Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold115
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: 1475684
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 3 of 10
Found at i:276249 original size:101 final size:101
Alignment explanation
Indices: 275973--277040 Score: 1081
Period size: 101 Copynumber: 10.9 Consensus size: 101
275963 GATAAAAGGA
* * * * ** * * *
275973 CCAATACGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAACGGATGTCAATGTGCT
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-CAAA-GG-TGCCAATATGCT
** * * * * *
276038 GATTCACA-GTTAGCGACATTAGACTTGAAGATGAAAAGAATA
63 GATTCA-AGGCCAGCGATATTGGACTTAAAGATG--AAG-GTG
* * * ** * * *
276080 CCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCTTA
1 CCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGACAAAGGTGCCAATATGCTGA
* * *
276145 TTCAAGACCAGCGATACTAGACTTAAAGATGAAGGTG
65 TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
*
276182 CCAATATGCTGATTCAAGGCCATCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
276247 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * * *
276283 CCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATG---AAGGTGCCAATGTGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
* *
276345 TCAAGGCCAACGATATTGGACTTAAAGATGACAAAGGCG
66 TCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTG
* * *
276384 CCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAAGATGACAAAGGCGCCAATATGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
*
276449 TCAAGGCCAGCGATATTGGGCTTAAAGATGAAGGTG
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
*
276485 CCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGGTGCCAATGTGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
* ** *
276541 TCAAGGCC-GCGACATTGGACTTAAAGACAAAGATG
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * *
276576 CCAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T---AAAGGTGCCAATGTGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
* * * *
276632 TCAAGGCCAGCGACATTGGTCTTAAAGATAAAAGTG
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* *
276668 CCAATATGCTGATTCAAGGCTAGCGATATTGGAC-T-----T---AAAGGTGCCAATGTGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
* * * **
276724 TCAAGGCCAGGGACATTGGTCTTAAAGACAAAGGTG
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* *
276760 CCAATATACTGATTCAAGGCCAGCAATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
** *
276825 TCAAGGCCAGCGATACCGGACTTAAAGATGAAGATG
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* *
276861 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-GACAAAGGTGCCAATATGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
* *
276923 TCAAGGCCATCGATATTAGACTT----A--AAGGTG
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * * * *
276953 CCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAAGGTGCCAACATGCTGAT
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
*
277015 TCAAGGCCAGCGATATTGGGCTTAAA
66 TCAAGGCCAGCGATATTGGACTTAAA
277041 AGAAGATGCC
Statistics
Matches: 846, Mismatches: 94, Indels: 54
0.85 0.09 0.05
Matches are distributed among these distances:
91 84 0.10
92 250 0.30
93 1 0.00
94 1 0.00
95 1 0.00
98 90 0.11
99 1 0.00
100 3 0.00
101 263 0.31
102 28 0.03
103 3 0.00
104 46 0.05
105 33 0.04
106 2 0.00
107 27 0.03
108 13 0.02
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (101 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
Found at i:276695 original size:92 final size:92
Alignment explanation
Indices: 276429--277040 Score: 666
Period size: 92 Copynumber: 6.5 Consensus size: 92
276419 TAAAGATGAC
* * *
276429 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAAGTGCCAATATGC
276494 TGATTCAAGGCCAGCGATATTGGACTT-
65 TGATTCAAGGCCAGCGATATTGGACTTA
* * *
276521 AAAGGTGCCAATGTGCTGATTCAAGGCC-GCGACATTGGACTTAAAGACAAAGATGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAG-TGCCAATATGC
* *
276585 TGATTCAAGGCCAACGATATTGGGCTT-
65 TGATTCAAGGCCAGCGATATTGGACTTA
* * *
276612 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAAGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAAGTGCCAATATGC
*
276677 TGATTCAAGGCTAGCGATATTGGACTT-
65 TGATTCAAGGCCAGCGATATTGGACTTA
* * * * * *
276704 AAAGGTGCCAATGTGCTGATTCAAGGCCAGGGACATTGGTCTTAAAGACAAAGGTGCCAATATAC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAA-GTGCCAATATGC
*
276769 TGATTCAAGGCCAGCAATATTGGACTTAAAGATGA
65 TGATTCAAGGCCAGCGATATTGGAC-T-----T-A
** * *
276804 CAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTG
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAG-TGCCAATATG
*
276869 CTGATTCAAGGCCAGCGACATTGGACTTAAAGA
64 CTGATTCAAGGCCAGCGATATTGGACTT----A
* * * *
276902 CAAAGGTGCCAATATGCTGATTCAAGGCCATCGATATTAGACTTAAAG-----GTGCCAATGTGT
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGTGCCAATATGC
* *
276962 TGATTCAAGGCCAGCGACATTGGTCTTAAAGA
65 TGATTCAAGGCCAGCGATATTGGACTT----A
* *
276994 CAAAGGTGCCAACATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
277041 AGAAGATGCC
Statistics
Matches: 463, Mismatches: 40, Indels: 34
0.86 0.07 0.06
Matches are distributed among these distances:
90 3 0.01
91 84 0.18
92 244 0.53
93 6 0.01
95 1 0.00
98 47 0.10
100 2 0.00
101 76 0.16
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTA
Found at i:277251 original size:34 final size:34
Alignment explanation
Indices: 277166--277435 Score: 259
Period size: 34 Copynumber: 8.0 Consensus size: 34
277156 ACTTAAAAGG
* *
277166 GAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA
*
277201 GAAAAAGGGTGCCACGGAATTGTGGGCTTTGAAAA
1 GAAAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAA
277236 GAAAAAGGTGCCACGGAGTTGTGGGCTTTG--AA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * ** *
277268 G-AAAAGATGCCACTGAGTCAT-GGATTT-AAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * *
277299 GAAAAATGTTCCACGGAGTGGTGGGCTTTGAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
*
277333 GAAAAAGGTGCCATGGAGTTGTGGGCTTTGAAGAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTT---GAAAA
* * *
277370 GAAAAAGGTGCCACAGAGTTATGGGATTTG--AA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * * * *
277402 G-AAAAGATGCCACTGAGTCGTGGACTTTGGAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
277435 G
1 G
277436 GGATGCCACT
Statistics
Matches: 194, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
30 5 0.03
31 41 0.21
32 20 0.10
33 8 0.04
34 53 0.27
35 36 0.19
36 1 0.01
37 30 0.15
ACGTcount: A:0.35, C:0.11, G:0.32, T:0.21
Consensus pattern (34 bp):
GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
Found at i:277279 original size:31 final size:31
Alignment explanation
Indices: 277222--277556 Score: 247
Period size: 31 Copynumber: 10.5 Consensus size: 31
277212 CCACGGAATT
* * *
277222 GTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTT
1 GTGGGCTTTG--AAG-AAAAGATGCCACTGAGTC
277256 GTGGGCTTTGAAGAAAAGATGCCACTGAGTC
1 GTGGGCTTTGAAGAAAAGATGCCACTGAGTC
* * * * *
277287 AT-GGATTTAAAAGAAAA-ATGTTCCACGGAGTG
1 GTGGGCTTT-GAAGAAAAGATG--CCACTGAGTC
* *
277319 GTGGGCTTTGAAAAGAAAAAGGTGCCA-TGGAGTT
1 GTGGGCTTTG--AAG-AAAAGATGCCACT-GAGTC
* *
277353 GTGGGCTTTGAAGAAAAGAAAAAGGTGCCACAGAGTT
1 GTGGGCTTTGAAGAAAAG----A--TGCCACTGAGTC
* *
277390 ATGGGATTTGAAGAAAAGATGCCACTGAGTC
1 GTGGGCTTTGAAGAAAAGATGCCACTGAGTC
* *
277421 GTGGACTTTG--GAAAGGGATGCCACTGAGTC
1 GTGGGCTTTGAAGAAA-AGATGCCACTGAGTC
*
277451 GTGGACTTTGAAGAAAAGATGCCACTGAGTC
1 GTGGGCTTTGAAGAAAAGATGCCACTGAGTC
* *
277482 GTGGACTTTG-GGACAAA-ATGCCACTGAGTC
1 GTGGGCTTTGAAGA-AAAGATGCCACTGAGTC
*
277512 GTGGGCTTTG-AGAAGAGATTGCCACTGAGTC
1 GTGGGCTTTGAAGAAAAGA-TGCCACTGAGTC
*
277543 GTGGACTTT-AAGAA
1 GTGGGCTTTGAAGAA
277557 GGTATTTGAA
Statistics
Matches: 248, Mismatches: 30, Indels: 49
0.76 0.09 0.15
Matches are distributed among these distances:
29 6 0.02
30 59 0.24
31 96 0.39
32 19 0.08
33 6 0.02
34 30 0.12
35 4 0.02
36 2 0.01
37 26 0.10
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.23
Consensus pattern (31 bp):
GTGGGCTTTGAAGAAAAGATGCCACTGAGTC
Found at i:277329 original size:97 final size:101
Alignment explanation
Indices: 277168--277371 Score: 308
Period size: 97 Copynumber: 2.1 Consensus size: 101
277158 TTAAAAGGGA
* * *
277168 AAAAGAGTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAGGGTGCCACGGAATTGTGGGCTTTGA
1 AAAAGAGTGCCACGGAGTCATGGGATTTAAAAAGAAAAAGGGTGCCACGGAATGGTGGGCTTTGA
277233 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
66 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
* * * *
277269 AAAAGA-TGCCACTGAGTCAT-GGATTT-AAAAGAAAAA-TGTTCCACGGAGTGGTGGGCTTTGA
1 AAAAGAGTGCCACGGAGTCATGGGATTTAAAAAGAAAAAGGGTGCCACGGAATGGTGGGCTTTGA
*
277330 AAAGAAAAAGGTGCCATGGAGTTGTGGGCTTTGAAG
66 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
277366 AAAAGA
1 AAAAGA
277372 AAAAGGTGCC
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
97 62 0.65
98 10 0.11
99 5 0.05
100 12 0.13
101 6 0.06
ACGTcount: A:0.35, C:0.11, G:0.32, T:0.22
Consensus pattern (101 bp):
AAAAGAGTGCCACGGAGTCATGGGATTTAAAAAGAAAAAGGGTGCCACGGAATGGTGGGCTTTGA
AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
Found at i:277400 original size:134 final size:132
Alignment explanation
Indices: 277177--277425 Score: 383
Period size: 134 Copynumber: 1.9 Consensus size: 132
277167 AAAAAGAGTG
*
277177 CCACGGAGTTATGGGCTTTAAAAAGAAAAAGGGTGCCACGGAATTGTGGGCTTTGAAAAGAAAAA
1 CCACGGAGTGATGGGCTTTAAAAAGAAAAAGGGTGCCACGGAATTGTGGGCTTTGAAAAGAAAAA
* * *
277242 GGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCATGGATTTAAAAGAAAAATG
66 GGTGCCACAGAGTTATGGGATTTGAAGAAAAGATGCCACTGAGTCATGGATTTAAAAGAAAAATG
277307 TT
131 TT
* * * *
277309 CCACGGAGTGGTGGGCTTTGAAAAGAAAAA-GGTGCCATGGAGTTGTGGGCTTTGAAGAAAAGAA
1 CCACGGAGTGATGGGCTTTAAAAAGAAAAAGGGTGCCACGGAATTGTGGGCTTT---GAAAAGAA
*
277373 AAAGGTGCCACAGAGTTATGGGATTTGAAGAAAAGATGCCACTGAGTCGTGGA
63 AAAGGTGCCACAGAGTTATGGGATTTGAAGAAAAGATGCCACTGAGTCATGGA
277426 CTTTGGAAAG
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
131 21 0.20
132 27 0.26
134 57 0.54
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.22
Consensus pattern (132 bp):
CCACGGAGTGATGGGCTTTAAAAAGAAAAAGGGTGCCACGGAATTGTGGGCTTTGAAAAGAAAAA
GGTGCCACAGAGTTATGGGATTTGAAGAAAAGATGCCACTGAGTCATGGATTTAAAAGAAAAATG
TT
Found at i:277441 original size:30 final size:30
Alignment explanation
Indices: 277404--277551 Score: 187
Period size: 30 Copynumber: 4.9 Consensus size: 30
277394 GATTTGAAGA
277404 AAAGATGCCACTGAGTCGTGGACTTTGGA-
1 AAAGATGCCACTGAGTCGTGGACTTTGGAC
*
277433 AAGGGATGCCACTGAGTCGTGGACTTTGAAGA-
1 AA-AGATGCCACTGAGTCGTGGACTTTG--GAC
277465 AAAGATGCCACTGAGTCGTGGACTTTGGGAC
1 AAAGATGCCACTGAGTCGTGGACTTT-GGAC
*
277496 AAA-ATGCCACTGAGTCGTGGGCTTTGAGA-
1 AAAGATGCCACTGAGTCGTGGACTTTG-GAC
*
277525 AGAGATTGCCACTGAGTCGTGGACTTT
1 AAAGA-TGCCACTGAGTCGTGGACTTT
277552 AAGAAGGTAT
Statistics
Matches: 106, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
29 5 0.05
30 50 0.47
31 46 0.43
32 5 0.05
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (30 bp):
AAAGATGCCACTGAGTCGTGGACTTTGGAC
Found at i:277466 original size:61 final size:61
Alignment explanation
Indices: 277396--277551 Score: 237
Period size: 61 Copynumber: 2.6 Consensus size: 61
277386 AGTTATGGGA
*
277396 TTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT-GGA-AAGGGATGCCACTGAGTCGTGGAC
1 TTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAA--AATGCCACTGAGTCGTGGAC
*
277457 TTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTCGTGGGC
1 TTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTCGTGGAC
*
277518 TTTG-AGAAGAGATTGCCACTGAGTCGTGGACTTT
1 TTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
277552 AAGAAGGTAT
Statistics
Matches: 89, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
60 7 0.08
61 77 0.87
62 3 0.03
63 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (61 bp):
TTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTCGTGGAC
Found at i:285884 original size:52 final size:52
Alignment explanation
Indices: 285738--285866 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
285728 CGAAATATGA
285738 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
285790 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
285842 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
285867 AAGATTAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:285962 original size:13 final size:13
Alignment explanation
Indices: 285944--286027 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
285934 AGCTTCGTAG
285944 CGATACATTGTAT
1 CGATACATTGTAT
285957 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
285976 CGATACATTGTAT
1 CGATACATTGTAT
285989 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
286008 CGATACATTGTAT
1 CGATACATTGTAT
286021 CGATACA
1 CGATACA
286028 AATCGTTGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:285976 original size:19 final size:18
Alignment explanation
Indices: 285952--286014 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
285942 AGCGATACAT
285952 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
285971 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
285984 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
286003 TGTATCGATACA
1 TGTATCGATACA
286015 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:285985 original size:32 final size:32
Alignment explanation
