Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold60
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: 3815296
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 18690 characters in sequence are not A, C, G, or T
File 3 of 21
Found at i:321967 original size:150 final size:148
Alignment explanation
Indices: 321772--323047 Score: 1363
Period size: 150 Copynumber: 8.8 Consensus size: 148
321762 GGCGTTAATA
* * * *
321772 TGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
* * * * *
321837 GCAACATTGGACTTAAAGATGATAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACT
66 GCGACATTGGTCTTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACT
*
321902 TAAAGATGAAGGTGCCAATA
129 TAAAGATGAAGGTGCCAATG
* * *
321922 TGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTA
1 TGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
* *
321987 GCGACATTGGTCTTAAAGATGAAGAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATCGGTCT
66 GCGACATTGGTCTTAAAGATG-A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACT
322052 TAAAGATGAAGGTGCCAATG
129 TAAAGATGAAGGTGCCAATG
* * * *
322072 TGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATG---AAGATGCCAATGTGCTGATTCAAGG
* * * * * * * *
322137 CCAGCGATATTGGACTTAAATATG-AAGGTGCGAATGTGCTGATTCAAGGCCAGCGACATTGGTC
63 CCAGCGACATTGGTCTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGAC
* * * *
322201 TTAGGAATGTTAAAGATGCCAATA
128 TTA--AA-GATGAAGGTGCCAATG
* * * * * *
322225 TGCTGATGCAAGGCTAACGATATTGGACTTAAAGAT-AAGGGTGCCAATGTGCTGATTCAAGGCC
1 TGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAA-GATGCCAATGTGCTGATTCAAGGCC
* * * *
322289 AGCGACATTGGTCTTAAAGATG-ATGGTGCCAATATGCTGATGCAAGGCCAGCAATACCGGACTT
65 AGCGACATTGGTCTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTT
*
322353 AAAGATGAAGATGCCAATG
130 AAAGATGAAGGTGCCAATG
* *
322372 TGCTGATTTAAGGCCAGCGACATTGGGC-T-----T----ATGCCAATGTGTTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
** * *
322427 ATGACATTGGTCTTAAAGATG-AA-GTGCCAATATGCTGATTCAAGGCCAGCGATACCGAACTTA
66 GCGACATTGGTCTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTA
322490 AAGATG-AGGATGCCAATG
131 AAGATGAAGG-TGCCAATG
* *
322508 TGCTGATTCAAGGCCAGCGACATTGGGC-T-----T----ATGCCAATGTGTTGATTCAAGGTCA
1 TGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
* * *
322563 ACGACATTGGTCTTAAAGATG-AA-GTACCAATATGCTGATTCAAGGCCAGCGATACCGGACTTA
66 GCGACATTGGTCTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTA
322626 AAGATG-AGGATGCCAATG
131 AAGATGAAGG-TGCCAATG
* *
322644 TGCTGATTCTAGGCCAGCGACATTGGGC-T-----T----ATGCCAATGTGTTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
* * * *
322699 ACGACATTAGTCTTAAAGATG-AA-GTGCCAATATGCTGATTCAAGGCCAGTGATACCGGACTTA
66 GCGACATTGGTCTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTA
322762 AAGATG-AGGATGCCAATG
131 AAGATGAAGG-TGCCAATG
* ** * *
322780 TGCTGATTCAGGGCCAATGACATTGGGCTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATG---AAGATGCCAATGTGCTGATTCAAGG
* * * * * * *
322845 CCAGCAATATTAGACTTAAAGATG-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
63 CCAGCGACATTGGTCTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGAC
*
322909 TTAAAGATGAAGATGCCAATG
128 TTAAAGATGAAGGTGCCAATG
*
322930 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGATGCCAATGTGCTGATTC-A----A
1 TGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
* *
322990 -TGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATAT
66 GCGACATTGGTCTTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
323048 TAGACTTGTG
Statistics
Matches: 992, Mismatches: 107, Indels: 60
0.86 0.09 0.05
Matches are distributed among these distances:
135 2 0.00
136 337 0.34
137 44 0.04
141 16 0.02
142 2 0.00
144 32 0.03
146 2 0.00
147 54 0.05
148 2 0.00
149 44 0.04
150 367 0.37
151 2 0.00
152 2 0.00
153 86 0.09
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (148 bp):
TGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
GCGACATTGGTCTTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTA
AAGATGAAGGTGCCAATG
Found at i:322418 original size:39 final size:39
Alignment explanation
Indices: 322363--322706 Score: 130
Period size: 39 Copynumber: 7.8 Consensus size: 39
322353 AAAGATGAAG
* *
322363 ATGCCAATGTGCTGATTTAAGGCCAGCGACATTGGGCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
* * *
322402 ATGCCAATGTGTTGATTCAAGGCCAATGACATTGGTCTTAAAGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGC-T-----T
* * * ***
322447 GAAGTGCCAATATGCTGATTCAAGGCCAGCGATACCGAACTTAAAGATGAGG
1 --A-TGCCAATGTGCTGATTCAAGGCCAACG--A-C--A-TT---G-GGCTT
*
322499 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
* * *
322538 ATGCCAATGTGTTGATTCAAGGTCAACGACATTGGTCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
* * * ***
322577 AAAGATGAAGTACCAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAGG
1 ----AT---G--CCAATGTGCTGATTCAAGGCCAACG--A-C--A-TT---G-GGCTT
* *
322635 ATGCCAATGTGCTGATTCTAGGCCAGCGACATTGGGCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
*
322674 ATGCCAATGTGTTGATTCAAGGCCAACGACATT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATT
322707 AGTCTTAAAG
Statistics
Matches: 226, Mismatches: 41, Indels: 76
0.66 0.12 0.22
Matches are distributed among these distances:
39 99 0.44
40 3 0.01
43 6 0.03
44 2 0.01
45 1 0.00
46 3 0.01
47 3 0.01
48 44 0.19
49 49 0.22
50 3 0.01
51 3 0.01
53 2 0.01
54 6 0.03
57 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (39 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
Found at i:322511 original size:136 final size:136
Alignment explanation
Indices: 322266--322960 Score: 985
Period size: 136 Copynumber: 5.0 Consensus size: 136
322256 AAGATAAGGG
* * * *
322266 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGATGGTGCCAATATGCTGATG
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGA-AGTGCCAATATGCTGATT
* * *
322331 CAAGGCCAGCAATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTTAAGGCCAGCGACATT
65 CAAGGCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAGCGACATT
322396 GGGCTTA
130 GGGCTTA
*
322403 TGCCAATGTGTTGATTCAAGGCCAATGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
*
322468 AAGGCCAGCGATACCGAACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
66 AAGGCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
322533 GGCTTA
131 GGCTTA
* *
322539 TGCCAATGTGTTGATTCAAGGTCAACGACATTGGTCTTAAAGATGAAGTACCAATATGCTGATTC
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
*
322604 AAGGCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCTAGGCCAGCGACATTG
66 AAGGCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
322669 GGCTTA
131 GGCTTA
*
322675 TGCCAATGTGTTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGTGCCAATATGCTGATTC
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
* * **
322740 AAGGCCAGTGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAGGGCCAATGACATTG
66 AAGGCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
322805 GGCTTAAAGATGACAAA
131 GGC-T-----T-----A
* * * * * * * *
322822 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGA
1 --TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAA-GTGCCAATATGCTGA
* ** *
322887 TTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACA
63 TTCAAGGCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAGCGACA
*
322952 TTGGTCTTA
128 TTGGGCTTA
322961 AAGATGAAGA
Statistics
Matches: 506, Mismatches: 38, Indels: 26
0.89 0.07 0.05
Matches are distributed among these distances:
136 340 0.67
137 44 0.09
139 1 0.00
142 1 0.00
144 1 0.00
147 1 0.00
149 42 0.08
150 76 0.15
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (136 bp):
TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
AAGGCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
GGCTTA
Found at i:322755 original size:272 final size:276
Alignment explanation
Indices: 322116--322960 Score: 1025
Period size: 272 Copynumber: 3.0 Consensus size: 276
322106 ATGACAAAGG
* * * * * * * * *
322116 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAATATGAAGGTGCGAATGTGCTGATT
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAA-GTGCCAATATGCTGATT
* ** ** * * * * * * *
322181 CAAGGCCAGCGACATTGGTCTTAGGAATGTTAAAGATGCCAATATGCTGATGCAAGGCTAACGAT
65 CAAGGCCAGCGATACCGAACTTA--AA-GATGAGGATGCCAATGTGCTGATTCAAGGCCAACGAC
*
322246 ATTGGACTTAAAGATAAGGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
127 ATTGGGCTT----ATAA--GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
* * *
322311 ATGGTGCCAATATGCTGATGCAAGGCCAGCAATACCGGACTTAAAGATGAAGATGCCAATGTGCT
186 A-AGTGCCAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCT
322376 GATT-TAAGGCCAGCGACATTGGGCTTA
250 GATTCT-AGGCCAGCGACATTGGGCTTA
* *
322403 TGCCAATGTGTTGATTCAAGGCCAATGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGTGCCAATATGCTGATTC
*
322468 AAGGCCAGCGATACCGAACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
66 AAGGCCAGCGATACCGAACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAACGACATTG
* * * *
322533 GGC-T-T-A-TGCCAATGTGTTGATTCAAGGTCAACGACATTGGTCTTAAAGATGAAGTACCAAT
131 GGCTTATAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGTGCCAAT
*
322594 ATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCTAGGCC
196 ATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCTAGGCC
322659 AGCGACATTGGGCTTA
261 AGCGACATTGGGCTTA
322675 TGCCAATGTGTTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGTGCCAATATGCTGATTC
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGTGCCAATATGCTGATTC
* * * *
322740 AAGGCCAGTGATACCGGACTTAAAGATGAGGATGCCAATGTGCTGATTCAGGGCCAATGACATTG
66 AAGGCCAGCGATACCGAACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAACGACATTG
* * * * *
322805 GGCTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGATGA
131 GGCTT----AT----AA-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGA
* * **
322870 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATGTGCTG
187 A-GTGCCAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTG
* *
322935 ATTCAAGGCCAGCGACATTGGTCTTA
251 ATTCTAGGCCAGCGACATTGGGCTTA
322961 AAGATGAAGA
Statistics
Matches: 489, Mismatches: 54, Indels: 31
0.85 0.09 0.05
Matches are distributed among these distances:
272 209 0.43
273 45 0.09
276 1 0.00
277 1 0.00
278 1 0.00
282 1 0.00
283 36 0.07
284 2 0.00
285 39 0.08
286 114 0.23
287 40 0.08
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (276 bp):
TGCCAATGTGTTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGTGCCAATATGCTGATTC
AAGGCCAGCGATACCGAACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAACGACATTG
GGCTTATAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGTGCCAAT
ATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCTAGGCC
AGCGACATTGGGCTTA
Found at i:323195 original size:33 final size:32
Alignment explanation
Indices: 323166--323739 Score: 356
Period size: 33 Copynumber: 17.9 Consensus size: 32
323156 TGAAAAGGAG
323166 AAAGATGCCACGGAGTTGTGGACTTAAAAG--
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGAA
* * *
323196 ---GGTGCCACGTAGTTATGGACTTAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAA--GAA
* *
323227 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGTA
1 AAAGA-TGCCACGGAGTTGTGGAC-TT-AAAAGAA
* * *
323262 AAAGGTGCCACAGAGTCGTGGACTT---AGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGAA
**
323291 AAGAGATGCCATTGAGTTGTGGACTTACTAGAA-AA
1 AA-AGATGCCACGGAGTTGTGGACTTA--A-AAGAA
* * *
323326 AAAGGATGCCACTGAGTTGTGGACTTTGAAGGAA
1 AAA-GATGCCACGGAGTTGTGGAC-TTAAAAGAA
323360 AAAGATGCCACGGAGTTGTGGACTTTAAAAAGAA
1 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAGAA
* *
323394 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAGGAA
1 AAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGAA
*
323428 AAAGATGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAA-GAA
*
323461 CAAAG-TGCCACAGAGTTGTGGACTTTAAAAG--
1 -AAAGATGCCACGGAGTTGTGGAC-TTAAAAGAA
*
323492 ---GATGCCACGGAGTTGTGGCCTTTGAAAAGAA
1 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAGAA
* * * **
323523 AAAGGTGCCACGGAGTCGTGGGCTTTGAAG-A
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGAA
** *
323554 AAAGATGCCACTAAGTCT-TGGACTT---TGAA
1 AAAGATGCCACGGAGT-TGTGGACTTAAAAGAA
* * *
323583 AAGAGATTGCCACTGAGTTGTGGACTTTGAAGGAA
1 AA-AGA-TGCCACGGAGTTGTGGAC-TTAAAAGAA
* *
323618 AGAGATGCCACAGAGTTGTGGACTTTAAAA-AA
1 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGAA
* *
323650 AAAGAGTGCCATGGAGTTGTGGGCTTTAAAAG--
1 AAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGAA
* * **
323682 --AG-TGCCACAGAGTTGTGTACTTTGAAG-A
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGAA
* *
323710 AAAGATGCCACTGAGTCGTGGACTTTAAAA
1 AAAGATGCCACGGAGTTGTGGAC-TTAAAA
323740 AGAGATTGCC
Statistics
Matches: 432, Mismatches: 64, Indels: 94
0.73 0.11 0.16
Matches are distributed among these distances:
27 29 0.07
28 34 0.08
29 14 0.03
30 27 0.06
31 50 0.12
32 20 0.05
33 107 0.25
34 74 0.17
35 68 0.16
36 5 0.01
37 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (32 bp):
AAAGATGCCACGGAGTTGTGGACTTAAAAGAA
Found at i:323203 original size:27 final size:27
Alignment explanation
Indices: 323171--323224 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
323161 AGGAGAAAGA
*
323171 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAGGG
*
323198 TGCCACGTAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAGGG
323225 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (27 bp):
TGCCACGGAGTTATGGACTTAAAAGGG
Found at i:323637 original size:190 final size:187
Alignment explanation
Indices: 323227--323799 Score: 547
Period size: 190 Copynumber: 3.0 Consensus size: 187
323217 TAAAAGGGAA
* * * *
323227 AAAGAG-TGCCACGGAGTTGTGGGCTTTAAAAAGTAAAAGGTGCCACAGAGTCGTGGACTTAGAA
1 AAAGAGATGCCAC-GAGTTGTGGACTTT-AAAAG-AAAAAGTGCCACAGAGTTGTGGACTT-TAA
** *
323291 AAGAGATGCCATTGAGTTGTGGACTTACT-AGAA-AAAAAGGATGCCACTGAGTTGTGGACTTTG
62 AAG-GATGCCACAGAGTTGTGGACTT--TGA-AAGAAAAAGG-TGCCACTGAGTCGTGGACTTTG
** * * * * *
323354 AAGGAAAAAGATGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCT
122 AA-G-AAAAGATGCCACTAAGTTATGGACTTTGAAAAG----AGAATGCCACTGAGTTGTGGACT
*
323419 TTAAAGG
181 TTGAAGG
*
323426 AAAAAGATGCCACGAAGTTGTGGAC-TTAAAAGGAACAAAGTGCCACAGAGTTGTGGACTTTAAA
1 AAAGAGATGCCACG-AGTTGTGGACTTTAAAA-GAA-AAAGTGCCACAGAGTTGTGGACTTTAAA
* * * *
323490 AGGATGCCACGGAGTTGTGGCCTTTGAAAAGAAAAAGGTGCCACGGAGTCGTGGGCTTTGAAGAA
63 AGGATGCCACAGAGTTGTGGACTTTG-AAAGAAAAAGGTGCCACTGAGTCGTGGACTTTGAAGAA
*
323555 AAGATGCCACTAAGTCT-TGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTTTGAAGG
127 AAGATGCCACTAAGT-TATGGACTTTGAAAAGAGAATGCCACTGAGTTGTGGACTTTGAAGG
* ** *
323616 AAAGAGATGCCACAGAGTTGTGGACTTTAAAAAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAA
1 AAAGAGATGCCAC-GAGTTGTGGACTTTAAAAGAAAA-AGTGCCACAGAGTTGTGGACTTTAAAA
* *
323681 -GAGTGCCACAGAGTTGTGTACTTTG-AAG-AAAAGATGCCACTGAGTCGTGGACTTT-AA-AAA
64 GGA-TGCCACAGAGTTGTGGACTTTGAAAGAAAAAGGTGCCACTGAGTCGTGGACTTTGAAGAAA
* * **
323741 GAGATTGCCACTAAGTTATGTACTTTGGAGAAA-AAAATGCCACTGAGTCATGGACTTTG
128 -AGA-TGCCACTAAGTTATGGACTTT-GA-AAAGAGAATGCCACTGAGTTGTGGACTTTG
323800 GGACAAAATG
Statistics
Matches: 323, Mismatches: 34, Indels: 45
0.80 0.08 0.11
Matches are distributed among these distances:
185 3 0.01
186 6 0.02
187 42 0.13
188 27 0.08
189 7 0.02
190 93 0.29
191 7 0.02
194 28 0.09
195 3 0.01
196 23 0.07
197 27 0.08
198 11 0.03
199 31 0.10
200 15 0.05
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (187 bp):
AAAGAGATGCCACGAGTTGTGGACTTTAAAAGAAAAAGTGCCACAGAGTTGTGGACTTTAAAAGG
ATGCCACAGAGTTGTGGACTTTGAAAGAAAAAGGTGCCACTGAGTCGTGGACTTTGAAGAAAAGA
TGCCACTAAGTTATGGACTTTGAAAAGAGAATGCCACTGAGTTGTGGACTTTGAAGG
Found at i:323752 original size:31 final size:31
Alignment explanation
Indices: 323224--323865 Score: 349
Period size: 31 Copynumber: 20.2 Consensus size: 31
323214 ACTTAAAAGG
* *
323224 GAAAAAGAG-TGCCACGGAGTTGTGGGCTTT
