24 bp):
AGAGATAGGAGGGATGATAGGAGG
Found at i:393732 original size:9 final size:9
Alignment explanation
Indices: 393718--393778 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 9
393708 GGATGATAGG
*
393718 AGGAGAGAC
1 AGGAGAGAT
393727 AGGAGAGAT
1 AGGAGAGAT
*
393736 AGTAGAGAT
1 AGGAGAGAT
393745 AGGAGGGATGAT
1 AGGA--GA-GAT
393757 AGGAAGAGAGAT
1 A-G--GAGAGAT
393769 AGGAGAGAT
1 AGGAGAGAT
393778 A
1 A
393779 ATAAAGAGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 27 0.63
11 3 0.07
12 8 0.19
13 3 0.07
15 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.43, T:0.11
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:393749 original size:42 final size:42
Alignment explanation
Indices: 393688--393806 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
393678 TAGCCCTCAA
* *
393688 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
393730 AGAGATAGTAGAGATAGGAGGGATGATAGGAAGAGAGATAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * * *
393772 AGAGATAATAAAGAGAGGAAGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
393807 GAGAGAAGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.45, C:0.02, G:0.44, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:404499 original size:2 final size:2
Alignment explanation
Indices: 404492--404527 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
404482 AGGCCCATGA
404492 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
404528 GCAAATTGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:415768 original size:321 final size:321
Alignment explanation
Indices: 415175--415817 Score: 1162
Period size: 321 Copynumber: 2.0 Consensus size: 321
415165 ACTTAGCATG
*
415175 TGATGAGAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAAGGTTTCAAGGAC
1 TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAAGGTTTCAAGGAC
* *
415240 CAATGACGAGGGCAAAGGCAAAGAAGATAAAGGAAGACCTAGAGAAGATGGTTGCTGGCCTATTT
66 CAATAACGAGGGCAAAGGCAAAGAAGATAAAGGAAGACCTAGAGAAGATAGTTGCTGGCCTATTT
415305 GAAAGTAGACCCAATTTGGAGTTAGAAGAGCCCAAGCTAGTCAATTGCATATATTTGGAAGATAT
131 GAAAGTAGACCCAATTTGGAGTTAGAAGAGCCCAAGCTAGTCAATTGCATATATTTGGAAGATAT
415370 GAGCTCCAATGGATTGAATTAGGACTTAGGTTATTTTGTAATAAAGGGCCTGCTGGTTGTGACTT
196 GAGCTCCAATGGATTGAATTAGGACTTAGGTTATTTTGTAATAAAGGGCCTGCTGGTTGTGACTT
415435 GCTTTAGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAACTAAGAGTTGGGCTTGT
261 GCTTTAGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAACTAAGAGTTGGGCTTGT
* *
415496 TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCGTTGG-AAGGATTTCAAGGG
1 TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAAGG-TTTCAAGGA
*
415560 CCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATAGTTGCTGGCCTATT
65 CCAATAACGAGGGCAAAGGCAAAGAAGATAAAGGAAGACCTAGAGAAGATAGTTGCTGGCCTATT
*
415625 TGAAAGTAGACCCAATTTGGAGTTAGAAGAGCCCAAGCTAGTTAATTGCATATATTTGGAAGATA
130 TGAAAGTAGACCCAATTTGGAGTTAGAAGAGCCCAAGCTAGTCAATTGCATATATTTGGAAGATA
* *
415690 TGGGCTCCAATGGATTGAATTAGGACTTGGGTTATTTTGTAATAAAGGGCCTGCTGGTTGTGACT
195 TGAGCTCCAATGGATTGAATTAGGACTTAGGTTATTTTGTAATAAAGGGCCTGCTGGTTGTGACT
* * *
415755 TGCTTTGGGCTTTATTTAGCATAAAAACTTTTTATTTGGGTTTAAGTAAGAGTTGGGCTTGT
260 TGCTTTAGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAACTAAGAGTTGGGCTTGT
415817 T
1 T
415818 AGCATAATAA
Statistics
Matches: 309, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
320 4 0.01
321 305 0.99
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (321 bp):
TGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAAGGTTTCAAGGAC
CAATAACGAGGGCAAAGGCAAAGAAGATAAAGGAAGACCTAGAGAAGATAGTTGCTGGCCTATTT
GAAAGTAGACCCAATTTGGAGTTAGAAGAGCCCAAGCTAGTCAATTGCATATATTTGGAAGATAT
GAGCTCCAATGGATTGAATTAGGACTTAGGTTATTTTGTAATAAAGGGCCTGCTGGTTGTGACTT
GCTTTAGGCTTTATTTAGCATAAAAACTTGTTATTTGGGTTTAACTAAGAGTTGGGCTTGT
Found at i:421557 original size:9 final size:9
Alignment explanation
Indices: 421543--421603 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
421533 GGATGATAGG
421543 AGGAGAGAT
1 AGGAGAGAT
421552 AGGAGAGAT