Indices: 285944--286029 Score: 163
Period size: 32 Copynumber: 2.7 Consensus size: 32
285934 AGCTTCGTAG
285944 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
285976 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
286008 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
286030 TCGTTGAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:286484 original size:19 final size:20
Alignment explanation
Indices: 286462--286515 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
286452 AAGAACTAAG
286462 AAAAGAAGAAAGAAAA-AAA
1 AAAAGAAGAAAGAAAAGAAA
*
286481 AAAAGAAGAAAAGAAAATGAGA
1 AAAAGAAG-AAAGAAAA-GAAA
286503 AAAAGAA-AAAGAA
1 AAAAGAAGAAAGAA
286516 TGTCTAGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 8 0.26
20 14 0.45
22 9 0.29
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (20 bp):
AAAAGAAGAAAGAAAAGAAA
Found at i:286857 original size:43 final size:43
Alignment explanation
Indices: 286792--286876 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
286782 CAAATTTGAG
286792 GTTGTTGTTGATTTGTTCATTCCATTCAAGAAAGGTAGAAATA
1 GTTGTTGTTGATTTGTTCATTCCATTCAAGAAAGGTAGAAATA
*
286835 GTTGTTGTTGATTTGTTTATTCCATTCAAGAAAGGTAGAAAT
1 GTTGTTGTTGATTTGTTCATTCCATTCAAGAAAGGTAGAAAT
286877 GGAAAGAGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (43 bp):
GTTGTTGTTGATTTGTTCATTCCATTCAAGAAAGGTAGAAATA
Found at i:295292 original size:14 final size:15
Alignment explanation
Indices: 295242--295292 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
295232 ATAAATATAA
*
295242 TTAA-AATATTATAT
1 TTAATAATATAATAT
*
295256 TTAATAAATTTAATAT
1 TTAAT-AATATAATAT
295272 ATTAATAATATAAT-T
1 -TTAATAATATAATAT
295287 TTAATA
1 TTAATA
295293 TAGTAACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 10 0.32
15 1 0.03
16 15 0.48
17 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAATAATATAATAT
Found at i:296204 original size:16 final size:17
Alignment explanation
Indices: 296183--296216 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
296173 ATTAAGATGT
296183 AATAAAAAAAT-TAAAA
1 AATAAAAAAATATAAAA
*
296199 AATAAAACAATATAAAA
1 AATAAAAAAATATAAAA
296216 A
1 A
296217 TAATATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AATAAAAAAATATAAAA
Found at i:297013 original size:5 final size:5
Alignment explanation
Indices: 296998--297028 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
296988 TTATTTATCT
296998 TTTAA -TTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TT
297029 AGGGATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTAA
Found at i:298251 original size:51 final size:51
Alignment explanation
Indices: 298045--298490 Score: 526
Period size: 51 Copynumber: 8.7 Consensus size: 51
298035 TAATTTATGT
* * *
298045 TATTTTAAAATAATAAAAAATTAAAAACATATTTATATTAAATCCTAAATTAT
1 TATTTAAAAATAATAAAAAA-TAAAAATAT-TTTATATTAAATCCTAAATTAC
* * * ** *
298098 TAGTTAAAAATAAGAAAAAATAAAAAATATTTTGTATTAAATTTTGAATTAC
1 TATTTAAAAATAATAAAAAAT-AAAAATATTTTATATTAAATCCTAAATTAC
* *
298150 TATTTAAAAATAAGAAAATATTAAAAATATTTTATATTAAAT-CTCAAATTAC
1 TATTTAAAAATAATAAAA-AATAAAAATATTTTATATTAAATCCT-AAATTAC
* *
298202 TGTTTAAAAATAATAAAAAATAAGAAA-ATTTTATATTAAATCCTGAATTAC
1 TATTTAAAAATAATAAAAAATAA-AAATATTTTATATTAAATCCTAAATTAC
* * * *
298253 TATTTAAAAACAATAAAAAAT-AAAA-ATTTTATATAAAATCTTGAATTAC
1 TATTTAAAAATAATAAAAAATAAAAATATTTTATATTAAATCCTAAATTAC
* *
298302 TATTTGAAAATAATAAAAAATAAAAATATTTTATATTTAAT-CTCAAATTAC
1 TATTTAAAAATAATAAAAAATAAAAATATTTTATATTAAATCCT-AAATTAC
* * *
298353 TATTTAAAATTAATAAAAAATAAAAA-ATATTTATATTAAATCTTGAATTAC
1 TATTTAAAAATAATAAAAAATAAAAATAT-TTTATATTAAATCCTAAATTAC
* * * *
298404 TATTTAAAAATAGTAAAAATTAACAATATTTTATATTAAATCTTAAATTAC
1 TATTTAAAAATAATAAAAAATAAAAATATTTTATATTAAATCCTAAATTAC
*
298455 TATTTAAAATTAATAAAAAACTAAAAATATTTTATA
1 TATTTAAAAATAATAAAAAA-TAAAAATATTTTATA
298491 AATTACTATT
Statistics
Matches: 339, Mismatches: 42, Indels: 25
0.83 0.10 0.06
Matches are distributed among these distances:
49 44 0.13
50 8 0.02
51 163 0.48
52 98 0.29
53 26 0.08
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (51 bp):
TATTTAAAAATAATAAAAAATAAAAATATTTTATATTAAATCCTAAATTAC
Found at i:298262 original size:42 final size:43
Alignment explanation
Indices: 298216--298322 Score: 108
Period size: 49 Copynumber: 2.3 Consensus size: 43
298206 TAAAAATAAT
*
298216 AAAA-AATAAGAAAATTTTATATTAAATCCTGAATTACTATTTA
1 AAAACAATAA-AAAATTTTATATAAAATCCTGAATTACTATTTA
* *
298259 AAAACAATAAAAAATAAAAATTTTATATAAAATCTTGAATTACTATTTG
1 AAAACAAT-----A-AAAAATTTTATATAAAATCCTGAATTACTATTTA
*
298308 AAAATAATAAAAAAT
1 AAAACAATAAAAAAT
298323 AAAAATATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
43 10 0.19
44 4 0.08
49 38 0.72
50 1 0.02
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.34
Consensus pattern (43 bp):
AAAACAATAAAAAATTTTATATAAAATCCTGAATTACTATTTA
Found at i:298493 original size:42 final size:44
Alignment explanation
Indices: 298447--298531 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 44
298437 TATTAAATCT
*
298447 TAAATTACTATTTAAAATTAATAAAAA-A-CTAAAAATATTTTA
1 TAAATTACTATTTAAAAATAATAAAAATATCTAAAAATATTTTA
*
298489 TAAATTACTATTTAAAAATAATAAAAATATTTAAAAATATTTT
1 TAAATTACTATTTAAAAATAATAAAAATATCTAAAAATATTTT
298532 TGGCTTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 26 0.67
43 1 0.03
44 12 0.31
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (44 bp):
TAAATTACTATTTAAAAATAATAAAAATATCTAAAAATATTTTA
Found at i:298523 original size:10 final size:10
Alignment explanation
Indices: 298497--298530 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
298487 TATAAATTAC
298497 TATTTAAAAA
1 TATTTAAAAA
*
298507 TA-ATAAAAA
1 TATTTAAAAA
298516 TATTTAAAAA
1 TATTTAAAAA
298526 TATTT
1 TATTT
298531 TTGGCTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTTAAAAA
Found at i:298641 original size:22 final size:21
Alignment explanation
Indices: 298615--298673 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
298605 AATAAAATTG
298615 AATGCACATATGATTATAAATA
1 AATGCACATATGATT-TAAATA
*
298637 AATGCACATATGACTTTAATTA
1 AATGCACATATGA-TTTAAATA
**
298659 AATATACATATGATT
1 AATGCACATATGATT
298674 GAAAATGACA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (21 bp):
AATGCACATATGATTTAAATA
Found at i:299141 original size:53 final size:50
Alignment explanation
Indices: 299071--299447 Score: 378
Period size: 53 Copynumber: 7.4 Consensus size: 50
299061 AAAGCGATTC
*
299071 AAGACTTAATATAAAATATTTTCTAACTTTTTATTATTTTTAAATAGTAATT
1 AAGATTTAATATAAAATATTTT-TAA-TTTTTATTATTTTTAAATAGTAATT
* * *
299123 ACAAATATAATATAAAATATATTTTAATTTTTAATT-TTTGTAAA-AGTAATT
1 A-AGATTTAATATAAAATAT-TTTTAATTTTT-ATTATTTTTAAATAGTAATT
* * * *
299174 CATGATTTAATAT--AATTTTTTTAATTTTT-TATATTTTAAAAAAGTAATTT
1 -AAGATTTAATATAAAATATTTTTAATTTTTAT-TATTTTTAAATAGTAA-TT
* *
299224 GAGATTTATTATAAAATATTTTTAATTTTTATTA-TTTTAAA-A-T-ATT
1 AAGATTTAATATAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATT
* *
299270 AAGATTTAATATAAAATATTTTTAATTTTTATTATGATTTAAATACTAATT
1 AAGATTTAATATAAAATATTTTTAATTTTTATTAT-TTTTAAATAGTAATT
* * *
299321 TAGAGTTTAATATAAAATATTTTAAAATTTTTATTTTTGTTTAAATTA-TAATTT
1 AAGA-TTTAATATAAAATATTTT-TAATTTTTATTATT-TTTAAA-TAGTAA-TT
* *
299375 AAAATTTAATATAAAATATTTTTTAATTTTTTATTATTTTTAAATATTAATTT
1 AAGATTTAATATAAAATA-TTTTTAA-TTTTTATTATTTTTAAATAGTAA-TT
299428 AAGATTTAATATAAAATATT
1 AAGATTTAATATAAAATATT
299448 ATGTACTGAA
Statistics
Matches: 274, Mismatches: 27, Indels: 48
0.79 0.08 0.14
Matches are distributed among these distances:
46 35 0.13
47 2 0.01
48 24 0.09
49 20 0.07
50 9 0.03
51 38 0.14
52 37 0.14
53 86 0.31
54 23 0.08
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (50 bp):
AAGATTTAATATAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATT
Found at i:299254 original size:23 final size:23
Alignment explanation
Indices: 299228--299304 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
299218 TAATTTGAGA
299228 TTTATTATAAAATATTTTTAATT
1 TTTATTATAAAATATTTTTAATT
**
299251 TTTATTATTTTAAAATA---TTAAGA
1 TTTATTA---TAAAATATTTTTAATT
*
299274 TTTAATATAAAATATTTTTAATT
1 TTTATTATAAAATATTTTTAATT
299297 TTTATTAT
1 TTTATTAT
299305 GATTTAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
20 7 0.17
23 28 0.67
26 7 0.17
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
TTTATTATAAAATATTTTTAATT
Found at i:299343 original size:151 final size:150
Alignment explanation
Indices: 299076--299447 Score: 395
Period size: 151 Copynumber: 2.4 Consensus size: 150
299066 GATTCAAGAC
* *
299076 TTAATATAAAATATTTTCTAACTTTTTATTATTTTTAAATAGTAATTACAAATATAATATAAAAT
1 TTAATATAAAATATTTT-TAACTTTTTATTATTTTTAAATAGTAATTA-AGATTTAATATAAAAT
* **
299141 ATATTTTAATTTTTAATTTTTGTAAAAGTAATTCATGATTTAATATAATTTTTTTAATTTTT-TA
64 AT-TTTTAATTTTTAATTTTTGTAAAACTAATTCATGATTTAATATAA-TTTTAAAATTTTTATA
* *
299205 TAT-TTTAAAAAAGTAATTTGAGAT
127 TATGTTTAAAAAA-TAATTTAAAAT
*
299229 TTATTATAAAATATTTTTAA-TTTTTATTA-TTTTAAA-A-T-ATTAAGATTTAATATAAAATAT
1 TTAATATAAAATATTTTTAACTTTTTATTATTTTTAAATAGTAATTAAGATTTAATATAAAATAT
*
299289 TTTTAATTTTT-ATTATGATT-TAAATACTAATTTA-GAGTTTAATATAAAATATTTTAAAATTT
66 TTTTAATTTTTAATT-T--TTGTAAA-ACTAATTCATGA-TTTAATAT---A-ATTTTAAAATTT
* * **
299351 TTATTTTTGTTTAAATTATAATTTAAAAT
122 TTATATATGTTTAAAAAATAATTTAAAAT
* *
299380 TTAATATAAAATATTTTTTAATTTTTTATTATTTTTAAATATTAATTTAAGATTTAATATAAAAT
1 TTAATATAAAATA-TTTTTAACTTTTTATTATTTTTAAATAGTAA-TTAAGATTTAATATAAAAT
299445 ATT
64 ATT
299448 ATGTACTGAA
Statistics
Matches: 187, Mismatches: 14, Indels: 31
0.81 0.06 0.13
Matches are distributed among these distances:
144 3 0.02
145 12 0.06
146 22 0.12
147 21 0.11
148 1 0.01
149 1 0.01
150 19 0.10
151 34 0.18
152 17 0.09
153 25 0.13
154 7 0.04
155 1 0.01
156 1 0.01
157 1 0.01
158 22 0.12
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (150 bp):
TTAATATAAAATATTTTTAACTTTTTATTATTTTTAAATAGTAATTAAGATTTAATATAAAATAT
TTTTAATTTTTAATTTTTGTAAAACTAATTCATGATTTAATATAATTTTAAAATTTTTATATATG
TTTAAAAAATAATTTAAAAT
Found at i:299782 original size:10 final size:10
Alignment explanation
Indices: 299753--299925 Score: 53
Period size: 10 Copynumber: 17.3 Consensus size: 10
299743 ATAAAACTTA
*
299753 TATTTTGTAT
1 TATTTTATAT
299763 TATATTTATAT
1 TAT-TTTATAT
299774 TATTTTATA-
1 TATTTTATAT
* *
299783 TAATATA-AT
1 TATTTTATAT
* * *
299792 TAAATTTAAAA
1 T-ATTTTATAT
*
299803 TATTATATAT
1 TATTTTATAT
*
299813 T-TTTATAAAATT
1 TATTT-T-ATA-T
*
299825 TAATTTA-AT
1 TATTTTATAT
* *
299834 AATTTTTTAT
1 TATTTTATAT
299844 ATATTTTA-A-
1 -TATTTTATAT
299853 TATATTTATAT
1 TAT-TTTATAT
* *
299864 AATTATAT-T
1 TATTTTATAT
299873 ATATTTTATAT
1 -TATTTTATAT
299884 TATTTT-TA-
1 TATTTTATAT
299892 -ATTTTA-AT
1 TATTTTATAT
299900 TATTTTTTATAT
1 TA--TTTTATAT
299912 TATATTTATAT
1 TAT-TTTATAT
299923 TAT
1 TAT
299926 ATAATATGTT
Statistics
Matches: 120, Mismatches: 21, Indels: 43
0.65 0.11 0.23
Matches are distributed among these distances:
7 6 0.05
8 4 0.03
9 21 0.17
10 43 0.36
11 37 0.31
12 7 0.06
13 2 0.02
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (10 bp):
TATTTTATAT
Found at i:299921 original size:46 final size:46
Alignment explanation
Indices: 299846--299937 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
299836 TTTTTTATAT
* * *
299846 ATTTTAATATATTTATATAATTATATTATATTTTATATTATTTTTA
1 ATTTTAATATATTTATATAATTATATTATATTATATAATATGTTTA
*
299892 ATTTTAAT-TATTT-TTTATATTATATTTATATTATATAATATGTTTA
1 ATTTTAATATATTTATATA-ATTATA-TTATATTATATAATATGTTTA
299938 CATTCAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
44 3 0.08
45 11 0.28
46 26 0.65
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (46 bp):
ATTTTAATATATTTATATAATTATATTATATTATATAATATGTTTA
Found at i:299932 original size:16 final size:16
Alignment explanation
Indices: 299853--299932 Score: 51
Period size: 16 Copynumber: 4.9 Consensus size: 16
299843 TATATTTTAA
299853 TATATTTATATAATTATAT
1 TATA-TTATATAA-TAT-T
* *
299872 TATATTTTATATTATT
1 TATATTATATAATATT
*
299888 TTTAATT-T-TAATTATT
1 TAT-ATTATATAA-TATT
*
299904 T-T-TTATATTATATT
1 TATATTATATAATATT
299918 TATATTATATAATAT
1 TATATTATATAATAT
299933 GTTTACATTC
Statistics
Matches: 49, Mismatches: 6, Indels: 15
0.70 0.09 0.21
Matches are distributed among these distances:
13 2 0.04
14 6 0.12
15 6 0.12
16 19 0.39
17 6 0.12
18 6 0.12
19 4 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTATATAATATT
Found at i:311618 original size:20 final size:20
Alignment explanation
Indices: 311593--311663 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
311583 TAACTAGATG
*
311593 TATCGATACATTGAACAATA
1 TATCGATACATTGAAAAATA
* * *
311613 TATCGATACATCTCGGTAGAATG
1 TATCGATACAT-T--GAAAAATA
*
311636 TATCGATACATTGAAAAATT
1 TATCGATACATTGAAAAATA
311656 TATCGATA
1 TATCGATA
311664 TATCTGGGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 24 0.57
21 1 0.02
22 1 0.02
23 16 0.38
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACATTGAAAAATA
Found at i:311660 original size:43 final size:43
Alignment explanation
Indices: 311590--311673 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
311580 TTTTAACTAG
*
311590 ATGTATCGATACATTGAACAATATATCGATACATCTCGGTAGA
1 ATGTATCGATACATTGAAAAATATATCGATACATCTCGGTAGA
* * *
311633 ATGTATCGATACATTGAAAAATTTATCGATATATCTGGGTA
1 ATGTATCGATACATTGAAAAATATATCGATACATCTCGGTA
311674 AAAATGTGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (43 bp):
ATGTATCGATACATTGAAAAATATATCGATACATCTCGGTAGA