1 GAAAAAGAGATGCCACTGAGTTGTGGACTTT
* * * *
323254 -AAAAAGTAAAAGGTGCCACAGAGTCGTGGACTTA
1 GAAAAAG----AGATGCCACTGAGTTGTGGACTTT
*
323288 G-AAAAGAGATGCCATTGAGTTGTGGACTTACT
1 GAAAAAGAGATGCCACTGAGTTGTGGACTT--T
*
323320 AGAAAAAAAGGATGCCACTGAGTTGTGGACTTT
1 -GAAAAAGA-GATGCCACTGAGTTGTGGACTTT
* *
323353 GAAGGAAAAAGATGCCACGGAGTTGTGGACTTT
1 GAA--AAAGAGATGCCACTGAGTTGTGGACTTT
* *
323386 -AAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAG----AGA-TGCCACTGAGTTGTGGACTTT
* *
323421 AAAGGAAAAAGATGCCAC-GAAGTTGTGGAC-TT
1 GAA--AAAGAGATGCCACTG-AGTTGTGGACTTT
* * * *
323453 AAAAGGAACAAAGTGCCACAGAGTTGTGGACTTT
1 GAAA--AAGAGA-TGCCACTGAGTTGTGGACTTT
* *
323487 --AAAAG-GATGCCACGGAGTTGTGGCCTTT
1 GAAAAAGAGATGCCACTGAGTTGTGGACTTT
* * * * *
323515 GAAAAGAAAAAGGTGCCACGGAGTCGTGGGCTTT
1 G--AA-AAAGAGATGCCACTGAGTTGTGGACTTT
*
323549 GAAGAAA-AGATGCCACTAAGTCT-TGGACTTT
1 GAA-AAAGAGATGCCACTGAGT-TGTGGACTTT
323580 G-AAAAGAGATTGCCACTGAGTTGTGGACTTT
1 GAAAAAGAGA-TGCCACTGAGTTGTGGACTTT
*
323611 GAAGGAAAGAGATGCCACAGAGTTGTGGACTTT
1 GAA--AAAGAGATGCCACTGAGTTGTGGACTTT
* * *
323644 AAAAAAAAAGAGTGCCA-TGGAGTTGTGGGCTTT
1 -GAAAAAGAGA-TGCCACT-GAGTTGTGGACTTT
* *
323677 --AAAAGAG-TGCCACAGAGTTGTGTACTTT
1 GAAAAAGAGATGCCACTGAGTTGTGGACTTT
*
323705 GAAGAAA-AGATGCCACTGAGTCGTGGACTTT
1 GAA-AAAGAGATGCCACTGAGTTGTGGACTTT
* * *
323736 -AAAAAGAGATTGCCACTAAGTTATGTACTTT
1 GAAAAAGAGA-TGCCACTGAGTTGTGGACTTT
* **
323767 GGAGAAAA-AAATGCCACTGAGTCATGGACTTT
1 -GA-AAAAGAGATGCCACTGAGTTGTGGACTTT
* * * ** *
323799 GGGACAA-A-ATGCCACTGAATCATGGGCTTT
1 -GAAAAAGAGATGCCACTGAGTTGTGGACTTT
* * *
323829 G-AGAAGAGATTGCCATTGAGTCGTGGACTTT
1 GAAAAAGAGA-TGCCACTGAGTTGTGGACTTT
323860 -AAAAAG
1 GAAAAAG
323866 GTATTTGAAG
Statistics
Matches: 493, Mismatches: 62, Indels: 113
0.74 0.09 0.17
Matches are distributed among these distances:
28 39 0.08
29 15 0.03
30 65 0.13
31 101 0.20
32 51 0.10
33 101 0.20
34 75 0.15
35 41 0.08
36 2 0.00
38 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (31 bp):
GAAAAAGAGATGCCACTGAGTTGTGGACTTT
Found at i:323783 original size:32 final size:30
Alignment explanation
Indices: 323746--323829 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
323736 AAAAAGAGAT
* *
323746 TGCCACTAAGTTATGTACTTTGGAGAAAAAAA
1 TGCCACTAAGTCATGGACTTTGG-G-AAAAAA
* *
323778 TGCCACTGAGTCATGGACTTTGGGACAAAA
1 TGCCACTAAGTCATGGACTTTGGGAAAAAA
*
323808 TGCCACTGAA-TCATGGGCTTTG
1 TGCCACT-AAGTCATGGACTTTG
323830 AGAAGAGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 23 0.51
31 2 0.04
32 20 0.44
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (30 bp):
TGCCACTAAGTCATGGACTTTGGGAAAAAA
Found at i:325112 original size:6 final size:6
Alignment explanation
Indices: 325089--325129 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
325079 CTCTTCCTTT
325089 TTTTTG TTTATT- TTTTTG TTTTTG TTTTTG TTGTTT- TTTTT
1 TTTTTG TTT-TTG TTTTTG TTTTTG TTTTTG TT-TTTG TTTTT
325130 TTGTGTTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.16
6 22 0.69
7 5 0.16
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:325116 original size:27 final size:26
Alignment explanation
Indices: 325086--325138 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
325076 GCTCTCTTCC
* *
325086 TTTTTTTTGTTTATTTTTTTGTTTTTG
1 TTTTTGTTGTTT-TTTTTTTGTGTTTG
325113 TTTTTGTTGTTTTTTTTTTGTGTTTG
1 TTTTTGTTGTTTTTTTTTTGTGTTTG
325139 CACTTTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.83
Consensus pattern (26 bp):
TTTTTGTTGTTTTTTTTTTGTGTTTG
Found at i:325117 original size:15 final size:14
Alignment explanation
Indices: 325086--325137 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
325076 GCTCTCTTCC
325086 TTTTTT-TTGTTTAT
1 TTTTTTGTTGTTT-T
325100 TTTTTTG-T-TTTT
1 TTTTTTGTTGTTTT
*
325112 GTTTTTGTTGTTTT
1 TTTTTTGTTGTTTT
325126 TTTTTTG-TGTTT
1 TTTTTTGTTGTTT
325138 GCACTTTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 7 0.21
13 9 0.27
14 17 0.52
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (14 bp):
TTTTTTGTTGTTTT
Found at i:325125 original size:20 final size:19
Alignment explanation
Indices: 325089--325138 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
325079 CTCTTCCTTT
*
325089 TTTTTGTTTAT-TTTTTTG
1 TTTTTGTTTTTGTTTTTTG
*
325107 TTTTTGTTTTTGTTGTTTTT
1 TTTTTGTTTTTGTT-TTTTG
*
325127 TTTTTGTGTTTG
1 TTTTTGTTTTTG
325139 CACTTTTGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 10 0.37
19 2 0.07
20 15 0.56
ACGTcount: A:0.02, C:0.00, G:0.16, T:0.82
Consensus pattern (19 bp):
TTTTTGTTTTTGTTTTTTG
Found at i:325137 original size:13 final size:12
Alignment explanation
Indices: 325086--325130 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
325076 GCTCTCTTCC
325086 TTTTTTTTGTTT
1 TTTTTTTTGTTT
*
325098 ATTTTTTTGTTT
1 TTTTTTTTGTTT
*
325110 TTGTTTTTGTTGT
1 TTTTTTTTGTT-T
325123 TTTTTTTT
1 TTTTTTTT
325131 TGTGTTTGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 20 0.71
13 8 0.29
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:333076 original size:49 final size:49
Alignment explanation
Indices: 332909--333685 Score: 700
Period size: 49 Copynumber: 15.7 Consensus size: 49
332899 AAATGGATGT
* * * * * *
332909 CAATGTGCTGATTCACGGTCAGCGATATTTAGACTTGAAGATGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGAT--GAAG-GTGC
* * ** * *
332962 CAATGTGTTGATTCAAGGCCAACGACATTAGGTTTTAAAGATGACGAAGGCGT
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAGGTGC
* * * * *
333015 TAATATGCTGATTCAAGGCCAGCGATACTGGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
333064 CAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
333116 CAATATGCTGATTCAAGGCTAGTGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
333165 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
333214 CAATGTGCAGATTCAAGGCTAGAGACATTGGTCTTAAAGATGAAGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGC
* *
333266 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* **
333315 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AAGAATGTTAAAAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATG---AAGGTGC
* * * * * *
333367 CAATATGTTGATGCAAGGCTAACGATATTGGACTTAAAGAT-AAGGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GGTGC
* * * *
333416 CAATATGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGATGACGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *** * *
333465 CAATATGCTGATTCAAGGCCAGCGATACAAGACTTAAAGATAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
333514 CAATGTGCTGATTCAAGGCCAGCGACATTGGGC-T-----T--A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
333553 CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * ** * *
333601 CAATATGCTGATTCAAGGCTAGCGATACCGGATTTAAAAATG-AGGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG-TGC
*
333650 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
333686 TTATTTTGTG
Statistics
Matches: 589, Mismatches: 109, Indels: 56
0.78 0.14 0.07
Matches are distributed among these distances:
39 33 0.06
40 1 0.00
41 1 0.00
43 1 0.00
45 1 0.00
47 2 0.00
48 42 0.07
49 312 0.53
50 1 0.00
52 134 0.23
53 57 0.10
54 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:333128 original size:101 final size:98
Alignment explanation
Indices: 332959--333685 Score: 719
Period size: 101 Copynumber: 7.4 Consensus size: 98
332949 ATGAGAAGAA
* ** * **
332959 TGCCAATGTGTTGATTCAAGGCCAACGACATTAGGTTTTAAAGATGACGAAGGCGTTAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATT-GGACTTAAAGAT---GAAGGTGCCAATATGCT
* *
333024 GATTCAAGGCCAGCGATACTGGTCTTAAAGATGAAGG
62 GATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
** *
333061 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTG
* * * *
333126 ATTCAAGGCTAGTGATATTGGACTTAAAGATGAAGG
63 ATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* * *
333162 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGCCAATGTGCAGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* *
333227 CAAGGCTAGAGACATTGGTCTTAAAGATGAAGAAGG
66 CAAGGCCAGCGACATTGGTCTTAAAGAT---GAAGG
* * * * *
333263 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
**
333328 CAAGGCCAGCGACATTGGTCTT-AAGAATGTTAAAAA
66 CAAGGCCAGCGACATTGGTCTTAAAG-ATG---AAGG
* * * * *
333364 TGCCAATATGTTGATGCAAGGCTAACGATATTGGACTTAAAGAT-AAGGGTGCCAATATGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAA-GGTGCCAATATGCTGAT
* *
333428 TCAAGGCCAGCGACATTAGTCTTAAAGATGACGG
65 TCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* * * *** * * *
333462 TGCCAATATGCTGATTCAAGGCCAGCGATACAAGACTTAAAGATAAAGATGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
*
333527 CAAGGCCAGCGACATTGGGC-T-----T--A--
66 CAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* *
333550 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAA-GTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* * ** *
333614 CAAGGCTAGCGATACCGGAT-TTAAAAATG-AGG
66 CAAGGCCAGCGACATTGG-TCTTAAAGATGAAGG
* *
333646 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
1 -TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTA
333686 TTATTTTGTG
Statistics
Matches: 530, Mismatches: 71, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
87 29 0.05
88 39 0.07
92 1 0.00
93 1 0.00
94 1 0.00
97 37 0.07
98 115 0.22
99 2 0.00
100 5 0.01
101 268 0.51
102 32 0.06
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (98 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
CAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
Found at i:333204 original size:150 final size:147
Alignment explanation
Indices: 332904--333685 Score: 769
Period size: 150 Copynumber: 5.3 Consensus size: 147
332894 TGAGAAAATG
* * * * * * ** *
332904 GATGTCAATGTGCTGATTCACGGTCAGCGATATTTAGACTTGAAGATGAGAAGAATGCCAATGTG
1 GATGCCAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGAT-A-AAG-GCGCCAATATG
* * ** * **
332969 TTGATTCAAGGCCAACGACATTAGGTTTTAAAGATGACGAAGGCGTTAATATGCTGATTCAAGGC
62 CTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAGGTGCCAATATGCTGATTCAAGGC
*
333034 CAGCGATACTGGTCTTAAAGATGAA
123 CAGCGATACTGGACTTAAAGATGAA
* *
333059 GGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGCGCCAATATGC
1 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---AAAGGCGCCAATATGC
* * * * *
333124 TGATTCAAGGCTAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACG
63 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* *
333189 ACATTGGACTTAAAGATGAA
128 ATACTGGACTTAAAGATGAA
* * * *
333209 GATGCCAATGTGCAGATTCAAGGCTAGAGACATTGGTCTTAAAGATGAAGAAGGCGCCAATATGC
1 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--A-AAGGCGCCAATATGC
* *
333274 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCG
63 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* * *
333339 ACATTGGTCTT-AAGAATGTTAAA
128 ATACTGGACTTAAAG-ATG---AA
* * * * * * * * *
333362 AATGCCAATATGTTGATGCAAGGCTAACGATATTGGACTTAAAGATAAGGGTGCCAATATGCTGA
1 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGCGCCAATATGCTGA
* * *
333427 TTCAAGGCCAGCGACATTAGTCTTAAAGATGACGGTGCCAATATGCTGATTCAAGGCCAGCGATA
66 TTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
** *
333492 CAAGACTTAAAGATAAA
131 CTGGACTTAAAGATGAA
* * *
333509 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT----AT------GCCAATGTGTTGA
1 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGCGCCAATATGCTGA
* * *
333564 TTCAAGGCCAACGACATTGGTCTTAAAGATGAA-GTGCCAATATGCTGATTCAAGGCTAGCGATA
66 TTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
* * * *
333628 CCGGATTTAAAAATGAG
131 CTGGACTTAAAGATGAA
*
333645 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
1 GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
333686 TTATTTTGTG
Statistics
Matches: 538, Mismatches: 80, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
136 81 0.15
137 41 0.08
143 2 0.00
147 34 0.06
149 4 0.01
150 256 0.48
151 4 0.01
153 49 0.09
154 37 0.07
155 29 0.05
156 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (147 bp):
GATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGCGCCAATATGCTGA
TTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
CTGGACTTAAAGATGAA
Found at i:333565 original size:39 final size:39
Alignment explanation
Indices: 333510--333588 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
333500 AAAGATAAAG
*
333510 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
* *
333549 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
333588 A
1 A
333589 AAGATGAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (39 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
Found at i:333658 original size:136 final size:137
Alignment explanation
Indices: 333413--333686 Score: 433
Period size: 136 Copynumber: 2.0 Consensus size: 137
333403 AAGATAAGGG
* *
333413 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGATGACGGTGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGACAGTGCCAATATGCTGATT
*
333478 CAAGGCCAGCGATACAAGACTTAAAGATAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATT
66 CAAGGCCAGCGATACAAGACTTAAAAATAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATT
333543 GGGCTTA
131 GGGCTTA
* * *
333550 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGA-AGTGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGACAGTGCCAATATGCTGATT
* ** * * *
333614 CAAGGCTAGCGATACCGGATTTAAAAATGAGGATGCCAATGTGCTGATTCAAGGCCAGCGACATT
66 CAAGGCCAGCGATACAAGACTTAAAAATAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATT
333679 GGGCTTA
131 GGGCTTA
333686 T
1 T
333687 TATTTTGTGG
Statistics
Matches: 125, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
136 83 0.66
137 42 0.34
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (137 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGACAGTGCCAATATGCTGATT
CAAGGCCAGCGATACAAGACTTAAAAATAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATT
GGGCTTA
Found at i:339375 original size:13 final size:13
Alignment explanation
Indices: 339357--339383 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
339347 AAATTTCCCA
339357 AATGTATCGATAC
1 AATGTATCGATAC
339370 AATGTATCGATAC
1 AATGTATCGATAC
339383 A
1 A
339384 TTGAGTAATG
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:339443 original size:13 final size:13
Alignment explanation
Indices: 339421--339478 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
339411 GGCAATAGCT
*
339421 TTGTAGCGATACA
1 TTGTATCGATACA
339434 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
339450 CTTATGTATCGATACA
1 --T-TGTATCGATACA
339466 TTGTATCGATACA
1 TTGTATCGATACA
339479 AATTGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:343863 original size:122 final size:122
Alignment explanation
Indices: 343646--343873 Score: 334
Period size: 122 Copynumber: 1.9 Consensus size: 122
343636 ATAAAAATCG
*
343646 GGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCTGATTATAGAAAATCGGTATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCGATTATAGAAAATCGGTATTT
* * *
343711 TGAAAATAAAATCGGAGTTAGAGTATCTCCGATTGTGGAAAATTGGTAATAAAGTCA
66 TGAAAATAAAACCAGAGTTAGAATATCTCCGATTGTGGAAAATTGGTAATAAAGTCA
** * * *
343768 GGGTTGGAGTATCCCCTC-AGAAATAACGGGGTTGGAGTATCCCCGATTGT-GAGAAATTGGTGT
1 GGGTTGGAGTATCCCCTCGA-AAATAACAAGGTTGGAGTATCCCCGATTATAGA-AAATCGGTAT
*
343831 TTTGAAAATAAAACCAGAGTTGGAATATCTCCGATTGTGGAAA
64 TTTGAAAATAAAACCAGAGTTAGAATATCTCCGATTGTGGAAA
343874 GTAGGTATTT
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
121 3 0.03
122 91 0.97
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (122 bp):
GGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCGATTATAGAAAATCGGTATTT
TGAAAATAAAACCAGAGTTAGAATATCTCCGATTGTGGAAAATTGGTAATAAAGTCA
Found at i:344007 original size:28 final size:29
Alignment explanation
Indices: 343931--344007 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
343921 GGAATAAAAT
343931 CGGGGTTGGAGTATCCCCTC-A-GAAATAA
1 CGGGGTTGGAGTAT-CCCTCGATGAAATAA
* *
343959 CGGGATTGGAGTATCCC-CGATGACATAA
1 CGGGGTTGGAGTATCCCTCGATGAAATAA
343987 CGGGGTTGGAGTA-CCCTCGAT
