Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008397.1 Hibiscus syriacus cultivar Beakdansim tig00111166_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2560905
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 13
Found at i:251564 original size:2 final size:2
Alignment explanation
Indices: 251557--251617 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
251547 TTGAAAAGGA
251557 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
251599 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
251618 CATCAAAGTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:251680 original size:35 final size:36
Alignment explanation
Indices: 251608--251681 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 36
251598 TATATATATA
* *
251608 TATATATATACATCAAAGTATTAATAAAATAATAAGC
1 TATATATATACAACAAAGTATT-ATAAAATAAAAAGC
251645 TATATATATACAACAAA-TATT-TAAAATAGAAAAGC
1 TATATATATACAACAAAGTATTATAAAATA-AAAAGC
251680 TA
1 TA
251682 CCCTCTCACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 7 0.21
35 7 0.21
36 4 0.12
37 16 0.47
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.31
Consensus pattern (36 bp):
TATATATATACAACAAAGTATTATAAAATAAAAAGC
Found at i:252189 original size:14 final size:15
Alignment explanation
Indices: 252164--252193 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
252154 ATATACGTAT
252164 AATAACATGAATAAA
1 AATAACATGAATAAA
252179 AATAA-ATGAATAAA
1 AATAACATGAATAAA
252193 A
1 A
252194 TATCCATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (15 bp):
AATAACATGAATAAA
Found at i:252610 original size:35 final size:35
Alignment explanation
Indices: 252571--252642 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
252561 TAAAAAAATA
* *
252571 CTATTTTATACTAGTATTTGAGTTCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
252606 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
252641 CT
1 CT
252643 TCTTTTTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.43
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
Found at i:253310 original size:106 final size:106
Alignment explanation
Indices: 253126--253682 Score: 692
Period size: 106 Copynumber: 5.4 Consensus size: 106
253116 TGTATTGTTC
* ** * * * *
253126 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGAAACTGGAAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTATTTGTTGACA
* * * * *
253191 GCCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
253232 TGAGTCTAATATCCTTCAATGTGAAGTTGAAATTGACCCTGAAATTAGGAAATTATTTATTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTATTTGTTGACA
*
253297 ACCATCCGTCCCTTCGTTGTGAAGTTGAACTTGT-TTCGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTT-GTCT
* * *
253338 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTATTTGTTGACA
*
253403 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG--GTAT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
253442 CGAGTCCAATATCATTCGATGTGAAGTTGAAATTGACCCTGAAATTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTATTTGTTGACA
*
253507 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
253548 CGAGTCCAATATCCTTCG--CT--A-TTG-----G-CTCTGAAATTGGGAGATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTATTTGTTGACA
* * * *
253602 ACCAGTCGTCCCCTCGTTGCGAAGTTGAACTTTTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
253643 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCT
253683 AGCTAAAATC
Statistics
Matches: 389, Mismatches: 47, Indels: 30
0.83 0.10 0.06
Matches are distributed among these distances:
95 79 0.20
96 1 0.00
97 1 0.00
99 1 0.00
100 3 0.01
101 3 0.01
102 1 0.00
104 99 0.25
105 3 0.01
106 198 0.51
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTATTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:253523 original size:210 final size:209
Alignment explanation
Indices: 253126--253679 Score: 759
Period size: 210 Copynumber: 2.7 Consensus size: 209
253116 TGTATTGTTC
* * *
253126 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGAAACTGGAAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCG-CGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * * * * *
253191 GCCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCTAATATCCTTCAATGTGA
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTG--GTCTTGAGTCCAATATCCTTCGATGTGA
*
253256 AGTTGAAATTGACCCTGAAATTAGGAAATTATTTATTGACAACCATCCGTCCCTTCGTTGTGAAG
128 AGTTGAAATTGACCCTGAAATTAGGAAATTATTTATTGACAACCAGCCGTCCCTTCGTTGTGAAG
*
253321 TTGAACTTGTTTCGTCT
193 TTGAACTTGTGTCGTCT
* *
253338 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGC-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * *
253403 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGGTATCGAGTCCAATATCATTCGATGTGAAG
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGGTCTTGAGTCCAATATCCTTCGATGTGAAG
* *
253468 TTGAAATTGACCCTGAAATTGGGAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTT
130 TTGAAATTGACCCTGAAATTAGGAAATTATTTATTGACAACCAGCCGTCCCTTCGTTGTGAAGTT
253533 GAACTTGTGTCGTCT
195 GAACTTGTGTCGTCT
*
253548 CGAGTCCAATATCCTTCGC-------T---ATTGGCTCTGAAATTGGGAGATTGTTTGTTGACAA
1 CGAGTCCAATATCCTTCGCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * *
253603 CCAGTCGTCCCCTCGTTGCGAAGTTGAACTTTTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAAC--TTGTGGTCTTGAGTCCAATATCCTTCGATGTGAA
253668 GTTGAAATTGAC
129 GTTGAAATTGAC
253680 TCTAGCTAAA
Statistics
Matches: 309, Mismatches: 30, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
199 58 0.19
201 41 0.13
202 1 0.00
210 120 0.39
211 1 0.00
212 88 0.28
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (209 bp):
CGAGTCCAATATCCTTCGCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGGTCTTGAGTCCAATATCCTTCGATGTGAAGT
TGAAATTGACCCTGAAATTAGGAAATTATTTATTGACAACCAGCCGTCCCTTCGTTGTGAAGTTG
AACTTGTGTCGTCT
Found at i:253648 original size:95 final size:95
Alignment explanation
Indices: 253480--253662 Score: 294
Period size: 95 Copynumber: 1.9 Consensus size: 95
253470 GAAATTGACC
* *
253480 CTGAAATTGGGAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCG
1 CTGAAATTGGGAAATTATTTGTTGACAACCAGCCGTCCCCTCGTTGCGAAGTTGAACTTGTGTCG
253545 TCTCGAGTCCAATATCCTTCGCTATTGGCT
66 TCTCGAGTCCAATATCCTTCGCTATTGGCT
* * * * *
253575 CTGAAATTGGGAGATTGTTTGTTGACAACCAGTCGTCCCCTCGTTGCGAAGTTGAACTTTTGTTG
1 CTGAAATTGGGAAATTATTTGTTGACAACCAGCCGTCCCCTCGTTGCGAAGTTGAACTTGTGTCG
*
253640 TCTTGAGTCCAATATCCTTCGCT
66 TCTCGAGTCCAATATCCTTCGCT
253663 GTGAAGTTGA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (95 bp):
CTGAAATTGGGAAATTATTTGTTGACAACCAGCCGTCCCCTCGTTGCGAAGTTGAACTTGTGTCG
TCTCGAGTCCAATATCCTTCGCTATTGGCT
Found at i:254327 original size:20 final size:21
Alignment explanation
Indices: 254304--254348 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
254294 GAACCCACCT
254304 TTTTGCTCTTTCTCTTTTTC-
1 TTTTGCTCTTTCTCTTTTTCA
* *
254324 TTTTGTTTTTTCTCTTTTTCA
1 TTTTGCTCTTTCTCTTTTTCA
254345 TTTT
1 TTTT
254349 TTTCAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTGCTCTTTCTCTTTTTCA
Found at i:260361 original size:19 final size:19
Alignment explanation
Indices: 260317--260363 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
260307 TTGTGTTCTT
260317 TTTTTCTTTCGAACAGTCTC
1 TTTTT-TTTCGAACAGTCTC
*
260337 TCTTTTTTCGAACAG-CTGC
1 TTTTTTTTCGAACAGTCT-C
260356 TTTTTTTT