Found at i:312214 original size:16 final size:17
Alignment explanation
Indices: 312193--312236 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
312183 TCATGTTATT
*
312193 ATTTACTTTATT-TTAA
1 ATTTACTTTATTCATAA
* *
312209 ATTTACATTATTCATAT
1 ATTTACTTTATTCATAA
312226 ATTTACTTTAT
1 ATTTACTTTAT
312237 GTTCATGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTACTTTATTCATAA
Found at i:313001 original size:79 final size:78
Alignment explanation
Indices: 312868--313126 Score: 204
Period size: 79 Copynumber: 3.3 Consensus size: 78
312858 CTTCGAGTCT
* * * * * *
312868 TGTTAGCA-TTTTCATAT-AAAAAATTGTCCATTAAGGTTAATTTAGAAATATTACATATAAAAT
1 TGTTAGCACTTTT-ATGTCAAAAAA-TGTCCATTAAGCTCATTTTAGTAATTTTACAT-TAAAAT
*
312931 AAGTCATTTAGGGTCG
63 AAGTCATTTAGGGTCA
* * * *
312947 TGTTAGCACTTTTATGTCAAAAAATGTCCATTGAGACT-ATTTTATTAATTTTACATTAGAATTG
1 TGTTAGCACTTTTATGTCAAAAAATGTCCATTAAG-CTCATTTTAGTAATTTTACATTA-AAATA
* *
313011 AGTCCTTTAGGATCA
64 AGTCATTTAGGGTCA
* * * * * * * *
313026 TTTTAACA-TTTCCATGTCAAAATATGTCGATTAAGGTCATTTTAGTAATTTTACATCAAGATCA
1 TGTTAGCACTTT-TATGTCAAAAAATGTCCATTAAGCTCATTTTAGTAATTTTACATTAAAAT-A
*
313090 AGT-GTTTGAGGGTCA
64 AGTCATTT-AGGGTCA
*
313105 TGTTAGCACTTATATGTCAAAA
1 TGTTAGCACTTTTATGTCAAAA
313127 CTAAACCTTT
Statistics
Matches: 141, Mismatches: 30, Indels: 18
0.75 0.16 0.10
Matches are distributed among these distances:
78 11 0.08
79 117 0.83
80 13 0.09
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (78 bp):
TGTTAGCACTTTTATGTCAAAAAATGTCCATTAAGCTCATTTTAGTAATTTTACATTAAAATAAG
TCATTTAGGGTCA
Found at i:318353 original size:109 final size:106
Alignment explanation
Indices: 318150--318446 Score: 262
Period size: 109 Copynumber: 2.7 Consensus size: 106
318140 ATCCCAGTTG
* * * * *
318150 AAATTGGCATCGAAAT-GAAAAAG-CCAAAAATAG-TCGGTACA-TTTCATCCTTGTTAAAATTG
1 AAATTGGCCTC-AAATGGAAAAAGCCCAAAAATAGCT-AGTA-AGTTTTATCCTAGTTGAAATTG
* * * *
318211 ACACCAAAATAAAAAAGCCTAAGAGTAGATAAGTTTTGTCCTAGCTG
63 GCACC--AA-AAAAAAGCCTAAGAGTAGATAAGTTTTGTCCCAACTA
* * * * * *
318258 AAATTGGCATTGAAAT-GAAGAAGCCCAAAAATAGCTAGTAGGTTTTATCTTAGTTGAAATTGGT
1 AAATTGGC-CTCAAATGGAAAAAGCCCAAAAATAGCTAGTAAGTTTTATCCTAGTTGAAATTGGC
*
318322 ACCAAAAAAAAGCCTAAGAGTAGCTATTAAGTTTTGTCCCAATTA
65 ACCAAAAAAAAGCCTAAGAGTAG--A-TAAGTTTTGTCCCAACTA
* * * * *
318367 AAATTGGCCTCAAATGGAAAAATCTCAAGAGTAGCTAGTAAGTTTTGTCCTAGTTGAAATTGGCA
1 AAATTGGCCTCAAATGGAAAAAGCCCAAAAATAGCTAGTAAGTTTTATCCTAGTTGAAATTGGCA
318432 CCAAACTAAAAAGCC
66 CCAAA--AAAAAGCC
318447 CAATATAGCT
Statistics
Matches: 153, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
106 18 0.12
107 2 0.01
108 24 0.16
109 100 0.65
110 1 0.01
111 8 0.05
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (106 bp):
AAATTGGCCTCAAATGGAAAAAGCCCAAAAATAGCTAGTAAGTTTTATCCTAGTTGAAATTGGCA
CCAAAAAAAAGCCTAAGAGTAGATAAGTTTTGTCCCAACTA
Found at i:318356 original size:53 final size:54
Alignment explanation
Indices: 318222--318446 Score: 169
Period size: 56 Copynumber: 4.1 Consensus size: 54
318212 CACCAAAATA
* **
318222 AAAAAGCCT-AAGAGTAG--A-TAAGTTTTGTCCTAGCTGAAATTGGCATTGAAATG
1 AAAAAGCCTCAAGAGTAGCTAGTAAGTTTTGTCCTAGTTGAAATTGG-A-CCAAA-G
* * * * * *
318275 AAGAAGCC-CAAAAATAGCTAGTAGGTTTTATCTTAGTTGAAATTGGTACCAAA-
1 AAAAAGCCTCAAGAGTAGCTAGTAAGTTTTGTCCTAGTTGAAATTGG-ACCAAAG
* * * * *
318328 AAAAAGCCT-AAGAGTAGCTATTAAGTTTTGTCCCAATTAAAATTGGCCTCAAATGG
1 AAAAAGCCTCAAGAGTAGCTAGTAAGTTTTGTCCTAGTTGAAATTGGAC-CAAA--G
* *
318384 AAAAA-TCTCAAGAGTAGCTAGTAAGTTTTGTCCTAGTTGAAATTGGCACCAAACT
1 AAAAAGCCTCAAGAGTAGCTAGTAAGTTTTGTCCTAGTTGAAATTGG-ACCAAA-G
318439 AAAAAGCC
1 AAAAAGCC
318447 CAATATAGCT
Statistics
Matches: 130, Mismatches: 30, Indels: 21
0.72 0.17 0.12
Matches are distributed among these distances:
52 1 0.01
53 52 0.40
55 11 0.08
56 65 0.50
57 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (54 bp):
AAAAAGCCTCAAGAGTAGCTAGTAAGTTTTGTCCTAGTTGAAATTGGACCAAAG
Found at i:318829 original size:21 final size:19
Alignment explanation
Indices: 318799--318842 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
318789 GGTAAAAAAC
318799 AAAAAAAAACAAAAAAATGA
1 AAAAAAAAACAAAAAAAT-A
* *
318819 AAAACAAAAACTAGAAAATA
1 AAAA-AAAAACAAAAAAATA
318839 AAAA
1 AAAA
318843 GCTCGGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.82, C:0.07, G:0.05, T:0.07
Consensus pattern (19 bp):
AAAAAAAAACAAAAAAATA
Found at i:319943 original size:22 final size:22
Alignment explanation
Indices: 319926--319969 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
319916 AAAGAAAACC
319926 AAAAAAGAAAAA-GGAGAAAGAA
1 AAAAAAGAAAAATGGAGAAA-AA
*
319948 AAAAAAGAAAAATGGACAAAAA
1 AAAAAAGAAAAATGGAGAAAAA
319970 CAATAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.02
Consensus pattern (22 bp):
AAAAAAGAAAAATGGAGAAAAA
Found at i:325034 original size:13 final size:13
Alignment explanation
Indices: 325012--325049 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
325002 AAATACTCTT
325012 AATT-TTAAAATA
1 AATTATTAAAATA
325024 AATTATTAAAATA
1 AATTATTAAAATA
325037 ATATTATTTAAAA
1 A-ATTA-TTAAAA
325050 ATTATTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 9 0.39
14 4 0.17
15 6 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AATTATTAAAATA
Found at i:325044 original size:14 final size:14
Alignment explanation
Indices: 325016--325069 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
325006 ACTCTTAATT
325016 TTAAAATAA-ATTA
1 TTAAAATAATATTA
325029 TTAAAATAATATTA
1 TTAAAATAATATTA
*
325043 TTTAAAA-ATTATTA
1 -TTAAAATAATATTA
* *
325057 TGAAAATATTATT
1 TTAAAATAATATT
325070 TCATAACCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
13 14 0.39
14 16 0.44
15 6 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
TTAAAATAATATTA
Found at i:325054 original size:25 final size:25
Alignment explanation
Indices: 325023--325070 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
325013 ATTTTAAAAT
325023 AAATTATTA-AAATAATATTATTTAA
1 AAATTATTATAAA-AATATTATTTAA
*
325048 AAATTATTATGAAAATATTATTT
1 AAATTATTATAAAAATATTATTT
325071 CATAACCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AAATTATTATAAAAATATTATTTAA
Found at i:325621 original size:173 final size:175
Alignment explanation
Indices: 325178--325882 Score: 806
Period size: 173 Copynumber: 4.1 Consensus size: 175
325168 TTTTGTTAAT
* * * * * * * *
325178 TTATTATTTAATTATTTTTTATTTAATAAATATA-TTT-TTATTAAAATATTTAAAATTATCAAA
1 TTATTATTTCATAATTTTTAACTCAATAAATATATTTTATTATTAAAATATCTAAAATTATTAGA
* *
325241 TAAATATTTTAAAAAATATTAAAATTTAAAATTATGTAAAATAAA-TTTTTATTACTTAAAAAAC
66 TAAATATTTAAAAAAAT-TTAAAATTTAAAATTATGTAAAATAAATTTTTTA-TACTTAAAAAAT
* * *
325305 TATTATATTTTAATATAAAAGTATCAATTTACGTATTTATTT-A-A-
129 TATCATATTTTAATATTAAAGTATCAATTTACGTTTTTATTTGAGAC
* * * *
325349 --A--ACTT-ATAATTTTTAACTTATTAAATATATTTTATTATTAAAATATATAAAATTATATAG
1 TTATTATTTCATAATTTTTAACTCAATAAATATATTTTATTATTAAAATATCTAAAATTAT-TAG
* * * *
325409 -TAAATATTTAAAAAATTTTAAAAATTAAAATTATGTAAAATAAATTTTTTATGCTTAAGAAATT
65 ATAAATATTTAAAAAAATTTAAAATTTAAAATTATGTAAAATAAATTTTTTATACTTAAAAAATT
* * *
325473 AACGTATTTTAATATTAAAGTATCAATATACGTTTTTATTTGAGAC
130 ATCATATTTTAATATTAAAGTATCAATTTACGTTTTTATTTGAGAC
* * *
325519 TTATTATTTCATAATTTTTAACTCAAAAAATATA-TTT-TTATAAAAATATCTAAAATTATTAGT
1 TTATTATTTCATAATTTTTAACTCAATAAATATATTTTATTATTAAAATATCTAAAATTATTAGA
325582 TAAATATTTAAAAAAATTTAAAATTTAAAATTATGTAAAATAAATTTTTTATACTTAAAAAATTA
66 TAAATATTTAAAAAAATTTAAAATTTAAAATTATGTAAAATAAATTTTTTATACTTAAAAAATTA
* * * * *
325647 TCGTATTTTAATATGAAAGTTTCAATTTACATTTTT-TTTAAGAC
131 TCATATTTTAATATTAAAGTATCAATTTACGTTTTTATTTGAGAC
* *
325691 TTATTATTTCATAATTTGTTAA-TACAGTAAATACATTTTATTATTAAAATATCTAAAATTATTC
1 TTATTATTTCATAATTT-TTAACT-CAATAAATATATTTTATTATTAAAATATCTAAAATTATT-
*** *
325755 A-ATAAATATTTAAAAAAA-TTAAAATTTAAAATTGCATAAAATGAATTTTTT-TAGCTTTAAAA
63 AGATAAATATTTAAAAAAATTTAAAATTTAAAATTATGTAAAATAAATTTTTTATA-C-TTAAAA
* * *
325817 AATTGTCATATTTTAATA-TAAA-AATCAATTTA-TTTTTTATTTGAGAC
126 AATTATCATATTTTAATATTAAAGTATCAATTTACGTTTTTATTTGAGAC
*
325864 TTATTATTTTATAATTTTT
1 TTATTATTTCATAATTTTT
325883 TTAGTTGATA
Statistics
Matches: 460, Mismatches: 53, Indels: 41
0.83 0.10 0.07
Matches are distributed among these distances:
166 20 0.04
167 77 0.17
168 43 0.09
169 3 0.01
172 36 0.08
173 157 0.34
174 42 0.09
175 81 0.18
176 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (175 bp):
TTATTATTTCATAATTTTTAACTCAATAAATATATTTTATTATTAAAATATCTAAAATTATTAGA
TAAATATTTAAAAAAATTTAAAATTTAAAATTATGTAAAATAAATTTTTTATACTTAAAAAATTA
TCATATTTTAATATTAAAGTATCAATTTACGTTTTTATTTGAGAC
Found at i:325656 original size:340 final size:341
Alignment explanation
Indices: 325178--325882 Score: 870
Period size: 348 Copynumber: 2.1 Consensus size: 341
325168 TTTTGTTAAT
* * * * * * *
325178 TTATTATTTAATTATTTTTTATTTAATAAATATATTTTTATTAAAATATTTAAAATTATCAAATA
1 TTATTATTTAATAATTTTTAACTCAAAAAATATATTTTTATAAAAATATCTAAAATTATCAAATA
*
325243 AATATTTTAAAAAATATTAAAATTTAAAATTATGTAAAATAAATTTTTATTACTTAAAAAACTAT
66 AATATTTAAAAAAATATTAAAATTTAAAATTATGTAAAATAAATTTTTATTACTTAAAAAACTAT
* * *
325308 TATATTTTAATATAAAAGTATCAATTTACGTATTTATTTAAAACTTATAATTT-TTAA-CTT-AT
131 CATATTTTAATATAAAAGTATCAATTTACAT-TTTATTTAAAACTTATAATTTCATAATCTTAAT
* * *
325370 -TAAATATATTTTATTATTAAAATATATAAAATTATAT-AGTAAATATTTAAAAAATTTTAAAAA
195 ATAAATACATTTTATTATTAAAATATATAAAATTAT-TCAATAAATATTTAAAAAA-ATTAAAAA
** * * *
325433 TTAAAATTATGTAAAATAAA-TTTTTTATGC-TTAAGAAATTAACGTATTTTAATATTAAAGTAT
258 TTAAAATTACATAAAATAAATTTTTTTA-GCTTTAAAAAATTAACATATTTTAATA-TAAA-AAT
325496 CAATATACGTTTTTATTTGAGAC
320 CAATATA-GTTTTTATTTGAGAC
* * **
325519 TTATTATTTCATAATTTTTAACTCAAAAAATATATTTTTATAAAAATATCTAAAATTATTAGTTA
1 TTATTATTTAATAATTTTTAACTCAAAAAATATATTTTTATAAAAATATCTAAAATTATCAAATA
*
325584 AATATTTAAAAAAAT-TTAAAATTTAAAATTATGTAAAATAAATTTTT-TATACTTAAAAAATTA
66 AATATTTAAAAAAATATTAAAATTTAAAATTATGTAAAATAAATTTTTAT-TACTTAAAAAACTA
* * * * * * *
325647 TCGTATTTTAATATGAAAGTTTCAATTTACATTTTTTTTAAGACTTATTATTTCATAATTTGTTA
130 TCATATTTTAATATAAAAGTATCAATTTACATTTTATTTAAAACTTATAATTTCATAA--TCTTA
*
325712 ATACAGTAAATACATTTTATTATTAAAATATCTAAAATTATTCAATAAATATTTAAAAAAATTAA
193 AT--A-TAAATACATTTTATTATTAAAATATATAAAATTATTCAATAAATATTTAAAAAAATTAA
* * * **
325777 AATTTAAAATTGCATAAAATGAATTTTTTTAGCTTTAAAAAATTGTCATATTTTAATATAAAAAT
255 AAATTAAAATTACATAAAATAAATTTTTTTAGCTTTAAAAAATTAACATATTTTAATATAAAAAT
* *
325842 CAATTTATTTTTTATTTGAGAC
320 CAATATAGTTTTTATTTGAGAC
*
325864 TTATTATTTTATAATTTTT
1 TTATTATTTAATAATTTTT
325883 TTAGTTGATA
Statistics
Matches: 311, Mismatches: 40, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
339 19 0.06
340 75 0.24
341 68 0.22
343 2 0.01
344 2 0.01
345 32 0.10
346 8 0.03
347 29 0.09
348 76 0.24
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (341 bp):
TTATTATTTAATAATTTTTAACTCAAAAAATATATTTTTATAAAAATATCTAAAATTATCAAATA
AATATTTAAAAAAATATTAAAATTTAAAATTATGTAAAATAAATTTTTATTACTTAAAAAACTAT
CATATTTTAATATAAAAGTATCAATTTACATTTTATTTAAAACTTATAATTTCATAATCTTAATA
TAAATACATTTTATTATTAAAATATATAAAATTATTCAATAAATATTTAAAAAAATTAAAAATTA
AAATTACATAAAATAAATTTTTTTAGCTTTAAAAAATTAACATATTTTAATATAAAAATCAATAT
AGTTTTTATTTGAGAC
Found at i:326005 original size:10 final size:9
Alignment explanation
Indices: 325989--326041 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 9
325979 CTAAAAAATT
325989 TATTTTATA
1 TATTTTATA
325998 TAATTTTATA
1 T-ATTTTATA
*
326008 T-TTTAATA
1 TATTTTATA
* *
326016 TTTTTTAGA
1 TATTTTATA
326025 TAATTTTATA
1 T-ATTTTATA
326035 TATTTTA
1 TATTTTA
326042 ATAATAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
8 7 0.19
9 13 0.36
10 16 0.44
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TATTTTATA
Found at i:326027 original size:27 final size:29
Alignment explanation
Indices: 325991--326044 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
325981 AAAAAATTTA
*
325991 TTTTATATAA-TTT-TATATTTTAATATT
1 TTTTAGATAATTTTATATATTTTAATATT
326018 TTTTAGATAATTTTATATATTTTAATA
1 TTTTAGATAATTTTATATATTTTAATA
326045 ATAAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.38
28 3 0.12
29 12 0.50
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTTAGATAATTTTATATATTTTAATATT
Found at i:326499 original size:29 final size:29
Alignment explanation
Indices: 326466--326529 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
326456 GTCAGACAAA
326466 TAAAATAATAATATTTTAATAAATAATTT
1 TAAAATAATAATATTTTAATAAATAATTT
* * * *
326495 TAAAATAATATTATTTTTATAATTTATTT
1 TAAAATAATAATATTTTAATAAATAATTT
326524 TAAAAT
1 TAAAAT
326530 TAAAAGTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TAAAATAATAATATTTTAATAAATAATTT
Found at i:330640 original size:12 final size:12
Alignment explanation
Indices: 330607--330644 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
330597 TATTTTATTT
330607 AAAATTAATTATA
1 AAAATTAA-TATA
330620 AAAA-T-ATATA
1 AAAATTAATATA
330630 AAAATTAATATA
1 AAAATTAATATA
330642 AAA
1 AAA
330645 TTTTTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 8 0.35
11 2 0.09
12 9 0.39
13 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:331191 original size:2 final size:2
Alignment explanation
Indices: 331184--331208 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
331174 ATTTTGGTCC
331184 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
331209 ATTTCATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:333595 original size:22 final size:21
Alignment explanation