1 CGGGGTTGGAGTATCCCTCGAT
344008 TATGAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
26 1 0.02
27 7 0.16
28 35 0.81
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCTCGATGAAATAA
Found at i:344082 original size:28 final size:28
Alignment explanation
Indices: 344038--344109 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
344028 GATACAAAGT
* *
344038 CGGGGTTGGAGTGTCCCTTCGAAAATAA
1 CGGGGTTGGAGTATCCCCTCGAAAATAA
*
344066 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGAAAATAA
* * *
344094 TGGGCTTGAAGTATCC
1 CGGGGTTGGAGTATCC
344110 TCGAGATGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAA
Found at i:344112 original size:107 final size:106
Alignment explanation
Indices: 343930--344124 Score: 257
Period size: 107 Copynumber: 1.8 Consensus size: 106
343920 GGGAATAAAA
* * *
343930 TCGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATGACATAACGGGGTTG
1 TCGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGAGGAAATAACGGGCTTG
* *
343995 GAGTACCCTCGATTATGAAAAATCAATATTTTAGATACAAAG
66 AAGTACCCTCGA-GATGAAAAATCAATATTTTAGATACAAAG
* * * ** *
344037 TCGGGGTTGGAGTGTCCCTTC-GAAAATAACGGGGTTGGAGTATCCCCTCGGAAATAATGGGCTT
1 TCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGATTGGAGTATCCCCGAGGAAATAACGGGCTT
*
344101 GAAGTATCCTCGAGATGAAAAATC
65 GAAGTACCCTCGAGATGAAAAATC
344125 TAGAAATTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
106 11 0.15
107 64 0.85
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (106 bp):
TCGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGAGGAAATAACGGGCTTG
AAGTACCCTCGAGATGAAAAATCAATATTTTAGATACAAAG
Found at i:346461 original size:20 final size:20
Alignment explanation
Indices: 346418--346471 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
346408 AAAATGCTTG
* *
346418 AATGTATCGATACAATGAGC
1 AATGTATCAATACAATGAGA
346438 AATGTATCAATACAATGCA-A
1 AATGTATCAATACAATG-AGA
*
346458 AATGTATCCATACA
1 AATGTATCAATACA
346472 TCTGGGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (20 bp):
AATGTATCAATACAATGAGA
Found at i:348470 original size:61 final size:61
Alignment explanation
Indices: 348381--348615 Score: 237
Period size: 61 Copynumber: 3.9 Consensus size: 61
348371 AAAGAAGTGT
* * * * **
348381 GTCCTACTCTTTGAGGATTGAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGC
* * *
348442 GTCCTGCCCTTTGAAGACTGGAAGGTGCCACCAACTTGCGTGGGCTTTGCAAAA-AGAAA-GC
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAAGA-AAAGGC
* * * * * * * *
348503 ATCCTGCTCTTTGAGGACTGAAAAGTGTCACCAACTTGTGTCGACTTT-AAAAGGAGAGGGC
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAGGC
* *
348564 GTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGCCTTT-AAAAG
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
348616 GCATCCTACT
Statistics
Matches: 142, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
59 5 0.04
60 27 0.19
61 103 0.73
62 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGC
Found at i:348514 original size:122 final size:121
Alignment explanation
Indices: 348382--348635 Score: 315
Period size: 122 Copynumber: 2.1 Consensus size: 121
348372 AAGAAGTGTG
* * *
348382 TCCTACTCTTTGAGGATTGAAAAGTGCCACCAACTCATGTGGGCTTTGAAAA-GAAAAGGCGTCC
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTCGACTTT-AAAAGGAAAAGGCGTCC
*
348446 TGCCCTTTGAAGACTGGAAGGTGCCACCAACTTGCGTGGGCTTTGCAAAAAGAAAGCA
65 TGCCCTTTGAAGACT-GAAGGTGCCACCAACTTGCGTGGCCTTTGCAAAAAGAAAGCA
* * ** * *
348504 TCCTGCTCTTTGAGGACTGAAAAGTGTCACCAACTTGTGTCGACTTTAAAAGGAGAGGGCGTCCT
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTCGACTTTAAAAGGAAAAGGCGTCCT
* * * *
348569 GCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGCCTTT---AAAAG---GCA
66 GCCCTTTGAAGACTGAAGGTGCCACCAACTTGCGTGGCCTTTGCAAAAAGAAAGCA
348619 TCCTACTCTTTGAGGAC
1 TCCTACTCTTTGAGGAC
348636 AAAAGGGCGA
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
115 19 0.16
118 5 0.04
121 29 0.25
122 63 0.54
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (121 bp):
TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTCGACTTTAAAAGGAAAAGGCGTCCT
GCCCTTTGAAGACTGAAGGTGCCACCAACTTGCGTGGCCTTTGCAAAAAGAAAGCA
Found at i:348746 original size:61 final size:61
Alignment explanation
Indices: 348655--349035 Score: 427
Period size: 61 Copynumber: 6.4 Consensus size: 61
348645 AATGGAGAGA
* * *
348655 GCGTCTTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTCGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* *
348716 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA--AGAAA
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAGGAGAAG
* * * * *
348777 GCATCATGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * *
348838 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
* * * *
348898 GCGTCTTGCTTTTTGAGGACTAGAAAAAGTGCTACCAACTTGTGTGGGCTTT---A--A-AAG
1 GCGTCCTGCTCTTTGAGGACT-G-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
*
348955 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
*
349010 GCGTCCTGCTCTTTAAGGACT-AAAGG
1 GCGTCCTGCTCTTTGAGGACTGAAAGG
349036 GTGAAAGGAG
Statistics
Matches: 282, Mismatches: 29, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
54 5 0.02
55 49 0.17
56 1 0.00
57 21 0.07
58 1 0.00
59 4 0.01
60 58 0.21
61 114 0.40
63 29 0.10
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
Found at i:349127 original size:394 final size:384
Alignment explanation
Indices: 348387--349355 Score: 1240
Period size: 394 Copynumber: 2.5 Consensus size: 384
348377 GTGTGTCCTA
* ** * *
348387 CTCTTTGAGGATTGAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAGGCGTCCTGCCCT
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAGGCGTCCTGCTCT
* * * *
348452 TTGAAGACTGGAAGGTGCCACCAACTTGCGTGGGCTTTGCAAA-AAGAAAGCATCCTGCTCTTTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGAA-AAGGCATCCTGCTCTTTG
* *
348516 AGGACTGAAAAGTG-TCACCAACTTGTGTCGACTTTAAAAGGAGAGGGCGTCCTGCTCTTTGAGG
128 AGGACTGAAAAGTGCT-ACCAACTTGTGTGGGCTTT--AA--A-A-GGCGTCCTGCTCTTTGAGG
* *
348580 ACTGAAGGTGCCACCAGCTTGTGTGGCCTTTAAAAGGCATCCTACTCTTTGAGGACAAAAGGGCG
186 ACTGAAGGTGCCACCAACTTGTGTGGCCTTTAAAAGGCATCCTACTCTTTAAGGACAAAAGGGCG
* * * * *
348645 AATGGAGAGAGCGTCTTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTCGGCTTTAAAAG
251 AAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTCGGCTTCAAAAG
* *
348710 GAGAAGGCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAG
316 GAGAAGGCGTCCTACTCTTTGAGGACTGGGAA-ATGCCACCAACTTGTGTGGGCTTTG---AAAG
348774 AAAGCATCATG
377 ---GCATCATG
* *
348785 CTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCGTCCTGCTCT
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCCTGCTCT
* * * *
348850 TTGAGGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAAAAGGCGTCTTGCTTTTTGA
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAGGCATCCTGCTCTTTGA
*
348914 GGACTAGAAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAA
129 GGACT-G-AAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTG-A
* * * * * *
348979 AGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGTGAAAGG
191 AGGTGCCACCAACTTGTGTGGCCTTTAAAAGGCATCCTACTCTTTAAGGACAAAAGGGCGAAAGG
* * * *
349044 AGAAAGTGTCCTGCTCTTTGTGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTCAAAATGAGAA
256 AGAAAGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTCGGCTTCAAAAGGAGAA
* *
349109 GGCGTCCTACTTTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTG
321 GGCGTCCTACTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCATG
349173 CTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT---A-AG-AGGCGTCCTGCTCT
1 CTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCT
* *
349232 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCATCCTGCTCTTCGA
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAAGAAAAGGCATCCTGCTCTTTGA
* * **
349297 GGACTG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTTTTGCTCTTTGAGGACT
129 GGACTGAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
349356 AAAAAGTGAA
Statistics
Matches: 508, Mismatches: 52, Indels: 40
0.85 0.09 0.07
Matches are distributed among these distances:
380 48 0.09
382 24 0.05
383 52 0.10
384 3 0.01
385 1 0.00
388 42 0.08
389 4 0.01
391 4 0.01
393 22 0.04
394 159 0.31
395 5 0.01
396 3 0.01
397 52 0.10
398 64 0.13
399 24 0.05
400 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (384 bp):
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCATCCTGCTCTTTGAGG
ACTGAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAGGTG
CCACCAACTTGTGTGGCCTTTAAAAGGCATCCTACTCTTTAAGGACAAAAGGGCGAAAGGAGAAA
GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTCGGCTTCAAAAGGAGAAGGCGT
CCTACTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCATG
Found at i:349193 original size:55 final size:55
Alignment explanation
Indices: 349051--349355 Score: 348
Period size: 55 Copynumber: 5.3 Consensus size: 55
349041 AGGAGAAAGT
* *
349051 GTCCTGCTCTTTGTGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTCAAAATGAGAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTT-----TGA-AAGGC
* *
349112 GTCCTACTTTTTGAGGACTGGGAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
* *
349167 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGC
349222 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
* * *
349283 ATCCTGCTCTTCGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
**
349337 GTTTTGCTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
349356 AAAAAGTGAA
Statistics
Matches: 216, Mismatches: 16, Indels: 31
0.82 0.06 0.12
Matches are distributed among these distances:
54 32 0.15
55 89 0.41
56 3 0.01
60 24 0.11
61 61 0.28
62 7 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
Found at i:349198 original size:210 final size:212
Alignment explanation
Indices: 348828--349246 Score: 605
Period size: 210 Copynumber: 2.0 Consensus size: 212
348818 GTAGGCTTTA
* * * **
348828 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGG
1 AAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTCAAAAGG
* * * **
348893 AAAAGGCGTCTTGCTTTTTGAGGACTAGAAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGTG
66 AAAAGGCGTCCTACTTTTTGAGGACTAGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
*
348958 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCT
131 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCCTGCTCT
349022 TTAAGGACT-AAAGGGTG
195 TTAAGGACTGAAAGGGTG
* * *
349039 AAAGGAGAAAGTGTCCTGCTCTTTGTGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTCAAAAT
1 AAAGGAGAAAGCGTCCTGCTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTCAAAAG
* ** *
349104 GAGAAGGCGTCCTACTTTTTGAGGACT-GGGAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGC
65 GAAAAGGCGTCCTACTTTTTGAGGACTAGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
349167 ATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTC
130 ATCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTC
*
349231 TTTGAGGACTGAAAGG
194 TTTAAGGACTGAAAGG
349247 TGCCACCAAC
Statistics
Matches: 185, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
209 2 0.01
210 90 0.49
211 42 0.23
212 51 0.28
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (212 bp):
AAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTCAAAAGG
AAAAGGCGTCCTACTTTTTGAGGACTAGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTT
TAAGGACTGAAAGGGTG
Found at i:349263 original size:265 final size:267
Alignment explanation
Indices: 348783--349269 Score: 732
Period size: 265 Copynumber: 1.8 Consensus size: 267
348773 GAAAGCATCA
* *
348783 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCGTCCTGCT
1 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTCAAAAGGAGAAGGCGTCCTACT
* * * *
348848 CTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAAAAGGCGTCTTGCTTTTTG
66 CTTTGAGGACTAAA-GTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCATCCTGCTCTTTG
* *
348913 AGGACTAGAAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGA
126 AGGACTAGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGA
348978 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGTGAAAG
191 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGTGAAAG
349043 GAGAAAGTGTCC
256 GAGAAAGTGTCC
* * * *
349055 TGCTCTTTGTGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTCAAAATGAGAAGGCGTCCTACT
1 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTCAAAAGGAGAAGGCGTCCTACT
*
349120 TTTTGAGGACTGGGAAA-TGCCACCAACTTGTGTGGGCTTT-G-AAAGGCATCCTGCTCTTTGAG
66 CTTTGAGGACT---AAAGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCTCTTTGAG
* *
349182 GACT-GGAAAA-TGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGAAA
128 GACTAGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAA
349245 GGTGCCACCAACTTGTGTGGGCTTT
193 GGTGCCACCAACTTGTGTGGGCTTT
349270 AAAAAGAAAA
Statistics
Matches: 197, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
265 75 0.38
266 5 0.03
267 22 0.11
268 1 0.01
272 69 0.35
273 22 0.11
275 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (267 bp):
TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTCAAAAGGAGAAGGCGTCCTACT
CTTTGAGGACTAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCTCTTTGAGGAC
TAGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGT
GCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGTGAAAGGAGAA
AGTGTCC
Found at i:349281 original size:116 final size:109
Alignment explanation
Indices: 349052--349355 Score: 369
Period size: 116 Copynumber: 2.7 Consensus size: 109
349042 GGAGAAAGTG
* * *
349052 TCCTGCTCTTTGTGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTCAAAATGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTT-----TAAG-AGGCGTCCT
* *
349117 ACTTTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
60 GCTCTTTGAGGACT-GGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
*
349168 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTT
349233 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
66 TGAGGACTGGAAA--TGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCA
* * **
349284 TCCTGCTCTTCGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTTTTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTT
349348 TGAGGACT
66 TGAGGACT
349356 AAAAAGTGAA
Statistics
Matches: 169, Mismatches: 11, Indels: 17
0.86 0.06 0.09
Matches are distributed among these distances:
108 4 0.02
110 44 0.26
111 3 0.02
115 49 0.29
116 69 0.41
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (109 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTT
TGAGGACTGGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:350311 original size:1 final size:1
Alignment explanation
Indices: 350305--350409 Score: 84
Period size: 1 Copynumber: 105.0 Consensus size: 1
350295 AAGTAGGTTC
* * * * * * * * *
350305 TTTTTTTTTCTCTCTTTTTTCTTTGTTTTTTTTTTTTTTTTTGTTTTTGTTTTTGTTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
350370 TTTTGTTTTTTTTGTTTTTGTTTTTGTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
350410 AAAAGAGAAG
Statistics
Matches: 76, Mismatches: 28, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:350337 original size:15 final size:14
Alignment explanation
Indices: 350305--350409 Score: 106
Period size: 15 Copynumber: 7.3 Consensus size: 14
350295 AAGTAGGTTC
* *
350305 TTTTTTTTTCTCTCT
1 TTTTTTTTTGT-TTT
*
350320 TTTTTCTTTGTTTT
1 TTTTTTTTTGTTTT
*
350334 TTTTTTTTTTTTTGT
1 TTTTTTTTTGTTT-T
350349 TTTTGTTTTTGTTTT
1 TTTT-TTTTTGTTTT
350364 TTTTGTTTTTGTTTT
1 TTTT-TTTTTGTTTT
350379 TTTTGTTTTTG--TT
1 TTTT-TTTTTGTTTT
*
350392 TTTGTTTTTGTTTT
1 TTTTTTTTTGTTTT
350406 TTTT
1 TTTT
350410 AAAAGAGAAG
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
12 6 0.08
13 5 0.06
14 18 0.23
15 41 0.53
16 8 0.10
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTGTTTT
Found at i:350343 original size:21 final size:21
Alignment explanation
Indices: 350333--350409 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