1 TTTTTTTT
260364 TCATTCAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 18 0.75
20 4 0.17
ACGTcount: A:0.13, C:0.21, G:0.11, T:0.55
Consensus pattern (19 bp):
TTTTTTTTCGAACAGTCTC
Found at i:280292 original size:18 final size:17
Alignment explanation
Indices: 280269--280354 Score: 61
Period size: 18 Copynumber: 4.8 Consensus size: 17
280259 ATAAACAAGG
280269 TAAAGAAAACAAATAAGA
1 TAAAGAAAA-AAATAAGA
*
280287 TAAAGAGAATAAAATAAAA
1 TAAAGA-AA-AAAATAAGA
*
280306 GGAAA-AAATAAAATAA-A
1 -TAAAGAAA-AAAATAAGA
280323 TAAA-ATAAATAAATAAGA
1 TAAAGA-AAA-AAATAAGA
*
280341 TAAGGAAAAAAATA
1 TAAAGAAAAAAATA
280355 GTAAAGTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
16 5 0.09
17 14 0.25
18 23 0.40
19 11 0.19
20 4 0.07
ACGTcount: A:0.73, C:0.01, G:0.10, T:0.15
Consensus pattern (17 bp):
TAAAGAAAAAAATAAGA
Found at i:280332 original size:13 final size:13
Alignment explanation
Indices: 280279--280343 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
280269 TAAAGAAAAC
* *
280279 AAATAAGATAAAG
1 AAATAAAATAAAT
280292 AGAATAAAATAAA-
1 A-AATAAAATAAAT
280305 AGGAA-AAAATAAAAT
1 A--AATAAAAT-AAAT
280320 AAATAAAATAAAT
1 AAATAAAATAAAT
*
280333 AAATAAGATAA
1 AAATAAAATAA
280344 GGAAAAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
13 23 0.51
14 21 0.47
15 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:280343 original size:9 final size:9
Alignment explanation
Indices: 280294--280335 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
280284 AGATAAAGAG
280294 AATAAAATA
1 AATAAAATA
280303 AA-AGGAAA-A
1 AATA--AAATA
280312 AATAAAATA
1 AATAAAATA
280321 AATAAAATA
1 AATAAAATA
280330 AATAAA
1 AATAAA
280336 TAAGATAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 4 0.14
9 21 0.72
10 4 0.14
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (9 bp):
AATAAAATA
Found at i:280473 original size:38 final size:40
Alignment explanation
Indices: 280404--280483 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
280394 AAAATATATA
*
280404 TATATATATATACATCAAAGTATTAATAAAATA-AATAAGC
1 TATATATATATACAACAAAGTATTAATAAAATAGAA-AAGC
*
280444 TATATATATATACAACAAA-TATTTA-AAAATAGAAAAGC
1 TATATATATATACAACAAAGTATTAATAAAATAGAAAAGC
280482 TA
1 TA
280484 ACATCTCACT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 12 0.32
39 7 0.19
40 18 0.49
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.31
Consensus pattern (40 bp):
TATATATATATACAACAAAGTATTAATAAAATAGAAAAGC
Found at i:280936 original size:53 final size:55
Alignment explanation
Indices: 280838--280954 Score: 125
Period size: 53 Copynumber: 2.2 Consensus size: 55
280828 GATAATTACA
* ** * * *
280838 ATATATATAGTAATAATAGACTTATAAGTAAAATATTAAAGAAAT-ATAT-ATAT
1 ATATATATAATAATAATAGAAATATAAGTAAAAAATCAAAGAAATAATATAAAAT
*
280891 ATATATATAATAATAATA-AAATAT-AGTAAAAAATCAAATGAAAATAATTTAAAAT
1 ATATATATAATAATAATAGAAATATAAGTAAAAAATCAAA-G-AAATAATATAAAAT
280946 ATATATATA
1 ATATATATA
280955 CACGTATAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
51 12 0.23
52 5 0.09
53 21 0.40
54 3 0.06
55 12 0.23
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (55 bp):
ATATATATAATAATAATAGAAATATAAGTAAAAAATCAAAGAAATAATATAAAAT
Found at i:280993 original size:17 final size:18
Alignment explanation
Indices: 280960--280995 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
280950 ATATACACGT
*
280960 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
280978 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
280995 A
1 A
280996 AATATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:281412 original size:35 final size:35
Alignment explanation
Indices: 281373--281444 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
281363 ACTAAAAACC
281373 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
*
281408 CTATTTTAGACTAGTATTTGAGTCTTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
281443 CT
1 CT
281445 TCTTTTTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
Found at i:282419 original size:14 final size:14
Alignment explanation
Indices: 282402--282459 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
282392 TAAAGAGATT
*
282402 TGAATAAACATAAA
1 TGAACAAACATAAA
*
282416 TGAACACACAT--A
1 TGAACAAACATAAA
282428 --AACAAACATAAA
1 TGAACAAACATAAA
* *
282440 CGAACGAACATAAA
1 TGAACAAACATAAA
282454 TGAACA
1 TGAACA
282460 TAAATGAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
10 8 0.24
12 2 0.06
14 24 0.71
ACGTcount: A:0.60, C:0.17, G:0.09, T:0.14
Consensus pattern (14 bp):
TGAACAAACATAAA
Found at i:282439 original size:24 final size:23
Alignment explanation
Indices: 282407--282469 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
282397 AGATTTGAAT
282407 AAACATAAATGAACACACATAAAC
1 AAACATAAATGAACA-ACATAAAC
* *
282431 AAACATAAACGAACGAACATAAAT
1 AAACATAAATGAAC-AACATAAAC
*
282455 GAACATAAATGAACA
1 AAACATAAATGAACA
282470 TATTACCGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.03
24 32 0.94
25 1 0.03
ACGTcount: A:0.62, C:0.17, G:0.08, T:0.13
Consensus pattern (23 bp):
AAACATAAATGAACAACATAAAC
Found at i:282458 original size:10 final size:10
Alignment explanation
Indices: 282445--282471 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
282435 ATAAACGAAC
282445 GAACATAAAT
1 GAACATAAAT
282455 GAACATAAAT
1 GAACATAAAT
282465 GAACATA
1 GAACATA
282472 TTACCGAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.19
Consensus pattern (10 bp):
GAACATAAAT
Found at i:292907 original size:20 final size:20
Alignment explanation
Indices: 292882--292928 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
292872 GAGCTATCTC
292882 TGTCGTTCTTACGTTTTTCA
1 TGTCGTTCTTACGTTTTTCA
292902 TGTCGTTCTTACGTTTTTCA
1 TGTCGTTCTTACGTTTTTCA
292922 TGTCGTT
1 TGTCGTT
292929 TATTGCTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.09, C:0.19, G:0.17, T:0.55
Consensus pattern (20 bp):
TGTCGTTCTTACGTTTTTCA
Found at i:294029 original size:9 final size:9
Alignment explanation
Indices: 294017--294051 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
294007 CCCACCTCCG
294017 CCACCGCCA
1 CCACCGCCA
*
294026 CCACCACCA
1 CCACCGCCA
*
294035 CCACCGCTA
1 CCACCGCCA
294044 CCACCGCC
1 CCACCGCC
294052 TCCTCCAGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.66, G:0.09, T:0.03
Consensus pattern (9 bp):
CCACCGCCA
Found at i:297449 original size:31 final size:31
Alignment explanation
Indices: 297411--297505 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
297401 GAACCTCGGC
* *
297411 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
297442 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* *
297473 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
297504 AA
1 AA
297506 ACCCTCGAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 49 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:301700 original size:30 final size:31
Alignment explanation
Indices: 301666--301772 Score: 94
Period size: 30 Copynumber: 3.5 Consensus size: 31
301656 CAGAGGTCAT
* *
301666 AAAGAACCTCGG-CAACTGTCCATAGGTCCC
1 AAAGAACCTAGGTAAACTGTCCATAGGTCCC
*
301696 AAAGAACCTAGGTAAACTGTCCATATGT-CC
1 AAAGAACCTAGGTAAACTGTCCATAGGTCCC
** * * * *
301726 TTAGAACATAGGTATACTGTCCATATGTCTCG
1 AAAGAACCTAGGTAAACTGTCCATAGGTC-CC
*
301758 AAAG-ACATAGGTAAA
1 AAAGAACCTAGGTAAA
301773 ACCCTCGACT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