Indices: 333570--333619 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
333560 AAATTTTTTA
*
333570 TTATTAA-TAATATTTATTAAAT
1 TTATTAAGTAATAATT-TT-AAT
333592 TTA-TAAGTAATAATTTTAAT
1 TTATTAAGTAATAATTTTAAT
333612 TTCATTAA
1 TT-ATTAA
333620 AGGTCTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTATTAAGTAATAATTTTAAT
Found at i:334950 original size:24 final size:24
Alignment explanation
Indices: 334922--334972 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
334912 TTGAAAAAAA
334922 TTATTTAATAATTATT-TTTTATTT
1 TTATTTAA-AATTATTATTTTATTT
* *
334946 TTATTTAAGATTTTTATTTTATTT
1 TTATTTAAAATTATTATTTTATTT
334970 TTA
1 TTA
334973 AATATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATTTAAAATTATTATTTTATTT
Found at i:337193 original size:18 final size:19
Alignment explanation
Indices: 337156--337203 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
337146 ATCATTAATT
337156 TTAATTTTATCGTTATAATAA
1 TTAATTTTATC--TATAATAA
*
337177 TTAATTTTATC-ATAATAG
1 TTAATTTTATCTATAATAA
*
337195 TTATTTTTA
1 TTAATTTTA
337204 ATCTCACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 14 0.56
21 11 0.44
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (19 bp):
TTAATTTTATCTATAATAA
Found at i:338120 original size:14 final size:14
Alignment explanation
Indices: 338101--338143 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
338091 AGATAATCAA
338101 AATTAAAATTTAAT
1 AATTAAAATTTAAT
338115 AATT-AAA-TTAA-
1 AATTAAAATTTAAT
338126 AATTAAAAATTTAAT
1 AATT-AAAATTTAAT
338141 AAT
1 AAT
338144 AATCAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
11 4 0.16
12 4 0.16
13 6 0.24
14 8 0.32
15 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTAAAATTTAAT
Found at i:338139 original size:19 final size:19
Alignment explanation
Indices: 338100--338136 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
338090 GAGATAATCA
*
338100 AAATTAAAATTTAATAATT
1 AAATTAAAATTTAAAAATT
338119 AAATTAAAA-TTAAAAATT
1 AAATTAAAATTTAAAAATT
338137 TAATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTAAAATTTAAAAATT
Found at i:339691 original size:18 final size:17
Alignment explanation
Indices: 339654--339687 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
339644 TAGGTTCTAA
339654 AAATTAATTAATATTTT
1 AAATTAATTAATATTTT
* *
339671 AAATTTATTATTATTTT
1 AAATTAATTAATATTTT
339688 TAAAAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AAATTAATTAATATTTT
Found at i:341550 original size:2 final size:2
Alignment explanation
Indices: 341545--341579 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
341535 TAAATAAATT
*
341545 TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
341580 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:341665 original size:14 final size:15
Alignment explanation
Indices: 341632--341670 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
341622 AAATTAAAAG
341632 TAATATTTAATAAATT
1 TAATATTT-ATAAATT
*
341648 TAATATTTAT-ATTT
1 TAATATTTATAAATT
341662 TAATATTTA
1 TAATATTTA
341671 CAGTTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.55
15 2 0.09
16 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATATTTATAAATT
Found at i:348373 original size:21 final size:20
Alignment explanation
Indices: 348327--348390 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
348317 TTTCTAATAA
* *
348327 ATAATTAAATTATTATAGTT
1 ATAATTTAATTATTATAATT
348347 -TAAATTTAATATATTATAATT
1 AT-AATTTAAT-TATTATAATT
348368 ATAATTATAATTA-TATAA-T
1 ATAATT-TAATTATTATAATT
348387 ATAA
1 ATAA
348391 ATATAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 6 0.16
20 12 0.32
21 15 0.39
22 5 0.13
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATAATTTAATTATTATAATT
Found at i:348925 original size:15 final size:16
Alignment explanation
Indices: 348890--348925 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
348880 TCAAGTAATT
*
348890 AACTCAAAATGATTCA
1 AACTTAAAATGATTCA
348906 AACTTAAAATGATT-A
1 AACTTAAAATGATTCA
348921 AACTT
1 AACTT
348926 GATAAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.31
Consensus pattern (16 bp):
AACTTAAAATGATTCA
Found at i:350618 original size:13 final size:13
Alignment explanation
Indices: 350600--350626 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
350590 ATAAACAGTA
350600 AATGTATCGATAC
1 AATGTATCGATAC
350613 AATGTATCGATAC
1 AATGTATCGATAC
350626 A
1 A
350627 TGCCTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:353211 original size:79 final size:78
Alignment explanation
Indices: 353128--353455 Score: 363
Period size: 79 Copynumber: 4.2 Consensus size: 78
353118 TCTTTAATGT
* * * *
353128 TTTTATTTCTAAAATACCGATTTTCCACCATCGGGGATTCTTCAACCTCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACC-CGTTATTTTTGAGGGGA
* *
353193 TACTCCAACCCCGA
65 TACTCTAACCCCAA
* * * * * * *
353207 TTTTATTTCTAAAACATCGATTTCCCACCATCAGAGATACTCCAACCCTGTTA-TTTTAAAGGGC
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCC-GTTATTTTTGAGGGGA
* * *
353271 TATTCTAA-TCCAG
65 TACTCTAACCCCAA
* *
353284 TTTTATTTTTAAAACACCGATTTTCCACCATCGGGGATAATCCAATCCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAA-CCCGTTATTTTTGAGGGGA
353349 TACTCTAACCCCAA
65 TACTCTAACCCCAA
* ** * * * *
353363 TTTTATTTCTAAGACACTAATTTTTCATCATTGGGGATACTCTAACCCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAA-CCCGTTATTTTTGAGGGGA
*
353428 TACTCTAACCCTAA
65 TACTCTAACCCCAA
*
353442 TTTTGTTTCTAAAA
1 TTTTATTTCTAAAA
353456 TATTAATTTT
Statistics
Matches: 204, Mismatches: 41, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
77 45 0.22
78 33 0.16
79 126 0.62
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (78 bp):
TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCGTTATTTTTGAGGGGAT
ACTCTAACCCCAA
Found at i:353416 original size:156 final size:156
Alignment explanation
Indices: 353128--353419 Score: 390
Period size: 156 Copynumber: 1.9 Consensus size: 156
353118 TCTTTAATGT
* ** *
353128 TTTTATTTCTAAAATACCGATTTTCCACCATCGGGGATTCTTCAACCTCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATAATCCAACCTCATTATTTTTGAGGGGA
* * *
353193 TACTCCAACCCCGATTTTATTTCTAAAACATCGATTTCCCACCATCAGAGATACTCCAACCCTGT
66 TACTCCAACCCCAATTTTATTTCTAAAACATCAATTTCCCACCATCAGAGATACTCCAACCCCGT
353258 TATTTTAAAGGGCTATTCTAATCCAG
131 TATTTTAAAGGGCTATTCTAATCCAG
* *
353284 TTTTATTTTTAAAACACCGATTTTCCACCATCGGGGATAATCCAATCC-CGTTATTTTTGAGGGG
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATAATCCAA-CCTCATTATTTTTGAGGGG
* * ** * ** * *
353348 ATACTCTAACCCCAATTTTATTTCTAAGACA-CTAATTTTTCATCATTGGGGATACTCTAACCCC
65 ATACTCCAACCCCAATTTTATTTCTAAAACATC-AATTTCCCACCATCAGAGATACTCCAACCCC
353412 GTTATTTT
129 GTTATTTT
353420 TGAGGGGATA
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
155 1 0.01
156 113 0.97
157 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (156 bp):
TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATAATCCAACCTCATTATTTTTGAGGGGA
TACTCCAACCCCAATTTTATTTCTAAAACATCAATTTCCCACCATCAGAGATACTCCAACCCCGT
TATTTTAAAGGGCTATTCTAATCCAG
Found at i:353463 original size:79 final size:79
Alignment explanation
Indices: 353128--353493 Score: 335
Period size: 79 Copynumber: 4.7 Consensus size: 79
353118 TCTTTAATGT
* ** * * * *
353128 TTTTATTTCTAAAATACCGATTTTCCACCATCGGGGATTCTTC-AACCTCATTATTTTTGAGGGG
1 TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATAC-TCAAACCCCGTTATTTTTGAGGGG
* *
353192 ATACTCCAACCCCGA
65 ATACTCTAACCCCAA
* ** * * * * * *
353207 TTTTATTTCTAAAACA-TCGATTTCCCACCATCAGAGATACTCCAACCCTGTTA-TTTTAAAGGG
1 TTTTATTTCTAAAACACT-AATTTTTCACCATCGGGGATACTCAAACCCCGTTATTTTTGAGGGG
* * * *
353270 CTATTCTAA-TCCAG
65 ATACTCTAACCCCAA
* ** * * * *
353284 TTTTATTTTTAAAACACCGATTTTCCACCATCGGGGATAATCCAATCCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCAAACCCCGTTATTTTTGAGGGGA
353349 TACTCTAACCCCAA
66 TACTCTAACCCCAA
* * * *
353363 TTTTATTTCTAAGACACTAATTTTTCATCATTGGGGATACTCTAACCCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCAAACCCCGTTATTTTTGAGGGGA
*
353428 TACTCTAACCCTAA
66 TACTCTAACCCCAA
* * * * *
353442 TTTTGTTTCTAAAATATTAATTTTTTACCATCAGGGATACTCAAACCCCGTT
1 TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCAAACCCCGTT
353494 TTTATTTCCA
Statistics
Matches: 231, Mismatches: 51, Indels: 10
0.79 0.17 0.03
Matches are distributed among these distances:
77 46 0.20
78 31 0.13
79 154 0.67
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.37
Consensus pattern (79 bp):
TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCAAACCCCGTTATTTTTGAGGGGA
TACTCTAACCCCAA
Found at i:353507 original size:51 final size:50
Alignment explanation
Indices: 353424--353544 Score: 125
Period size: 51 Copynumber: 2.4 Consensus size: 50
353414 TATTTTTGAG
*** * * * *
353424 GGGATACTCTAACCCTAATTTTGTTTCTAAAATATTAATTTTTTACCATCA
1 GGGATACTC-AACCCCGTTTTTATTTCCAAAATATCAATTTTTCACCATCA
* * *
353475 GGGATACTCAAACCCCGTTTTTATTTCCAAAATATCGATTTTTCACTATCG
1 GGGATACTC-AACCCCGTTTTTATTTCCAAAATATCAATTTTTCACCATCA
353526 GGGATACTTCAACCCCGTT
1 GGGATAC-TCAACCCCGTT
353545 ATTTTTGAGG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 56 0.97
52 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (50 bp):
GGGATACTCAACCCCGTTTTTATTTCCAAAATATCAATTTTTCACCATCA
Found at i:360460 original size:112 final size:112
Alignment explanation
Indices: 360273--360647 Score: 303
Period size: 112 Copynumber: 3.4 Consensus size: 112
360263 GTGCCTATGC
* * * * * * * **
360273 AAATAAGGCATGTATCCTCTTA-ATTTTGAAAATTTTGAGCCAACAACATTAAATTTGCCTGATT
1 AAATAAGGCATGCATCCTATCAGA-TTTCAAATTTTTAAGCCAACAACATCAAATTTATCTGATT
* * * ** *
360337 TT-ATTACAAATTCATGTTTTATATGACTTGATCCATTTGTGCCTAGAA
65 TTCA-AAGAAATTCATGATTTATACAACTTGATCCATTCGTGCCTAGAA
* ** * *
360385 AAAT-GGAGCATGCATCCTATC-GATTTCAGAATTTTTAAGCCAACAATGTCAAATTTGTTTGAT
1 AAATAAG-GCATGCATCCTATCAGATTTCA-AATTTTTAAGCCAACAACATCAAATTTATCTGAT
*
360448 TTTCAAAGAAATTCATGATTTATACAACTTGATCCATTCGTGCCTAGGA
64 TTTCAAAGAAATTCATGATTTATACAACTTGATCCATTCGTGCCTAGAA
* * * * * * *
360497 AAATAAGGTATGTATCTTATCAGTTTTGAAATTTTTATGCCAACACCATCAAATTTATCTGATTT
1 AAATAAGGCATGCATCCTATCAGATTTCAAATTTTTAAGCCAACAACATCAAATTTATCTGATTT
* * * * * * * *
360562 TCAAAGAAATT-TTTATTT-TACGATTTGATCTATTCATGCTTAGGA
66 TCAAAGAAATTCATGATTTATACAACTTGATCCATTCGTGCCTAGAA
* * * * *
360607 AAATAGGGCATGCATCCTATTAGTTTTGAAATTTTTGAGCC
1 AAATAAGGCATGCATCCTATCAGATTTCAAATTTTTAAGCC
360648 GACCAAAGTT
Statistics
Matches: 212, Mismatches: 45, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
110 56 0.26
111 10 0.05
112 139 0.66
113 7 0.03
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (112 bp):
AAATAAGGCATGCATCCTATCAGATTTCAAATTTTTAAGCCAACAACATCAAATTTATCTGATTT
TCAAAGAAATTCATGATTTATACAACTTGATCCATTCGTGCCTAGAA
Found at i:361718 original size:51 final size:51
Alignment explanation
Indices: 361636--361734 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
361626 TAAGTCACTT
* *
361636 TTTAGGCTTTTGGTTTTGTCCAAACCCTTTAGTTGAATCTTGGCTTCATTA
1 TTTAAGCTTTTAGTTTTGTCCAAACCCTTTAGTTGAATCTTGGCTTCATTA
* * *
361687 TTTAAGCTTTTAGTTTTGTCCAAACCTTTTAGTTGAGTCTTGGTTTCA
1 TTTAAGCTTTTAGTTTTGTCCAAACCCTTTAGTTGAATCTTGGCTTCA
361735 CCTAAGTCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.18, C:0.16, G:0.17, T:0.48
Consensus pattern (51 bp):
TTTAAGCTTTTAGTTTTGTCCAAACCCTTTAGTTGAATCTTGGCTTCATTA
Found at i:362899 original size:41 final size:41
Alignment explanation
Indices: 362854--362939 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
362844 GACTTGTCAA
362854 TTTTGTCCT-AGTTAACCATTCACTT-TTAGTTGACTTATAAG
1 TTTTG-CCTCAGTTAACCATTCA-TTCTTAGTTGACTTATAAG
* * * *
362895 TTTTGCCTCAGTTAACCCTTTATTCTTTGTTGACTTATCAG
1 TTTTGCCTCAGTTAACCATTCATTCTTAGTTGACTTATAAG
362936 TTTT
1 TTTT
362940 ATCTTTGTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 5 0.13
41 34 0.87
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.50
Consensus pattern (41 bp):
TTTTGCCTCAGTTAACCATTCATTCTTAGTTGACTTATAAG
Found at i:363075 original size:30 final size:32
Alignment explanation
Indices: 363003--363076 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 32
362993 CTTTTAAAAC
363003 TTGTTGACTTATCGATTTCATCCTAGTCAACTT
1 TTGTTGACTTA-CGATTTCATCCTAGTCAACTT
* * *
363036 TCT-TTGACTTA-GGTTTTATCCTA-TCACCTT
1 T-TGTTGACTTACGATTTCATCCTAGTCAACTT
363066 TTGTTGACTTA
1 TTGTTGACTTA
363077 TTGGTTTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
29 1 0.03
30 15 0.42
31 10 0.28
33 9 0.25
34 1 0.03
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.49
Consensus pattern (32 bp):
TTGTTGACTTACGATTTCATCCTAGTCAACTT
Found at i:369098 original size:146 final size:148
Alignment explanation
Indices: 368940--369204 Score: 358
Period size: 147 Copynumber: 1.8 Consensus size: 148
368930 TTTCTTTTAA
* * *
368940 AAAAATCATTTCGTTCCTTGATAAAAACCCTCTAAA-ATAC-AAAA-AATTTGAAATCTTTTAAT
1 AAAAATCATTTCGTACCTTAATAAAAACCC-CAAAAGATACGAAAAGAATTTGAAATCTTTT-AT
* * * * *
369002 ACCCCTACGGATATCCATAGGAATATAAAAGA-TTGAAAATAATTAATATTTATTTTAGTGAGGA
64 ACCCCTACAGAAACCCATAAGAATATAAAAGACTTGAAAATAATTAATAATTATTTTAGTGAGGA
369066 GGGTTAATTTAATTATCACT
129 GGGTTAATTTAATTATCACT
* * * **
369086 AAAAATCATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATAC
1 AAAAATCATTTCGTACCTTAATAAAAACCCCAAAAGATACGAAAAGAATTTGAAATCTTTTATAC
*
369151 CCCTACAGAAACCCATAAGAATATAAAAGACTTGAAAATAATTGATAATTATTT
66 CCCTACAGAAACCCATAAGAATATAAAAGACTTGAAAATAATTAATAATTATTT
369205 GTGTTTTGAA
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