350323 TTCTTTGTTT
350333 TTTTTTTTTTTTTTGTTTTTG
1 TTTTTTTTTTTTTTGTTTTTG
*
350354 TTTTTGTTTTTTTTGTTTTTG
1 TTTTTTTTTTTTTTGTTTTTG
*
350375 TTTTTTTTGTTTTTGTTTTTG
1 TTTTTTTTTTTTTTGTTTTTG
*
350396 TTTTTGTTTTTTTT
1 TTTTTTTTTTTTTT
350410 AAAAGAGAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (21 bp):
TTTTTTTTTTTTTTGTTTTTG
Found at i:363075 original size:51 final size:51
Alignment explanation
Indices: 363007--363103 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
362997 AAATAACGGG
* *
363007 GTTGGAGTATCCTCGATTGT-GAGAAATTGGTGTTTT-GAAAATAAAACTGGA
1 GTTGGAATATCCTCGATTGTGGA-AAATTGGTATTTTAG-AAATAAAACTGGA
363058 GTTGGAATAT-CTCCGATTGTGGAAAATTGGTATTTTAGAAATAAAA
1 GTTGGAATATCCT-CGATTGTGGAAAATTGGTATTTTAGAAATAAAA
363104 TCGGGGTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
50 2 0.05
51 36 0.88
52 3 0.07
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (51 bp):
GTTGGAATATCCTCGATTGTGGAAAATTGGTATTTTAGAAATAAAACTGGA
Found at i:363075 original size:122 final size:122
Alignment explanation
Indices: 362843--363183 Score: 359
Period size: 122 Copynumber: 2.7 Consensus size: 122
362833 GGTGTTCTAG
* * *
362843 AAATAAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTAT-AG
1 AAAT-AAAATCGGGGTTGGAGTATCCCCTCG-AAATAACGGGGTTGGAGTATCCC-GATTGTGAG
* * *
362907 AAAATCGGTATTTTGAAAATAAAATCGGAGTTGGAGTATCCTCGATTGTGGAAAATTGG-T
63 -AAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGGAAAATTGGTT
* *
362967 -AATAAAGTTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATTGTGAGA
1 AAATAAAATCGGGGTTGGAGTATCCCCTC-GAAATAACGGGGTTGGAGTATCC-CGATTGTGAGA
363031 AATTGGTGTTTTGAAAATAAAA-CTGGAGTTGGAATAT-CTCCGATTGTGGAAAATTGGTATTTT
64 AATTGGTGTTTTGAAAATAAAATC-GGAGTTGGAATATCCT-CGATTGTGGAAAATTGG----TT
* * *
363094 AGAAATAAAATCGGGGTTGAAGTATCCCCTCGGAAATAACGGGATTGGAGTATCCCCAATTGTGA
1 --AAATAAAATCGGGGTTGGAGTATCCCCTC-GAAATAACGGGGTTGGAGTAT-CCCGATTGTGA
* * * **
363159 AAAACTAGTGTTTTGGGAATAAAAT
62 GAAATTGGTGTTTTGAAAATAAAAT
363184 TGGGGTTAGA
Statistics
Matches: 183, Mismatches: 19, Indels: 23
0.81 0.08 0.10
Matches are distributed among these distances:
121 3 0.02
122 98 0.54
123 7 0.04
127 1 0.01
130 72 0.39
131 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (122 bp):
AAATAAAATCGGGGTTGGAGTATCCCCTCGAAATAACGGGGTTGGAGTATCCCGATTGTGAGAAA
TTGGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGGAAAATTGGTT
Found at i:363324 original size:28 final size:28
Alignment explanation
Indices: 363291--363363 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
363281 ATACAAATCT
363291 GGGGTTGGAGTATCCCCTC-GAAAATAAC
1 GGGGTTGGAGTATCCCCTCAG-AAATAAC
*
363319 GGGGTTGGAGTATCCCCTCAGAAATAAT
1 GGGGTTGGAGTATCCCCTCAGAAATAAC
* *
363347 AGGGTTGAAGTATCCCC
1 GGGGTTGGAGTATCCCC
363364 GAGATGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 40 0.98
29 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCTCAGAAATAAC
Found at i:363352 original size:107 final size:106
Alignment explanation
Indices: 363105--363378 Score: 258
Period size: 106 Copynumber: 2.6 Consensus size: 106
363095 GAAATAAAAT
* * * * * * *
363105 CGGGGTTGAAGTATCCCCTCGGAAATAACGGGATTGGAGTATCCCCAATTGTGAAAAA-CTAGTG
1 CGGGGTTGGAGTATCCCCTCAGAAATAAAGGG-TTGGAGTATCCCCGATTATGAAAAATCTAATA
*
363169 TTTTGGGAATAAAATTGGGGTTAGAGTACCCCTCAGAAATAA
65 TTTTGAGAATAAAATTGGGGTTAGAGTACCCCTCAGAAATAA
* ** * * *
363211 TGGCATTGGAGTAT--CCTCGATGACATAACGGGGTTGGAGTACCCCCGATTATGAAAAATC-AA
1 CGGGGTTGGAGTATCCCCTC-A-GAAATAA-AGGGTTGGAGTATCCCCGATTATGAAAAATCTAA
*
363273 TATTTT-AG-ATACAAATCTGGGGTTGGAGTATCCCCTC-GAAAATAA
63 TATTTTGAGAATA-AAAT-TGGGGTTAGAGTA-CCCCTCAG-AAATAA
* *
363318 CGGGGTTGGAGTATCCCCTCAGAAATAATAGGGTTGAAGTATCCCCGA-GATGAAAAATCTA
1 CGGGGTTGGAGTATCCCCTCAGAAATAA-AGGGTTGGAGTATCCCCGATTATGAAAAATCTA
363379 GAAATTTAAC
Statistics
Matches: 134, Mismatches: 23, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
104 7 0.05
105 5 0.04
106 67 0.50
107 50 0.37
108 1 0.01
109 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (106 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAAAGGGTTGGAGTATCCCCGATTATGAAAAATCTAATAT
TTTGAGAATAAAATTGGGGTTAGAGTACCCCTCAGAAATAA
Found at i:365695 original size:20 final size:19
Alignment explanation
Indices: 365670--365777 Score: 111
Period size: 20 Copynumber: 5.8 Consensus size: 19
365660 AAAAATGCCT
*
365670 AAATGTATCGATACATTGTA
1 AAATGTATCGATACAATG-A
365690 AAATGTATCGATACAATGA
1 AAATGTATCGATACAATGA
*
365709 GTAATGTATCGAT---AT--
1 -AAATGTATCGATACAATGA
365724 -AATGTATCGATACAATGA
1 AAATGTATCGATACAATGA
*
365742 GCAATGTATCGATACAATGCA
1 -AAATGTATCGATACAATG-A
365763 AAATGTATCGATACA
1 AAATGTATCGATACA
365778 TCTGGGTAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 18
0.78 0.03 0.19
Matches are distributed among these distances:
13 11 0.14
16 2 0.03
17 2 0.03
19 1 0.01
20 59 0.78
21 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.30
Consensus pattern (19 bp):
AAATGTATCGATACAATGA
Found at i:365733 original size:33 final size:33
Alignment explanation
Indices: 365691--365760 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
365681 TACATTGTAA
* *
365691 AATGTATCGATACAATGAGTAATGTATCGATAT
1 AATGTATCGATACAATGAGCAATGTATCGATAC
365724 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
365757 AATG
1 AATG
365761 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:365751 original size:53 final size:53
Alignment explanation
Indices: 365671--365775 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 53
365661 AAAATGCCTA
* *
365671 AATGTATCGATACATTGTAAAATGTATCGATACAATG-AGTAATGTATCGATAT
1 AATGTATCGATACAATGTAAAATGTATCGATACAATGCA-AAATGTATCGATAT
*
365724 AATGTATCGATACAATG-AGCAATGTATCGATACAATGCAAAATGTATCGATA
1 AATGTATCGATACAATGTA-AAATGTATCGATACAATGCAAAATGTATCGATA
365776 CATCTGGGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
52 1 0.02
53 45 0.96
54 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (53 bp):
AATGTATCGATACAATGTAAAATGTATCGATACAATGCAAAATGTATCGATAT
Found at i:365759 original size:13 final size:13
Alignment explanation
Indices: 365711--365740 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
365701 TACAATGAGT
*
365711 AATGTATCGATAT
1 AATGTATCGATAC
365724 AATGTATCGATAC
1 AATGTATCGATAC
365737 AATG
1 AATG
365741 AGCAATGTAT
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:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:366007 original size:21 final size:20
Alignment explanation
Indices: 365981--366019 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
365971 GTTGGGACCT
365981 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
366002 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
366020 CACAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:368844 original size:11 final size:11
Alignment explanation
Indices: 368828--368857 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
368818 TCCTTTTATC
368828 AAGTGATACCT
1 AAGTGATACCT
368839 AAGTGATACCT
1 AAGTGATACCT
368850 AAGTGATA
1 AAGTGATA
368858 GCATATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (11 bp):
AAGTGATACCT
Found at i:369097 original size:60 final size:60
Alignment explanation
Indices: 369033--369277 Score: 246
Period size: 60 Copynumber: 4.1 Consensus size: 60
369023 GTAAGGTAAG
* * * *
369033 ATTTGACCGAATACTGTCAAAT-GAAAGAAGACTTGACTGAGTATAGTCAAGCAAATAAAA
1 ATTTGACCGAATACAGTCAAATAG-AAGAAGACTTGACTGAGTACAATCAAGCGAATAAAA
* * * *
369093 ATTTGACCGAATGCAGTCAAATAGAAGAAGACTTGACCT-AGTATAGTCAAGCGAATAAAG
1 ATTTGACCGAATACAGTCAAATAGAAGAAGACTTGA-CTGAGTACAATCAAGCGAATAAAA
** * * * * * *
369153 ATTTGATTGAGTACAATCAAAT-GAAGGCATACTTGATTGAGTACAATTAAGCGAATAAAA
1 ATTTGACCGAATACAGTCAAATAGAA-GAAGACTTGACTGAGTACAATCAAGCGAATAAAA
* * * * *
369213 ATTTGACCGAATATAGTCAAATAGAGGTAGACTT-ACTAAGTACAATCAAGCGAATAAAG
1 ATTTGACCGAATACAGTCAAATAGAAGAAGACTTGACTGAGTACAATCAAGCGAATAAAA
369272 ATTTGA
1 ATTTGA
369278 TTAAGTATAG
Statistics
Matches: 152, Mismatches: 28, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
59 31 0.20
60 116 0.76
61 5 0.03
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (60 bp):
ATTTGACCGAATACAGTCAAATAGAAGAAGACTTGACTGAGTACAATCAAGCGAATAAAA
Found at i:369154 original size:120 final size:119
Alignment explanation
Indices: 369030--369277 Score: 300
Period size: 120 Copynumber: 2.1 Consensus size: 119
369020 TAAGTAAGGT
** * *
369030 AAGATTTGACCGAATACTGTCAAATGAAAGAAGACTTGACTGAGTATAGTCAAGCAAATAAAAAT
1 AAGATTTGACCGAATACAATCAAATGAAAGAAGACTTGACTGAGTACAATCAAGCAAATAAAAAT
* * *
369095 TTGACCGAATGCAGTCAAATAGAAGAAGACTTGACCT-AGTATAGTCAAGCGAATA
66 TTGACCGAATACAGTCAAATAGAAGAAGACTT-A-CTAAGTACAATCAAGCGAATA
** * * * * * * *
369150 AAGATTTGATTGAGTACAATCAAATGAAGGCATACTTGATTGAGTACAATTAAGCGAATAAAAAT
1 AAGATTTGACCGAATACAATCAAATGAAAGAAGACTTGACTGAGTACAATCAAGCAAATAAAAAT
* * *
369215 TTGACCGAATATAGTCAAATAGAGGTAGACTTACTAAGTACAATCAAGCGAATA
66 TTGACCGAATACAGTCAAATAGAAGAAGACTTACTAAGTACAATCAAGCGAATA
369269 AAGATTTGA
1 AAGATTTGA
369278 TTAAGTATAG
Statistics
Matches: 108, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
118 2 0.02
119 26 0.24
120 80 0.74
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (119 bp):
AAGATTTGACCGAATACAATCAAATGAAAGAAGACTTGACTGAGTACAATCAAGCAAATAAAAAT
TTGACCGAATACAGTCAAATAGAAGAAGACTTACTAAGTACAATCAAGCGAATA
Found at i:369318 original size:119 final size:120
Alignment explanation
Indices: 369081--369322 Score: 317
Period size: 119 Copynumber: 2.0 Consensus size: 120
369071 GAGTATAGTC
* * *
369081 AAGCAAATAAAAATTTGACCGAATGCAGTCAAATAGAAGAAGACTTGACCTAGTATAGTCAAGCG
1 AAGCAAATAAAAATTTGACCGAATACAGTCAAATAGAAGAAGACTTGACCTAGTACAATCAAGCG
* * * * * *
369146 AATAAAGATTTGATTGAGTACAATCAAATGAAGGCATACTTGATTGAGTACAATT
66 AATAAAGATTTGATTAAGTACAATCAAATAAAGGCAGACTTGACTAAGCACAATT
* * * *
369201 AAGCGAATAAAAATTTGACCGAATATAGTCAAATAGAGGTAGACTT-A-CTAAGTACAATCAAGC
1 AAGCAAATAAAAATTTGACCGAATACAGTCAAATAGAAGAAGACTTGACCT-AGTACAATCAAGC
* * *
369264 GAATAAAGATTTGATTAAGTATAGTCAAATAAAGGCAGACTTGCCTAAGCACAATT
65 GAATAAAGATTTGATTAAGTACAATCAAATAAAGGCAGACTTGACTAAGCACAATT
369320 AAG
1 AAG
369323 TAAGAGTGAA
Statistics
Matches: 105, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
118 2 0.02
119 62 0.59
120 41 0.39
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (120 bp):
AAGCAAATAAAAATTTGACCGAATACAGTCAAATAGAAGAAGACTTGACCTAGTACAATCAAGCG
AATAAAGATTTGATTAAGTACAATCAAATAAAGGCAGACTTGACTAAGCACAATT
Found at i:369394 original size:45 final size:45
Alignment explanation
Indices: 369325--370656 Score: 409
Period size: 45 Copynumber: 30.0 Consensus size: 45
369315 CAATTAAGTA
*
369325 AGAGTGA-ACAGAATTTGACTAGGGCAACACCGATACAATCAAATG
1 AGAGTGAGA-AGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * * *
369370 AGAGTGAAAAAAGTTTAACCAGGGCAACATCGATACAATCAAA-C
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * * * **
369414 AAATGTAAGAAAAGCTTAACTAGGTCAACACCGATATC-ATCAAAAA
1 AGA-GTGAGAAGAGTTTGACTAGGGCAACACCGATA-CAATCAAATG
* *
369460 ATG-GTGAGAAGAGTTTGACTAGGGTAACACCGATACAATCAAAAG
1 A-GAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* ** * * ** *
369505 AAAGTGAGAAGAGTTTGACTAGGTTAACACTGATATAGCCAAA-C
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * *
369549 AAAGGTGAAAAGAGTTTAACTA-GGCAACACCAATACAATCAAATG
1 AGA-GTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * ** * * *
369594 A-AGGTGAGAAAAGTTTGACCAGGTTAACATCGATACAATTAAACG
1 AGA-GTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* *
369639 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAGTCAAATAA
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAAT-G
* * *** * ** * ** **
369685 ATAG-GAGAAGAGTTTGACCA-ATTAATACTAATATAGCCAAACA
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * * * *
369728 AAAGTGAGAAGAATTTTGACCAGGGCAATATCAATGCAATCAAATG
1 AGAGTGAGAAG-AGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * * * * *
369774 AGAGTCAGAGGAGATT-AATCA--GCAACATCGATATAGTTAAATG
1 AGAGTGAGAAGAGTTTGACT-AGGGCAACACCGATACAATCAAATG
* * *
369817 A-AGGTGAGAAGAGTATGACTAGGGCAACATCGATACAGTCAAATG
1 AGA-GTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* ** ** * *
369862 A-AGGTGAGAAAAGTTTGA-TGAGGTTAATCA-AAAGTGAGAAT-AATTTG
1 AGA-GTGAGAAGAGTTTGACT-AGGGCAA-CACCGA-T-ACAATCAA-ATG
* * * * * *
369909 ACTAG-G-GCA-A-TATCGA-T---GC-A-ATC---A-AATGAGAGTG
1 A-GAGTGAGAAGAGT-TTGACTAGGGCAACACCGATACAATCA-AATG
* ** * * *
369943 AAAG-GAGATTA--AT--C-AGGGCAACACCGATAGAATTAAAT-
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* ** *
369981 AAAGGTGAGAAGAGTTTGACTAGGGCAACATTGATACAGTCAAATG
1 AGA-GTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * ** *
370027 A-AGGTGAGAAAAGTTTGACGAGGTTAACATCGATACAATCAAATG
1 AGA-GTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
*
370072 AGAGTGAGAGGAGTTTGACTAGGGCAACACCGATACAGA-CAAAT-
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACA-ATCAAATG
* * * *** * * * * * **
370116 AAAGGTGAGAAAAGTTTGACCA-ATTAATACCAATATAGTCGAACA
1 AGA-GTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * * * *
370161 AAAGTGAGAAGAATTTGACCAGGGCAATATCGATGCAATCAAATA
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * * * *
370206 AGAGTGAGAGGAGATT-AATCAGGGCAACATCAATACAGTTAAAT-
1 AGAGTGAGAAGAGTTTGACT-AGGGCAACACCGATACAATCAAATG
* * * * **
370250 AAAGTTGAGAAGAGTTTGACTAGGGCAACATCGATATAGTCAAACA
1 AGAG-TGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * ** *
370296 AGGGTAAAAAGAGTTTGACCAGGTTAACATCGATACAATCAAATG
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * *
370341 AGAGTGAGAGGAGTTTGATTAGGGCAACACGGATACAATCAAAT-
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * *** * * * * **
370385 AAAGGTGAGAAGAGTTTGACCA-ATTAATACCAATATAGTCAAACA
1 AGA-GTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * * * *
370430 AAAGTGAGAAGAATTTGACCAGGGCAATATCGATGCAATCAAATA
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * * * * * *
370475 AGAGTGAGAGGAGATTAATTAGGGCAATATCAATACAGTTAAATG
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * **
370520 A-AGGTGAGAAGTGTTTGACTAGGGCAACATCGATATAGTCAAACA
1 AGA-GTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * ** * *
370565 AGGGTAAAAAGAGTTTGACCAGGTTAACATCGATACAATCAAATA
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
* * * * *
370610 AGAGTGAAAAGAGTTTGACCAAGGCAACAACGATACAGTCAAATG
1 AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
370655 AG
1 AG
370657 GTATCAAAGA
Statistics
Matches: 947, Mismatches: 274, Indels: 132
0.70 0.20 0.10
Matches are distributed among these distances:
33 6 0.01
34 8 0.01
35 3 0.00
36 2 0.00
38 4 0.00
39 4 0.00
40 10 0.01
42 2 0.00
43 31 0.03
44 128 0.14
45 699 0.74
46 41 0.04
47 7 0.01
48 1 0.00
49 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (45 bp):
AGAGTGAGAAGAGTTTGACTAGGGCAACACCGATACAATCAAATG
Found at i:370026 original size:165 final size:164
Alignment explanation
Indices: 369726--370053 Score: 523
Period size: 165 Copynumber: 2.0 Consensus size: 164
369716 TATAGCCAAA
*
369726 CAAAAGTGAGAAGAATTTTGACCAGGGCAATATCAATGCAATCAAATGAGAGTCAGAGGAGATTA
1 CAAAAGTGAGAAGAATTTTGACCAGGGCAATATCAATGCAATCAAATGAGAGTCAAAGGAGATTA
* * * *
369791 ATCAGCAACATCGATATAGTTAAATGAAGGTGAGAAGAGTATGACTAGGGCAACATCGATACAGT
66 ATCAGCAACACCGATAGAATTAAATAAAGGTGAGAAGAGTATGACTAGGGCAACATCGATACAGT
*
369856 CAAATGAAGGTGAGAAAAGTTTGATGAGGTTAAT
131 CAAATGAAGGTGAGAAAAGTTTGACGAGGTTAAT
* * * *
369890 CAAAAGTGAGAATAA-TTTGACTAGGGCAATATCGATGCAATCAAATGAGAGTGAAAGGAGATTA
1 CAAAAGTGAGAAGAATTTTGACCAGGGCAATATCAATGCAATCAAATGAGAGTCAAAGGAGATTA
* *
369954 ATCAGGGCAACACCGATAGAATTAAATAAAGGTGAGAAGAGTTTGACTAGGGCAACATTGATACA
66 ATCA--GCAACACCGATAGAATTAAATAAAGGTGAGAAGAGTATGACTAGGGCAACATCGATACA
370019 GTCAAATGAAGGTGAGAAAAGTTTGACGAGGTTAA
129 GTCAAATGAAGGTGAGAAAAGTTTGACGAGGTTAA
370054 CATCGATACA
Statistics
Matches: 150, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
163 49 0.33
164 14 0.09
165 87 0.58
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.22
Consensus pattern (164 bp):