30 37 0.59
31 23 0.37
32 3 0.05
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (31 bp):
AAAGAACCTAGGTAAACTGTCCATAGGTCCC
Found at i:301717 original size:31 final size:31
Alignment explanation
Indices: 301679--301772 Score: 111
Period size: 30 Copynumber: 3.1 Consensus size: 31
301669 GAACCTCGGC
* *
301679 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
**
301710 AACTGTCCATATGT-CCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* *
301740 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
301771 AA
1 AA
301773 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
30 26 0.50
31 23 0.44
32 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:307963 original size:24 final size:24
Alignment explanation
Indices: 307933--307989 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
307923 CTCCTTATAC
*
307933 AAAACCAATGTGGGATATTTGCCA
1 AAAACCAACGTGGGATATTTGCCA
307957 AAAACCAACGTGGGATATTTGCCA
1 AAAACCAACGTGGGATATTTGCCA
307981 AAAACCAAC
1 AAAACCAAC
307990 ACTCTTCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (24 bp):
AAAACCAACGTGGGATATTTGCCA
Found at i:313433 original size:2 final size:2
Alignment explanation
Indices: 313426--313461 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
313416 TGTGTAATTG
313426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
313462 GGTTATATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:314028 original size:6 final size:6
Alignment explanation
Indices: 314019--314043 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
314009 GGGATGATAA
314019 ACGGGG ACGGGG ACGGGG ACGGGG A
1 ACGGGG ACGGGG ACGGGG ACGGGG A
314044 AAACCCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.64, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:314137 original size:12 final size:13
Alignment explanation
Indices: 314101--314144 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
314091 GCCCCGATTA
314101 CCCGATTACCCGC
1 CCCGATTACCCGC
314114 CCCGATTACCCGC
1 CCCGATTACCCGC
*
314127 CCCGA-TACCCGA
1 CCCGATTACCCGC
314139 CCCGAT
1 CCCGAT
314145 AAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.18, C:0.52, G:0.16, T:0.14
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:314224 original size:19 final size:19
Alignment explanation
Indices: 314200--314239 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
314190 AATAAATTTA
314200 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
314219 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
314238 AT
1 AT
314240 ATACCCGGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:314284 original size:12 final size:12
Alignment explanation
Indices: 314260--314305 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
314250 AGATTCCCAG
314260 CCCAATA-CCGA
1 CCCAATACCCGA
314271 CCCAATACCCGA
1 CCCAATACCCGA
* *
314283 CCCAATACCTGG
1 CCCAATACCCGA
314295 CCCAATACCCG
1 CCCAATACCCG
314306 TTTAAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.30, C:0.48, G:0.11, T:0.11
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:314287 original size:23 final size:24
Alignment explanation
Indices: 314260--314305 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
314250 AGATTCCCAG
314260 CCCAATACC-GACCCAATACCCGA
1 CCCAATACCTGACCCAATACCCGA
*
314283 CCCAATACCTGGCCCAATACCCG
1 CCCAATACCTGACCCAATACCCG
314306 TTTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.30, C:0.48, G:0.11, T:0.11
Consensus pattern (24 bp):
CCCAATACCTGACCCAATACCCGA
Found at i:323143 original size:32 final size:31
Alignment explanation
Indices: 323105--323181 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
323095 CGGGGCCACG
*
323105 GAGCCTACCTAAGAACACATCTTAGGGCCGTA
1 GAGCCTACCTAAGAA-ACATCTTAGGGCCGCA
* *** **
323137 GGGCCTACCCGGGAATGATCTTAGGGCCGCA
1 GAGCCTACCTAAGAAACATCTTAGGGCCGCA
323168 GAGCCTACCTAAGA
1 GAGCCTACCTAAGA
323182 GTCACATTAG
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
31 23 0.68
32 11 0.32
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (31 bp):
GAGCCTACCTAAGAAACATCTTAGGGCCGCA
Found at i:327930 original size:2 final size:2
Alignment explanation
Indices: 327923--327964 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
327913 TAGACCAATC
327923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
327965 CAATGCATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:328350 original size:20 final size:20
Alignment explanation
Indices: 328321--328361 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
328311 GTAAAAGTTC
*
328321 TGGTCAACGAAGGTTAACGG
1 TGGTCAACGAAGGTCAACGG
* *
328341 TGGTCTACGACGGTCAACGG
1 TGGTCAACGAAGGTCAACGG
328361 T
1 T
328362 TTTACACAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (20 bp):
TGGTCAACGAAGGTCAACGG
Found at i:340203 original size:23 final size:23
Alignment explanation
Indices: 340168--340228 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
340158 ATAAAGCACA
* * *
340168 ATAACATATTAGGTAGCGCTTAG
1 ATAATATAATAGGTAGCGCGTAG
*
340191 ATAATATAATAGGTAGCGCGTAT
1 ATAATATAATAGGTAGCGCGTAG
*
340214 ATAATAAAATAGGTA
1 ATAATATAATAGGTA
340229 TTTAACCGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.30
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCGTAG
Found at i:340266 original size:87 final size:87
Alignment explanation
Indices: 340141--340302 Score: 243
Period size: 87 Copynumber: 1.9 Consensus size: 87
340131 ATATTATATC
* *
340141 ATTTAATCAGAAATATTATAAAGCACAATAACATATTAGGTAGCGCTTAGATAATATAATAGGTA
1 ATTTAACCAGAAATATTATAAAGCACAATAACAAATTAGGTAGCGCTTAGATAATATAATAGGTA
340206 GCGCGTATATAATAAAATAGGT
66 GCGCGTATATAATAAAATAGGT
* * * * * *
340228 ATTTAACCGGAAATATTATCAAGTACAATAATAAATTAGGTAGCGCTTATATAATGTAATAGGTA
1 ATTTAACCAGAAATATTATAAAGCACAATAACAAATTAGGTAGCGCTTAGATAATATAATAGGTA
*
340293 GCGCTTATAT
66 GCGCGTATAT
340303 TGACCTATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 66 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (87 bp):
ATTTAACCAGAAATATTATAAAGCACAATAACAAATTAGGTAGCGCTTAGATAATATAATAGGTA
GCGCGTATATAATAAAATAGGT
Found at i:340690 original size:200 final size:199
Alignment explanation
Indices: 340330--340776 Score: 534
Period size: 200 Copynumber: 2.2 Consensus size: 199
340320 AAAACGGTAA
* * * *
340330 ATTTAAACCGGTTACATTATAAATTGACCTATTACATTATAAATATCAGTTTCGATGTTTTCAGG
1 ATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTCAGG
* *
340395 ATCGATACAATTTTAAATGTATCAACACTTTATGCGTACAACTCGTTTGTGCTTTATTTTGAAAA
66 ATCGATACAATTTTAAATGTATCAACACTTTATGCGTACAACTCGTTTGTCCTTCATTTTGAAAA
* * * *
340460 AAAAGTATCGACACATATTTAAAGAGTGTCGATACATAATGTAGACCTATT-TGCTAATTAA-CC
131 AAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTCT-CTAATGAACCC
340523 GATAT
195 GATAT
* *
340528 ATTTTAACCGGTTACATTGTAAATTTACCTGTTACATAATAATTATC-GATTTCGATG-TTTCGA
1 ATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAG-TTTCGATGTTTTC-A
* * * *
340591 GGATTGATAC-TTTTTAAAAAATGTATCGACACTTTATGCGTACACCTCGTTTG-CCATTCATTT
64 GGATCGATACAATTTT---AAATGTATCAACACTTTATGCGTACAACTCGTTTGTCC-TTCATTT
* * * * *
340654 TG-AAAAAATGTATCGACACAAATTAAACAAAGTGTCGATACTTTATGTTGACCTATTCTCTCAT
125 TGAAAAAAAAGTATCGACACAAATTAAA-AAAGTGTCGATACATAATGTAGACCTATTCTCTAAT
*
340718 GAACCCGGTAT
189 GAACCCGATAT
*
340729 ATTTCT-ACCGGTTACATTAG-AAATTTACCTATTACATTATATTTATCA