145 3 0.03
146 30 0.30
147 34 0.34
148 34 0.34
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (148 bp):
AAAAATCATTTCGTACCTTAATAAAAACCCCAAAAGATACGAAAAGAATTTGAAATCTTTTATAC
CCCTACAGAAACCCATAAGAATATAAAAGACTTGAAAATAATTAATAATTATTTTAGTGAGGAGG
GTTAATTTAATTATCACT
Found at i:371222 original size:169 final size:167
Alignment explanation
Indices: 370859--371271 Score: 426
Period size: 170 Copynumber: 2.4 Consensus size: 167
370849 ATGGAAGTTC
* ** * * *
370859 AATGAAAATATTAGATGAATTTTAAAAATTTTAAATCTAGAAAAATTCCTCCGAAAAAATTTATG
1 AATGAAAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTCCTCCGAAAAAATTTACG
* * * * *
370924 GAGTAAAAAACTCAGTTTTTCGAAAAAAAAGAGATTTCAAGAAAAAAAATCAAAATTCATGGAAA
66 GAGTAAAAAACACAGTATTTCGAAAAAAAAGAAATTTCAAGAAAAAAAATCAAAACTCATGAAAA
* * *
370989 TGAAAGAATTTTTTTAAAACTAAATTAATATGACATA
131 CGAAAGAATTTTTTGAAAACTAAATTAATATGACAAA
** *
371026 AAT-AGTGATGTTTGATGAATTTTAAAAATTAAAAACCAAGAAAAA-TCAC-CCTTGAAAAAATT
1 AATGA-AAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTC-CTCC--GAAAAAATT
* * *
371088 TACGGAGTAGAAAACACTGTATTTCGAAAAAAAGAGAAATTTCAAGGAAAAAAATTCGAAAACTC
62 TACGGAGTAAAAAACACAGTATTTCGAAAAAAA-AGAAATTTCAA-GAAAAAAAATC-AAAACTC
* * *
371153 ATGAAAACGAATGAA-TTTTTGAAAACTGAATTAATATTA-AAA
124 ATGAAAACGAAAGAATTTTTTGAAAACTAAATTAATATGACAAA
* ** * *
371195 AATGAAAATATTTGATGAATTTTAAAAATCAAACAATTAAGGAAAA-TCCTCCCCAAAAAAATTT
1 AATGAAAATATTTGATGAATTTTAAAAATTAAA-AACCAAGAAAAATTCCT--CCGAAAAAATTT
371259 ACGGA-TAAGAAAA
63 ACGGAGTAA-AAAA
371272 TCCCATAATT
Statistics
Matches: 201, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
166 5 0.02
167 36 0.18
168 37 0.18
169 42 0.21
170 61 0.30
171 18 0.09
172 2 0.01
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (167 bp):
AATGAAAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATTCCTCCGAAAAAATTTACG
GAGTAAAAAACACAGTATTTCGAAAAAAAAGAAATTTCAAGAAAAAAAATCAAAACTCATGAAAA
CGAAAGAATTTTTTGAAAACTAAATTAATATGACAAA
Found at i:376703 original size:19 final size:20
Alignment explanation
Indices: 376679--376732 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
376669 ACATTATGCT
376679 TTGTATCGATACATGCTT-A
1 TTGTATCGATACATGCTTAA
* *
376698 TTGTATCAATACATACTTAA
1 TTGTATCGATACATGCTTAA
376718 TTGTATCGATACATG
1 TTGTATCGATACATG
376733 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATGCTTAA
Found at i:376795 original size:13 final size:13
Alignment explanation
Indices: 376777--376806 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
376767 GATACATGGG
376777 ACATTGCATCGAT
1 ACATTGCATCGAT
*
376790 ACATTGTATCGAT
1 ACATTGCATCGAT
376803 ACAT
1 ACAT
376807 GGTAAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (13 bp):
ACATTGCATCGAT
Found at i:376821 original size:33 final size:33
Alignment explanation
Indices: 376761--376829 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
376751 CTAAGTGAAA
* **
376761 TGTATCGATACATGGGACATTGCATCGATACAT
1 TGTATCGATACATGGGAAAAAGCATCGATACAT
* *
376794 TGTATCGATACATGGTAAAAAGTATCGATACAT
1 TGTATCGATACATGGGAAAAAGCATCGATACAT
376827 TGT
1 TGT
376830 GTCCAACAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGGGAAAAAGCATCGATACAT
Found at i:381926 original size:157 final size:155
Alignment explanation
Indices: 381726--382422 Score: 450
Period size: 155 Copynumber: 4.4 Consensus size: 155
381716 TAGTATAAAA
* * * * *
381726 ATCATCTTTATTTATCATTTT-ATGTCCTTTAGGGTTATTGGGATATTTTCATGTCGAAGGTATA
1 ATCAT-TTTTTTTATCATTTTCATGTCCTTTAAGGTTACTAGGATATTTTCACGTCGAAGGTATA
* * *
381790 CCTAGAGGTATCTTAGTAATTTTTTTCTAGAACTGAGTCCTAGGTAGTTATTGGGTTGCTTTTAT
65 CCTAGAGGCAT-TTAGTAATTTTTTT-TAGAACTGAGTCCTAAGTAGTCATTGGGTTGCTTTTAT
*
381855 GTCGAAGGTGTGCATTTAGGATAGGTTC
128 GCCGAAGGTGTGCATTTAGGATAGGTTC
* * * * * *
381883 ATCATTTTTTTTATCATTTTCATGTCTTTTAAGGTTACTGGGATACTTTT-ATGTCAAAAGTATG
1 ATCATTTTTTTTATCATTTTCATGTCCTTTAAGGTTACTAGGATA-TTTTCACGTCGAAGGTATA
* * * * * **
381947 CTTAGAGGCATTTATTAATTTTTCTTAGAACTGAGTCTTAAGTAGTCATCGGGTCACTTTTATGC
65 CCTAGAGGCATTTAGTAATTTTTTTTAGAACTGAGTCCTAAGTAGTCATTGGGTTGCTTTTATGC
* *
382012 CGAAGGTATGAATTTAGGATA-GTTC
130 CGAAGGTGTGCATTTAGGATAGGTTC
* * * *
382037 ATTATTTTCTTATATTTCTCGTATCTTTC-TCGTATCTTTTAAGGTTACTAGGATACTTTCACGT
1 ATCA--TT-TT-T-TTTATC--AT-TTTCAT-G--TCCTTTAAGGTTACTAGGATATTTTCACGT
* * * * ** * * * *
382101 TGAGGGTTTACCCTATAAACATTTTGGTAA-TTTCTTTAGAATCT-AGTCCTAAGTAGTCACTAG
55 CGAAGGTATA-CCTAGAGGCA-TTTAGTAATTTTTTTTAGAA-CTGAGTCCTAAGTAGTCATTGG
* * * *
382164 ATTGCTTTTATGCCAAATGTGTGCTTTTAGGATAGGTTC
117 GTTGCTTTTATGCCGAAGGTGTGCATTTAGGATAGGTTC
* * * * * *
382203 ATCA-TTTTCTTATCGTTTTCATATCCTTTAGGGTTATTAGGATATTTTCACGTCGAAGGTAAAC
1 ATCATTTTTTTTATCATTTTCATGTCCTTTAAGGTTACTAGGATATTTTCACGTCGAAGGTATA-
* ** ** * * * *** ** *
382267 CCTA-AGGGCGTTTTCTTAA-TTTTACTAGAACTGGGTCTTAGGTAGTCACCAGGTCACTTCTAT
65 CCTAGA-GGC-ATTTAGTAATTTTTTTTAGAACTGAGTCCTAAGTAGTCATTGGGTTGCTTTTAT
* * **
382330 ACCGAAGGTGTACATTTAGGATAAATT-
128 GCCGAAGGTGTGCATTTAGGATAGGTTC
* * * *
382357 -T-GTCTTTCTTATCATTTTCGTGTCCTTTTAAGGTTACT-GGACTACTTTT-ACGTCGAAGGTA
1 ATCATTTTTTTTATCATTTTCATGTCC-TTTAAGGTTACTAGGA-TA-TTTTCACGTCGAAGGTA
382418 TACCT
63 TACCT
382423 CAATGGCATT
Statistics
Matches: 419, Mismatches: 95, Indels: 56
0.74 0.17 0.10
Matches are distributed among these distances:
153 25 0.06
154 35 0.08
155 150 0.36
156 28 0.07
157 52 0.12
158 7 0.02
159 5 0.01
160 4 0.01
161 4 0.01
162 7 0.02
163 4 0.01
164 27 0.06
165 56 0.13
166 15 0.04
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (155 bp):
ATCATTTTTTTTATCATTTTCATGTCCTTTAAGGTTACTAGGATATTTTCACGTCGAAGGTATAC
CTAGAGGCATTTAGTAATTTTTTTTAGAACTGAGTCCTAAGTAGTCATTGGGTTGCTTTTATGCC
GAAGGTGTGCATTTAGGATAGGTTC
Found at i:382067 original size:11 final size:11
Alignment explanation
Indices: 382051--382075 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
382041 TTTTCTTATA
382051 TTTCTCGTATC
1 TTTCTCGTATC
382062 TTTCTCGTATC
1 TTTCTCGTATC
382073 TTT
1 TTT
382076 TAAGGTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.24, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTCTCGTATC
Found at i:382517 original size:154 final size:154
Alignment explanation
Indices: 382172--382590 Score: 390
Period size: 154 Copynumber: 2.7 Consensus size: 154
382162 AGATTGCTTT
* * * *
382172 TATGCCAAATGTGTGCT-TTTAGGATAGGTTCATCATTTTCTTATCGTTTTCATATCC-TTTAGG
1 TATGCCAAATGTGT-ATATTTAGGATAGGTTCATC--TTTCTTATCATTTTCGTATCCTTTTAAG
* * * * *
382235 GTTATTAGGATA-TTTTCACGTCGAAGGTAAACC-CTAAGGGCGTTTTCTTAATTTTACTAGAAC
63 GTTACT-GGATACTTTT-ACGTCGAAGGTATACCTCTAAGGGCATTTTCATAATTTTACTAAAAC
** *
382298 TGGGTCTTAGGTAGTCACCAGGTCACTTC
126 AAGATCTTAGGTAGTCACCAGGTCACTTC
* * * * ** ** *
382327 TATACCGAAGGTGTACATTTAGGATAAATTTGTCTTTCTTATCATTTTCGTGTCCTTTTAAGGTT
1 TATGCCAAATGTGTATATTTAGGATAGGTTCATCTTTCTTATCATTTTCGTATCCTTTTAAGGTT
* *
382392 ACTGGACTACTTTTACGTCGAAGGTATACCTC-AATGGCATTTTCATAATTTTCCTAAAACAAGA
66 ACTGGA-TACTTTTACGTCGAAGGTATACCTCTAAGGGCATTTTCATAATTTTACTAAAACAAGA
* *
382456 TTTTAGGTAGTCATC-GAGTCACTTC
130 TCTTAGGTAGTCACCAG-GTCACTTC
*
382481 TATGCCAAATGTGTATATTTAGGATAGGTTCATCTTTTTTATTTCATTTTCGTAT-CTTTT-AGG
1 TATGCCAAATGTGTATATTTAGGATAGGTTCATCTTTCTTA--TCATTTTCGTATCCTTTTAAGG
* * * *
382544 CTTAGTGAGATACTTTCACGTTGAAGGTGTACCT-T-AGGTGCATTTTC
64 -TTACTG-GATACTTTTACGTCGAAGGTATACCTCTAAGG-GCATTTTC
382591 GTATTTTTCT
Statistics
Matches: 212, Mismatches: 40, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
153 22 0.10
154 109 0.51
155 68 0.32
156 13 0.06
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.41
Consensus pattern (154 bp):
TATGCCAAATGTGTATATTTAGGATAGGTTCATCTTTCTTATCATTTTCGTATCCTTTTAAGGTT
ACTGGATACTTTTACGTCGAAGGTATACCTCTAAGGGCATTTTCATAATTTTACTAAAACAAGAT
CTTAGGTAGTCACCAGGTCACTTC
Found at i:385015 original size:18 final size:19
Alignment explanation
Indices: 384994--385030 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
384984 CAGCACAATT
384994 CCAATAAATGG-CACATAC
1 CCAATAAATGGCCACATAC
*
385012 CCAATAAGTGGCCACATAC
1 CCAATAAATGGCCACATAC
385031 TATAACTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.41, C:0.30, G:0.14, T:0.16
Consensus pattern (19 bp):
CCAATAAATGGCCACATAC
Found at i:385158 original size:40 final size:40
Alignment explanation
Indices: 385095--385365 Score: 260
Period size: 40 Copynumber: 6.7 Consensus size: 40
385085 AATTGCAAAT
*
385095 GGCTTGAAAATTCAAAAATCATCATCTCGCCAATGCTAAA
1 GGCTTGAGAATTCAAAAATCATCATCTCGCCAATGCTAAA
** * * *
385135 GTTTTGAGAATTCAAAAATCATCATCTCGTCGATGCCAAA
1 GGCTTGAGAATTCAAAAATCATCATCTCGCCAATGCTAAA
* ** *
385175 GGCTTGAGAATTCAAAAAGTCATCATCTTGTTGATAT-C-GAA
1 GGCTTGAGAATTCAAAAA-TCATCATCTCG-CCA-ATGCTAAA
* * *
385216 GGCTTGAAAATTTAAAAATCATCATCTCGCCAAAT-CCAAA
1 GGCTTGAGAATTCAAAAATCATCATCTCGCC-AATGCTAAA
* * * * *
385256 GGCTTAAGAATTCAAAAAAATCATCATCTCACCCACGTTAAA
1 GGCTTGAGAATTC--AAAAATCATCATCTCGCCAATGCTAAA
***
385298 GGCTTGAGAATTCAAAAATCATCATCTCGTTGATGCTAAA
1 GGCTTGAGAATTCAAAAATCATCATCTCGCCAATGCTAAA
* *
385338 GGCTTGAGAATTTAAAAATCATTATCTC
1 GGCTTGAGAATTCAAAAATCATCATCTC
385366 TTGATGCTGA
Statistics
Matches: 188, Mismatches: 35, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
39 3 0.02
40 120 0.64
41 29 0.15
42 34 0.18
43 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (40 bp):
GGCTTGAGAATTCAAAAATCATCATCTCGCCAATGCTAAA
Found at i:385395 original size:40 final size:40
Alignment explanation
Indices: 385103--385405 Score: 130
Period size: 40 Copynumber: 7.5 Consensus size: 40
385093 ATGGCTTGAA
* * *** ** *
385103 AATTCAAAAATCATCATCTCGCCAATGCTAAAGTTTTGAG
1 AATTAAAAAATCATTATCTCGTTGATGCTAAAGACTTAAG
* * * * * *
385143 AATTCAAAAATCATCATCTCGTCGATGCCAAAGGCTTGAG
1 AATTAAAAAATCATTATCTCGTTGATGCTAAAGACTTAAG
* * * * * *
385183 AATTCAAAAAGTCATCATCTTGTTGAT-ATCGAAGGCTTGAA-
1 AATT-AAAAAATCATTATCTCGTTGATGCT-AAAGACTT-AAG
* * *** * *
385224 AATTTAAAAATCATCATCTCGCCAAAT-CCAAAGGCTTAAG
1 AATTAAAAAATCATTATCTCG-TTGATGCTAAAGACTTAAG
* **** * * * *
385264 AATTCAAAAAAATCATCATCTCACCCACGTTAAAGGCTTGAG
1 AATT--AAAAAATCATTATCTCGTTGATGCTAAAGACTTAAG
* * * *
385306 AATTCAAAAATCATCATCTCGTTGATGCTAAAGGCTTGAG
1 AATTAAAAAATCATTATCTCGTTGATGCTAAAGACTTAAG
* *
385346 AATTTAAAAATCATTATCTC-TTGATGCTGAAGACTTAAG
1 AATTAAAAAATCATTATCTCGTTGATGCTAAAGACTTAAG
385385 AATTAAAAAAAT-ATTATCTCG
1 AATT-AAAAAATCATTATCTCG
385406 CCAACTTCAA
Statistics
Matches: 210, Mismatches: 43, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
39 30 0.14
40 117 0.56
41 33 0.16
42 30 0.14
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (40 bp):
AATTAAAAAATCATTATCTCGTTGATGCTAAAGACTTAAG
Found at i:385395 original size:122 final size:122
Alignment explanation
Indices: 385090--385432 Score: 301
Period size: 121 Copynumber: 2.8 Consensus size: 122
385080 TAAGGAATTG
* * ** * *
385090 CAAATGGCTTGAAAATTCAAAAATCATCATCTCGCC-AATGCTAAAGTTTTGAGAATT--CAAAA
1 CAAA-GGCTTGAAAATTTAAAAATCATCATCTC-CCAAAT-CCAAAGACTTAAGAATTAAAAAAA
** * * ** *
385152 ATCATCATCTCGTCGATGCCAAAGGCTTGAGAATTCAAAAAGTCATCATCTTGTTGATAT
63 ATCATCATCTCACCCACGTTAAAGGCTTGAGAATTCAAAAAGTCATCATCTCGTTGATAT
* * *
385212 CGAAGGCTTGAAAATTTAAAAATCATCATCTCGCCAAATCCAAAGGCTTAAGAATTCAAAAAAAT
1 CAAAGGCTTGAAAATTTAAAAATCATCATCTC-CCAAATCCAAAGACTTAAGAATTAAAAAAAAT
*
385277 CATCATCTCACCCACGTTAAAGGCTTGAGAATTCAAAAA-TCATCATCTCGTTGAT-G
65 CATCATCTCACCCACGTTAAAGGCTTGAGAATTCAAAAAGTCATCATCTCGTTGATAT
* * *** **
385333 CTAAAGGCTTGAGAATTTAAAAATCATTATCT-CTTGATGCTGAAGACTTAAGAATT-AAAAAAA
1 C-AAAGGCTTGAAAATTTAAAAATCATCATCTCCCAAAT-CCAAAGACTTAAGAATTAAAAAAAA
* * * *
385396 T-ATTATCTCGCCAAC-TTCAAAGACTTGAGAATT-AAAA
64 TCATCATCTCACCCACGTT-AAAGGCTTGAGAATTCAAAA
385433 GAATTATCAC
Statistics
Matches: 187, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
118 6 0.03
119 25 0.13
120 11 0.06
121 58 0.31
122 48 0.26
123 39 0.21
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (122 bp):
CAAAGGCTTGAAAATTTAAAAATCATCATCTCCCAAATCCAAAGACTTAAGAATTAAAAAAAATC
ATCATCTCACCCACGTTAAAGGCTTGAGAATTCAAAAAGTCATCATCTCGTTGATAT
Found at i:385576 original size:106 final size:105
Alignment explanation
Indices: 385429--385682 Score: 312
Period size: 106 Copynumber: 2.4 Consensus size: 105
385419 CTTGAGAATT
* * * * *
385429 AAAAGAATTATCACCTTGCTATTTTAAAAGGCTCGAGGACTTAATCATTCACTAAGGTTAAAAGA
1 AAAAGAATTATTACCTTGC-ATTTTCAAAGGCTCGAAGACTTAACCATTCACTAAGATTAAAAGA
* *
385494 ATTATTACCTCACCATTATCAAAGGCTCGAGGACTAAAGTC
65 ATTATGACCTCACCATTATCAAAAGCTCGAGGACTAAAGTC
* * *
385535 AAAAGAATTATTATCTTGTCATTTTCAAAGGCTTGAAGACTTGACCATTCACTAAGATTAAAAGA
1 AAAAGAATTATTACCTTG-CATTTTCAAAGGCTCGAAGACTTAACCATTCACTAAGATTAAAAGA
* ** * *
385600 ATTATGACTTTGCCATTATTAAAAGCTTGAGGACTAAAGTC
65 ATTATGACCTCACCATTATCAAAAGCTCGAGGACTAAAGTC
* *
385641 AAAAGAATTATTACCTTGCCATTATCAAAAGCTC-AAGGACTT
1 AAAAGAATTATTACCTTG-CATTTTCAAAGGCTCGAA-GACTT
385683 GAATATTTAC
Statistics
Matches: 126, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
105 2 0.02
106 123 0.98
107 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (105 bp):
AAAAGAATTATTACCTTGCATTTTCAAAGGCTCGAAGACTTAACCATTCACTAAGATTAAAAGAA
TTATGACCTCACCATTATCAAAAGCTCGAGGACTAAAGTC
Found at i:385701 original size:106 final size:105
Alignment explanation
Indices: 385429--385729 Score: 306
Period size: 106 Copynumber: 2.8 Consensus size: 105
385419 CTTGAGAATT
* * * * *
385429 AAAAGAATTATCACCTTGCTATTTTAAAAGGCTCGAGGACTT-AATCATTCACTAAGGTTAAAAG
1 AAAAGAATTATTACCTTGCCATTTCAAAA-GCTCAAGGACTTGAAT-ATTCACTAAGATTAAAAG