CAAAAGTGAGAAGAATTTTGACCAGGGCAATATCAATGCAATCAAATGAGAGTCAAAGGAGATTA
ATCAGCAACACCGATAGAATTAAATAAAGGTGAGAAGAGTATGACTAGGGCAACATCGATACAGT
CAAATGAAGGTGAGAAAAGTTTGACGAGGTTAAT
Found at i:370369 original size:269 final size:269
Alignment explanation
Indices: 369890--370653 Score: 1219
Period size: 269 Copynumber: 2.8 Consensus size: 269
369880 TGAGGTTAAT
* * * *
369890 CAAAAGTGAGAATAATTTGACTAGGGCAATATCGATGCAATCAAATGAGAGTGAAAGGAGATTAA
1 CAAAAGTGAGAAGAATTTGACCAGGGCAATATCGATGCAATCAAATAAGAGTGAGAGGAGATTAA
* * * * * *
369955 TCAGGGCAACACCGATAGAATTAAATAAAGGTGAGAAGAGTTTGACTAGGGCAACATTGATACAG
66 TCAGGGCAACATCAATACAGTTAAATAAAGGTGAGAAGAGTTTGACTAGGGCAACATCGATATAG
* * *
370020 TCAAATGAA-GGTGAGAAA-AGTTTGACGAGGTTAACATCGATACAATCAAATGAGAGTGAGAGG
131 TCAAA-CAAGGGT-AAAAAGAGTTTGACCAGGTTAACATCGATACAATCAAATGAGAGTGAGAGG
370083 AGTTTGACTAGGGCAACACCGATACAGACAAATAAAGGTGAGAAAAGTTTGACCAATTAATACCA
194 AGTTTGACTAGGGCAACACCGATACAGACAAATAAAGGTGAGAAAAGTTTGACCAATTAATACCA
*
370148 ATATAGTCGAA
259 ATATAGTCAAA
370159 CAAAAGTGAGAAGAATTTGACCAGGGCAATATCGATGCAATCAAATAAGAGTGAGAGGAGATTAA
1 CAAAAGTGAGAAGAATTTGACCAGGGCAATATCGATGCAATCAAATAAGAGTGAGAGGAGATTAA
*
370224 TCAGGGCAACATCAATACAGTTAAATAAAGTTGAGAAGAGTTTGACTAGGGCAACATCGATATAG
66 TCAGGGCAACATCAATACAGTTAAATAAAGGTGAGAAGAGTTTGACTAGGGCAACATCGATATAG
370289 TCAAACAAGGGTAAAAAGAGTTTGACCAGGTTAACATCGATACAATCAAATGAGAGTGAGAGGAG
131 TCAAACAAGGGTAAAAAGAGTTTGACCAGGTTAACATCGATACAATCAAATGAGAGTGAGAGGAG
* * *
370354 TTTGATTAGGGCAACACGGATACA-ATCAAATAAAGGTGAGAAGAGTTTGACCAATTAATACCAA
196 TTTGACTAGGGCAACACCGATACAGA-CAAATAAAGGTGAGAAAAGTTTGACCAATTAATACCAA
370418 TATAGTCAAA
260 TATAGTCAAA
370428 CAAAAGTGAGAAGAATTTGACCAGGGCAATATCGATGCAATCAAATAAGAGTGAGAGGAGATTAA
1 CAAAAGTGAGAAGAATTTGACCAGGGCAATATCGATGCAATCAAATAAGAGTGAGAGGAGATTAA
* * * *
370493 TTAGGGCAATATCAATACAGTTAAATGAAGGTGAGAAGTGTTTGACTAGGGCAACATCGATATAG
66 TCAGGGCAACATCAATACAGTTAAATAAAGGTGAGAAGAGTTTGACTAGGGCAACATCGATATAG
* * *
370558 TCAAACAAGGGTAAAAAGAGTTTGACCAGGTTAACATCGATACAATCAAATAAGAGTGAAAAGAG
131 TCAAACAAGGGTAAAAAGAGTTTGACCAGGTTAACATCGATACAATCAAATGAGAGTGAGAGGAG
* * * *
370623 TTTGACCAAGGCAACAACGATACAGTCAAAT
196 TTTGACTAGGGCAACACCGATACAGACAAAT
370654 GAGGTATCAA
Statistics
Matches: 459, Mismatches: 32, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
268 7 0.02
269 452 0.98
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.21
Consensus pattern (269 bp):
CAAAAGTGAGAAGAATTTGACCAGGGCAATATCGATGCAATCAAATAAGAGTGAGAGGAGATTAA
TCAGGGCAACATCAATACAGTTAAATAAAGGTGAGAAGAGTTTGACTAGGGCAACATCGATATAG
TCAAACAAGGGTAAAAAGAGTTTGACCAGGTTAACATCGATACAATCAAATGAGAGTGAGAGGAG
TTTGACTAGGGCAACACCGATACAGACAAATAAAGGTGAGAAAAGTTTGACCAATTAATACCAAT
ATAGTCAAA
Found at i:370666 original size:90 final size:89
Alignment explanation
Indices: 369894--370658 Score: 565
Period size: 90 Copynumber: 8.5 Consensus size: 89
369884 GTTAATCAAA
* * * * * * * * * *
369894 AGTGAGAATAATTTGACTAGGGCAATATCGATGCAATCAAATGAGAGTGAAAGGAGATTAATCAG
1 AGTGAGAAGAGTTTGACTAGGGCAACATCGATACAGTCAAATAAG-GTGAAAAGAGTTTGACCAG
** * * * *
369959 GGCAACACCGATAGAATTAAATAA-
65 GTTAACATCAATACAATCAAATAAG
* *
369983 AGGTGAGAAGAGTTTGACTAGGGCAACATTGATACAGTCAAATGAAGGTGAGAAA-AGTTTGACG
1 A-GTGAGAAGAGTTTGACTAGGGCAACATCGATACAGTCAAAT-AAGGTGA-AAAGAGTTTGACC
* *
370047 AGGTTAACATCGATACAATCAAATGAG
63 AGGTTAACATCAATACAATCAAATAAG
* * *
370074 AGTGAGAGGAGTTTGACTAGGGCAACACCGATACAGACAAATAAAGGTGAGAAA-AGTTTGACCA
1 AGTGAGAAGAGTTTGACTAGGGCAACATCGATACAGTCAAAT-AAGGTGA-AAAGAGTTTGACCA
* * * * * * * *
370138 -ATTAATACCAATATAGTCGAACAAA
64 GGTTAACATCAATACAATCAAATAAG
* * * * * * * * * *
370163 AGTGAGAAGAATTTGACCAGGGCAATATCGATGCAATCAAATAAGAGTGAGAGGAGATTAATCAG
1 AGTGAGAAGAGTTTGACTAGGGCAACATCGATACAGTCAAATAAG-GTGAAAAGAGTTTGACCAG
** * *
370228 GGCAACATCAATACAGTTAAATAA-
65 GTTAACATCAATACAATCAAATAAG
* * *
370252 AGTTGAGAAGAGTTTGACTAGGGCAACATCGATATAGTCAAACAAGGGTAAAAAGAGTTTGACCA
1 AG-TGAGAAGAGTTTGACTAGGGCAACATCGATACAGTCAAATAA-GGTGAAAAGAGTTTGACCA
* *
370317 GGTTAACATCGATACAATCAAATGAG
64 GGTTAACATCAATACAATCAAATAAG
* * * *
370343 AGTGAGAGGAGTTTGATTAGGGCAACA-CGGATACAATCAAATAAAGGTGAGAAGAGTTTGACCA
1 AGTGAGAAGAGTTTGACTAGGGCAACATC-GATACAGTCAAAT-AAGGTGAAAAGAGTTTGACCA
* * * * * * *
370407 -ATTAATACCAATATAGTCAAACAAA
64 GGTTAACATCAATACAATCAAATAAG
* * * * * * * * * **
370432 AGTGAGAAGAATTTGACCAGGGCAATATCGATGCAATCAAATAAGAGTGAGAGGAGATTAATTAG
1 AGTGAGAAGAGTTTGACTAGGGCAACATCGATACAGTCAAATAAG-GTGAAAAGAGTTTGACCAG
** * * *
370497 GGCAATATCAATACAGTTAAATGAAG
65 GTTAACATCAATACAATCAAAT-AAG
* * * *
370523 -GTGAGAAGTGTTTGACTAGGGCAACATCGATATAGTCAAACAAGGGTAAAAAGAGTTTGACCAG
1 AGTGAGAAGAGTTTGACTAGGGCAACATCGATACAGTCAAATAA-GGTGAAAAGAGTTTGACCAG
*
370587 GTTAACATCGATACAATCAAATAAG
65 GTTAACATCAATACAATCAAATAAG
* * * * *
370612 AGTGAAAAGAGTTTGACCAAGGCAACAACGATACAGTCAAATGAGGT
1 AGTGAGAAGAGTTTGACTAGGGCAACATCGATACAGTCAAATAAGGT
370659 ATCAAAGAAG
Statistics
Matches: 519, Mismatches: 139, Indels: 36
0.75 0.20 0.05
Matches are distributed among these distances:
88 7 0.01
89 133 0.26
90 366 0.71
91 13 0.03
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (89 bp):
AGTGAGAAGAGTTTGACTAGGGCAACATCGATACAGTCAAATAAGGTGAAAAGAGTTTGACCAGG
TTAACATCAATACAATCAAATAAG
Found at i:370981 original size:16 final size:17
Alignment explanation
Indices: 370952--370986 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
370942 TTCTTCATGA
370952 TTTCATTTCATCATTTTT
1 TTTCATTT-ATCATTTTT
370970 TTTCATTT-TCATTTTT
1 TTTCATTTATCATTTTT
370986 T
1 T
370987 CCTTTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
18 8 0.47
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCATTTATCATTTTT
Found at i:371347 original size:92 final size:92
Alignment explanation
Indices: 371234--371557 Score: 373
Period size: 92 Copynumber: 3.5 Consensus size: 92
371224 GTGTGACTGC
* * *
371234 ATACCATCTAATGGCTTAAAGAAAGAGATATGATTGGGAATGAGTGGTTGGGATATCCTTGCCCT
1 ATACCATCTAGTGGCTAAAAGAAAGGGATATGATTGGGAATGAGTGGTTGGGATATCCTTGCCCT
* *
371299 AGGGAAATTAGGTTTTATGATGCATCA
66 AAGGAAATTAGGTTTTGTGATGCATCA
* * * * *
371326 ATACCATCTTGTGGCTAAAAGAGAGGGATATGA-TGGGAATAAGTGGTCGGGATATCCTTGCCCC
1 ATACCATCTAGTGGCTAAAAGAAAGGGATATGATTGGGAATGAGTGGTTGGGATATCCTTGCCCT
* *
371390 AAGGAAATCAAGTTTTGTGATGCATCA
66 AAGGAAATTAGGTTTTGTGATGCATCA
* ** * * * * * * *
371417 ATACCATCTAGTGGTTGGATGGAGGGGATATGATTGGGAATGTGTGGTTGGGACATCTTTGCCTT
1 ATACCATCTAGTGGCTAAAAGAAAGGGATATGATTGGGAATGAGTGGTTGGGATATCCTTGCCCT
*
371482 AAGGAAATTAGGCTTTGTGATGCATCA
66 AAGGAAATTAGGTTTTGTGATGCATCA
* * * * *
371509 ATACCATCTAGTGGTTAGATGAAGGGGATATGATTAGGAAT-ATGTGGTT
1 ATACCATCTAGTGGCTAAAAGAAAGGGATATGATTGGGAATGA-GTGGTT
371558 TCCATAATTT
Statistics
Matches: 196, Mismatches: 34, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
91 76 0.39
92 120 0.61
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (92 bp):
ATACCATCTAGTGGCTAAAAGAAAGGGATATGATTGGGAATGAGTGGTTGGGATATCCTTGCCCT
AAGGAAATTAGGTTTTGTGATGCATCA
Found at i:372610 original size:112 final size:112
Alignment explanation
Indices: 372456--372667 Score: 284
Period size: 112 Copynumber: 1.9 Consensus size: 112
372446 TGGTTACCTT
* * *
372456 AAAATTTTCAAAACTGATTGGGTACATGCCCATTTTCCTAGGCACAAATGGATCAAAATTTATAA
1 AAAAATTTCAAAACTCATTGGGTACATGCCCATTTTCCTAGGCACAAATGGATCAAAATGTATAA
*
372521 AATATGAATTT-TTCAAAAATCAGACAAATTTGATATTGTTGGGCTC
66 AATATGAATTTCTTCAAAAATCAGACAAACTTGATATTGTTGGGCTC
** ***
372567 AAAAATTTCAAAACTCA-TGGGATACATGCCCTATTTTCCTAGGCATGAATGGATTGGAATGTAT
1 AAAAATTTCAAAACTCATTGGG-TACATGCCC-ATTTTCCTAGGCACAAATGGATCAAAATGTAT
** *
372631 AAAATATGAATTTCTTTGAAAATCAGATAAACTTGAT
64 AAAATATGAATTTCTTCAAAAATCAGACAAACTTGAT
372668 GTTCTTCCAA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
110 4 0.05
111 24 0.28
112 39 0.45
113 19 0.22
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (112 bp):
AAAAATTTCAAAACTCATTGGGTACATGCCCATTTTCCTAGGCACAAATGGATCAAAATGTATAA
AATATGAATTTCTTCAAAAATCAGACAAACTTGATATTGTTGGGCTC
Found at i:372964 original size:17 final size:17
Alignment explanation
Indices: 372924--372964 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
372914 ATGCTAGAGC
*
372924 TTCATTCTTTCCATCTT
1 TTCATTTTTTCCATCTT
* *
372941 TTCATTTTTTCCTTTTT
1 TTCATTTTTTCCATCTT
372958 TTCATTT
1 TTCATTT
372965 CAACATGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.68
Consensus pattern (17 bp):
TTCATTTTTTCCATCTT
Found at i:373657 original size:15 final size:15
Alignment explanation
Indices: 373637--373675 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
373627 TGCAACTAAA
*
373637 TTTTTTTTCTTTCTT
1 TTTTTTTTCGTTCTT
*
373652 TTTTTTTTGGTTCTT
1 TTTTTTTTCGTTCTT
373667 TTGTTTTTT
1 TT-TTTTTT
373676 TGAAAATCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (15 bp):
TTTTTTTTCGTTCTT
Found at i:378629 original size:148 final size:147
Alignment explanation
Indices: 378328--378631 Score: 319
Period size: 148 Copynumber: 2.0 Consensus size: 147
378318 AGGTTTCGAG
* * *
378328 GAAAAATACTAAAAGTTCCTAAAGGTCTACCATCAATTTAGAAATGCCCAATGATCTTAGAGGAC
1 GAAAAATACTAAAAGTTCCTAAAGGTCTACCATCAATTTAGAAATGCCCAATGATCCTAAAAGAC
* *** * ***
378393 TTGAAAAGGATAAAAACAAACTTACTCCTAATTCATACCTTCAGATTAGAGTGGACCCAGTAGTT
66 TTGAAAAGGATAAAAACAAACTCACTCCTAATTCATACCTTCAGATTAGAGCAAACCCAATACAA
*
378458 TTATAAGACTAGGTTTA
131 ATATAAGACTAGGTTTA
* * * * **
378475 GGAAAAATGCTAAAAGGTT-CTTAAGGTTTACCATCAATTTAGAAGTGCCCGGTGATCCTAAAAG
1 -GAAAAATACTAAAA-GTTCCTAAAGGTCTACCATCAATTTAGAAATGCCCAATGATCCTAAAAG
*
378539 ACTTGAAAAGGATAAAAACAAA-TCCACTCCTAATTCATACCTTCGGCA-TAGAAGCAAACCCAA
64 ACTTGAAAAGGATAAAAACAAACT-CACTCCTAATTCATACCTTCAG-ATTAG-AGCAAACCCAA
* *
378602 TGACAAAT-TAGGACTTGGTTCTA
126 T-ACAAATATAAGACTAGGTT-TA
*
378625 AAAAAAT
1 GAAAAAT
378632 TACAAAAATA
Statistics
Matches: 128, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
147 1 0.01
148 95 0.74
149 28 0.22
150 4 0.03
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (147 bp):
GAAAAATACTAAAAGTTCCTAAAGGTCTACCATCAATTTAGAAATGCCCAATGATCCTAAAAGAC
TTGAAAAGGATAAAAACAAACTCACTCCTAATTCATACCTTCAGATTAGAGCAAACCCAATACAA
ATATAAGACTAGGTTTA
Found at i:379326 original size:139 final size:142
Alignment explanation
Indices: 379074--379359 Score: 339
Period size: 139 Copynumber: 2.0 Consensus size: 142
379064 ATAATATAAC
* * ***
379074 ATTTAATTTTTTAATTTTTGAAAATCTCATTTCGTACCTTAATGGAGAATAAAAAAGATACAAAA
1 ATTTAATTTTTTAAGTTTTGAAAATCTCATTTCGCACCTTAAAAAAGAATAAAAAAGATACAAAA
* * *
379139 AGTTGTAAAGATTTCTATACCCCTACGGAAAACCATAAGAATATTAGAAATATTGAAAAATTAAA
66 AGTTGTAAAGATTTCTATAACCCTACGGAAAACCATAAGAATACTAGAAATACTGAAAAATTAAA
*
379204 ATAAAAATTTTT
131 ATAAAAATCTTT
**
379216 ATTTAA-TTTTTAAGTTTTGAAAAAT-TCATTTCGCACCTTAAAAAAGAA-CCAAAAGATACAAA
1 ATTTAATTTTTTAAGTTTTG-AAAATCTCATTTCGCACCTTAAAAAAGAATAAAAAAGATACAAA
* * * * * *
379278 AA-TTTTGAAGATGTT-TATAACCTTATGGAAAACCATAGGAATACTAGAAATCCTGAAAAATTA
65 AAGTTGTAAAGAT-TTCTATAACCCTACGGAAAACCATAAGAATACTAGAAATACTGAAAAATTA
** *
379341 TGATAATAATCTTT
129 AAATAAAAATCTTT
379355 ATTTA
1 ATTTA
379360 GTGATGAAAT
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
139 64 0.52
140 16 0.13
141 31 0.25
142 11 0.09
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (142 bp):
ATTTAATTTTTTAAGTTTTGAAAATCTCATTTCGCACCTTAAAAAAGAATAAAAAAGATACAAAA
AGTTGTAAAGATTTCTATAACCCTACGGAAAACCATAAGAATACTAGAAATACTGAAAAATTAAA
ATAAAAATCTTT
Found at i:381532 original size:169 final size:167
Alignment explanation
Indices: 381228--381738 Score: 635
Period size: 167 Copynumber: 3.1 Consensus size: 167
381218 TTAAAAAGTC
*
381228 AAAATTCATCAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
* * * * *
381293 TGATCTTGTGAATTTTTTTCCTTAAAA-TTCTTTTATTTTCAAAATACAAAGTTTTCTACTCCGT
66 TGAT-TTTTGAA-TTTTTT-CTTAAAATTTC-TCTATTTTCAAAAAACAGAGTTTTCTACTTCGT
* * *
381357 -AAATTTTTTTGGGGGAGATTTTTGTGGGTTTTTAATTTTT
127 AAAATTTTTTTGGGGGAGATTTTTCTTGGTTTATAATTTTT
* * * *
381397 AAAATCCATCAAATATTATTATCTATTTCATATTATATCAGTTTTCAAAAATTCATTCATTGTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
381462 TGAGTTTTTGAATTTGTTTCTTAAAATTTCTCTATTTTCAAAAAACAGAGTTTTCTACTTCGTAA
66 TGA-TTTTTGAATTT-TTTCTTAAAATTTCTCTATTTTCAAAAAACAGAGTTTTCTACTTCGTAA
* * * *
381527 AA-TTTTTT-AGGGAGATTTTTCTTAGTTTCTAATTTTC
129 AATTTTTTTGGGGGAGATTTTTCTTGGTTTATAATTTTT
* *
381564 AAAATTCATCAAATATTATTATTTATTTCAAATTAAATCAATTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
* * * * *
381629 TGAATTTTT-TATTTTTTCTTAAAATTTTTCTGTTTTTGAAAAATC-GAGTTTTCTAC-TC-TAT
66 TG-ATTTTTGAATTTTTTCTTAAAATTTCTCT-ATTTTCAAAAAACAGAGTTTTCTACTTCGTA-
* * *
381690 AAATATTTTTGGGAG-GATTTTTCTTGGTTTAAAATTTTT
128 AAATTTTTTTGGGGGAGATTTTTCTTGGTTTATAATTTTT
381729 AAAATTCATC
1 AAAATTCATC
381739 CAATTTTGTA
Statistics
Matches: 299, Mismatches: 34, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
163 2 0.01
164 5 0.02
165 62 0.21
166 16 0.05
167 89 0.30
168 46 0.15
169 78 0.26
170 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (167 bp):
AAAATTCATCAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
TGATTTTTGAATTTTTTCTTAAAATTTCTCTATTTTCAAAAAACAGAGTTTTCTACTTCGTAAAA
TTTTTTTGGGGGAGATTTTTCTTGGTTTATAATTTTT
Found at i:381795 original size:165 final size:167
Alignment explanation
Indices: 381226--381801 Score: 510
Period size: 165 Copynumber: 3.4 Consensus size: 167
381216 TTTTAAAAAG
* * * * * * *
381226 TCAAAATTCATCAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTT
1 TCAAAATTCATCAAATATTATAAGTAAATTCAAATTAAATCAATTTTCAAAAATTCATTCATTTT
* * * * * *
381291 CATG-ATCTTGTGAATTTTTTTCCTTAAAA-TTCTTTTATTTTCAAAATACAAAGTTTTCTACTC
66 CATGAAT-TTTTGAATTTGTTT-CTTAAAATTTC-TCTATTTTCAAAAAACAGAGTTTTCTACTT
* * * ** **
381354 CGTAAATTTTTTTGGGGGAGATTTTTGTGGGTTTTTAATTT
128 CGTAAAATTTTTT-AGGGAGATTTTTCTTAGTTTAAAATTT
* * * * * * * * *
381395 TTAAAATCCATCAAATATTATTA-TCTATTTCATATTATATCAGTTTTCAAAAATTCATTCATTG
1 TCAAAATTCATCAAATATTATAAGT-AAATTCAAATTAAATCAATTTTCAAAAATTCATTCATTT
*
381459 TCATGAGTTTTTGAATTTGTTTCTTAAAATTTCTCTATTTTCAAAAAACAGAGTTTTCTACTTCG
65 TCATGAATTTTTGAATTTGTTTCTTAAAATTTCTCTATTTTCAAAAAACAGAGTTTTCTACTTCG
**
381524 TAAAATTTTTTAGGGAGATTTTTCTTAGTTTCTAATTT
130 TAAAATTTTTTAGGGAGATTTTTCTTAGTTTAAAATTT
* * * *
381562 TCAAAATTCATCAAATATTATTATTTATTTCAAATTAAATCAATTTTCAAAAATTCATTCATTTT
1 TCAAAATTCATCAAATATTATAAGTAAATTCAAATTAAATCAATTTTCAAAAATTCATTCATTTT
* * * * *
381627 CATGAATTTTT-TATTT-TTTCTTAAAATTTTTCTGTTTTTGAAAAATC-GAGTTTTCTAC-TC-
66 CATGAATTTTTGAATTTGTTTCTTAAAATTTCTCT-ATTTTCAAAAAACAGAGTTTTCTACTTCG
*
381687 TATAAATATTTTT-GGGAGGATTTTTCTTGGTTTAAAATTT
130 TA-AAAT-TTTTTAGGGA-GATTTTTCTTAGTTTAAAATTT
* * * * * * * *
381727 TTAAAATTCATCCAATTTTGTAAGTAAATT-AACATTAAATTATTTTTGAAGAATTCAAATT-A-
1 TCAAAATTCATCAAATATTATAAGTAAATTCAA-ATTAAATCAATTTTCAAAAATTC--ATTCAT
381789 TTTCATGAATTTT
63 TTTCATGAATTTT
381802 GGTTTTTTTG
Statistics
Matches: 351, Mismatches: 45, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
163 2 0.01
164 12 0.03
165 105 0.30
166 15 0.04
167 92 0.26
168 47 0.13
169 77 0.22
170 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.49
Consensus pattern (167 bp):
TCAAAATTCATCAAATATTATAAGTAAATTCAAATTAAATCAATTTTCAAAAATTCATTCATTTT
CATGAATTTTTGAATTTGTTTCTTAAAATTTCTCTATTTTCAAAAAACAGAGTTTTCTACTTCGT
AAAATTTTTTAGGGAGATTTTTCTTAGTTTAAAATTT
Found at i:382275 original size:23 final size:24
Alignment explanation
Indices: 382246--382295 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
382236 GTTTAGCTGA
*
382246 AAAGAAAGGGAGAGAAAAA-AG-AG
1 AAAGAAA-GAAGAGAAAAATAGAAG
382269 AAAGAAAGAAGAGAAAAATAGAAG
1 AAAGAAAGAAGAGAAAAATAGAAG
382293 AAA
1 AAA
382296 ATAGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
23 9 0.38
24 5 0.21
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (24 bp):
AAAGAAAGAAGAGAAAAATAGAAG
Found at i:382276 original size:10 final size:9
Alignment explanation
Indices: 382256--382316 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 9
382246 AAAGAAAGGG
382256 AGAGAAAAA
1 AGAGAAAAA
382265 AGAGAAAGAA
1 AGAGAAA-AA
382275 AGAAGAGAAAA
1 AG-AGA-AAAA
*
382286 ATAGAAGAAA