1 AGGAGAGAT
*
421561 AGTAGAGAT
1 AGGAGAGAT
*
421570 AGGAGGGAT
1 AGGAGAGAT
* *
421579 --GATAG-G
1 AGGAGAGAT
*
421585 AGGAGAGAC
1 AGGAGAGAT
421594 AGGAGAGAT
1 AGGAGAGAT
421603 A
1 A
421604 ATAGAGAGAG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 33 0.82
ACGTcount: A:0.43, C:0.02, G:0.44, T:0.11
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:421579 original size:42 final size:42
Alignment explanation
Indices: 421524--421635 Score: 170
Period size: 42 Copynumber: 2.6 Consensus size: 42
421514 GAGAAAGAAT
* * *
421524 AGAGAGGAAGGATGATAGGAGGAGAGATAGGAGAGATAGTAG
1 AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
*
421566 AGATAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
1 AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
*
421608 AGAGAGGAGGGATGACAGGAGGAAGAGA
1 AGAGAGGAGGGATGATAGGAGG-AGAGA
421636 GAAGAAGATG
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 58 0.92
43 5 0.08
ACGTcount: A:0.43, C:0.02, G:0.46, T:0.10
Consensus pattern (42 bp):
AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
Found at i:426143 original size:190 final size:189
Alignment explanation
Indices: 425786--426167 Score: 701
Period size: 190 Copynumber: 2.0 Consensus size: 189
425776 GGCCAAGACT
425786 CTTGTGGCGATCATTCCTTTTGGCTTATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAAT
1 CTTGTGGCGATCATTCCTTTTGGCTTATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAAT
* *
425851 CTATTCCATTTTGTTATTTTTTCTGCTTCTTTCAATTTCTGTTCTTGCATTAATAATTCTGTTTA
66 CTATTCCATTTTGTTATTTTTTCTGCTTCTTTCAAATTCTGTTCTTGCATCAATAATTCTGTTTA
425916 ATGTTAGAAATCCATCTCAAGATCATTATTTAGGCAACCTTGGTTCATGGTTGTCATCA
131 ATGTTAGAAATCCATCTCAAGATCATTATTTAGGCAACCTTGGTTCATGGTTGTCATCA
* * *
425975 CTTGTGGTGATCATTCCTTTTGGCTTATCGATCTTGTGATTGTGGCGCCATCCTTTATCTCTAAT
1 CTTGTGGCGATCATTCCTTTTGGCTTATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAAT
426040 CTATTCCATTTTGTTATTTTTTTCTGCTTCTTTCAAATTCTGTTCTTGCATCAATAATTCTGTTT
66 CTATTCCATTTTGTTA-TTTTTTCTGCTTCTTTCAAATTCTGTTCTTGCATCAATAATTCTGTTT
*
426105 ATTGTTAGAAATCCATCTCAAGATCATTATTTAGGCAACCTTGGTTCATGGTTGTCATCA
130 AATGTTAGAAATCCATCTCAAGATCATTATTTAGGCAACCTTGGTTCATGGTTGTCATCA
426165 CTT
1 CTT
426168 TCTTTGCTCA
Statistics
Matches: 186, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
189 78 0.42
190 108 0.58
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (189 bp):
CTTGTGGCGATCATTCCTTTTGGCTTATCAATCTTGTGATTGTGGCGCCATCCTTCATCTCTAAT
CTATTCCATTTTGTTATTTTTTCTGCTTCTTTCAAATTCTGTTCTTGCATCAATAATTCTGTTTA
ATGTTAGAAATCCATCTCAAGATCATTATTTAGGCAACCTTGGTTCATGGTTGTCATCA
Found at i:427709 original size:18 final size:18
Alignment explanation
Indices: 427682--427752 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
427672 CCTGTCATCC
*
427682 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTATTATCT
*
427700 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTGTCTCT-AT--TATC-T
* *
427722 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTATTATCT
427742 CTCCTGTCTCT
1 CTCCTGTCTCT
427753 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 20 0.49
19 1 0.02
20 1 0.02
21 8 0.20
22 1 0.02
24 10 0.24
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTATTATCT
Found at i:427715 original size:42 final size:42
Alignment explanation
Indices: 427663--427785 Score: 183
Period size: 42 Copynumber: 2.9 Consensus size: 42
427653 CATCTTCTTC
* *
427663 TCTCATCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTG
1 TCTC-TCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTG
*
427706 TCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTG
1 TCTCTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTG
* * *
427748 TCTCTCCTCCTATCATCCCCCCTCTCTCTTCTTTCTCT
1 TCTCTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
427786 TTGAGGGCTA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 69 0.95
43 4 0.05
ACGTcount: A:0.09, C:0.46, G:0.02, T:0.42
Consensus pattern (42 bp):
TCTCTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTG
Done.