* *
385493 AATTATTACCTCACCATTATCAAAGGCTCGAGGACTAAAGTC
64 AATTATGACCTCACCATTATCAAAAGCTCGAGGACTAAAGTC
* * * * **
385535 AAAAGAATTATTATCTTGTCATTTTCAAAGGCTTGAA-GACTTGACCATTCACTAAGATTAAAAG
1 AAAAGAATTATTACCTTGCCA-TTTCAAAAGC-TCAAGGACTTGAATATTCACTAAGATTAAAAG
* ** * *
385599 AATTATGACTTTGCCATTATTAAAAGCTTGAGGACTAAAGTC
64 AATTATGACCTCACCATTATCAAAAGCTCGAGGACTAAAGTC
*
385641 AAAAGAATTATTACCTTGCCATTATCAAAAGCTCAAGGACTTGAATATTTAC-AAGCATTAAAA-
1 AAAAGAATTATTACCTTGCCATT-TCAAAAGCTCAAGGACTTGAATATTCACTAAG-ATTAAAAG
* * *
385704 AAGTCATCACCTCACAATTAT-AAAAG
64 AA-TTATGACCTCACCATTATCAAAAG
385730 GATCAAAGAC
Statistics
Matches: 157, Mismatches: 31, Indels: 15
0.77 0.15 0.07
Matches are distributed among these distances:
105 15 0.10
106 133 0.85
107 9 0.06
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.30
Consensus pattern (105 bp):
AAAAGAATTATTACCTTGCCATTTCAAAAGCTCAAGGACTTGAATATTCACTAAGATTAAAAGAA
TTATGACCTCACCATTATCAAAAGCTCGAGGACTAAAGTC
Found at i:391832 original size:113 final size:113
Alignment explanation
Indices: 391625--391887 Score: 332
Period size: 113 Copynumber: 2.3 Consensus size: 113
391615 AGATAATGTC
* ** * *
391625 ATAAATTATTTAATTTAAAGCCAAGTCTTATAGAACTATATATTACATAAAATAAGTTCCACATG
1 ATAAATTATTTAATTTAAGGCCAAGTCTTATA-AAAAATATATTACATAAAATAAGGTCCACATA
* * * * *
391690 CTTATTTAATTTATTTGTTTAGACGTATTTTATTTAGTTATATTGGGTA
65 CTTATTTAATTAATTTATTAAGACGTATTTTATTTAATTATATTAGGTA
* * *
391739 ATAAATTACTTAATTTAAGGTCAAGTCTTATAAAAAATATATTAGATAAAAT-AGGTCACACATA
1 ATAAATTATTTAATTTAAGGCCAAGTCTTATAAAAAATATATTACATAAAATAAGGTC-CACATA
* *
391803 CTTATTTAATTAATTTATCTAAGGC-TATTTTATTTAATTATATTAGGTC
65 CTTATTTAATTAATTTAT-TAAGACGTATTTTATTTAATTATATTAGGTA
* *
391852 ATAAATTATTTAATCTAAGGCCAATTCTTATAAAAA
1 ATAAATTATTTAATTTAAGGCCAAGTCTTATAAAAA
391888 TATCTCACAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
112 4 0.03
113 91 0.71
114 33 0.26
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (113 bp):
ATAAATTATTTAATTTAAGGCCAAGTCTTATAAAAAATATATTACATAAAATAAGGTCCACATAC
TTATTTAATTAATTTATTAAGACGTATTTTATTTAATTATATTAGGTA
Found at i:391904 original size:96 final size:96
Alignment explanation
Indices: 391797--391971 Score: 280
Period size: 96 Copynumber: 1.8 Consensus size: 96
391787 AAATAGGTCA
*
391797 CACATACTTATTTAATTAATTTATCTAAGGCTATTTTATTTAATTATATTAGG-TCATAAATTAT
1 CACATACTTATTTAATTAATTTATCTAAGCCTATTTTATTTAATTATATT-GGATCATAAATTAT
*
391861 TTAATCTAAGGCCAATTCTTATAAAAATATCT
65 TTAATCTAAGACCAATTCTTATAAAAATATCT
* * *
391893 CACATGCTTATTTAATTAATTTGTTTAAGCCTATTTTATTTAATTATATTGGATCATAAATTATT
1 CACATACTTATTTAATTAATTTATCTAAGCCTATTTTATTTAATTATATTGGATCATAAATTATT
*
391958 TAATTTAAGACCAA
66 TAATCTAAGACCAA
391972 GCCTTTTAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
95 2 0.03
96 70 0.97
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (96 bp):
CACATACTTATTTAATTAATTTATCTAAGCCTATTTTATTTAATTATATTGGATCATAAATTATT
TAATCTAAGACCAATTCTTATAAAAATATCT
Found at i:398589 original size:21 final size:21
Alignment explanation
Indices: 398565--398614 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
398555 GTACTATTGA
* *
398565 TGGATGCTACTGCTGTGCTTG
1 TGGAAGCTACTGCTATGCTTG
* **
398586 TGGAAGCTGCTGCTATGCTCA
1 TGGAAGCTACTGCTATGCTTG
398607 TGGAAGCT
1 TGGAAGCT
398615 GCCATTGTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (21 bp):
TGGAAGCTACTGCTATGCTTG
Found at i:399045 original size:107 final size:107
Alignment explanation
Indices: 398858--399071 Score: 324
Period size: 107 Copynumber: 2.0 Consensus size: 107
398848 TGCACGTTGC
* * * * *
398858 TTTGCCCTCCACTTCTTCCCGTTGCCATGCTTTACATGCTGTCCACTTTCTTTCACGTTGGCTTC
1 TTTGCCCTCCACTTCTTCCCGTTGCCATGCTTCACATGCTATCCACTTTCCTTCACATTCGCTTC
398923 CTTTCTTTTTCTTCTTTTTTATGTTCCACCTCTTCACATTGT
66 CTTTCTTTTTCTTCTTTTTTATGTTCCACCTCTTCACATTGT
**
398965 TTTGCCCTTTACTTCTTCCCGTT-CCTATGCTTCACATGCTATCCACTTTCCTTCACATTCGCTT
1 TTTGCCCTCCACTTCTTCCCGTTGCC-ATGCTTCACATGCTATCCACTTTCCTTCACATTCGCTT
*
399029 CCTTTCTTCTTT-TTCTTTTTTATGTTCCAGCTCTTCACATTGT
65 CCTTTCTT-TTTCTTCTTTTTTATGTTCCACCTCTTCACATTGT
399072 GTTGGACACG
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
106 2 0.02
107 92 0.95
108 3 0.03
ACGTcount: A:0.10, C:0.32, G:0.09, T:0.49
Consensus pattern (107 bp):
TTTGCCCTCCACTTCTTCCCGTTGCCATGCTTCACATGCTATCCACTTTCCTTCACATTCGCTTC
CTTTCTTTTTCTTCTTTTTTATGTTCCACCTCTTCACATTGT
Found at i:399444 original size:17 final size:16
Alignment explanation
Indices: 399394--399446 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
399384 TTTTTATATC
*
399394 TTTGATTTCTTTAATT
1 TTTGATTTCTTTATTT
*
399410 TTTGATTTTTTTATTTT
1 TTTGATTTCTTTA-TTT
*
399427 TTTGATTATCTATATTT
1 TTTGATT-TCTTTATTT
399444 TTT
1 TTT
399447 TGTTATTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 12 0.39
17 15 0.48
18 4 0.13
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTGATTTCTTTATTT
Found at i:399460 original size:17 final size:17
Alignment explanation
Indices: 399408--399462 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
399398 ATTTCTTTAA
*
399408 TTTTTGATTTTTTTATT
1 TTTTTGATTATTTTATT
*
399425 TTTTTGATTATCTATATT
1 TTTTTGATTAT-TTTATT
399443 TTTTTG-TTATTTTGATT
1 TTTTTGATTATTTT-ATT
399460 TTT
1 TTT
399463 GATTTTTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 2 0.06
17 20 0.61
18 11 0.33
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (17 bp):
TTTTTGATTATTTTATT
Found at i:399477 original size:17 final size:16
Alignment explanation
Indices: 399384--399479 Score: 68
Period size: 16 Copynumber: 5.8 Consensus size: 16
399374 GATGGTTTTA
*
399384 TTTTTATATCTTTGATT
1 TTTTTA-ATTTTTGATT
*
399401 TCTTTAATTTTTGATT
1 TTTTTAATTTTTGATT
*
399417 TTTTTATTTTTTTGATT
1 TTTTTA-ATTTTTGATT
* * *
399434 ATCTATATTTTTTTG-TT
1 -TTTTTA-ATTTTTGATT
* *
399451 ATTTTGATTTTTGATT
1 TTTTTAATTTTTGATT
399467 TTTTTGAATTTTT
1 TTTTT-AATTTTT
399480 TAATTGATTT
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
15 6 0.10
16 22 0.35
17 22 0.35
18 12 0.19
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTTTAATTTTTGATT
Found at i:400404 original size:20 final size:20
Alignment explanation
Indices: 400379--400425 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
400369 TTCATGAGAC
400379 ACAAACCGAGAGGTAGAGTG
1 ACAAACCGAGAGGTAGAGTG
**
400399 ACAAACCTCGAGGTAGAGTG
1 ACAAACCGAGAGGTAGAGTG
400419 ACAAACC
1 ACAAACC
400426 TCATCAATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.21, G:0.28, T:0.11
Consensus pattern (20 bp):
ACAAACCGAGAGGTAGAGTG
Found at i:400426 original size:20 final size:20
Alignment explanation
Indices: 400388--400427 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
400378 CACAAACCGA
400388 GAGGTAGAGTGACAAACCTC
1 GAGGTAGAGTGACAAACCTC
400408 GAGGTAGAGTGACAAACCTC
1 GAGGTAGAGTGACAAACCTC
400428 ATCAATGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.30, T:0.15
Consensus pattern (20 bp):
GAGGTAGAGTGACAAACCTC
Found at i:403242 original size:25 final size:27
Alignment explanation
Indices: 403179--403242 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
403169 AAAGAAAATC
403179 CAAAGGCAAAAGCACAAATTAAATAAAG
1 CAAAGGCAAAAGCACAAA-TAAATAAAG
* *
403207 TAAAGG-AAAAACACAAA-AAATAAAG
1 CAAAGGCAAAAGCACAAATAAATAAAG
*
403232 CAAAAGCAAAA
1 CAAAGGCAAAA
403243 TCAAGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 12 0.39
26 4 0.13
27 10 0.32
28 5 0.16
ACGTcount: A:0.67, C:0.12, G:0.12, T:0.08
Consensus pattern (27 bp):
CAAAGGCAAAAGCACAAATAAATAAAG
Found at i:404620 original size:32 final size:32
Alignment explanation
Indices: 404584--404651 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
404574 TGAGCATCAA
* *
404584 CACTCACGTGCAGTCTTATTCATTTGCATTTG
1 CACTCACGTGCAGTCTTATTCATATCCATTTG
* * *
404616 CACTCATGTGTATTCTTATTCATATCCATTTG
1 CACTCACGTGCAGTCTTATTCATATCCATTTG
404648 CACT
1 CACT
404652 TAAGAGCATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.43
Consensus pattern (32 bp):
CACTCACGTGCAGTCTTATTCATATCCATTTG
Found at i:404755 original size:16 final size:16
Alignment explanation
Indices: 404730--404780 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
404720 GTATTCTTAT
* *
404730 TCATGAGCATTTGCAC
1 TCATGTGCATTCGCAC
*
404746 TCATGTGCATTCCCAC
1 TCATGTGCATTCGCAC
*
404762 TCATGTCCATTCGCAC
1 TCATGTGCATTCGCAC
404778 TCA
1 TCA
404781 CGAACATCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.31
Consensus pattern (16 bp):
TCATGTGCATTCGCAC
Found at i:405405 original size:36 final size:36
Alignment explanation
Indices: 405365--405849 Score: 162
Period size: 36 Copynumber: 13.8 Consensus size: 36
405355 TCCTTTAACG
*
405365 ATATTTTATCAAAAACTTCCAAAGCCT-TGTTTGAGA
1 ATATTTTATCAAAAACTTCCAAAGCCTCT-TTTAAGA
* *
405401 ATATTTCATCAAAAACTTCCAAAGTCTCTTTTAAGA
1 ATATTTTATCAAAAACTTCCAAAGCCTCTTTTAAGA
* * ** * *
405437 ATGTTTTATTAAAAACTTTTAAA-CCTTCTTTTGAGG
1 ATATTTTATCAAAAACTTCCAAAGCC-TCTTTTAAGA
* * * * *
405473 ATATTTCAGT--AAAACCTCTAAAGCCCCTTTTAAGG
1 ATATTTTA-TCAAAAACTTCCAAAGCCTCTTTTAAGA
* * * * *
405508 ATGTTTCATCAAAAACTTCTAAAGCCTTTTTTAAGG
1 ATATTTTATCAAAAACTTCCAAAGCCTCTTTTAAGA
* * * ** * * *
405544 ATATTTCATTAGAAACTTTAAAAACCTCTCTTAAGG
1 ATATTTTATCAAAAACTTCCAAAGCCTCTTTTAAGA
* * *
405580 ATATTTCAGT--AAAACCTCCAAAACCTCTTTTGAAG-
1 ATATTTTA-TCAAAAACTTCCAAAGCCTCTTTT-AAGA
* * * * * * *
405615 ACATTTCATTAAAAACGTT-TAAAGCTTCTTTTGAGG
1 ATATTTTATCAAAAAC-TTCCAAAGCCTCTTTTAAGA
* * * *
405651 ATATTTCA-CTAAAAACTTCTAAAGCCTCTTTTGAGG
1 ATATTTTATC-AAAAACTTCCAAAGCCTCTTTTAAGA
** * * * * * *
405687 ATGCTTGA-CTAGAAACTTTCAAAGTCTCTATTAAGG
1 ATATTTTATC-AAAAACTTCCAAAGCCTCTTTTAAGA
* * * *
405723 ATA--TT-TCAAAAACCTT-CAAACCCTCTCTAAAGG
1 ATATTTTATCAAAAA-CTTCCAAAGCCTCTTTTAAGA
* * * ** * * *
405756 ATGTTTCATTAAAAACTTTGAAAGCCTCTCTTGAGG
1 ATATTTTATCAAAAACTTCCAAAGCCTCTTTTAAGA
* *
405792 ATA--TT-TCAAAAACTTCCAAAGCCTCTCTTAAGG
1 ATATTTTATCAAAAACTTCCAAAGCCTCTTTTAAGA
* * *
405825 ATA-CTTATCAAACA-TTTCAAAGCCT
1 ATATTTTATCAAAAACTTCCAAAGCCT
405850 TTCTTGAGGA
Statistics
Matches: 353, Mismatches: 74, Indels: 46
0.75 0.16 0.10
Matches are distributed among these distances:
33 46 0.13
34 20 0.06
35 63 0.18
36 220 0.62
37 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
ATATTTTATCAAAAACTTCCAAAGCCTCTTTTAAGA
Found at i:405515 original size:107 final size:106
Alignment explanation
Indices: 405376--405849 Score: 433
Period size: 107 Copynumber: 4.5 Consensus size: 106
405366 TATTTTATCA
* * * * * *
405376 AAAACTTCCAAAGCCT-TGTTTGAGAATATTTCATCAAAAACTTCCAAAGTCTCTTTTAAGAATG
1 AAAACCTCCAAAGCCTCT-TTTAAGGATATTTCATCAAAAACTT-CAAAGCCTCTTTTAAGGATA
* *
405440 TTTTATTAAAAACTTTTAAA-CCTTCTTTTGAGGATATTTCAGT
64 TTTCATTAAAAACTTTTAAAGCC-TCTCTTGAGGATATTTCAGT
* * * *
405483 AAAACCTCTAAAGCCCCTTTTAAGGATGTTTCATCAAAAACTTCTAAAGCCTTTTTTAAGGATAT
1 AAAACCTCCAAAGCCTCTTTTAAGGATATTTCATCAAAAACTTC-AAAGCCTCTTTTAAGGATAT
* * * *
405548 TTCATTAGAAACTTTAAAAACCTCTCTTAAGGATATTTCAGT
65 TTCATTAAAAACTTTTAAAGCCTCTCTTGAGGATATTTCAGT
* * * * * *
405590 AAAACCTCCAAAACCTCTTTTGAA-GACATTTCATTAAAAACGTTTAAAGCTTCTTTTGAGGATA
1 AAAACCTCCAAAGCCTCTTTT-AAGGATATTTCATCAAAAAC-TTCAAAGCCTCTTTTAAGGATA
* * * ** * *
405654 TTTCACTAAAAACTTCTAAAGCCTCTTTTGAGGATGCTTGACT
64 TTTCATTAAAAACTTTTAAAGCCTCTCTTGAGGATATTTCAGT
* * * * * * * * *
405697 AGAAACTTTCAAAGTCTCTATTAAGGATATTTCA--AAAACCTTCAAACCCTCTCTAAAGGATGT
1 A-AAACCTCCAAAGCCTCTTTTAAGGATATTTCATCAAAAACTTCAAAGCCTCTTTTAAGGATAT
*
405760 TTCATTAAAAACTTTGAAAGCCTCTCTTGAGGATATTTCA--
65 TTCATTAAAAACTTTTAAAGCCTCTCTTGAGGATATTTCAGT
* * * * *
405800 AAAACTTCCAAAGCCTCTCTTAAGGATACTT-ATCAAACATTTCAAAGCCT
1 AAAACCTCCAAAGCCTCTTTTAAGGATATTTCATCAAAAACTTCAAAGCCT
405850 TTCTTGAGGA
Statistics
Matches: 293, Mismatches: 65, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
101 1 0.00
102 26 0.09
103 13 0.04
105 49 0.17
106 6 0.02
107 168 0.57
108 30 0.10
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (106 bp):
AAAACCTCCAAAGCCTCTTTTAAGGATATTTCATCAAAAACTTCAAAGCCTCTTTTAAGGATATT
TCATTAAAAACTTTTAAAGCCTCTCTTGAGGATATTTCAGT
Found at i:405578 original size:143 final size:143
Alignment explanation
Indices: 405358--405688 Score: 351
Period size: 143 Copynumber: 2.3 Consensus size: 143
405348 TAGAGCTTCC
* * * * * *
405358 TTTAACGATATTTTATCAAAAACTTCCAAAGCCTTGTTTGAGAATATTTCATCAAAAACTTCCAA
1 TTTAAGGATATTTCATCAAAAACTTCTAAAGCCTTTTTTGAGGATATTTCATCAAAAACTTCAAA
** * * * * *** * *
405423 AGTCTCTTTTAAGAATGTTTTATTAAAAACTTTTAAACCTTCTTTTGAGGATATTTCAGT-AAAA
66 AACCTCTCTTAAGAATATTTCAGTAAAAACTCCAAAACC-TCTTTTGAAGACATTTCAGTAAAAA
405487 CCTCTAAAGCCCCT
130 CCTCTAAAGCCCCT
* * * * *
405501 TTTAAGGATGTTTCATCAAAAACTTCTAAAGCCTTTTTTAAGGATATTTCATTAGAAACTTTAAA
1 TTTAAGGATATTTCATCAAAAACTTCTAAAGCCTTTTTTGAGGATATTTCATCAAAAACTTCAAA
* * *
405566 AACCTCTCTTAAGGATATTTCAGTAAAACCTCCAAAACCTCTTTTGAAGACATTTCATTAAAAAC
66 AACCTCTCTTAAGAATATTTCAGTAAAAACTCCAAAACCTCTTTTGAAGACATTTCAGTAAAAAC
* * **
405631 GTTTAAAGCTTCT
131 CTCTAAAGCCCCT
* *
405644 TTTGAGGATATTTCA-CTAAAAACTTCTAAAGCCTCTTTTGAGGAT
1 TTTAAGGATATTTCATC-AAAAACTTCTAAAGCCTTTTTTGAGGAT
405689 GCTTGACTAG
Statistics
Matches: 153, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
142 18 0.12
143 135 0.88
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (143 bp):
TTTAAGGATATTTCATCAAAAACTTCTAAAGCCTTTTTTGAGGATATTTCATCAAAAACTTCAAA
AACCTCTCTTAAGAATATTTCAGTAAAAACTCCAAAACCTCTTTTGAAGACATTTCAGTAAAAAC
CTCTAAAGCCCCT
Found at i:405700 original size:143 final size:140
Alignment explanation