1 AGAGAA-AAA
*
382296 ATAGAAAAA
1 AGAGAAAAA
382305 AGTAGAGAAAA
1 AG-AGA-AAAA
382316 A
1 A
382317 TAAGCTAGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
9 12 0.27
10 19 0.43
11 11 0.25
12 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (9 bp):
AGAGAAAAA
Found at i:382313 original size:30 final size:30
Alignment explanation
Indices: 382258--382318 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
382248 AGAAAGGGAG
382258 AGAAAAAAGAGAAAGAAAGAAGAGAAAAAT
1 AGAAAAAAGAGAAAGAAAGAAGAGAAAAAT
* *
382288 AGAAGAAAATAGAAA-AAAGTAGAGAAAAAT
1 AGAA-AAAAGAGAAAGAAAGAAGAGAAAAAT
382318 A
1 A
382319 AGCTAGTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (30 bp):
AGAAAAAAGAGAAAGAAAGAAGAGAAAAAT
Found at i:383415 original size:163 final size:164
Alignment explanation
Indices: 383087--383498 Score: 469
Period size: 163 Copynumber: 2.5 Consensus size: 164
383077 TATTTCCATA
*
383087 TTAATCATTTTTTTAATCTTTTATATTCCTAT-GA-CCATCCGTAGGGGTATAAAAGATTTCAAA
1 TTAATCATTTTTTTAATCTTTTATATTCCTATGGAGGC--CCGTAGGGGTATAAAAGATTTCAAA
* * * * *
383150 AACTTTTCGTATCTCTTTAGGCTTCCATTAAGGTACAAAATGGTATTTTCAGAAATAAATTAAAT
64 AACTTTTCGTATCTTTTTAGGCATCCATTAAGGTACAAAATGGTATTTACAAAAATAAATAAAAT
*
383215 TAAACTAAATTAACACTTTCATAACCAAGACAAATT
129 TAAACTAAACTAACACTTTCATAACCAAGACAAATT
*
383251 TTAATCA-ATTTTTAATCTTTTATATTCCTATGGAGGCCCGTAGGGGTATAAAAGATTTCAAAAA
1 TTAATCATTTTTTTAATCTTTTATATTCCTATGGAGGCCCGTAGGGGTATAAAAGATTTCAAAAA
* * * **
383315 CTTTTCGTTTCTTTTTGGGCATCCATTAAGTTATGAAATGGTATTTACAAAAATAAATAAAATTA
66 CTTTTCGTATCTTTTTAGGCATCCATTAAGGTACAAAATGGTATTTACAAAAATAAATAAAATTA
* * * * ** *
383380 AATTAGACTAATACTTTCGTAATTGAA-ATAAATT
131 AACTAAACTAACACTTTCATAA-CCAAGACAAATT
* * *
383414 TTAATCATTTTTTTGTTAATC-TTTATATTTCTATAGG-GGTCTC-TAGGGGTATAAAAGACTTC
1 TTAATCA--TTTTT-TTAATCTTTTATATTCCTAT-GGAGG-CCCGTAGGGGTATAAAAGATTTC
* * *
383476 CAAAACATTTCATATCTTTTTAG
61 AAAAACTTTTCGTATCTTTTTAG
383499 TTTTTTTATT
Statistics
Matches: 210, Mismatches: 29, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
163 135 0.64
164 11 0.05
165 1 0.00
166 53 0.25
167 10 0.05
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (164 bp):
TTAATCATTTTTTTAATCTTTTATATTCCTATGGAGGCCCGTAGGGGTATAAAAGATTTCAAAAA
CTTTTCGTATCTTTTTAGGCATCCATTAAGGTACAAAATGGTATTTACAAAAATAAATAAAATTA
AACTAAACTAACACTTTCATAACCAAGACAAATT
Found at i:384541 original size:21 final size:22
Alignment explanation
Indices: 384517--384557 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
384507 TTTCCGAGAT
*
384517 GAAAAGGCGAA-GGAAAGAAGA
1 GAAAAGGAGAAGGGAAAGAAGA
*
384538 GAAAATGAGAAGGGAAAGAA
1 GAAAAGGAGAAGGGAAAGAA
384558 CACTGGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.59, C:0.02, G:0.37, T:0.02
Consensus pattern (22 bp):
GAAAAGGAGAAGGGAAAGAAGA
Found at i:391478 original size:20 final size:20
Alignment explanation
Indices: 391452--391506 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
391442 TGTATCGAAG
391452 AATGTATCGATACATTCAT-A
1 AATGTATCGATACATT-ATAA
* *
391472 CATGTATCGATACATTGTAA
1 AATGTATCGATACATTATAA
391492 AATGTATCGATACAT
1 AATGTATCGATACAT
391507 CTGGGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTATAA
Found at i:393058 original size:29 final size:29
Alignment explanation
Indices: 392500--393058 Score: 538
Period size: 28 Copynumber: 19.6 Consensus size: 29
392490 CACCAACTTG
* **
392500 TGTGGGCTTTAGAGAAA-GTTGCCACCAACT
1 TGTGGGCTTT-GA-AAAGGATGCCACTGACT
* * *
392530 TGTGGGCTTT-AAAAGGATACCACTAATT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * *
392558 TATGGGCTTCG-AAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
392586 TGTGGGC-TTCAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
392614 TGTGGGCTTTG-AATGGGTACCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
392642 TGTGGGCTTTGAGAGAGGTTGCCAGC-GACTT
1 TGTGGGCTTTGA-AAAGGATGCCA-CTGAC-T
* * *
392673 GTGTGGGC-TT-AAAGGGGTGCCACTAACT
1 -TGTGGGCTTTGAAAAGGATGCCACTGACT
*
392701 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
392730 TGTGGGCTTTGAGAAA-GATGCCATTGACT
1 TGTGGGCTTTGA-AAAGGATGCCACTGACT
*
392759 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
392788 CGTGGGCTTTAAAAAAG-TGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
392816 TGTGGGATTTG-AAAGGATGCCACTAACA
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
392844 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
392872 TGTGGGCTTTG-AAAGGATGCCACTTACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
392900 TGTGGACTTTGAAAA-GATGCCACTTACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
392928 TGTGGTCTTTG-AAAGAATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
392956 TGTGGGCTTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
392984 TTTGGGCTTTGAGAAGGATGCCACGGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
393013 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
393042 TGTAGACTCTGAAAAGG
1 TGTGGGCTTTGAAAAGG
393059 GTCGTATTGA
Statistics
Matches: 445, Mismatches: 66, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
27 18 0.04
28 250 0.56
29 143 0.32
30 23 0.05
31 4 0.01
32 7 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGATGCCACTGACT
Found at i:393108 original size:13 final size:13
Alignment explanation
Indices: 393065--393152 Score: 81
Period size: 14 Copynumber: 6.6 Consensus size: 13
393055 AAGGGTCGTA
393065 TTGACAAAAATTTC
1 TTGAC-AAAATTTC
*
393079 TTGACAAAGTTTC
1 TTGACAAAATTTC
393092 -TGACAAACA-TTC
1 TTGACAAA-ATTTC
*
393104 TTGACAAAAGTTC
1 TTGACAAAATTTC
* *
393117 TTGATGATAATTTC
1 TTGA-CAAAATTTC
*
393131 TTGACAACCATTTC
1 TTGACAA-AATTTC
393145 TTGACAAA
1 TTGACAAA
393153 TGGCGAATTG
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
12 11 0.18
13 22 0.37
14 27 0.45
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.35
Consensus pattern (13 bp):
TTGACAAAATTTC
Found at i:393117 original size:25 final size:26
Alignment explanation
Indices: 393066--393137 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
393056 AGGGTCGTAT
393066 TGACAAAAATTTCTTGACAAAGTTTC
1 TGACAAAAATTTCTTGACAAAGTTTC
*
393092 TGACAAACA-TTCTTGACAAAAG-TTC
1 TGACAAAAATTTCTTGAC-AAAGTTTC
** *
393117 TTGATGATAATTTCTTGACAA
1 -TGACAAAAATTTCTTGACAA
393138 CCATTTCTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 11 0.29
26 19 0.50
27 8 0.21
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (26 bp):
TGACAAAAATTTCTTGACAAAGTTTC
Found at i:400185 original size:15 final size:15
Alignment explanation
Indices: 400174--400204 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
400164 TTATGGTAGG
400174 TAATTTGGTGGTGGA
1 TAATTTGGTGGTGGA
*
400189 TAATTTTGTGGTGGA
1 TAATTTGGTGGTGGA
400204 T
1 T
400205 TTGGCGGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (15 bp):
TAATTTGGTGGTGGA
Found at i:409038 original size:31 final size:31
Alignment explanation
Indices: 408999--409057 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
408989 CCAGTGAAAT
*
408999 TGGGTTTAGA-ATGGTTGCCACCAACTTGTG
1 TGGGTTTAGAGAAGGTTGCCACCAACTTGTG
409029 TGGGCTTTAGAGAAGGTTGCCACCAACTT
1 TGGG-TTTAGAGAAGGTTGCCACCAACTT
409058 ATGAGCTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 4 0.15
31 6 0.23
32 16 0.62
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (31 bp):
TGGGTTTAGAGAAGGTTGCCACCAACTTGTG
Found at i:409048 original size:32 final size:30
Alignment explanation
Indices: 408999--409113 Score: 94
Period size: 28 Copynumber: 3.9 Consensus size: 30
408989 CCAGTGAAAT
*
408999 TGGGTTTAGAATGGTTGCCACCAACTTGTG
1 TGGGTTTAGAAAGGTTGCCACCAACTTGTG
*
409029 TGGGCTTTAGAGAAGGTTGCCACCAACTTATG
1 TGGG-TTTAGA-AAGGTTGCCACCAACTTGTG
* * * *
409061 -AGCTTTA-AAAGGATGCCACTAA-TT-TG
1 TGGGTTTAGAAAGGTTGCCACCAACTTGTG
* * * *
409087 TGGGCTTCGAAAGGGTGCCACTAACTT
1 TGGGTTTAGAAAGGTTGCCACCAACTT
409114 ATGGGCTTCA
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
26 2 0.03
27 5 0.07
28 26 0.38
29 3 0.04
30 8 0.12
31 7 0.10
32 18 0.26
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (30 bp):
TGGGTTTAGAAAGGTTGCCACCAACTTGTG
Found at i:409077 original size:28 final size:28
Alignment explanation
Indices: 409014--409276 Score: 163
Period size: 28 Copynumber: 9.2 Consensus size: 28
409004 TTAGAATGGT
* *
409014 TGCCACCAACTTGTGTGGGCTTTAGAGAAGGT
1 TGCCACCAAC-T-TATGGGCTTTA-A-AAGGA
*
409046 TGCCACCAACTTATGAGCTTTAAAAGGA
1 TGCCACCAACTTATGGGCTTTAAAAGGA
* * * ** *
409074 TGCCACTAATTTGTGGGCTTCGAAAGGG
1 TGCCACCAACTTATGGGCTTTAAAAGGA
* * *
409102 TGCCACTAACTTATGGGCTTCAAAAGGG
1 TGCCACCAACTTATGGGCTTTAAAAGGA
** ** * *
409130 TGCCACTGACTTGGGGGCTTTGAAAGGG
1 TGCCACCAACTTATGGGCTTTAAAAGGA
* *
409158 TGCCACTAACTTATGGGCTTTGAGAAGGA
1 TGCCACCAACTTATGGGCTTT-AAAAGGA
* *
409187 TGCCACCGAC-TGTGGGCTTTGAAAAGG-
1 TGCCACCAACTTATGGGCTTT-AAAAGGA
* * *
409214 TGCCACTC-ACTCATGGACTTTGAAAGGA
1 TGCCAC-CAACTTATGGGCTTTAAAAGGA
** ** *
409242 TGCCACTGACTTGCGGGCTTTGAGAAGGA
1 TGCCACCAACTTATGGGCTTT-AAAAGGA
409271 TGCCAC
1 TGCCAC
409277 TGAGTTGTAG
Statistics
Matches: 186, Mismatches: 39, Indels: 15
0.77 0.16 0.06
Matches are distributed among these distances:
27 13 0.07
28 129 0.69
29 24 0.13
30 9 0.05
31 1 0.01
32 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (28 bp):
TGCCACCAACTTATGGGCTTTAAAAGGA
Found at i:409113 original size:56 final size:56
Alignment explanation
Indices: 409027--409277 Score: 297
Period size: 56 Copynumber: 4.4 Consensus size: 56
409017 CACCAACTTG
* * * * *
409027 TGTGGGCTTTAGAGAAGGTTGCCACCAACTTATGAGCTTTAAAAGGATGCCACTAATT
1 TGTGGGCTTT-GA-AAGGGTGCCACTAACTTATGGGCTTTAAAAGGATGCCACTGACT
* * *
409085 TGTGGGCTTCGAAAGGGTGCCACTAACTTATGGGCTTCAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTAAAAGGATGCCACTGACT
* * *
409141 TGGGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTGAGAAGGATGCCACCGAC-
1 TGTGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTT-AAAAGGATGCCACTGACT
* * * * *
409197 TGTGGGCTTTGAAAAGGTGCCACTCACTCATGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTAAAAGGATGCCACTGACT
* *
409253 TGCGGGCTTTGAGAAGGATGCCACT
1 TGTGGGCTTTGA-AAGGGTGCCACT
409278 GAGTTGTAGA
Statistics
Matches: 165, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
55 14 0.08
56 116 0.70
57 26 0.16
58 9 0.05
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTAAAAGGATGCCACTGACT
Found at i:409162 original size:84 final size:84
Alignment explanation
Indices: 409062--409277 Score: 247
Period size: 84 Copynumber: 2.6 Consensus size: 84
409052 CAACTTATGA
* * * *
409062 GCTTTAAAAGGATGCCACTAATTTGTGGGCTTCGA-AAGGGTGCCACTAACTTATGGGC-TTCAA
1 GCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTAAC-TATGGGCTTTCAA
* **
409125 AAGGGTGCCACTGACTTGGGG
65 AA-GGTGCCACTCACTCAGGG
* * ** * *
409146 GCTTTGAAAGGGTGCCACTAACTTATGGGCTTTGAGAAGGATGCCACCGACTGTGGGCTTTGAAA
1 GCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTAACTATGGGCTTTCAAA
*
409211 AGGTGCCACTCACTCATGG
66 AGGTGCCACTCACTCAGGG
* * *
409230 ACTTTGAAAGGATGCCACTGACTTGCGGGCTTTGAGAAGGATGCCACT
1 GCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACT
409278 GAGTTGTAGA
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
84 92 0.84
85 18 0.16
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (84 bp):
GCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTAACTATGGGCTTTCAAA
AGGTGCCACTCACTCAGGG
Found at i:409291 original size:29 final size:29
Alignment explanation
Indices: 409063--409298 Score: 180
Period size: 28 Copynumber: 8.4 Consensus size: 29
409053 AACTTATGAG
* * *
409063 CTTT-AAAAGGATGCCACTAATTTGTGGG
1 CTTTGAAAAGGATGCCACTGACTTGTGGA
* * * * *
409091 CTTCG-AAAGGGTGCCACTAACTTATGGG
1 CTTTGAAAAGGATGCCACTGACTTGTGGA
* * * *
409119 C-TTCAAAAGGGTGCCACTGACTTGGGGG
1 CTTTGAAAAGGATGCCACTGACTTGTGGA
* * * *
409147 CTTTG-AAAGGGTGCCACTAACTTATGGG
1 CTTTGAAAAGGATGCCACTGACTTGTGGA
* * *
409175 CTTTGAGAAGGATGCCACCGAC-TGTGGG
1 CTTTGAAAAGGATGCCACTGACTTGTGGA
* **
409203 CTTTGAAAAGG-TGCCACTCACTCATGGA
1 CTTTGAAAAGGATGCCACTGACTTGTGGA
* *
409231 CTTTG-AAAGGATGCCACTGACTTGCGGG
1 CTTTGAAAAGGATGCCACTGACTTGTGGA
* * *
409259 CTTTGAGAAGGATGCCACTGAGTTGTAGA
1 CTTTGAAAAGGATGCCACTGACTTGTGGA
409288 CTTTGAAAAGG
1 CTTTGAAAAGG
409299 GTCATATTGA
Statistics
Matches: 166, Mismatches: 35, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
27 14 0.08
28 110 0.66
29 42 0.25
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (29 bp):
CTTTGAAAAGGATGCCACTGACTTGTGGA
Found at i:416610 original size:15 final size:15
Alignment explanation
Indices: 416569--416615 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
416559 ACGTGTATCC
416569 ATGATTTTGTGGTAGG
1 ATGATTTTGTGGT-GG
* **
416585 -TAATTAGGTGGTGG
1 ATGATTTTGTGGTGG
416599 ATGATTTTGTGGTGG
1 ATGATTTTGTGGTGG
416614 AT
1 AT
416616 TTCGCAGAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.43
Consensus pattern (15 bp):
ATGATTTTGTGGTGG
Found at i:421730 original size:13 final size:13
Alignment explanation
Indices: 421714--421744 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
421704 ACAATTCATC
421714 ATGTATCGATACA
1 ATGTATCGATACA
421727 ATGTATCGATACA
1 ATGTATCGATACA
421740 ATGTA
1 ATGTA
421745 CCATGTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:421732 original size:33 final size:33
Alignment explanation
Indices: 421692--421760 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
421682 CCGTTACAAG
* *
421692 CAATGTATCAATACAAT-TCATCATGTATCGATA
1 CAATGTATCAATACAATGT-ACCATGTATCAATA
*
421725 CAATGTATCGATACAATGTACCATGTATCAATA
1 CAATGTATCAATACAATGTACCATGTATCAATA
421758 CAA
1 CAA
421761 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (33 bp):
CAATGTATCAATACAATGTACCATGTATCAATA
Found at i:421833 original size:19 final size:20
Alignment explanation
Indices: 421793--421841 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
421783 CAGTTTCATA
**
421793 TATCGATACAATTGTCCATG
1 TATCGATACAATTGAACATG
421813 TATCGATACAA-TGAACATG
1 TATCGATACAATTGAACATG
421832 TATCGATACA
1 TATCGATACA
421842 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (20 bp):
TATCGATACAATTGAACATG
Found at i:426452 original size:28 final size:28
Alignment explanation
Indices: 426412--426483 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
426402 GGAATAAAGC
* **
426412 CGGGGTCGGAGTATCCCCTCGGA-AGTAA
1 CGGGGTTGGAGTATCCCCGAGGAGA-TAA
*
426440 CGGGGTTGGAGTATCCCCGATGAGATAA
1 CGGGGTTGGAGTATCCCCGAGGAGATAA
*
426468 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
426484 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAGATAA
Found at i:426532 original size:52 final size:51
Alignment explanation
Indices: 426471--426860 Score: 276
Period size: 51 Copynumber: 7.4 Consensus size: 51
426461 GAGATAACGA
* * *
426471 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGT-GTTTTGGAAATAAAATCGG
* * *
426523 AGTTGGAGTATCCCCGATTAAAG-GAAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT---GTGAAAAATTAGTGTTTTGGAAATAAAATCGG
* * *
426576 GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTG-AAAAATTAGTGTTTTGGAAATAAAATCGG
* * * * *
426628 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGG
* * ** *
426679 GGTTGGAGTATCCCC---T-CG-AAAATAACG-GGGTTGGAGTATCCCCGATGATTAA-CGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTA-GTGTTTTGGA--A------AT-A-AAATCGG
* *
426734 GGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTG---TTTTGGAAATAAAATCGG
* * * * *
426788 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTCTTGAAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTGTGA-AAAATTAGTGTTTTGGAAATAAAATCGG
* * *
426839 AGTTGGAATATCCTCGATTGTG
1 GGTTGGAGTATCCCCGATTGTG
426861 GAGAATTGAG
Statistics
Matches: 267, Mismatches: 43, Indels: 56
0.73 0.12 0.15
Matches are distributed among these distances:
46 11 0.04
47 1 0.00
48 2 0.01
50 1 0.00
51 71 0.27
52 62 0.23
53 38 0.14
54 44 0.16
55 22 0.08
56 1 0.00
58 1 0.00
59 2 0.01
60 5 0.02
61 1 0.00
63 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGG
Found at i:426575 original size:53 final size:51