1 ATTT-TAACCGGTTACATT-GTAAATTTACCTATTACATTATAATTATCA
340777 ACACAAAATC
Statistics
Matches: 212, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
197 9 0.04
198 59 0.28
199 23 0.11
200 72 0.34
201 47 0.22
202 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (199 bp):
ATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTCAGG
ATCGATACAATTTTAAATGTATCAACACTTTATGCGTACAACTCGTTTGTCCTTCATTTTGAAAA
AAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTCTCTAATGAACCCG
ATAT
Found at i:340870 original size:106 final size:107
Alignment explanation
Indices: 340684--340876 Score: 273
Period size: 106 Copynumber: 1.8 Consensus size: 107
340674 AATTAAACAA
* * * * *
340684 AGTGTCGATACTTTATGTTGACCTATTCTCTCATGAACCCGGTATATTTCTACCGGTTACATTAG
1 AGTGTCGATACTTTATGTTAACCTATTCTATAATGAACACGGTATATGTCTACCGGTTACATTAG
340749 AAATTTACCTATTACATTATATTTATCAACACAAAATCTAAT
66 AAATTTACCTATTACATTATATTTATCAACACAAAATCTAAT
* * * *
340791 AGTGTCGATACTTTATGTTAACCTATTTTATAATTAA-ACGGTATATGTGTACTGGTTACATT-G
1 AGTGTCGATACTTTATGTTAACCTATTCTATAATGAACACGGTATATGTCTACCGGTTACATTAG
*
340854 TCAATTTACCTATTACATTATAT
66 -AAATTTACCTATTACATTATAT
340877 CATTTGTCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
105 1 0.01
106 42 0.56
107 32 0.43
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (107 bp):
AGTGTCGATACTTTATGTTAACCTATTCTATAATGAACACGGTATATGTCTACCGGTTACATTAG
AAATTTACCTATTACATTATATTTATCAACACAAAATCTAAT
Found at i:344487 original size:201 final size:202
Alignment explanation
Indices: 343937--344944 Score: 1155
Period size: 201 Copynumber: 5.0 Consensus size: 202
343927 TAATTTTCAA
* * * *
343937 AAGTATCGACACTAATTTAA-AAAGTGTCGATACATTCTGTAGACCTATTTTCTCATAAAACCGA
1 AAGTATCGACAC-AAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGG
344001 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * **
344066 AGGATCGACACTTTTTCTAAATGTATCGACACTTT-TTTCGTGAACTT-GTTTGGAAAATTTATT
130 GGGATCGACACTTTTTATAAATGTATCGACACTTTATTT-GTGAACTTGGTTTGGAAAATACATT
*
344129 ATGAACATA-
194 ATGGACA-AC
* * * * * *
344138 AAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCT-TTTT-TTA-AATAACCAG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAA-AACCGG
* * * * * * * * * *
344200 TATATTTAGACCGGTTACATTGTTATGTTACCGATTACATTACAATTATGTGTTTCGATGTTTGT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * * *
344265 AGGATCGACACTTTTTATAAATGTATCGACACTTTGTTTGTGCACTTGGTTTGG-AAATACATTC
130 GGGATCGACACTTTTTATAAATGTATCGACACTTTATTTGTGAACTTGGTTTGGAAAATACATTA
344329 TGGACAAC
195 TGGACAAC
* *
344337 ATGTATCGACACAAATGAATAAAGTGTCGACACA-TATTGTAGACCTATTTTCTCATAAAACCGG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTA-TGTAGACCTATTTTCTCATAAAACCGG
*
344401 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
** * *
344466 GGGATCGACACTTGATATAAATGTGTCGACAC-TTATTTGTGAACTTGTTTTGTTTGGAAAACAC
130 GGGATCGACACTTTTTATAAATGTATCGACACTTTATTTGTGAACTTG----GTTTGGAAAATAC
344530 ATTATGGAC-AC
191 ATTATGGACAAC
* ** ** * * * * *
344541 AAAGTATTGGTACAAATTTATAAAGTGTTGATACTTTATGAATACCTCTTTTCTCA-AAAACCGG
1 -AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGG
* * * * ** * *
344605 TATATTTAGACCGATTACATTGTTATTTTACCTATTACATTATAATTACGGATTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * * * *
344670 GGGATCGATACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGG-AAATACATTC
130 GGGATCGACACTTTTTATAAATGTATCGACACTTTATTTGTGAACTTGGTTTGGAAAATACATTA
344734 TGGACAAC
195 TGGACAAC
* *
344742 ATGTATCGACACAAATGAATAAAGTGTCGACACA-TATTGTAGACCTATTTTCTCATAAAACCGG
1 AAGTATCGACACAAATGAATAAAGTGTCGATACATTA-TGTAGACCTATTTTCTCATAAAACCGG
* * *
344806 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTATATTATAGTTACGAGTTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* ** * *
344871 GGGATCAACACTTGATATAAATGTGTCGACAC-TTATTTGTGAACTTGTTTTGTTTGGAAAACAC
130 GGGATCGACACTTTTTATAAATGTATCGACACTTTATTTGTGAACTTG----GTTTGGAAAATAC
344935 ATTATGGACA
191 ATTATGGACA
344945 CTTTTGCCTT
Statistics
Matches: 666, Mismatches: 116, Indels: 46
0.80 0.14 0.06
Matches are distributed among these distances:
198 5 0.01
199 153 0.23
200 99 0.15
201 220 0.33
202 2 0.00
204 106 0.16
205 79 0.12
206 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (202 bp):
AAGTATCGACACAAATGAATAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGT
AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTG
GGATCGACACTTTTTATAAATGTATCGACACTTTATTTGTGAACTTGGTTTGGAAAATACATTAT
GGACAAC
Found at i:344754 original size:405 final size:404
Alignment explanation
Indices: 343939--344945 Score: 1546
Period size: 405 Copynumber: 2.5 Consensus size: 404
343929 ATTTTCAAAA
* * * *
343939 GTATCGACACTAATTTAA-AAAGTGTCGATACAT-TCTGTAGACCTATTTTCTCATAAAACCGAT
1 GTATCGACAC-AAATGAATAAAGTGTCGACACATAT-TGTAGACCTATTTTCTCATAAAACCGGT
* *
344002 AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTA
64 AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTG
** * * * ***
344067 GGATCGACACTTTTTCTAAATGTATCGACACTTTTTTCGTGAAC-----TTGTTTGGAAAATTTA
129 GGATCGACACTTGATATAAATGTGTCGACACTTATTT-GTGAACTTGTTTTGTTTGGAAAACACA
* * * * *
344127 TTATGAACATAAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTAA
193 TTATGGACACAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGAATACCTTTTTTCAA
* *
344192 ATAACCAGTATATTTAGACCGGTTACATTGTTATGTTACCGATTACATTACAATTATGTGTTTCG
258 ATAACCAGTATATTTAGACCGATTACATTGTTATGTTACCGATTACATTACAATTACGTGTTTCG
*
344257 ATGTTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTTGTGCACTTGGTTTGGAAA
323 ATGTTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAA
344322 TACATTCTGGACAACAT
388 TACATTCTGGACAACAT
344339 GTATCGACACAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
1 GTATCGACACAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
344404 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
66 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
344469 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTA
131 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTA
* ** * * * *
344534 TGGACACAAAGTATTGGTACAAATTTATAAAGTGTTGATACTTTATGAATACCTCTTTTCTCAAA
196 TGGACACAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGAATACCT-TTTT-TCAAA
* * * *
344599 -AACCGGTATATTTAGACCGATTACATTGTTATTTTACCTATTACATTATAATTACG-GATTTCG
259 TAACCAGTATATTTAGACCGATTACATTGTTATGTTACCGATTACATTACAATTACGTG-TTTCG
* * *
344662 ATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAA
323 ATGTTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAA
344727 TACATTCTGGACAACAT
388 TACATTCTGGACAACAT
344744 GTATCGACACAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
1 GTATCGACACAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
* *
344809 ATTTAAACCGGTTACATTGTAAAGTGACCTATTATATTATAGTTACGAGTTTCGATGTTTTTGGG
66 ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
*
344874 ATCAACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTA
131 ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTA
344939 TGGACAC
196 TGGACAC
344946 TTTTGCCTTT
Statistics
Matches: 558, Mismatches: 39, Indels: 15
0.91 0.06 0.02
Matches are distributed among these distances:
399 11 0.02
400 146 0.26
401 1 0.00
404 60 0.11
405 336 0.60
406 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (404 bp):
GTATCGACACAAATGAATAAAGTGTCGACACATATTGTAGACCTATTTTCTCATAAAACCGGTAA
ATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTTTTGGG
ATCGACACTTGATATAAATGTGTCGACACTTATTTGTGAACTTGTTTTGTTTGGAAAACACATTA
TGGACACAAAGTATCGACACAAATGTATAAAGTATCGATACATTATGAATACCTTTTTTCAAATA
ACCAGTATATTTAGACCGATTACATTGTTATGTTACCGATTACATTACAATTACGTGTTTCGATG
TTTGTAGGATCGACACTTTTTATAAATGTATCGACACTTTGTTCGTGCACTTGGTTTGGAAATAC
ATTCTGGACAACAT
Found at i:345865 original size:19 final size:19
Alignment explanation
Indices: 345843--345905 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
345833 TCTACCTATA
345843 ATATTATATACAAGTATCC
1 ATATTATATACAAGTATCC
* * ** *
345862 ATATTTATTTTCTACCTAT-A
1 ATA-TTATATAC-AAGTATCC
345882 ATATTATATACAAGTATCC
1 ATATTATATACAAGTATCC
345901 ATATT
1 ATATT
345906 TATTTTCTAC
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 4 0.13
19 14 0.45
20 9 0.29
21 4 0.13
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.44
Consensus pattern (19 bp):
ATATTATATACAAGTATCC
Found at i:345870 original size:23 final size:23
Alignment explanation
Indices: 345844--345909 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
345834 CTACCTATAA
345844 TATTATATACAAGTATCCATATT
1 TATTATATACAAGTATCCATATT
*
345867 TATT-T-T-C---TA-CCTATA-A
1 TATTATATACAAGTATCC-ATATT
345883 TATTATATACAAGTATCCATATT
1 TATTATATACAAGTATCCATATT
345906 TATT
1 TATT
345910 TTCTACCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 18
0.62 0.04 0.35
Matches are distributed among these distances:
16 6 0.19
17 6 0.19
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 6 0.19
23 10 0.31
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (23 bp):
TATTATATACAAGTATCCATATT
Found at i:345874 original size:39 final size:39
Alignment explanation
Indices: 345829--345930 Score: 204
Period size: 39 Copynumber: 2.6 Consensus size: 39
345819 CTCAAATATC
345829 ATTTTCTACCTATAATATTATATACAAGTATCCATATTT
1 ATTTTCTACCTATAATATTATATACAAGTATCCATATTT
345868 ATTTTCTACCTATAATATTATATACAAGTATCCATATTT
1 ATTTTCTACCTATAATATTATATACAAGTATCCATATTT
345907 ATTTTCTACCTATAATATTATATA
1 ATTTTCTACCTATAATATTATATA
345931 ATAATCGATC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.36, C:0.15, G:0.02, T:0.47
Consensus pattern (39 bp):
ATTTTCTACCTATAATATTATATACAAGTATCCATATTT
Found at i:346747 original size:181 final size:181
Alignment explanation
Indices: 346525--346914 Score: 561
Period size: 181 Copynumber: 2.2 Consensus size: 181
346515 CGATACCGGA
* * *
346525 TATATTACTATGGATCAATACATTTGTATAAAGTATCGACAC-TTTTCA-GCGCTATAACTTCTT
1 TATATTGCTATGGATCGATACATTTTTATAAAGTATCGACACATTTT-AGGCGCTATAACTTCTT
* *
346588 CTCTTTTAAATTATAAAAGTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGATA
65 CTCTTTTAAATTACAAAAGTGTCGACACTTATATTAATTTATCGACACTTTCAATATATCCGATA
** * * * * * *
346653 GCTTTTTATCGATTTTATCAT-TTCCAGATATGTTTTGTCATATTATTACCTGT
130 GC-GCTTACCGATTTTATCATAAT-CACACAGGTTTTATCATATTATTACCTGT
*
346706 TATATTGCTATGGATCGACACATTTTTATAAAGTATCGACACATTTTAGGCGCTATAACTTCTTC
1 TATATTGCTATGGATCGATACATTTTTATAAAGTATCGACACATTTTAGGCGCTATAACTTCTTC
*
346771 TCTTTTAAATTACAAAAGTGTCGACACTTATATTAATTTATCGACACTTTCAATATATCCGGTAG
66 TCTTTTAAATTACAAAAGTGTCGACACTTATATTAATTTATCGACACTTTCAATATATCCGATAG
* * * *
346836 CGCTTACCGGTTTTATCATAATGACACCGGTTTTATCATATTTTTACCTGT
131 CGCTTACCGATTTTATCATAATCACACAGGTTTTATCATATTATTACCTGT
346887 TATATTGCTATGGATCGATACATTTTTA
1 TATATTGCTATGGATCGATACATTTTTA
346915 ATTTGTATCG
Statistics
Matches: 186, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
181 102 0.55
182 84 0.45
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (181 bp):
TATATTGCTATGGATCGATACATTTTTATAAAGTATCGACACATTTTAGGCGCTATAACTTCTTC
TCTTTTAAATTACAAAAGTGTCGACACTTATATTAATTTATCGACACTTTCAATATATCCGATAG
CGCTTACCGATTTTATCATAATCACACAGGTTTTATCATATTATTACCTGT
Found at i:347083 original size:11 final size:11
Alignment explanation
Indices: 347067--347091 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
347057 ATCAAGTAAC
347067 ACCGTATATTA
1 ACCGTATATTA
347078 ACCGTATATTA
1 ACCGTATATTA
347089 ACC
1 ACC
347092 CGCCTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:347515 original size:6 final size:6
Alignment explanation
Indices: 347504--347530 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
347494 TTACCCATTT
347504 ATTGAA ATTGAA ATTGAA ATTGAA ATT
1 ATTGAA ATTGAA ATTGAA ATTGAA ATT
347531 TAAGAGGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (6 bp):
ATTGAA
Found at i:352584 original size:15 final size:15
Alignment explanation
Indices: 352566--352595 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
352556 TTATTTTTTT
352566 TAATTTTTTAAAATA
1 TAATTTTTTAAAATA
352581 TAATTTTTTAAAATA
1 TAATTTTTTAAAATA
352596 CTTTGAGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTTTTTAAAATA
Found at i:356428 original size:21 final size:21
Alignment explanation
Indices: 356402--356443 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
356392 ACCATCAACA
356402 AGTTCCTATCTTAGAACCTAT
1 AGTTCCTATCTTAGAACCTAT
356423 AGTTCCTATCTTAGAACCTAT
1 AGTTCCTATCTTAGAACCTAT
356444 TTACTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (21 bp):
AGTTCCTATCTTAGAACCTAT
Found at i:357172 original size:14 final size:15
Alignment explanation
Indices: 357155--357184 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
357145 GATCACTTTT
357155 ATTTTTATTT-ATTA
1 ATTTTTATTTAATTA
357169 ATTTTTATTTAATTA
1 ATTTTTATTTAATTA
357184 A
1 A
357185 GATGCAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTATTTAATTA
Found at i:359866 original size:59 final size:59
Alignment explanation
Indices: 359789--359917 Score: 163
Period size: 59 Copynumber: 2.2 Consensus size: 59
359779 GGTAAAGTAC
*
359789 ATAAATGGTCTCCCGATTATAAGACA-CTATTTTGTTGAGTC-ATCGACTATTAAAAATT
1 ATAAATGGTCCCCCGATTATAAGA-AGCTATTTTGTTGAGTCTATCGACTATTAAAAATT
* * * *
359847 ATAAGATGGTCCCCCGATTATAGGAAGTTATTTTGTTGAGTCTATTGACTATTAAAAGTT
1 ATAA-ATGGTCCCCCGATTATAAGAAGCTATTTTGTTGAGTCTATCGACTATTAAAAATT
*
359907 ACAAAATGGTC
1 A-TAAATGGTC
359918 ACTCGACTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 5 0.08
59 32 0.52
60 22 0.36
61 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (59 bp):
ATAAATGGTCCCCCGATTATAAGAAGCTATTTTGTTGAGTCTATCGACTATTAAAAATT
Found at i:364007 original size:17 final size:17
Alignment explanation
Indices: 363985--364028 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
363975 AGTGGTATCA
363985 ATCTTTATTTCTTTTCT
1 ATCTTTATTTCTTTTCT
364002 ATCTTTATTTCTTTTCT
1 ATCTTTATTTCTTTTCT
364019 ATCTTTATTT
1 ATCTTTATTT
364029 GATCCCAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (17 bp):
ATCTTTATTTCTTTTCT
Found at i:364867 original size:25 final size:25
Alignment explanation
Indices: 364830--364888 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
364820 TTCCTGTAGG
*
364830 TGGCTTCCTAGCCCTTTTCTAGCCT
1 TGGCTTCCCAGCCCTTTTCTAGCCT
364855 TGGCTTCCCAGCCCTTTTCTAGCCT
1 TGGCTTCCCAGCCCTTTTCTAGCCT
*
364880 TAGCTTCCC
1 TGGCTTCCC
364889 CTCCTAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.08, C:0.39, G:0.15, T:0.37
Consensus pattern (25 bp):
TGGCTTCCCAGCCCTTTTCTAGCCT
Found at i:367634 original size:21 final size:21
Alignment explanation
Indices: 367610--367649 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
367600 TCAATGAACC
*
367610 ACATATATGTTCCAAAGGATT
1 ACATATATGTCCCAAAGGATT
*
367631 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCAAAGGA
367650 CCACGTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
ACATATATGTCCCAAAGGATT
Found at i:368797 original size:18 final size:17
Alignment explanation
Indices: 368774--368815 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
368764 CAACTTCCAA
368774 ATTCACTTATTTCATCTT
1 ATTCACTTATTTCA-CTT
*
368792 ATTCAC-AATTTCACTT
1 ATTCACTTATTTCACTT
*
368808 ATACACTT
1 ATTCACTT
368816 CTTACATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 8 0.40
17 6 0.30
18 6 0.30
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTCACTTATTTCACTT
Found at i:371997 original size:20 final size:20
Alignment explanation
Indices: 371969--372012 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
371959 TTGCAACTGA
*
371969 TTTTTCAACTCGCTCAATTC
1 TTTTACAACTCGCTCAATTC
371989 TTTTACAACTCGCTCAATTC
1 TTTTACAACTCGCTCAATTC
372009 TTTT
1 TTTT
372013 TGTGTCATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.05, T:0.48
Consensus pattern (20 bp):
TTTTACAACTCGCTCAATTC
Found at i:374718 original size:101 final size:101
Alignment explanation
Indices: 374528--374718 Score: 244
Period size: 101 Copynumber: 1.9 Consensus size: 101
374518 CACAAGTCAC
*
374528 ACACTAAGTCATCGACTTAGTGAGACACAATATATATAATGATACTATAATGAAATTTGATTTGG
1 ACACTAAGTCATCGACTTAGTGAGACACAATATATATAATGATACTATAAAGAAATTTGATTTGG
*** * * * *
374593 TGTTCCTCATCCTCTTTGCGATGCAGAAACACTCAT
66 CAATCATCATACTCATTGCAATGCAGAAACACTCAT
*
374629 ACACTAAGTCATCGACTTAGTGAGGCACAATATATATAATGATACTATAAAGAAATGTTGTATTA
1 ACACTAAGTCATCGACTTAGTGAGACACAATATATATAATGATACTATAAAGAAAT-TTG-ATT-
*
374694 T-GCAATCAT-ATATTCATT-CAATGCA
63 TGGCAATCATCATACTCATTGCAATGCA
374719 ACCTATATAG
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
101 60 0.78
102 9 0.12
103 7 0.09
104 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (101 bp):
ACACTAAGTCATCGACTTAGTGAGACACAATATATATAATGATACTATAAAGAAATTTGATTTGG
CAATCATCATACTCATTGCAATGCAGAAACACTCAT
Found at i:374901 original size:23 final size:23
Alignment explanation
Indices: 374874--374957 Score: 143
Period size: 23 Copynumber: 3.7 Consensus size: 23
374864 AAATCGTATA
374874 AAATGC-CCTGAAGTGCCACGTAG
1 AAATGCACC-GAAGTGCCACGTAG
374897 AAATGCACCGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
*
374920 AAATGCACCGAAGTGCCACATAG
1 AAATGCACCGAAGTGCCACGTAG
374943 AAATGCACCGAAGTG
1 AAATGCACCGAAGTG
374958 TCATATATAA
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
23 57 0.97
24 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:374991 original size:45 final size:46
Alignment explanation
Indices: 374874--374991 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
374864 AAATCGTATA
* *
374874 AAATGC-CCTGAAGTGCCACGTAGAAATGCACCGAAGTGCCACGTAG
1 AAATGCACC-GAAGTGCCACATAGAAATGCACCGAAGTGCCACATAG
* * *
374920 AAATGCACCGAAGTGCCACATAGAAATGCACCGAAGTGTCATATAT
1 AAATGCACCGAAGTGCCACATAGAAATGCACCGAAGTGCCACATAG
374966 AAA-GTC-CCGAA-TGACCACATAGAAAT
1 AAATG-CACCGAAGTG-CCACATAGAAAT
374992 CTCTTAAGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
44 2 0.03
45 18 0.28
46 42 0.66
47 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (46 bp):
AAATGCACCGAAGTGCCACATAGAAATGCACCGAAGTGCCACATAG
Found at i:375021 original size:21 final size:21
Alignment explanation
Indices: 374997--375076 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
374987 GAAATCTCTT
* *
374997 AAGAATCATATATATATTCCA
1 AAGAACCATATATATGTTCCA
375018 AAGAACCA-A-ATATGTGTCTCA
1 AAGAACCATATATATGT-TC-CA
**
375039 AAGAACCGCATATATGTTCCA
1 AAGAACCATATATATGTTCCA
* **
375060 AAGGATTATATATATGT
1 AAGAACCATATATATGT
375077 CCCCAAGGAC
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
19 5 0.11
20 3 0.06
21 30 0.64
22 3 0.06
23 6 0.13
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (21 bp):
AAGAACCATATATATGTTCCA
Found at i:378977 original size:78 final size:77
Alignment explanation
Indices: 378731--379311 Score: 451
Period size: 78 Copynumber: 7.5 Consensus size: 77
378721 CCTCCTGGCT
* * * * * *
378731 CTCCT-CCTTCTAATGAGTTTATCATGAAGTGA-AAACACC-AGAAGAACCATATCCTCTTCACA
1 CTCCTGCC-TCTAATGAGTTTGTCGTGAAGAGACAAACACCGGGAGGACCCA-AT-CTCTTCACA
*
378793 ATAAACCTATCA-TC
63 ATAAACCTCTCAGTC
* * * * * *** ***
378807 TTTTCTACCTCTAATGAGTTTGTCGTGAAGAAACAATCAATAGGAGGATTGAA--TCTTCACAAT
1 -CTCCTGCCTCTAATGAGTTTGTCGTGAAGAGACAAACACCGGGAGGACCCAATCTCTTCACAAT
* *
378870 ACACCTCTCAATC
65 AAACCTCTCAGTC
* ** *
378883 TTCCTGCCTCTAATGAGTTTGTCGTGGGGAGACAAACACCGGGAGGACCCAATCATTTTCACAAT
1 CTCCTGCCTCTAATGAGTTTGTCGTGAAGAGACAAACACCGGGAGGACCCAATC-TCTTCACAAT
*
378948 AAACTTCTCAGTC
65 AAACCTCTCAGTC
* * * * *
378961 CTCCCGCCTCTAATGAGTTTGTCGTGAAGAGACAAATATCGGGAGGACCCGATCTTTTCACAATA
1 CTCCTGCCTCTAATGAGTTTGTCGTGAAGAGACAAACACCGGGAGGACCCAATCTCTTCACAATA
*
379026 AACCTCCCAGTC
66 AACCTCTCAGTC
* * * ** * * *
379038 CTCCAGCCTCTAATGAGTTTGTCTTGAAGAAAGTAACACTGGAAGGACCCGATCCTCTTCACAAT
1 CTCCTGCCTCTAATGAGTTTGTCGTGAAGAGACAAACACCGGGAGGACCCAAT-CTCTTCACAAT
*
379103 AAGCCTCTCAG-C
65 AAACCTCTCAGTC
* * * * * * ** * **
379115 TCTTCTGCTTCTAATGAGTTCGTCGTGAAAAAACAAACATCATGAGAACCCGTTTCTCTTCACAA
1 -CTCCTGCCTCTAATGAGTTTGTCGTGAAGAGACAAACACCGGGAGGACCC-AATCTCTTCACAA
*
379180 TAAACCTCTCAATC
64 TAAACCTCTCAGTC
* ** *
379194 CTCCTGCCTTTAATGAG-TTCACTGTGAAGAGACAAACACCGGGAGGACCTAATCCTCTTCACAA
1 CTCCTGCCTCTAATGAGTTTGTC-GTGAAGAGACAAACACCGGGAGGACCCAAT-CTCTTCACAA
379258 TAAACCTC-CTAGTC
64 TAAACCTCTC-AGTC
* * * * *
379272 CTTCTGCATTTAATGAGTTCGTCGTGAAGATACAAACACC
1 CTCCTGCCTCTAATGAGTTTGTCGTGAAGAGACAAACACC
379312 AAGAAGACCA
Statistics
Matches: 396, Mismatches: 93, Indels: 29
0.76 0.18 0.06
Matches are distributed among these distances:
75 58 0.15
76 2 0.01
77 93 0.23
78 234 0.59
79 9 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (77 bp):
CTCCTGCCTCTAATGAGTTTGTCGTGAAGAGACAAACACCGGGAGGACCCAATCTCTTCACAATA
AACCTCTCAGTC
Found at i:383705 original size:8 final size:8
Alignment explanation
Indices: 383688--383779 Score: 51
Period size: 8 Copynumber: 10.5 Consensus size: 8
383678 TAAAGTAATG
383688 AAAATAAAA
1 AAAAT-AAA
383697 AAAATAAA
1 AAAATAAA
*
383705 ATCAATAAA
1 A-AAATAAA
383714 AAAATAAATAA
1 AAAAT--A-AA
383725 AAAATAAA
1 AAAATAAA
*
383733 AAACTGAAA
1 AAAAT-AAA
*
383742 ACCAAA-CAA
1 A--AAATAAA
*
383751 ATAATAAA
1 AAAATAAA
*
383759 AAAATATA
1 AAAATAAA
383767 AAAATAATA
1 AAAATAA-A
383776 AAAA
1 AAAA
383780 ATAATATTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
7 2 0.03
8 27 0.42
9 25 0.39
10 1 0.02
11 9 0.14
ACGTcount: A:0.78, C:0.05, G:0.01, T:0.15
Consensus pattern (8 bp):
AAAATAAA
Found at i:383717 original size:19 final size:19
Alignment explanation
Indices: 383693--383735 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
383683 TAATGAAAAT
383693 AAAAA-AAATAAAATCAATAA
1 AAAAATAAATAAAA--AATAA
383713 AAAAATAAATAAAAAATAA
1 AAAAATAAATAAAAAATAA
383732 AAAA
1 AAAA
383736 CTGAAAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 5 0.23
21 8 0.36
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (19 bp):
AAAAATAAATAAAAAATAA
Found at i:383729 original size:37 final size:36
Alignment explanation
Indices: 383688--383778 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 36
383678 TAAAGTAATG
*
383688 AAAATAAAAAAAATAAAATCAATA-AAAAAATAAATAA
1 AAAATAAAAAAAATAAAACCAA-ACAAAAAATAAA-AA
* *
383725 AAAAT-AAAAAACTGAAAACCAAACAAATAATAAAAA