Indices: 405457--405830 Score: 407
Period size: 143 Copynumber: 2.7 Consensus size: 140
405447 AAAAACTTTT
* * * * * * *
405457 AAACCTTCTTTTGAGGATATTTCAGTAAAACCTCTAAAGCCCCTTTTAAGGATGTTTCA-TCAAA
1 AAACC-TCTTTTGAAGATATTTCATTAAAAACTTTAAAGCCTCTTTTGAGGATATTTCACT-AAA
* * * *
405521 AACTTCTAAAGCCTTTTTTAAGGATATTTCATTAGAAACTTTAAAAACCTCTCTTAAGGATATTT
64 AACTTCTAAAGCCTCTTTTAAGGATACTTCACTAGAAACTTTAAAAACCTCTATTAAGGATATTT
405586 CAGTAAAACCTCCA
129 CA--AAAACCTCCA
* *
405600 AAACCTCTTTTGAAGACATTTCATTAAAAACGTTTAAAGCTTCTTTTGAGGATATTTCACTAAAA
1 AAACCTCTTTTGAAGATATTTCATTAAAAAC-TTTAAAGCCTCTTTTGAGGATATTTCACTAAAA
* * * * **
405665 ACTTCTAAAGCCTCTTTTGAGGATGCTTGACTAGAAACTTTCAAAGTCTCTATTAAGGATATTTC
65 ACTTCTAAAGCCTCTTTTAAGGATACTTCACTAGAAACTTTAAAAACCTCTATTAAGGATATTTC
*
405730 AAAAACCTTCA
130 AAAAACCTCCA
* * * * *
405741 AACCCTC-TCTAAAGGATGTTTCATTAAAAACTTTGAAAGCCTCTCTTGAGGATATTT--C-AAA
1 AAACCTCTTTTGAA-GATATTTCATTAAAAACTTT-AAAGCCTCTTTTGAGGATATTTCACTAAA
* *
405802 AACTTCCAAAGCCTCTCTTAAGGATACTT
64 AACTTCTAAAGCCTCTTTTAAGGATACTT
405831 ATCAAACATT
Statistics
Matches: 196, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
138 28 0.14
139 1 0.01
140 7 0.04
141 50 0.26
142 22 0.11
143 87 0.44
144 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (140 bp):
AAACCTCTTTTGAAGATATTTCATTAAAAACTTTAAAGCCTCTTTTGAGGATATTTCACTAAAAA
CTTCTAAAGCCTCTTTTAAGGATACTTCACTAGAAACTTTAAAAACCTCTATTAAGGATATTTCA
AAAACCTCCA
Found at i:405741 original size:33 final size:33
Alignment explanation
Indices: 405470--405859 Score: 176
Period size: 36 Copynumber: 11.1 Consensus size: 33
405460 CCTTCTTTTG
* *
405470 AGGATATTTCAGTAAAACC-TCTAAAGCCCCTTTTA
1 AGGATATTTCA--AAAACCTTC-AAAGCCTCTCTTA
* * * *
405505 AGGATGTTTCATCAAAAACTTCTAAAGCCTTTTTTA
1 AGGATATTTCA--AAAACCTTC-AAAGCCTCTCTTA
* * *
405541 AGGATATTTCATTAGAAACTTTAAAAACCTCTCTTA
1 AGGATATTTCA--A-AAACCTTCAAAGCCTCTCTTA
* * *
405577 AGGATATTTCAGTAAAACCTCCAAAACCTCTTTTGA
1 AGGATATTTCA--AAAACCTTCAAAGCCTCTCTT-A
* * * * * *
405613 A-GACATTTCATTAAAAACGTTTAAAGCTTCTTTTG
1 AGGATATTTC---AAAAACCTTCAAAGCCTCTCTTA
* * *
405648 AGGATATTTCACTAAAAACTTCTAAAGCCTCTTTTG
1 AGGATATTTCA--AAAACCTTC-AAAGCCTCTCTTA
* * * * * *
405684 AGGATGCTTGACTAGAAACTTTCAAAGTCTCTATTA
1 AGGAT-ATT-TC-AAAAACCTTCAAAGCCTCTCTTA
* *
405720 AGGATATTTCAAAAACCTTCAAACCCTCTCTAA
1 AGGATATTTCAAAAACCTTCAAAGCCTCTCTTA
* * * *
405753 AGGATGTTTCATTAAAAACTTTGAAAGCCTCTCTTG
1 AGGATATTTC---AAAAACCTTCAAAGCCTCTCTTA
405789 AGGATATTTCAAAAA-CTTCCAAAGCCTCTCTTA
1 AGGATATTTCAAAAACCTT-CAAAGCCTCTCTTA
* * * *
405822 AGGATACTTATCAAACA-TTTCAAAGCCTTTCTTG
1 AGGATA-TT-TCAAAAACCTTCAAAGCCTCTCTTA
405856 AGGA
1 AGGA
405860 CATTCTATCA
Statistics
Matches: 275, Mismatches: 61, Indels: 39
0.73 0.16 0.10
Matches are distributed among these distances:
32 2 0.01
33 50 0.18
34 19 0.07
35 55 0.20
36 133 0.48
37 13 0.05
38 2 0.01
39 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
AGGATATTTCAAAAACCTTCAAAGCCTCTCTTA
Found at i:405772 original size:69 final size:69
Alignment explanation
Indices: 405320--405827 Score: 310
Period size: 72 Copynumber: 7.2 Consensus size: 69
405310 TAGAAAACCA
* * * * * * *
405320 CTCTTAAGGATATTTCATTTAAAACTCCTAGAGCTTC-CTTTAACGATATTTTATCAAAAACTTC
1 CTCTTAAGGATATTTCATTAAAAACT-TTAAAGCCTCTC-TTAAGGATATTTCAT-AAAACCTT-
405384 CAAAGCCT
62 CAAAGCCT
* * * * * * * * * * *
405392 -TGTTTGAGAATATTTCATCAAAAACTTCCAAAGTCTCTTTTAAGAATGTTTTATTAAAAACTTT
1 CT-CTTAAGGATATTTCATTAAAAACTT-TAAAGCCTCTCTTAAGGATATTTCA-T-AAAACCTT
*
405456 TAAA-CCTT
62 CAAAGCC-T
* * * * * * * * *
405464 CTTTTGAGGATATTTCAGTAAAACCTCTAAAGCCCCTTTTAAGGATGTTTCATCAAAAACTTCTA
1 CTCTTAAGGATATTTCATTAAAAACTTTAAAGCCTCTCTTAAGGATATTTCAT-AAAACCTTC-A
405529 AAGCCT
64 AAGCCT
* * * * *
405535 TTTTTAAGGATATTTCATTAGAAACTTTAAAAACCTCTCTTAAGGATATTTCAGTAAAACCTCCA
1 CTCTTAAGGATATTTCATTAAAAACTTT-AAAGCCTCTCTTAAGGATATTTCA-TAAAACCTTCA
*
405600 AAACCT
64 AAGCCT
* * * * * *
405606 CTTTTGAA-GACATTTCATTAAAAACGTTTAAAGCTTCTTTTGAGGATATTTCACTAAAAACTTC
1 CTCTT-AAGGATATTTCATTAAAAAC-TTTAAAGCCTCTCTTAAGGATATTTCA-TAAAACCTTC
405670 TAAAGCCT
63 -AAAGCCT
* * ** * * * * *
405678 CTTTTGAGGATGCTTGACTAGAAACTTTCAAAGTCTCTATTAAGGATATTTCA-AAAACCTTCAA
1 CTCTTAAGGATATTTCATTAAAAACTTT-AAAGCCTCTCTTAAGGATATTTCATAAAACCTTCAA
*
405742 ACCCT
65 AGCCT
* * *
405747 CTCTAAAGGATGTTTCATTAAAAACTTTGAAAGCCTCTCTTGAGGATATTTCA-AAAA-CTTCCA
1 CTCTTAAGGATATTTCATTAAAAACTTT-AAAGCCTCTCTTAAGGATATTTCATAAAACCTT-CA
405810 AAGCCT
64 AAGCCT
405816 CTCTTAAGGATA
1 CTCTTAAGGATA
405828 CTTATCAAAC
Statistics
Matches: 337, Mismatches: 83, Indels: 35
0.74 0.18 0.08
Matches are distributed among these distances:
68 3 0.01
69 69 0.20
70 15 0.04
71 106 0.31
72 135 0.40
73 9 0.03
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (69 bp):
CTCTTAAGGATATTTCATTAAAAACTTTAAAGCCTCTCTTAAGGATATTTCATAAAACCTTCAAA
GCCT
Found at i:405869 original size:35 final size:34
Alignment explanation
Indices: 405768--405873 Score: 92
Period size: 34 Copynumber: 3.1 Consensus size: 34
405758 GTTTCATTAA
* * *
405768 AAAC-TTTGAAAGCCTCTCTTGAGGATA-TT-TC
1 AAACATTTCAAAGCCTCTCTTAAGGACACTTATC
* * *
405799 AAAAACTTCCAAAGCCTCTCTTAAGGATACTTATC
1 AAACA-TTTCAAAGCCTCTCTTAAGGACACTTATC
* * *
405834 AAACATTTCAAAGCCTTTCTTGAGGACATTCTATC
1 AAACATTTCAAAGCCTCTCTTAAGGACACT-TATC
405869 AAACA
1 AAACA
405874 CTTTAGAACC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
31 3 0.05
33 20 0.33
34 22 0.37
35 15 0.25
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (34 bp):
AAACATTTCAAAGCCTCTCTTAAGGACACTTATC
Found at i:406871 original size:96 final size:96
Alignment explanation
Indices: 406691--406872 Score: 249
Period size: 96 Copynumber: 1.9 Consensus size: 96
406681 ATAGTTTCAT
*
406691 GTGCTTATTTAATTGATTTATCTAAACCTATGTTATGTAATTATATTAGGTCATAAATTATTTAA
1 GTGCTTATTTAATTAATTTATCTAAACCTATGTTATGTAATTATATTAGGTCATAAATTATTTAA
* *
406756 TTTAAGGGCAAATCCTATAAATAGGTCTCAC
66 TTTAAGAGCAAAGCCTATAAATAGGTCTCAC
* *** * * *
406787 GTGCTTATTTAATTAATTTATTTGGCCCTATTTTATTTAATTATATTGGGTCATAAATTATTTAA
1 GTGCTTATTTAATTAATTTATCTAAACCTATGTTATGTAATTATATTAGGTCATAAATTATTTAA
*
406852 TTTAA-AGCCAAGCCTTATAAA
66 TTTAAGAGCAAAGCC-TATAAA
406873 AAATATACAT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 6 0.08
96 68 0.92
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.44
Consensus pattern (96 bp):
GTGCTTATTTAATTAATTTATCTAAACCTATGTTATGTAATTATATTAGGTCATAAATTATTTAA
TTTAAGAGCAAAGCCTATAAATAGGTCTCAC
Found at i:411698 original size:137 final size:137
Alignment explanation
Indices: 411545--411819 Score: 487
Period size: 137 Copynumber: 2.0 Consensus size: 137
411535 ACATAACTAT
*
411545 ACAACACAAACACAATATGAGAAGAATAGTTAAAACATAATAAGATATAAAAAATAAACATAATA
1 ACAACACAAACACAATATGAGAAGAATAATTAAAACATAATAAGATATAAAAAATAAACATAATA
* *
411610 TGAATATATAAATGTATTAAAATCTACTAAAATAAATTATTAACATGTTAAAATTTATATATATA
66 TGAATATATAAATATATTAAAATCTACTAAAATAAATTATTAACATGTTAAAATTTATATAAATA
411675 TATAATA
131 TATAATA
* *
411682 ACAACACAAACACAATATGAGAAGAATAATTAAAACATAATAGGATATAAAAAATAAGCATAATA
1 ACAACACAAACACAATATGAGAAGAATAATTAAAACATAATAAGATATAAAAAATAAACATAATA
* *
411747 TGAATATATAAATATATTAAAATTTACTAAAATAAATTATTAACATGTTAAAATTTTTATAAATA
66 TGAATATATAAATATATTAAAATCTACTAAAATAAATTATTAACATGTTAAAATTTATATAAATA
411812 TATAATA
131 TATAATA
411819 A
1 A
411820 TTTAAATATA
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 131 1.00
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (137 bp):
ACAACACAAACACAATATGAGAAGAATAATTAAAACATAATAAGATATAAAAAATAAACATAATA
TGAATATATAAATATATTAAAATCTACTAAAATAAATTATTAACATGTTAAAATTTATATAAATA
TATAATA
Found at i:413300 original size:2 final size:2
Alignment explanation
Indices: 413287--413317 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
413277 AACTCACAAT
*
413287 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
413318 GTATGTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:415831 original size:2 final size:2
Alignment explanation
Indices: 415824--415848 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
415814 CCAAAAAGTA
415824 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
415849 ATCAAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:417056 original size:21 final size:18
Alignment explanation
Indices: 416980--417068 Score: 60
Period size: 18 Copynumber: 4.9 Consensus size: 18
416970 GTCTCAAAAT
* *
416980 ATATATAAAT-TATTAAT
1 ATATATAAATATAATAAA
*
416997 ATA-ATAAAATTTATATAAA
1 ATATAT-AAATATA-ATAAA
* *
417016 ATATA-AAATAT-TTTAA
1 ATATATAAATATAATAAA
417032 ATATGATTATAATATAATAAA
1 ATAT-A-TA-AATATAATAAA
417053 ATATATAAATATAATA
1 ATATATAAATATAATA
417069 TGAATATACA
Statistics
Matches: 56, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
16 9 0.16
17 8 0.14
18 16 0.29
19 9 0.16
20 7 0.12
21 7 0.12
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATATAAATATAATAAA
Found at i:417074 original size:29 final size:30
Alignment explanation
Indices: 417009--417076 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
416999 AATAAAATTT
* *
417009 ATATAAAAT-ATAAAATATTTTAAATATGA
1 ATATAATATAATAAAATATTATAAATATGA
*
417038 TTATAATATAATAAAATA-TATAAATAT-A
1 ATATAATATAATAAAATATTATAAATATGA
417066 ATATGAATATA
1 ATAT-AATATA
417077 CAAATTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.12
29 21 0.64
30 8 0.24
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (30 bp):
ATATAATATAATAAAATATTATAAATATGA
Found at i:417946 original size:15 final size:15
Alignment explanation
Indices: 417922--417976 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
417912 TTGCATTTAT
* *
417922 TATAAGTAAACAAAA
1 TATAATTAAATAAAA
417937 TATAATTAAATAAAA
1 TATAATTAAATAAAA
* * *
417952 TGTAAATATATAAAA
1 TATAATTAAATAAAA
*
417967 AATAATTAAA
1 TATAATTAAA
417977 ATTGTACATC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (15 bp):
TATAATTAAATAAAA
Found at i:427890 original size:28 final size:29
Alignment explanation
Indices: 427836--427890 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
427826 ATATTATGAA
* *
427836 ATATGAATTTTTTTTAATTATATATTATG
1 ATATGAATTTTTCTTAATTATAAATTATG
*
427865 ATATGAA-TTTTCTTAATTGTAAATTA
1 ATATGAATTTTTCTTAATTATAAATTA
427891 ATTAATTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (29 bp):
ATATGAATTTTTCTTAATTATAAATTATG
Found at i:428009 original size:14 final size:14
Alignment explanation
Indices: 427992--428033 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
427982 TATTTTAATG
*
427992 TTATTATTTTTTAC
1 TTATTATTTTTTAA
428006 TTATTA-TTTTTAA
1 TTATTATTTTTTAA
428019 TTATTATATTTTTAA
1 TTATTAT-TTTTTAA
428034 AAATTATGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 12 0.48
14 6 0.24
15 7 0.28
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTATTTTTTAA
Found at i:428017 original size:13 final size:13
Alignment explanation
Indices: 427969--428030 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
427959 GTTATATTCG
427969 TATTATTTTTAAT
1 TATTATTTTTAAT
** *
427982 TATT-TTAAT-GT
1 TATTATTTTTAAT
*
427993 TATTATTTTTTACT
1 TATTA-TTTTTAAT
428007 TATTATTTTTAAT
1 TATTATTTTTAAT
428020 TATTATATTTT
1 TATTAT-TTTT
428031 TAAAAATTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
11 5 0.13
12 3 0.08
13 20 0.53
14 10 0.26
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (13 bp):
TATTATTTTTAAT
Found at i:428065 original size:17 final size:17
Alignment explanation
Indices: 427969--428091 Score: 58
Period size: 17 Copynumber: 6.8 Consensus size: 17
427959 GTTATATTCG
427969 TATT-ATTTTTAATTAT
1 TATTAATTTTTAATTAT
* *
427985 T-TTAATGTTATTATTTTT
1 TATTAAT-TT-TTAATTAT
428003 TACTTATTATTTTTAATTAT
1 TA-TTA--ATTTTTAATTAT
428023 TA-T-ATTTTTAAAAATTATGCT
1 TATTAATTTTT---AATTA---T
*
428044 TATTAATTTTTAATTTT
1 TATTAATTTTTAATTAT
*
428061 TATTAA-ATTTATATTAT
1 TATTAATTTTTA-ATTAT
*
428078 TATTAATTTATAAT
1 TATTAATTTTTAAT
428092 GCTATTATTC
Statistics
Matches: 81, Mismatches: 9, Indels: 33
0.66 0.07 0.27
Matches are distributed among these distances:
15 8 0.10
16 7 0.09
17 21 0.26
18 16 0.20
20 15 0.19
21 5 0.06
22 3 0.04
23 6 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TATTAATTTTTAATTAT
Found at i:433811 original size:14 final size:14
Alignment explanation
Indices: 433792--433836 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
433782 TTCGATCTTT
433792 TTTTATTGTTTTAA
1 TTTTATTGTTTTAA
433806 TTTTATTGTTTT-A
1 TTTTATTGTTTTAA
*
433819 --TTATTATTTTAA
1 TTTTATTGTTTTAA
433831 TTTTAT
1 TTTTAT
433837 ATCAAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 9 0.33
12 1 0.04
13 1 0.04
14 16 0.59
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (14 bp):
TTTTATTGTTTTAA
Found at i:433823 original size:25 final size:25
Alignment explanation
Indices: 433789--433836 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
433779 TAATTCGATC
* *
433789 TTTTTTTATTGTTTTAATTTTATTG
1 TTTTATTATTATTTTAATTTTATTG
433814 TTTTATTATTATTTTAATTTTAT
1 TTTTATTATTATTTTAATTTTAT
433837 ATCAAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTATTATTATTTTAATTTTATTG
Found at i:434411 original size:44 final size:43
Alignment explanation
Indices: 434348--434592 Score: 185
Period size: 44 Copynumber: 5.7 Consensus size: 43
434338 TAACCCTAAT
*
434348 GGTAAG-AAGCTTACCGGGGACAAAGCCGACAAGTAAACAAAG
1 GGTAAGAAAGCTGACCGGGGACAAAGCCGACAAGTAAACAAAG
* * * * *
434390 GGTAAGAAAGGCTGACCGGGGACAAAGCTGATAGGT-CACCAAG
1 GGTAAGAAA-GCTGACCGGGGACAAAGCCGACAAGTAAACAAAG