Alignment explanation
Indices: 426471--426693 Score: 236
Period size: 52 Copynumber: 4.3 Consensus size: 51
426461 GAGATAACGA
* * * *
426471 GGTTGGAGTATCCTCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAG-GAAAAATTAGT-GTTTTGAAAATAAAATCGG
* *
426523 AGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT--AGGAAAAATTAGTGTTTTGAAAATAAAATCGG
* *
426576 GGTTGGAGTATCCCCGATT-GTGAAAAAATTAGTGTTTT-AGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAG-G-AAAAATTAGTGTTTTGA-AAATAAAATCGG
* * * * * *
426628 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTAGGAAAAATTAGTGTTTTGAAAATAAAATCGG
426679 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
426694 TCGAAAATAA
Statistics
Matches: 147, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
50 1 0.01
51 38 0.26
52 61 0.41
53 35 0.24
54 11 0.07
55 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTAGGAAAAATTAGTGTTTTGAAAATAAAATCGG
Found at i:426599 original size:105 final size:103
Alignment explanation
Indices: 426471--426693 Score: 286
Period size: 105 Copynumber: 2.1 Consensus size: 103
426461 GAGATAACGA
* * * * *
426471 GGTTGGAGTATCCTCGATTGTG-AAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTAGT-GTTTTAGAAATAAAACCGGAGTTGGAGTATC
*** *
426535 CCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAATCGG
65 CCCGATT--AGGAAAAATCAATATTTTGAAAATAAAATCGG
* *
426576 GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCC
* * *
426641 CCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
66 CCGATTAGGAAAAATCAATATTTTGAAAATAAAATCGG
426679 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
426694 TCGAAAATAA
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
103 40 0.39
105 54 0.52
106 9 0.09
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (103 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCC
CCGATTAGGAAAAATCAATATTTTGAAAATAAAATCGG
Found at i:426689 original size:264 final size:263
Alignment explanation
Indices: 426361--426860 Score: 788
Period size: 264 Copynumber: 1.9 Consensus size: 263
426351 TCGAAAATAA
* *
426361 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTCGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTCGGAGTAT
* * *
426426 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAGATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGA-ATAACGAGGTTGGAGTATCCCCGATTG
426491 TGAAAAATT-G-GTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAAATT
130 TGAAAAATTGGTGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-G-AAAATT
* * * * *
426554 GGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCAA
193 AGTGTCTTGAAAATAAAATCAGAGTTGGAATATCCCCGATTGTGAAAAAATTAGTGTTTTAGCAA
426619 TAAAAC
258 TAAAAC
* * *
426625 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTCGGAGTAT
* *
426690 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGT
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGT
* * *
426755 GAAAATTTGGTGTTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGT
131 GAAAAATTGGTGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
*
426820 GTCTTGAAAATAAAATCAGAGTTGGAATATCCTCGATTGTG
196 GTCTTGAAAATAAAATCAGAGTTGGAATATCCCCGATTGTG
426861 GAGAATTGAG
Statistics
Matches: 215, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
263 76 0.35
264 97 0.45
265 42 0.20
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (263 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTCGGAGTAT
CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGT
GAAAAATTGGTGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
GTCTTGAAAATAAAATCAGAGTTGGAATATCCCCGATTGTGAAAAAATTAGTGTTTTAGCAATAA
AAC
Found at i:426739 original size:27 final size:27
Alignment explanation
Indices: 426676--426751 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
426666 GAAATAAAGT
426676 CGGGGTTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTAT-CCC-CGATAAATAA
* *
426704 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
426731 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
426752 TGTGAAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.62
28 14 0.31
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:426845 original size:51 final size:52
Alignment explanation
Indices: 426472--426857 Score: 160
Period size: 52 Copynumber: 7.3 Consensus size: 52
426462 AGATAACGAG
* * * * * * * *
426472 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAATTTAGTGTTCTTGAAAATAAAATCAGA
* * * * *
426524 GTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTT-TTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATT--ATGAAAATTTAGTGTTCTTGAAAATAAAATCAGA
* * * * * *
426577 GTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTT-TT-AGCAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATG-AAAATTTAGTGTTCTTGA-AAATAAAATCAGA
* * * * * * * *
426629 GTTGGAGTATCCCCGATTATGAAAAATCAATATT-TTGGAAATAAAGTCGGG
1 GTTGGAGTATCCCCGATTATGAAAATTTAGTGTTCTTGAAAATAAAATCAGA
** ** * * * ** ** * * *
426680 GTTGGAGTATCCCCTCGAAAAT-AACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTAT-CCC-CGATTATGAA---AATT-TAGTGTTCTTGAAAATAAAATCAGA
* * * * *
426735 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAATTTAGTG--TTCTTGAAAATAAAATCAGA
426789 GTTGGAGTATCCCCGATTATAGAAAA-TTAGTG-TCTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTAT-GAAAATTTAGTGTTCTTGAAAATAAAATCAGA
* *
426840 GTTGGAATATCCTCGATT
1 GTTGGAGTATCCCCGATT
426858 GTGGAGAATT
Statistics
Matches: 258, Mismatches: 58, Indels: 37
0.73 0.16 0.10
Matches are distributed among these distances:
50 2 0.01
51 68 0.26
52 71 0.28
53 44 0.17
54 45 0.17
55 20 0.08
56 5 0.02
57 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAATTTAGTGTTCTTGAAAATAAAATCAGA
Found at i:429247 original size:13 final size:13
Alignment explanation
Indices: 429229--429254 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
429219 ACAAAGATCC
429229 ATGTATCGATACA
1 ATGTATCGATACA
429242 ATGTATCGATACA
1 ATGTATCGATACA
429255 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:429250 original size:33 final size:33
Alignment explanation
Indices: 429208--429274 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
429198 AAAATTTCCA
***
429208 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
429241 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
429274 A
1 A
429275 TTTCCTTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:429318 original size:19 final size:18
Alignment explanation
Indices: 429294--429361 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
429284 TAGTAGCTAA
429294 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
429313 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
429328 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
429345 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
429362 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:429334 original size:13 final size:13
Alignment explanation
Indices: 429316--429340 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
429306 ACAATACTTA
429316 TGTATCGATACAT
1 TGTATCGATACAT
429329 TGTATCGATACA
1 TGTATCGATACA
429341 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:429338 original size:32 final size:32
Alignment explanation
Indices: 429297--429359 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
429287 TAGCTAATTA
*
429297 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
429329 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
429360 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:429440 original size:21 final size:21
Alignment explanation
Indices: 429416--429473 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
429406 ACATTTGTAG
429416 AATGTATCGATACATTAC-ACA
1 AATGTATCGATACATT-CTACA
429437 AATGTATCGATACATTCTACA
1 AATGTATCGATACATTCTACA
429458 AATGTATCGATACATT
1 AATGTATCGATACATT
429474 TGGATAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 1 0.03
21 35 0.97
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATTCTACA
Found at i:430317 original size:27 final size:26
Alignment explanation
Indices: 430238--430320 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 26
430228 CTTTAAGAGG
430238 TGTCCTGCTCTTTGAGGACTGGAAAA
1 TGTCCTGCTCTTTGAGGACTGGAAAA
** * * * *
430264 TG-CCACCAACTTGTGTGGGCTTTGAAAGA
1 TGTCCTGC-TCTT-TGAGGAC-TGGAAA-A
430293 TGTCCTGCTCTTTGAGGACTGGAAAA
1 TGTCCTGCTCTTTGAGGACTGGAAAA
430319 TG
1 TG
430321 CCACCAACTT
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 3 0.08
26 8 0.20
27 10 0.25
28 10 0.25
29 6 0.15
30 3 0.08
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (26 bp):
TGTCCTGCTCTTTGAGGACTGGAAAA
Found at i:430563 original size:59 final size:59
Alignment explanation
Indices: 430130--431082 Score: 1311
Period size: 59 Copynumber: 16.3 Consensus size: 59
430120 ATAAAGTGTA
* * *
430130 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
430185 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** **
430240 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGATG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** *
430295 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
430350 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* *
430411 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCAAAA-GCA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAGGCG
*
430471 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
430530 TCCTGCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
430589 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
430648 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGCGTGGGCTTTAAGAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
430707 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
430766 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
430825 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAAGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
430884 T-CTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAAGCG
1 TCCT-GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* **
430943 TACTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** * *
431003 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGAGGGCTTTTAAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGC-TTT-AAAAGAAAAGGCG
431065 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
431083 AAAAAGCGGA
Statistics
Matches: 835, Mismatches: 42, Indels: 35
0.92 0.05 0.04
Matches are distributed among these distances:
53 1 0.00
54 1 0.00
55 189 0.23
56 1 0.00
57 1 0.00
58 5 0.01
59 418 0.50
60 160 0.19
61 29 0.03
62 30 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:431937 original size:1 final size:1
Alignment explanation
Indices: 431933--432019 Score: 66
Period size: 1 Copynumber: 87.0 Consensus size: 1
431923 CTTAAGCAGA
* * * * * * * * *
431933 TTTTTCTTTTTTTTTGTTTTGTTTGTTTTGTTTTTTGTTTTGTTGTTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
431998 GTTTTTTTTGTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
432020 GAAAAAGAAT
Statistics
Matches: 62, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (1 bp):
T
Found at i:431952 original size:9 final size:9
Alignment explanation
Indices: 431940--432016 Score: 75
Period size: 9 Copynumber: 7.9 Consensus size: 9
431930 AGATTTTTCT
431940 TTTTTTTTG
1 TTTTTTTTG
*
431949 TTTTGTTTG
1 TTTTTTTTG
431958 TTTTGTTTT-
1 TTTT-TTTTG
431967 TTGTTTTGTTG
1 TT-TTTT-TTG
431978 TTTTTTTTTTG
1 --TTTTTTTTG
431989 TTTTTTTTTG
1 -TTTTTTTTG
431999 TTTTTTTTG
1 TTTTTTTTG
432008 TGTTTTTTT
1 T-TTTTTTT
432017 TTTGAAAAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 13
0.80 0.03 0.18
Matches are distributed among these distances:
9 26 0.44
10 24 0.41
11 3 0.05
12 4 0.07
13 2 0.03
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:431968 original size:21 final size:20
Alignment explanation
Indices: 431939--432013 Score: 107
Period size: 21 Copynumber: 3.7 Consensus size: 20
431929 CAGATTTTTC
431939 TTTTTTTTTGTTTTGTTTGT
1 TTTTTTTTTGTTTTGTTTGT
431959 TTTGTTTTTTGTTTTG-TTGT
1 TTT-TTTTTTGTTTTGTTTGT
*
431979 TTTTTTTTTGTTTTTTTTTGT
1 TTTTTTTTTG-TTTTGTTTGT
*
432000 TTTTTTTGTGTTTT
1 TTTTTTTTTGTTTT
432014 TTTTTTGAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
19 7 0.14
20 18 0.36
21 25 0.50
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTGTTTTGTTTGT
Found at i:431982 original size:35 final size:32
Alignment explanation
Indices: 431942--432020 Score: 106
Period size: 32 Copynumber: 2.3 Consensus size: 32
431932 ATTTTTCTTT
431942 TTTTTTGTTTTGTTTGTTTTGTT-TTTTGTTTTGTTG
1 TTTTTT-TTTTGTTT-TTTT-TTGTTTT-TTTTG-TG
431978 TTTTTTTTTTGTTTTTTTTTGTTTTTTTTGTG
1 TTTTTTTTTTGTTTTTTTTTGTTTTTTTTGTG
432010 TTTTTTTTTTG
1 TTTTTTTTTTG
432021 AAAAAGAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.31
33 7 0.17
34 8 0.19
35 8 0.19
36 6 0.14
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (32 bp):
TTTTTTTTTTGTTTTTTTTTGTTTTTTTTGTG
Found at i:432000 original size:45 final size:46
Alignment explanation
Indices: 431933--432020 Score: 126
Period size: 45 Copynumber: 1.9 Consensus size: 46
431923 CTTAAGCAGA
431933 TTTTTCTTTTTTTTTGTTTTGTTTGTTTTGT-TTTTTGTTTTGTTG
1 TTTTTCTTTTTTTTTGTTTTGTTTGTTTTGTGTTTTTGTTTTGTTG
* * *
431978 TTTTT-TTTTTGTTTTTTTTTGTTTTTTTTGTGTTTTTTTTTTG
1 TTTTTCTTTTT-TTTTGTTTTGTTTGTTTTGTGTTTTTGTTTTG
432021 AAAAAGAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 5 0.13
45 23 0.61
46 10 0.26
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (46 bp):
TTTTTCTTTTTTTTTGTTTTGTTTGTTTTGTGTTTTTGTTTTGTTG
Found at i:452198 original size:21 final size:21
Alignment explanation
Indices: 452160--452209 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
452150 TTGCAAGTTG
*
452160 AAATAAAGAATTTGGCTAATGA
1 AAATAAAGAATTTAGCTAA-GA
*
452182 AAATAATGAA-TTAGCTAAGAA
1 AAATAAAGAATTTAGCTAAG-A
452203 AAATAAA
1 AAATAAA
452210 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.58
22 9 0.38
ACGTcount: A:0.58, C:0.04, G:0.14, T:0.24
Consensus pattern (21 bp):
AAATAAAGAATTTAGCTAAGA
Found at i:454026 original size:15 final size:15
Alignment explanation
Indices: 454006--454036 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
453996 TAAAAATGTC
*
454006 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
454021 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
454036 C
1 C
454037 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:456137 original size:13 final size:13
Alignment explanation
Indices: 456119--456143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
456109 CATTTTTCTT
456119 TGTATCGATACAA
1 TGTATCGATACAA
456132 TGTATCGATACA
1 TGTATCGATACA
456144 GGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:456298 original size:20 final size:20
Alignment explanation
Indices: 456255--456300 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
456245 AAATCTTTTG
456255 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
456276 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
456296 CAAAA
1 CAAAA
456301 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:460686 original size:378 final size:378
Alignment explanation
Indices: 460189--460952 Score: 1519
Period size: 378 Copynumber: 2.0 Consensus size: 378
460179 AAAGTGAACT
*
460189 AAAATTTTACATGACACAAATCGAACTAGAAATTTAGTCACGTAAGAACTTCAATTAAAAATCAT
1 AAAAGTTTACATGACACAAATCGAACTAGAAATTTAGTCACGTAAGAACTTCAATTAAAAATCAT
460254 AAGGAAAATTTAGCTTATGAAATTAATGTGTGAAAATTCAATTAAAAATCCAAAGAAAAATTTAA
66 AAGGAAAATTTAGCTTATGAAATTAATGTGTGAAAATTCAATTAAAAATCCAAAGAAAAATTTAA
460319 AGAAATCAAACTAAAAAAATCATGAGAGCTTTCTAAAATCTCATATGTCCAAAATTTAATTCCCA
131 AGAAATCAAACTAAAAAAATCATGAGAGCTTTCTAAAATCTCATATGTCCAAAATTTAATTCCCA
460384 TAAAAAAAGGATAGTGGAAAATGCAATATCTAACATGGGATATTCTTGCAAGAATTAAAAATAAG
196 TAAAAAAAGGATAGTGGAAAATGCAATATCTAACATGGGATATTCTTGCAAGAATTAAAAATAAG
460449 AATAAAGAAATAAATAAATAAAATGAAAAATCTCATGTTGAATTCTAAAATGAATTTCTGTAAAT