1 AAAATAAAAAAAAT-AAAACCAAACAAAAAATAAAAA
* *
383761 AATATAAAAATAATAAAA
1 AAAATAAAAAAAATAAAA
383779 AATAATATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
36 18 0.40
37 27 0.60
ACGTcount: A:0.78, C:0.05, G:0.01, T:0.15
Consensus pattern (36 bp):
AAAATAAAAAAAATAAAACCAAACAAAAAATAAAAA
Found at i:383742 original size:26 final size:27
Alignment explanation
Indices: 383688--383783 Score: 83
Period size: 26 Copynumber: 3.7 Consensus size: 27
383678 TAAAGTAATG
* *
383688 AAAAT-AA-AAAAAATAAAATCAATAAA
1 AAAATAAATAAAAAATAAAA-AAATAGA
*
383714 AAAATAAATAAAAAATAAAAAACT-GA
1 AAAATAAATAAAAAATAAAAAAATAGA
** * * *
383740 AAACCAAACAAATAATAAAAAAATATA
1 AAAATAAATAAAAAATAAAAAAATAGA
383767 AAAAT-AATAAAAAATAA
1 AAAATAAATAAAAAATAA
383784 TATTTAAATG
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
26 35 0.65
27 8 0.15
28 11 0.20
ACGTcount: A:0.78, C:0.05, G:0.01, T:0.16
Consensus pattern (27 bp):
AAAATAAATAAAAAATAAAAAAATAGA
Found at i:383769 original size:10 final size:11
Alignment explanation
Indices: 383754--383786 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
383744 CAAACAAATA
383754 ATAAAAA-AAT
1 ATAAAAATAAT
383764 ATAAAAATAAT
1 ATAAAAATAAT
383775 A-AAAAATAAT
1 ATAAAAATAAT
383785 AT
1 AT
383787 TTAAATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
ATAAAAATAAT
Found at i:383920 original size:2 final size:2
Alignment explanation
Indices: 383915--383942 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
383905 AAAAAAACTA
383915 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
383943 TAATGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:384029 original size:71 final size:74
Alignment explanation
Indices: 383885--384033 Score: 175
Period size: 71 Copynumber: 2.1 Consensus size: 74
383875 AATGTTTAAC
* *
383885 AAAATAAAAACAAACAAAAGAAAAAAACTAATATATATATATATATATATATATATATTAATGTA
1 AAAATAAAAACAAACAAAAGAAAAAAACTAATATATATATATATATATATATAAATATTAATATA
383950 AAATAAAAT
66 AAATAAAAT
* *
383959 AAAATAAATA-AAACAAGAAAGAAAAAAAC--ATATGTATATATATA-ATA-ATAAA-ATATAAT
1 AAAATAAAAACAAAC-A-AAAGAAAAAAACTAATATATATATATATATATATATAAATAT-TAAT
**
384018 ATTTAATAAAAT
63 ATAAAATAAAAT
384030 AAAA
1 AAAA
384034 ATAAGATATA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
70 2 0.03
71 21 0.32
72 3 0.05
73 18 0.27
74 10 0.15
75 12 0.18
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (74 bp):
AAAATAAAAACAAACAAAAGAAAAAAACTAATATATATATATATATATATATAAATATTAATATA
AAATAAAAT
Found at i:384049 original size:21 final size:21
Alignment explanation
Indices: 383996--384056 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
383986 ACATATGTAT
* * *
383996 ATATATAATAATAAAATATAAT
1 ATATAAAAAAATAAAA-ATAAG
* *
384018 ATTTAATAAAATAAAAATAAG
1 ATATAAAAAAATAAAAATAAG
*
384039 ATATAAAAAAATTAAAAT
1 ATATAAAAAAATAAAAAT
384057 GTGAACGGAC
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
ATATAAAAAAATAAAAATAAG
Found at i:386133 original size:57 final size:57
Alignment explanation
Indices: 386050--386212 Score: 290
Period size: 57 Copynumber: 2.9 Consensus size: 57
386040 TTTCACCAAA
* *
386050 TTGGCTTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCTAATCTTGAATATTGT
1 TTGGCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGAATATTGT
*
386107 TTGGCTTTGAGTTTGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGAATATTGT
1 TTGGCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGAATATTGT
*
386164 TTGGCTTTGAGTTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTG
1 TTGGCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTG
386213 TATAAATTGT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 101 1.00
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.43
Consensus pattern (57 bp):
TTGGCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGAATATTGT
Found at i:387063 original size:20 final size:21
Alignment explanation
Indices: 387038--387089 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
387028 ACACACCTTA
387038 TTTTTTCAT-TTC-TTTTTTCT
1 TTTTTTC-TCTTCGTTTTTTCT
387058 TTTTTTCTCTTCGTTTTTTCT
1 TTTTTTCTCTTCGTTTTTTCT
*
387079 TTTTCTCTCTT
1 TTTTTTCTCTT
387090 TTTCTTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 1 0.03
20 10 0.34
21 18 0.62
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTTCTCTTCGTTTTTTCT
Found at i:387068 original size:17 final size:17
Alignment explanation
Indices: 387048--387098 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 17
387038 TTTTTTCATT
387048 TCTTTTTTCTTTTTTTC
1 TCTTTTTTCTTTTTTTC
387065 TCTTCGTTTT-TTCTTTTTC
1 TCTT--TTTTCTT-TTTTTC
387084 TCTCTTTTTCTTTTT
1 TCT-TTTTTCTTTTT
387099 CGACTTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 4 0.14
18 9 0.31
19 15 0.52
20 1 0.03
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (17 bp):
TCTTTTTTCTTTTTTTC
Found at i:396115 original size:29 final size:30
Alignment explanation
Indices: 396082--396278 Score: 214
Period size: 29 Copynumber: 6.9 Consensus size: 30
396072 GACCAGACCC
* *
396082 GGTGACATTTTAGGAATTATTTT-AAAAAT
1 GGTGACATTTTGGGAAATATTTTGAAAAAT
*
396111 GGTGACATTATGGGAAATATTTTG-AAAAT
1 GGTGACATTTTGGGAAATATTTTGAAAAAT
396140 GGTGACATTTTGGGAAATATTTTGAAAAA-
1 GGTGACATTTTGGGAAATATTTTGAAAAAT
* * * *
396169 GGTGGCATTCTGGAAAATATTTTGAAAAAA
1 GGTGACATTTTGGGAAATATTTTGAAAAAT
* *
396199 GGTAACA-TTTGGGAAATATTTTAAAAAAT
1 GGTGACATTTTGGGAAATATTTTGAAAAAT
* *
396228 -ATGACA-TTTGGGAATTATTTTGAAAAAT
1 GGTGACATTTTGGGAAATATTTTGAAAAAT
* *
396256 -ATGACATTTTAGG-AAT-TTTTGAA
1 GGTGACATTTTGGGAAATATTTTGAA
396279 TGTGGACTAT
Statistics
Matches: 145, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.05
28 32 0.22
29 97 0.67
30 9 0.06
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (30 bp):
GGTGACATTTTGGGAAATATTTTGAAAAAT
Found at i:397232 original size:32 final size:31
Alignment explanation
Indices: 397159--397235 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
397149 CTAATGTTAC
* *
397159 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
** * **
397190 TCTCGGGTAGGCCCTGTGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-CAT
397222 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
397236 ACAGCCCCAA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
Found at i:397350 original size:25 final size:25
Alignment explanation
Indices: 397298--397350 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
397288 AGGGTAACTC
*
397298 TTTTATGACATTTACTGCAGTATAA
1 TTTTATGACATTTACTGCACTATAA
* * *
397323 TTTTATGAGATTTACTGGACTATGA
1 TTTTATGACATTTACTGCACTATAA
397348 TTT
1 TTT
397351 GTTTAGTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (25 bp):
TTTTATGACATTTACTGCACTATAA
Found at i:399859 original size:9 final size:9
Alignment explanation
Indices: 399845--399869 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
399835 AGTAATGAAA
399845 AATAAAATC
1 AATAAAATC
399854 AATAAAATC
1 AATAAAATC
399863 AATAAAA
1 AATAAAA
399870 ATAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (9 bp):
AATAAAATC
Found at i:399874 original size:6 final size:6
Alignment explanation
Indices: 399863--399902 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
399853 CAATAAAATC
*
399863 AATAAA AATAAA AATAAA TAATAAA AACAAA TAATAAA AA
1 AATAAA AATAAA AATAAA -AATAAA AATAAA -AATAAA AA