* * * * * * *
434433 AGTAA-AAAGTTTACCAGGGACATAGCTGACAAGTAAATAAAG
1 GGTAAGAAAGCTGACCGGGGACAAAGCCGACAAGTAAACAAAG
* * * * * * *
434475 GGAAAGAAAGGCTGACTGGGGACAAAGTCGGCAGGT-CACCAAG
1 GGTAAGAAA-GCTGACCGGGGACAAAGCCGACAAGTAAACAAAG
* * * ** *
434518 AGTAA-AAAGTTTACTTGGGACATAGCCGACAAGTAAACAAAG
1 GGTAAGAAAGCTGACCGGGGACAAAGCCGACAAGTAAACAAAG
*
434560 GGTAAGAAAGGCTGACCGAGGACAAAGCCGACA
1 GGTAAGAAA-GCTGACCGGGGACAAAGCCGACA
434593 GGTCACCAAG
Statistics
Matches: 147, Mismatches: 48, Indels: 14
0.70 0.23 0.07
Matches are distributed among these distances:
41 39 0.27
42 28 0.19
43 24 0.16
44 56 0.38
ACGTcount: A:0.41, C:0.17, G:0.29, T:0.13
Consensus pattern (43 bp):
GGTAAGAAAGCTGACCGGGGACAAAGCCGACAAGTAAACAAAG
Found at i:434501 original size:85 final size:85
Alignment explanation
Indices: 434349--434607 Score: 376
Period size: 85 Copynumber: 3.0 Consensus size: 85
434339 AACCCTAATG
* * * *
434349 GTAAGAAGCTTACCGGGGACAAAGCCGACAAGTAAACAAAGGGTAAGAAAGGCTGACCGGGGACA
1 GTAAAAAGTTTACCAGGGACATAGCCGACAAGTAAACAAAGGGTAAGAAAGGCTGACCGGGGACA
*
434414 AAGCTGATAGGTCACCAAGA
66 AAGCTGACAGGTCACCAAGA
* * * *
434434 GTAAAAAGTTTACCAGGGACATAGCTGACAAGTAAATAAAGGGAAAGAAAGGCTGACTGGGGACA
1 GTAAAAAGTTTACCAGGGACATAGCCGACAAGTAAACAAAGGGTAAGAAAGGCTGACCGGGGACA
*
434499 AAG-TCGGCAGGTCACCAAGA
66 AAGCT-GACAGGTCACCAAGA
** *
434519 GTAAAAAGTTTACTTGGGACATAGCCGACAAGTAAACAAAGGGTAAGAAAGGCTGACCGAGGACA
1 GTAAAAAGTTTACCAGGGACATAGCCGACAAGTAAACAAAGGGTAAGAAAGGCTGACCGGGGACA
*
434584 AAGCCGACAGGTCACCAAGA
66 AAGCTGACAGGTCACCAAGA
434604 GTAA
1 GTAA
434608 TGAAGCCTCC
Statistics
Matches: 153, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
84 1 0.01
85 152 0.99
ACGTcount: A:0.41, C:0.17, G:0.29, T:0.13
Consensus pattern (85 bp):
GTAAAAAGTTTACCAGGGACATAGCCGACAAGTAAACAAAGGGTAAGAAAGGCTGACCGGGGACA
AAGCTGACAGGTCACCAAGA
Found at i:434756 original size:80 final size:81
Alignment explanation
Indices: 434653--435141 Score: 246
Period size: 80 Copynumber: 6.0 Consensus size: 81
434643 AGGGTAGGAG
* * * * *
434653 AGTCTCTAAGGTCAAAG-CTGACAGGTAGACTTTAGATAAGGTAGTCTCCAAAGTCAAAGAT-GA
1 AGTCTCCAGGGTCAAAGTC-GACAGGAAGACTTTAGATAAGGCAGTCTCCAAAGTCAAAG-TCAA
* * *
434716 TAGGTAGA-TTGAGGGGT
64 CAGGCAGACTTAAGGGGT
* * *
434733 AGTCTCCAGGGTCAAAGTCGACAGGAAGACTTTAGATGAGGCAGTCTCTAAGGTCAAAGTCAACA
1 AGTCTCCAGGGTCAAAGTCGACAGGAAGACTTTAGATAAGGCAGTCTCCAAAGTCAAAGTCAACA
434798 GGCAGACTTAAGGGGT
66 GGCAGACTTAAGGGGT
* * * ** * ** *
434814 AGTCTCCAGGGTCAAAATCGACAAGCAGAC--T-GA-GGGGTAGTCTCCAGGGTCAAAGTCGACA
1 AGTCTCCAGGGTCAAAGTCGACAGGAAGACTTTAGATAAGGCAGTCTCCAAAGTCAAAGTCAACA
* **
434875 GGCAGACTGAAGATAGGAA
66 GGCAGACTTAAG---GGGT
* * * * * * * ** *
434894 AGTCTCCAAGGTCAAAGCCGACA-GACAGA-TTAAGGGT-AGGAAAGTTTCTAGGGTCAAAGCCA
1 AGTCTCCAGGGTCAAAGTCGACAGGA-AGACTTTA-GATAAGG-CAGTCTCCAAAGTCAAAGTCA
* * *
434956 ACAGGCAAACTTTAGATGAGGC
63 ACAGGCAGAC-TTA-A-GGGGT
* * * ** * ** *
434978 AGTCTCTAGGGTCAAAGTCGACAAGCAGACTGAAGGAT-AGGAAAGTCTCCAGGGTCAAAGTCGA
1 AGTCTCCAGGGTCAAAGTCGACAGGAAGACTTTA-GATAAGG-CAGTCTCCAAAGTCAAAGTCAA
* * *
435042 TAGGCAGACTTTAGATGAGGC
64 CAGGCAGAC-TTA-A-GGGGT
* * ** *
435063 AGTCTCCAAGGTCAAAGTCGACAGGCAA-ACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCAAC
1 AGTCTCCAGGGTCAAAGTCGACAGG-AAGACTTTAGATAAGGCAGTCTCCAAAGTCAAAGTCAAC
* *
435127 AGGCAAACTGAAGGG
65 AGGCAGACTTAAGGG
435142 TAGGAAAGTC
Statistics
Matches: 325, Mismatches: 64, Indels: 39
0.76 0.15 0.09
Matches are distributed among these distances:
77 34 0.10
78 2 0.01
79 3 0.01
80 82 0.25
81 38 0.12
82 1 0.00
83 5 0.02
84 78 0.24
85 79 0.24
86 2 0.01
87 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (81 bp):
AGTCTCCAGGGTCAAAGTCGACAGGAAGACTTTAGATAAGGCAGTCTCCAAAGTCAAAGTCAACA
GGCAGACTTAAGGGGT
Found at i:435047 original size:85 final size:85
Alignment explanation
Indices: 434733--435517 Score: 641
Period size: 85 Copynumber: 9.4 Consensus size: 85
434723 ATTGAGGGGT
* * ** * * * * *
434733 AGTCTCCAGGGTCAAAGTCGACAGGAAGACTTTA-GATGAGG-CAGTCTCTAAGGTCAAAGTCAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAT-AGGAAAGTCTCCAGGGTCAAAGCCGA
* *
434796 CAGGCAGAC-TTA-A-GGGGT
65 CAGGCAGACTTTAGATGAGGC
** * * *
434814 AGTCTCCAGGGTCAAAATCGACAAGCAGACTG-AGG---GG-TAGTCTCCAGGGTCAAAGTCGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAGGGTCAAAGCCGAC
** *
434874 AGGCAGACTGAAGAT-AGGAA
66 AGGCAGACTTTAGATGAGG-C
* * * * * * *
434894 AGTCTCCAAGGTCAAAGCCGACAGACAGA-TTAAGGGTAGGAAAGTTTCTAGGGTCAAAGCCAAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAGGGTCAAAGCCGAC
*
434958 AGGCAAACTTTAGATGAGGC
66 AGGCAGACTTTAGATGAGGC
* * * * *
434978 AGTCTCTAGGGTCAAAGTCGACAAGCAGACTGAAGGATAGGAAAGTCTCCAGGGTCAAAGTCGAT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAGGGTCAAAGCCGAC
435043 AGGCAGACTTTAGATGAGGC
66 AGGCAGACTTTAGATGAGGC
* * * ** * *
435063 AGTCTCCAAGGTCAAAGTCGACAGGCAAACTTTA-GATGAGG-CAGTCTCCAGGGTCAAAGCCAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAT-AGGAAAGTCTCCAGGGTCAAAGCCGA
* ** * *
435126 CAGGCAAACTGAAG-GGTAGGAA
65 CAGGCAGACTTTAGATG-AGG-C
* * * * * *
435148 AGTCTCTA-GGTCAAAACCAATAGGCAGACTGAAGGATAGGAAAGTTTTCAGGGTCAAAGCCGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAGGGTCAAAGCCGAC
435212 AGGCAGACTTTAGATGAGGC
66 AGGCAGACTTTAGATGAGGC
* * * * * * *
435232 AGTCTCCAGGGTCAAAGCCAACAGACAGACCGAATGG-CAGGAAAGTCTCAAAGGTTAAAGCCGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAA-GGATAGGAAAGTCTCCAGGGTCAAAGCCGA
* *
435296 CAGGCAGACTTTAGATAAGGT
65 CAGGCAGACTTTAGATGAGGC
** * * * * * ** * *
435317 AGTCTCCAAAGTTAAAGCCAACAGGTAGATTGAAGGGTAAAAAAGTCCCCAAGGTCAAAGCCGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAGGGTCAAAGCCGAC
* * *
435382 AGGTAGATTTTAGATGAGGT
66 AGGCAGACTTTAGATGAGGC
* * * * * * *
435402 AGTCTCTAGGGTCAAAGCCGACGGGTAGATTGAAGGATAAGAAAGTCTCTAGGGTTAAAGCCGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAGGGTCAAAGCCGAC
* *
435467 AAGCAAACTTTAGATGAGGC
66 AGGCAGACTTTAGATGAGGC
* *
435487 AGTCTCCAGAGTCAAAGTCGACAGGCAGACT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACT
435518 TTCATATGGT
Statistics
Matches: 559, Mismatches: 124, Indels: 38
0.78 0.17 0.05
Matches are distributed among these distances:
77 29 0.05
78 1 0.00
79 4 0.01
80 28 0.05
81 29 0.05
83 3 0.01
84 119 0.21
85 343 0.61
86 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.18
Consensus pattern (85 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAGGGTCAAAGCCGAC
AGGCAGACTTTAGATGAGGC
Found at i:435129 original size:42 final size:42
Alignment explanation
Indices: 434733--435519 Score: 503
Period size: 42 Copynumber: 18.8 Consensus size: 42
434723 ATTGAGGGGT
* * *
434733 AGTCTCCAGGGTCAAAGTCGACAGGAAGACTTTAGATGAGGC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGA
* * * * * *
434775 AGTCTCTAAGGTCAAAGTCAACAGGCAGAC-TTA-A-GGGGT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGA
** * * *
434814 AGTCTCCAGGGTCAAAATCGACAAGCAGAC--T-GA-GGGGT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGA
* **
434852 AGTCTCCAGGGTCAAAGTCGACAGGCAGACTGAAGAT-AGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGG-A
* * * *
434894 AGTCTCCAAGGTCAAAGCCGACAGACAGA-TTAAG-GGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATG-AGG-A
* * * * *
434936 AGTTTCTAGGGTCAAAGCCAACAGGCAAACTTTAGATGAGGC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGA
* * * **
434978 AGTCTCTAGGGTCAAAGTCGACAAGCAGACTGAAGGAT-AGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTA-GATGAGG-A
* * *
435021 AGTCTCCAGGGTCAAAGTCGATAGGCAGACTTTAGATGAGGC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGA
* * * *
435063 AGTCTCCAAGGTCAAAGTCGACAGGCAAACTTTAGATGAGGC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGA
* * ** *
435105 AGTCTCCAGGGTCAAAGCCAACAGGCAAACTGAAG-GGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATG-AGG-A
* * * * **
435148 AGTCTCTA-GGTCAAAACCAATAGGCAGACTGAAGGAT-AGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTA-GATGAGG-A
* * *
435190 AGTTTTCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGA
* * **
435232 AGTCTCCAGGGTCAAAGCCAACAGACAGAC-CGA-ATGGCAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGAT-G-AGG-A
* * * * *
435275 AGTCTCAAAGGTTAAAGCCGACAGGCAGACTTTAGATAAGGT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGA
** * * * * * * **
435317 AGTCTCCAAAGTTAAAGCCAACAGGTAGA-TTGAAGGGTAAAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTT-TA-GATGAGGA
* * * * *
435360 AGTCCCCAAGGTCAAAGCCGACAGGTAGATTTTAGATGAGGT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGA
* * * * * *
435402 AGTCTCTAGGGTCAAAGCCGACGGGTAGA-TTGAAGGATAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTT-TA-GATGAGGA
* * * * *
435445 AGTCTCTAGGGTTAAAGCCGACAAGCAAACTTTAGATGAGGC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGA
* *
435487 AGTCTCCAGAGTCAAAGTCGACAGGCAGACTTT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTT
435520 CATATGGTTT
Statistics
Matches: 589, Mismatches: 126, Indels: 60
0.76 0.16 0.08
Matches are distributed among these distances:
38 35 0.06
39 28 0.05
40 3 0.01
41 18 0.03
42 336 0.57
43 161 0.27
44 6 0.01
45 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (42 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGA
Found at i:435334 original size:127 final size:125
Alignment explanation
Indices: 434614--435341 Score: 595
Period size: 127 Copynumber: 5.8 Consensus size: 125
434604 GTAATGAAGC
* * * * * * *
434614 CTCCAAGGTCAAAGCTGACAGACAGACTGAGGGTAGGAGAGTCTCTAAGGTCAAAGCTGACAGGT
1 CTCCAGGGTCAAAGCCGACAGACAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGC
* ** * * * *
434679 AGACTTTAGATAAGGTAGTCTCCAAAGTCAAAGATGATAGGTAGA--TT-GA-GGGGTAGT
66 AGACTTTAGAT-AGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGT
* ** * * * * *
434736 CTCCAGGGTCAAAGTCGACAGGA-AGACTTTAGATGAGG-CAGTCTCTAAGGTCAAAGTCAACAG
1 CTCCAGGGTCAAAGCCGACA-GACAGACTGAAGGT-AGGAAAGTCTCCAAGGTCAAAGCCGACAG
** * ** * * *
434799 GCAGAC-TTA-AGGGGTAGTCTCCAGGGTCAAAATCGACAAGCAGAC--T-GA-GGGGTAGT
64 GCAGACTTTAGATAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGT
* * * *
434855 CTCCAGGGTCAAAGTCGACAGGCAGACTGAAGATAGGAAAGTCTCCAAGGTCAAAGCCGACAGAC
1 CTCCAGGGTCAAAGCCGACAGACAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGC
* * * * * * * *
434920 AGA-TTAAGGGTAGGAAAGTTTCTAGGGTCAAAGCCAACAGGCAAACTTTAGATGAGGCAGT
66 AGACTTTA-GATAGG-TAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGT
* * * * *
434981 CTCTAGGGTCAAAGTCGACA-AGCAGACTGAAGGATAGGAAAGTCTCCAGGGTCAAAGTCGATAG
1 CTCCAGGGTCAAAGCCGACAGA-CAGACTGAAGG-TAGGAAAGTCTCCAAGGTCAAAGCCGACAG
* * *
435045 GCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGTCGACAGGCAAACTTTAGATGAGGCAGT
64 GCAGACTTTAGAT-AGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGT
* * * * * * *
435108 CTCCAGGGTCAAAGCCAACAGGCAAACTGAAGGGTAGGAAAGTCT-CTAGGTCAAAACCAATAGG
1 CTCCAGGGTCAAAGCCGACAGACAGACTGAA-GGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGG
** * * * *
435172 CAGACTGAAGGATAGGAAAGTTTTCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGT
65 CAGACTTTA-GATAGG-TAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGT
* * * * *
435235 CTCCAGGGTCAAAGCCAACAGACAGACCGAATGGCAGGAAAGTCTCAAAGGTTAAAGCCGACAGG
1 CTCCAGGGTCAAAGCCGACAGACAGACTGAA-GGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGG
* * *
435300 CAGACTTTAGATAAGGTAGTCTCCAAAGTTAAAGCCAACAGG
65 CAGACTTTAGAT-AGGTAGTCTCCAAGGTCAAAGCCGACAGG
435342 TAGATTGAAG
Statistics
Matches: 486, Mismatches: 97, Indels: 41
0.78 0.16 0.07
Matches are distributed among these distances:
118 4 0.01
119 91 0.19
120 1 0.00
121 5 0.01
122 73 0.15
123 5 0.01
124 1 0.00
125 2 0.00
126 59 0.12
127 214 0.44
128 31 0.06
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (125 bp):
CTCCAGGGTCAAAGCCGACAGACAGACTGAAGGTAGGAAAGTCTCCAAGGTCAAAGCCGACAGGC
AGACTTTAGATAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGT
Found at i:443439 original size:2 final size:2
Alignment explanation
Indices: 443432--443457 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
443422 GAGATTTTCA
443432 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
443458 GCACCTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:450500 original size:38 final size:38
Alignment explanation
Indices: 450412--450567 Score: 145
Period size: 38 Copynumber: 4.1 Consensus size: 38
450402 ACCAGCCGCT
* * * *
450412 AGCCACCAGCTAATTCCAAATTGAATTCTCTAGTCACC
1 AGCCGCCAGCCAATTCCAAATTGAATTCTCTAATCATC
* *
450450 AGCCACCGGCCAATTCCAAATTGAATTCTCTAATCATC
1 AGCCGCCAGCCAATTCCAAATTGAATTCTCTAATCATC
** * * * *
450488 AGTTGCAAGCCAAATT-TAAATTGAATTCTCTAA-CTGTT
1 AGCCGCCAGCC-AATTCCAAATTGAATTCTCTAATC-ATC
* * *
450526 AGCCGCCAGCCAATTTCAAATTGAATTCTCTAACCGTC
1 AGCCGCCAGCCAATTCCAAATTGAATTCTCTAATCATC
450564 AGCC
1 AGCC
450568 AATTAATTTG
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
37 5 0.05
38 87 0.90
39 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28
Consensus pattern (38 bp):
AGCCGCCAGCCAATTCCAAATTGAATTCTCTAATCATC
Found at i:458545 original size:52 final size:52
Alignment explanation
Indices: 458475--458595 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
458465 GAAAATTTAT
*
458475 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
458527 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
458579 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
458596 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Done.