261 AATAAAGAAATAAATAAATAAAATGAAAAATCTCATGTTGAATTCTAAAATGAATTTCTGTAAAT
460514 AAATTGAAATATTTTGTGTGAAAAAAGAAGTAATTAAAATTTCTAAACTCGTA
326 AAATTGAAATATTTTGTGTGAAAAAAGAAGTAATTAAAATTTCTAAACTCGTA
460567 AAAAGTTTACATGACACAAATCGAACTAGAAATTTAGTCACGTAAGAACTTCAATTAAAAATCAT
1 AAAAGTTTACATGACACAAATCGAACTAGAAATTTAGTCACGTAAGAACTTCAATTAAAAATCAT
460632 AAGGAAAATTTAGCTTATGAAATTAATGTGTGAAAATTCAATTAAAAATCCAAAGAAAAATTTAA
66 AAGGAAAATTTAGCTTATGAAATTAATGTGTGAAAATTCAATTAAAAATCCAAAGAAAAATTTAA
460697 AGAAATCAAACTAAAAAAATCATGAGAGCTTTCTAAAATCTCATATGTCCAAAATTTAATTCCCA
131 AGAAATCAAACTAAAAAAATCATGAGAGCTTTCTAAAATCTCATATGTCCAAAATTTAATTCCCA
460762 TAAAAAAAGGATAGTGGAAAATGCAATATCTAACATGGGATATTCTTGCAAGAATTAAAAATAAG
196 TAAAAAAAGGATAGTGGAAAATGCAATATCTAACATGGGATATTCTTGCAAGAATTAAAAATAAG
460827 AATAAAGAAATAAATAAATAAAATGAAAAATCTCATGTTGAATTCTAAAATGAATTTCTGTAAAT
261 AATAAAGAAATAAATAAATAAAATGAAAAATCTCATGTTGAATTCTAAAATGAATTTCTGTAAAT
460892 AAATTGAAATATTTTGTGTGAAAAAAGAAGTAATTAAAATTTCTAAACTCGTA
326 AAATTGAAATATTTTGTGTGAAAAAAGAAGTAATTAAAATTTCTAAACTCGTA
460945 AAAAGTTT
1 AAAAGTTT
460953 GCAATAAAAG
Statistics
Matches: 385, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
378 385 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (378 bp):
AAAAGTTTACATGACACAAATCGAACTAGAAATTTAGTCACGTAAGAACTTCAATTAAAAATCAT
AAGGAAAATTTAGCTTATGAAATTAATGTGTGAAAATTCAATTAAAAATCCAAAGAAAAATTTAA
AGAAATCAAACTAAAAAAATCATGAGAGCTTTCTAAAATCTCATATGTCCAAAATTTAATTCCCA
TAAAAAAAGGATAGTGGAAAATGCAATATCTAACATGGGATATTCTTGCAAGAATTAAAAATAAG
AATAAAGAAATAAATAAATAAAATGAAAAATCTCATGTTGAATTCTAAAATGAATTTCTGTAAAT
AAATTGAAATATTTTGTGTGAAAAAAGAAGTAATTAAAATTTCTAAACTCGTA
Found at i:462200 original size:31 final size:31
Alignment explanation
Indices: 462165--462483 Score: 86
Period size: 31 Copynumber: 10.2 Consensus size: 31
462155 ACTAGGGAAG
462165 AAGATGACTAGGGCAAAACTTATTAGTCAAA
1 AAGATGACTAGGGCAAAACTTATTAGTCAAA
* * * *
462196 AAGAT-A-AAGGGGCAAAA-TTGTTAGTTAGA
1 AAGATGACTA-GGGCAAAACTTATTAGTCAAA
* * * *
462225 AAGATTGAC-A-GGCAAAACCATAATAATCGAA
1 AAGA-TGACTAGGGCAAAA-CTTATTAGTCAAA
* ** *
462256 GAGATGACTAAAG-AGAAACTTATTAGTCGAA
1 AAGATGACTAGGGCA-AAACTTATTAGTCAAA
* *** * **
462287 AAGAT-ATTCAGGATGAAAC-CATTTTTCAAA
1 AAGATGACT-AGGGCAAAACTTATTAGTCAAA
* * *
462317 AAGATTGAC-CGAGGCAAAA-TCATGATAGTTAAA
1 AAGA-TGACTAG-GGCAAAACTTAT--TAGTCAAA
* * *
462350 GAAGATGACTAGGGCGAAACCTATTGGTCAAA
1 -AAGATGACTAGGGCAAAACTTATTAGTCAAA
* * *
462382 AAGATGACTAGGGTAAAACCT-TCAGTCAAA
1 AAGATGACTAGGGCAAAACTTATTAGTCAAA
* * * * * *
462412 AAGATTAACCTAAGTG-AAACCATAATAATCAAGA
1 AAGA-TGA-CT-AGGGCAAAACTTATTAGTCAA-A
* * * *
462446 AAGATAATTAGGGAAAAACCTATTAGTCAAA
1 AAGATGACTAGGGCAAAACTTATTAGTCAAA
462477 AAGATGA
1 AAGATGA
462484 GCAAGCTAAA
Statistics
Matches: 204, Mismatches: 58, Indels: 52
0.65 0.18 0.17
Matches are distributed among these distances:
29 21 0.10
30 39 0.19
31 75 0.37
32 31 0.15
33 26 0.13
34 12 0.06
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (31 bp):
AAGATGACTAGGGCAAAACTTATTAGTCAAA
Found at i:462401 original size:95 final size:94
Alignment explanation
Indices: 462162--462998 Score: 432
Period size: 95 Copynumber: 8.9 Consensus size: 94
462152 TTAACTAGGG
* * * * *
462162 AAGAAGATGACTAGGGCAAAACTTATTAGTCAAAAAGAT-A-AAGGGGCAAAA--TTGTTAGTTA
1 AAGAAGATGACTAGAGCAAAACCTATTAGTCAAAAAGATGACTA-GGGTAAAACCTT-TT--TCA
* * * * *
462223 GAAAGATTGA-C-AGGCAAAACCATAATAATCG
62 AAAAGATTAACCGAGGCAAAACCATGATAGTCA
* * * * * *
462254 AAG-AGATGACTAAAG-AGAAACTTATTAGTCGAAAAGAT-ATTCAGGATGAAACCATTTTTCAA
1 AAGAAGATGACTAGAGCA-AAACCTATTAGTCAAAAAGATGACT-AGGGTAAAACC-TTTTTCAA
* * *
462316 AAAGATTGACCGAGGCAAAATCATGATAGTTA
63 AAAGATTAACCGAGGCAAAACCATGATAGTCA
* * * **
462348 AAGAAGATGACTAGGGCGAAACCTATTGGTCAAAAAGATGACTAGGGTAAAACCTTCAGTCAAAA
1 AAGAAGATGACTAGAGCAAAACCTATTAGTCAAAAAGATGACTAGGGTAAAACCTT-TTTCAAAA
* * ** * *
462413 AGATTAACCTAAGTGAAACCATAATAATC-
65 AGATTAACCGAGGCAAAACCATGATAGTCA
* * * * * * **
462442 AAGAAAGATAATTAGGGAAAAACCTATTAGTCAAAAAGATGAGC-AAGCTAAAA-CTTTCAGCTA
1 AAG-AAGATGACTAGAGCAAAACCTATTAGTCAAAAAGATGA-CTAGGGTAAAACCTTT-TTC-A
* * *
462505 GAAAGATTAACATG-GGCAAAACCATGATATTCA
62 AAAAGATTAAC-CGAGGCAAAACCATGATAGTCA
* * * * * *
462538 AAG-A-A-GACTACGTG-AAAACCTATTAGTCAAAAAGATAACCAAGGCAAAACCATTAGTT-AG
1 AAGAAGATGACTA-GAGCAAAACCTATTAGTCAAAAAGATGACTAGGGTAAAACC-TT-TTTCA-
* * ** **
462598 AAAA-ACTAA-CTACGGTGAAATTATGATAGTCA
62 AAAAGATTAACCGA-GGCAAAACCATGATAGTCA
* ** * * *
462630 AAGAAGATGACTAGAGCAAAACCTATTAGTCTAAAAGATGAAAAAGGTAAAACCTTGCAGTT-GA
1 AAGAAGATGACTAGAGCAAAACCTATTAGTCAAAAAGATGACTAGGGTAAAACCTT---TTTCAA
*
462694 AAAGATTAACCTGTATG--AAACCATGATAGTCA
63 AAAGATTAACC-G-AGGCAAAACCATGATAGTCA
** ** * *
462726 AAGAAGACAACTAGAGTGAAACCTTTTAGT-ACAAAA-ATGACTAGGGTAAAACCTTTAATCAAA
1 AAGAAGATGACTAGAGCAAAACCTATTAGTCA-AAAAGATGACTAGGGTAAAACCTTT-TTCAAA
** * * *
462789 AA-AAAAACCAAGGTAAAGCCATGATAGTCA
64 AAGATTAACCGAGGCAAAACCATGATAGTCA
* ** * * *
462819 AAGAAGATGACTAGGGTGAAACTTATTAGTCAAAAAGATTATTAGGGTAAAACCTTTATTCAAAA
1 AAGAAGATGACTAGAGCAAAACCTATTAGTCAAAAAGATGACTAGGGTAAAACCTTT-TTCAAAA
* * *
462884 AGATTGA-CTAGTGCGAAACCATGATAGTCA
65 AGATTAACCGAG-GCAAAACCATGATAGTCA
** * * ** *
462914 AAGAAGATGACTAGAGCAAAACCTATTAGTTGAAAAGATGTACAAGGGCAAAACCTTAATCTAAA
1 AAGAAGATGACTAGAGCAAAACCTATTAGTCAAAAAGATG-ACTAGGGTAAAACCTTTTTCAAAA
* *
462979 AGATTGACCAAGGCAAAACC
65 AGATTAACCGAGGCAAAACC
462999 TTTAGTTAAA
Statistics
Matches: 569, Mismatches: 129, Indels: 91
0.72 0.16 0.12
Matches are distributed among these distances:
90 1 0.00
91 34 0.06
92 74 0.13
93 59 0.10
94 71 0.12
95 255 0.45
96 72 0.13
97 1 0.00
98 1 0.00
99 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (94 bp):
AAGAAGATGACTAGAGCAAAACCTATTAGTCAAAAAGATGACTAGGGTAAAACCTTTTTCAAAAA
GATTAACCGAGGCAAAACCATGATAGTCA
Found at i:462412 original size:30 final size:31
Alignment explanation
Indices: 462351--462416 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
462341 ATAGTTAAAG
* **
462351 AAGATGACTAGGGCGAAACCTATTGGTCAAA
1 AAGATGACTAGGGCAAAACCTATCAGTCAAA
*
462382 AAGATGACTAGGGTAAAACCT-TCAGTCAAA
1 AAGATGACTAGGGCAAAACCTATCAGTCAAA
462412 AAGAT
1 AAGAT
462417 TAACCTAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (31 bp):
AAGATGACTAGGGCAAAACCTATCAGTCAAA
Found at i:462792 original size:30 final size:31
Alignment explanation
Indices: 462735--463388 Score: 124
Period size: 31 Copynumber: 21.0 Consensus size: 31
462725 AAAGAAGACA
* * * *
462735 ACTAGAGTGAAACCTTTTAGT-ACAAAAATG
1 ACTAGGGTAAAACCTATTAGTCAAAAAAATG
* **
462765 ACTAGGGTAAAACCT-TTAATCAAAAAAAAA
1 ACTAGGGTAAAACCTATTAGTCAAAAAAATG
* * * *
462795 ACCAAGGTAAAGCC-ATGATAGTCAAAGAAGATG
1 ACTAGGGTAAAACCTAT--TAGTCAAA-AAAATG
* * * *
462828 ACTAGGGTGAAACTTATTAGTCAAAAAGATT
1 ACTAGGGTAAAACCTATTAGTCAAAAAAATG
* * *
462859 ATTAGGGTAAAACCT-TTATTCAAAAAGATTG
1 ACTAGGGTAAAACCTATTAGTCAAAAA-AATG
* ** *
462890 ACTAGTGCGAAACC-ATGATAGTCAAAGAAGATG
1 ACTAGGGTAAAACCTAT--TAGTCAAA-AAAATG
* * ** *
462923 ACTAGAGCAAAACCTATTAGTTGAAAAGATG
1 ACTAGGGTAAAACCTATTAGTCAAAAAAATG
* * * * *
462954 TACAAGGGCAAAACC--TTAATCTAAAAGATTG
1 -ACTAGGGTAAAACCTATTAGTC-AAAAAAATG
* * * * *
462985 ACCAAGGCAAAACCT-TTAGTTAAAAAGATTG
1 ACTAGGGTAAAACCTATTAGTCAAAAA-AATG
* * * * * * *
463016 ACCA-GGCAAAACCT-TCAATTAGAAAGATTG
1 ACTAGGGTAAAACCTATTAGTCA-AAAAAATG
* * * *
463046 ACTAGAG-AGAACC-ATGGAGTCAAATAAGATG
1 ACTAGGGTAAAACCTAT-TAGTCAAA-AAAATG
* * * *
463077 AATAAGG-AGAAACCTATTAGTTAAAAAGATG
1 ACTAGGGTA-AAACCTATTAGTCAAAAAAATG
* * *
463108 ACCAAGGTAAAACCT-TTAGTCAAAAAAATA
1 ACTAGGGTAAAACCTATTAGTCAAAAAAATG
* * * * *
463138 ACTA-AGTGAAA-CTATGATAATCAAAGAAGATA
1 ACTAGGGTAAAACCTAT--TAGTCAAA-AAAATG
* * * * *
463170 ACTAAGGTGAAATCTATTAGTCGAAAAGATG
1 ACTAGGGTAAAACCTATTAGTCAAAAAAATG
* * * *
463201 ACTAGAGTAAAACCT-TCAATCAAAATAATTG
1 ACTAGGGTAAAACCTATTAGTCAAAA-AAATG
* * * * *
463232 ACCAAGGCAAAA-TTATGATGTCAAAGAAAATG
1 ACTAGGGTAAAACCTATTA-GTCAAA-AAAATG
* * * * * *
463264 ACTAGAGTGAAATCTATTAGTTAAAAAGATC
1 ACTAGGGTAAAACCTATTAGTCAAAAAAATG
*** *
463295 ACTAGAACAAAACCT-TCAGTCGAAAAAAATG
1 ACTAGGGTAAAACCTATTAGTC-AAAAAAATG
* * * **
463326 ACCAAGGTCAAACC-ATGATAGTCAAAAAAGACA
1 ACTAGGGTAAAACCTAT--TAGTCAAAAAA-ATG
* * *
463359 ACTAAGGCAAAACCTATTAGTCGAAAAAAT
1 ACTAGGGTAAAACCTATTAGTCAAAAAAAT
463389 AATTGGACAA
Statistics
Matches: 452, Mismatches: 131, Indels: 81
0.68 0.20 0.12
Matches are distributed among these distances:
28 2 0.00
29 10 0.02
30 118 0.26
31 152 0.34
32 96 0.21
33 62 0.14
34 12 0.03
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (31 bp):
ACTAGGGTAAAACCTATTAGTCAAAAAAATG
Found at i:462849 original size:189 final size:189
Alignment explanation
Indices: 462337--462979 Score: 449
Period size: 188 Copynumber: 3.4 Consensus size: 189
462327 GAGGCAAAAT
* ** * * * * *
462337 CATGATAGTTAAAGAAGATGACTAGGGCGAAACCTATTGGT-CAAAAAGATG-ACTAGGGTAAAA
1 CATGATAGTCAAAGAAGACAACTAGAGCAAAACCTATTAGTAC-AAAAGATGTACAAGGGCAAAA
* ** * * * * * *
462400 CCTTCAGTCAAAAAGATTAACCTAA-GTGAAA-CCATAATAATC-AAGAAAGATAATTAGGGAAA
65 CCTT-AATCAAAAA-AAAAACC-AAGGT-AAAGCCATGATAGTCAAAG-AAGATGACTAGAGCAA
** * * * * ** *
462462 AACCTATTAGTCAAAAAGATGAGCAAGCTAAAACTTTCA-GCTAGAAAGATTAAC-ATGGGCAAA
125 AACCTATTAGTCAAAAAGATGAAAAAGGTAAAACCTTCATTC-AAAAAGATTAACTA-GTACGAA
462525 AC
188 AC
* * * *
462527 CATGATATTCAAAGAAGACTAC--GTG-AAAACCTATTAGT-CAAAAAGAT-AACCAA-GGCAAA
1 CATGATAGTCAAAGAAGACAACTAGAGCAAAACCTATTAGTAC-AAAAGATGTA-CAAGGGCAAA
* * ** * * **
462586 ACCATTAGTTAGAAAAACTAACTACGGTGAAA-TTATGATAGTCAAAGAAGATGACTAGAGCAAA
64 ACC-TTAATCA-AAAAAAAAACCAAGGT-AAAGCCATGATAGTCAAAGAAGATGACTAGAGCAAA
* * *
462650 ACCTATTAGTCTAAAAGATGAAAAAGGTAAAACCTTGCAGTT-GAAAAGATTAACCT-GTATGAA
126 ACCTATTAGTCAAAAAGATGAAAAAGGTAAAACCTT-CA-TTCAAAAAGATTAA-CTAGTACGAA
462713 AC
188 AC
** * * *
462715 CATGATAGTCAAAGAAGACAACTAGAGTGAAACCTTTTAGTACAAAA-ATG-ACTAGGGTAAAAC
1 CATGATAGTCAAAGAAGACAACTAGAGCAAAACCTATTAGTACAAAAGATGTACAAGGGCAAAAC
* ** *
462778 CTTTAATCAAAAAAAAAACCAAGGTAAAGCCATGATAGTCAAAGAAGATGACTAGGGTGAAACTT
66 C-TTAATCAAAAAAAAAACCAAGGTAAAGCCATGATAGTCAAAGAAGATGACTAGAGCAAAACCT
* ** * * * *
462843 ATTAGTCAAAAAGATTATTAGGGTAAAACCTTTATTCAAAAAGATTGACTAGTGCGAAAC
130 ATTAGTCAAAAAGATGAAAAAGGTAAAACCTTCATTCAAAAAGATTAACTAGTACGAAAC
** **
462903 CATGATAGTCAAAGAAGATGACTAGAGCAAAACCTATTAGTTGAAAAGATGTACAAGGGCAAAAC
1 CATGATAGTCAAAGAAGACAACTAGAGCAAAACCTATTAGTACAAAAGATGTACAAGGGCAAAAC
*
462968 CTTAATCTAAAA
66 CTTAATCAAAAA
462980 GATTGACCAA
Statistics
Matches: 358, Mismatches: 73, Indels: 45
0.75 0.15 0.09
Matches are distributed among these distances:
186 1 0.00
187 99 0.28
188 109 0.30
189 85 0.24
190 48 0.13
191 15 0.04
192 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (189 bp):
CATGATAGTCAAAGAAGACAACTAGAGCAAAACCTATTAGTACAAAAGATGTACAAGGGCAAAAC
CTTAATCAAAAAAAAAACCAAGGTAAAGCCATGATAGTCAAAGAAGATGACTAGAGCAAAACCTA
TTAGTCAAAAAGATGAAAAAGGTAAAACCTTCATTCAAAAAGATTAACTAGTACGAAAC
Found at i:462865 original size:31 final size:30
Alignment explanation
Indices: 462720--463133 Score: 138
Period size: 30 Copynumber: 13.3 Consensus size: 30
462710 GAAACCATGA
** * *
462720 TAGTCAAAGAAGACAACTAGAGTGAAACCTTT
1 TAGTCAAA-AAGATTACTAGGGTAAAACC-TT
*
462752 TAGT-ACAAAA-ATGACTAGGGTAAAACCTT
1 TAGTCA-AAAAGATTACTAGGGTAAAACCTT
* * ** * * * *
462781 TAATCAAAAAAAAAACCAAGGTAAAGCCATGA
1 TAGTCAAAAAGATTACTAGGGTAAAACC-T-T
* * *
462813 TAGTCAAAGAAGATGACTAGGGTGAAACTTAT
1 TAGTCAAA-AAGATTACTAGGGTAAAACCT-T
*
462845 TAGTCAAAAAGATTATTAGGGTAAAACCTT
1 TAGTCAAAAAGATTACTAGGGTAAAACCTT
* * ** *
462875 TATTCAAAAAGATTGACTAGTGCGAAACCATGA
1 TAGTCAAAAAGATT-ACTAGGGTAAAACC-T-T
* * *
462908 TAGTCAAAGAAGATGACTAGAGCAAAACCTAT
1 TAGTCAAA-AAGATTACTAGGGTAAAACCT-T
** * *
462940 TAGTTGAAAAGATGTACAAGGGCAAAACC-T
1 TAGTCAAAAAGAT-TACTAGGGTAAAACCTT
* * * * *
462970 TAATCTAAAAGATTGACCAAGGCAAAACCTT
1 TAGTCAAAAAGATT-ACTAGGGTAAAACCTT
* * *
463001 TAGTTAAAAAGATTGACCA-GGCAAAACCTT
1 TAGTCAAAAAGATT-ACTAGGGTAAAACCTT
* * * * * * *
463031 CAATTAGAAAGATTGACTAGAG-AGAACCATG
1 TAGTCAAAAAGATT-ACTAGGGTAAAACC-TT
* * * *
463062 GAGTCAAATAAGATGAATAAGG-AGAAACCTAT
1 TAGTCAAA-AAGATTACTAGGGTA-AAACCT-T
* * * *
463094 TAGTTAAAAAGATGACCAAGGTAAAACCTT
1 TAGTCAAAAAGATTACTAGGGTAAAACCTT
463124 TAGTCAAAAA
1 TAGTCAAAAA
463134 AATAACTAAG
Statistics
Matches: 290, Mismatches: 73, Indels: 40
0.72 0.18 0.10
Matches are distributed among these distances:
29 10 0.03
30 104 0.36
31 82 0.28
32 58 0.20
33 31 0.11
34 5 0.02
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (30 bp):
TAGTCAAAAAGATTACTAGGGTAAAACCTT
Found at i:463011 original size:61 final size:62
Alignment explanation
Indices: 462929--463047 Score: 165
Period size: 61 Copynumber: 1.9 Consensus size: 62
462919 GATGACTAGA
*
462929 GCAAAACCTATTAGTTGAAAAGA-TGTACAAGGGCAAAACCTT-AATCTA-AAAGATTGACCAAG
1 GCAAAACCTATTAGTTAAAAAGATTG-ACAA-GGCAAAACCTTCAAT-TAGAAAGATTGACCAAG
*
462991 GCAAAACCT-TTAGTTAAAAAGATTGACCAGGCAAAACCTTCAATTAGAAAGATTGAC
1 GCAAAACCTATTAGTTAAAAAGATTGACAAGGCAAAACCTTCAATTAGAAAGATTGAC
463048 TAGAGAGAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
60 13 0.25
61 28 0.54
62 11 0.21
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.22
Consensus pattern (62 bp):
GCAAAACCTATTAGTTAAAAAGATTGACAAGGCAAAACCTTCAATTAGAAAGATTGACCAAG
Found at i:463291 original size:94 final size:94
Alignment explanation
Indices: 463079--463379 Score: 283
Period size: 94 Copynumber: 3.2 Consensus size: 94
463069 ATAAGATGAA
* * * * * *
463079 TAAGGAGAAACCTATTAGTTAAAAAGATGACCA-AGGTAAAACCTTTAGTCAAAAAAATAACTAA
1 TAAGGTGAAATCTATTAGTTAAAAAGATGACTAGA-GTAAAACCTTCAGTCAAAAAAATGACCAA
*
463143 GTG--AAACTATGATAATCAAAGAAGATAAC
65 G-GCAAAACTATGATAATCAAAGAAAATAAC
** * *
463172 TAAGGTGAAATCTATTAGTCGAAAAGATGACTAGAGTAAAACCTTCAATCAAAATAATTGACCAA
1 TAAGGTGAAATCTATTAGTTAAAAAGATGACTAGAGTAAAACCTTCAGTCAAAA-AAATGACCAA
* * *
463237 GGCAAAATTATGAT-GTCAAAGAAAATGAC
65 GGCAAAACTATGATAATCAAAGAAAATAAC
* **
463266 T-AGAGTGAAATCTATTAGTTAAAAAGATCACTAGAACAAAACCTTCAGTCGAAAAAAATGACCA
1 TAAG-GTGAAATCTATTAGTTAAAAAGATGACTAGAGTAAAACCTTCAGTC-AAAAAAATGACCA
* * *
463330 AGGTC-AAACCATGATAGTCAAA-AAAGACAAC
64 AGG-CAAAACTATGATAATCAAAGAAA-ATAAC
** *
463361 TAAGGCAAAACCTATTAGT
1 TAAGGTGAAATCTATTAGT
463380 CGAAAAAATA
Statistics
Matches: 170, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
93 48 0.28
94 84 0.49
95 36 0.21
96 2 0.01
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.22
Consensus pattern (94 bp):
TAAGGTGAAATCTATTAGTTAAAAAGATGACTAGAGTAAAACCTTCAGTCAAAAAAATGACCAAG
GCAAAACTATGATAATCAAAGAAAATAAC
Found at i:467124 original size:13 final size:13
Alignment explanation
Indices: 467106--467132 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
467096 ACAATATTCC
467106 TTGTATCGATACA
1 TTGTATCGATACA
467119 TTGTATCGATACA
1 TTGTATCGATACA
467132 T
1 T
467133 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:469492 original size:13 final size:13
Alignment explanation
Indices: 469474--469499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
469464 CAATTTTTGG
469474 TGTATCGATACAT
1 TGTATCGATACAT
469487 TGTATCGATACAT
1 TGTATCGATACAT
469500 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:469511 original size:32 final size:33
Alignment explanation
Indices: 469454--469517 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
469444 TACAAGCCAA
**
469454 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
469487 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
469518 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:469524 original size:19 final size:18
Alignment explanation
Indices: 469454--469524 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
469444 TACAAGCCAA
469454 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
469474 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
469487 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
469506 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
469525 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Done.