399903 CTGAAAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 19 0.63
7 11 0.37
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:399889 original size:20 final size:19
Alignment explanation
Indices: 399821--399902 Score: 60
Period size: 19 Copynumber: 4.3 Consensus size: 19
399811 GGTAAAAAAG
*
399821 AAAAAATAAGATAAAGTAAT
1 AAAAAATAAAATAAA-TAAT
* *
399841 GAAAAATAAAATCAATAA-
1 AAAAAATAAAATAAATAAT
**
399859 AATCAATAAAAATAAA-AAT
1 AAAAAAT-AAAATAAATAAT
* *
399878 AAATAATAAAAACAAATAAT
1 AAAAAAT-AAAATAAATAAT
399898 AAAAA
1 AAAAA
399903 CTGAAAATCA
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
18 6 0.12
19 23 0.48
20 19 0.40
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (19 bp):
AAAAAATAAAATAAATAAT
Found at i:399901 original size:25 final size:26
Alignment explanation
Indices: 399837--399927 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 26
399827 TAAGATAAAG
*
399837 TAATGAAAAATAAAATCAATAAAATCAATAA
1 TAAT-AAAAAT-AAAT-AATAAAAAC-A-AA
*
399868 AAATAAAAATAAATAATAAAAACAAA
1 TAATAAAAATAAATAATAAAAACAAA
* *
399894 TAATAAAAACTGAA-AAT-CAAACAAA
1 TAATAAAAA-TAAATAATAAAAACAAA
399919 TAATAAAAA
1 TAATAAAAA
399928 ATATAAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
25 16 0.30
26 13 0.24
27 4 0.07
28 8 0.15
29 4 0.07
30 6 0.11
31 3 0.06
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.19
Consensus pattern (26 bp):
TAATAAAAATAAATAATAAAAACAAA
Found at i:400067 original size:16 final size:16
Alignment explanation
Indices: 400046--400076 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
400036 AAAAATGTTT
*
400046 AACAAAATAAAAAACA
1 AACAAAAGAAAAAACA
400062 AACAAAAGAAAAAAC
1 AACAAAAGAAAAAAC
400077 TAAAAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.13, G:0.03, T:0.03
Consensus pattern (16 bp):
AACAAAAGAAAAAACA
Found at i:400122 original size:14 final size:16
Alignment explanation
Indices: 400090--400127 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
400080 AAATATATAT
400090 ATAAATATTAATATAAA
1 ATAAA-ATTAATATAAA
400107 ATAAAATTAAT-T-AA
1 ATAAAATTAATATAAA
400121 ATAAAAT
1 ATAAAAT
400128 AAAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 6 0.29
17 5 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAAAATTAATATAAA
Found at i:400135 original size:7 final size:7
Alignment explanation
Indices: 400123--400147 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
400113 TTAATTAAAT
400123 AAAATAA
1 AAAATAA
400130 AAAATAA
1 AAAATAA
400137 AAAATAA
1 AAAATAA
400144 AAAA
1 AAAA
400148 CATATGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:400147 original size:65 final size:66
Alignment explanation
Indices: 400065--400206 Score: 166
Period size: 65 Copynumber: 2.2 Consensus size: 66
400055 AAAAACAAAC
* * *
400065 AAAAGAAAAAACTAAAAATATATATATAAATATTAATATAAA-ATAA-AATTAATTAAAT-AAAA
1 AAAATAAAAAACTAAAAACATATATATAAATA-TAATA-AAATATAATAATTAAATAAATAAAAA
400127 TAA
64 TAA
* * *
400130 AAAATAAAAAA-TAAAAAACATATGTATATATATAATAAAATATAATATTTAAATAAATAAAAAT
1 AAAATAAAAAACT-AAAAACATATATATAAATATAATAAAATATAATAATTAAATAAATAAAAAT
400194 AA
65 AA
*
400196 GAAATAAAAAA
1 AAAATAAAAAA
400207 ATTAAAATGT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
63 3 0.05
64 10 0.15
65 36 0.55
66 17 0.26
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (66 bp):
AAAATAAAAAACTAAAAACATATATATAAATATAATAAAATATAATAATTAAATAAATAAAAATA
A
Found at i:401373 original size:22 final size:22
Alignment explanation
Indices: 401348--401392 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
401338 GTAAATGAAA
*
401348 TGAATA-ATATATACATATATAT
1 TGAATATA-ATATACATAAATAT
*
401370 TGAATATAATATATATAAATAT
1 TGAATATAATATACATAAATAT
401392 T
1 T
401393 ATAAATGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (22 bp):
TGAATATAATATACATAAATAT
Found at i:402508 original size:81 final size:81
Alignment explanation
Indices: 402361--402979 Score: 778
Period size: 81 Copynumber: 7.7 Consensus size: 81
402351 ACAATCCTCC
* * * * ** *
402361 TCCTCATTCGTCGCCTCGTGATTT-GAATAACATTGTGAAGAGAGATACTCCAGGAGGACCAAAT
1 TCCTCCTTCGTCGCCTCATGATTTCG-ATATCATTGTGAAGAGAGATACGCTGGGAGGGCCAAAT
402425 CCCCTTCATCACAATCA
65 CCCCTTCATCACAATCA
* * * * * * * **
402442 TCCTCCTTCATCACCTCATAATTTCGATATCATTATGAATAGAGATAAGCTGGAAACGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCTGGGAGGGCCAAATC
*
402507 CCCTTCAGCACAATCA
66 CCCTTCATCACAATCA
* * * *
402523 TCCTTCTTCGTTGCCTCATGATTTCGATATCATTGTAAAGAGAGATACG-TCGGGAGGTCCAAAT
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCT-GGGAGGGCCAAAT
402587 CCCCTTCATCACAATCA
65 CCCCTTCATCACAATCA
* *
402604 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGACCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCTGGGAGGGCCAAATC
*
402669 CCCTTCATCATAATCA
66 CCCTTCATCACAATCA
* * * * **
402685 TCCTCCTTCTTCGCCTCTTGATTTCGATACCATTGTGAAAAGAGATACGCCAGGAGGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCTGGGAGGGCCAAATC
402750 CCCTTCATCACAATCA
66 CCCTTCATCACAATCA
** * * * * * * *
402766 TCCTCCTTTTTTGCCTCATGATTTCGGTATCATTTTGAAAAGAGATATGC-CGGAGGACCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCTGGGAGGGCCAAATC
402830 CCCTTCATCACAATCA
66 CCCTTCATCACAATCA
** * * *
402846 TCCTCCTTCGTTACCTTATGATTTCGATATCATTGTGAAGAGAGATACACAGGGAGGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCTGGGAGGGCCAAATC
402911 CCCTTCATCACAATCA
66 CCCTTCATCACAATCA
* *
402927 TCCTCTTTCGTCGCCTCATGATTTCGATATCATTGTAAAGAGAGATACG-TGGG
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCTGGG
402980 GAGAGATACG
Statistics
Matches: 463, Mismatches: 71, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
80 73 0.16
81 389 0.84
82 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (81 bp):
TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCTGGGAGGGCCAAATC
CCCTTCATCACAATCA
Found at i:402668 original size:162 final size:162
Alignment explanation
Indices: 402361--403956 Score: 2179
Period size: 162 Copynumber: 9.8 Consensus size: 162
402351 ACAATCCTCC
* * * * * *
402361 TCCTCATTCGTCGCCTCGTGATTT-GAATAACATTGTGAAGAGAGATACTCCAGGAGGACCAAAT
1 TCCTCCTTCGTCGCCTCATGATTTCG-ATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAAT
* * * * * *
402425 CCCCTTCATCACAATCATCCTCCTTCATCACCTCATAATTTCGATATCATTATGAATAGAGATAA
65 CCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATAC
* * ** *
402490 GCTGGAAACGCCAAATCCCCTTCAGCACAATCA
130 GCCGGGAGGGCCAAATCCCCTTCATCACAATCA
* * * * *
402523 TCCTTCTTCGTTGCCTCATGATTTCGATATCATTGTAAAGAGAGATACGTCGGGAGGTCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
402588 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
* *
402653 CCGGGAGGACCAAATCCCCTTCATCATAATCA
131 CCGGGAGGGCCAAATCCCCTTCATCACAATCA
* * * * *
402685 TCCTCCTTCTTCGCCTCTTGATTTCGATACCATTGTGAAAAGAGATACGCCAGGAGGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
** * * * * *
402750 CCCTTCATCACAATCATCCTCCTTTTTTGCCTCATGATTTCGGTATCATTTTGAAAAGAGATATG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
*
402815 CC-GGAGGACCAAATCCCCTTCATCACAATCA
131 CCGGGAGGGCCAAATCCCCTTCATCACAATCA
** * * *
402846 TCCTCCTTCGTTACCTTATGATTTCGATATCATTGTGAAGAGAGATACACAGGGAGGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
*
402911 CCCTTCATCACAATCATCCTCTTTCGTCGCCTCATGATTTCGATATCATTGTAAAGAGAGATACG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGT-------GA-A--
** * *
402976 TGGGGAGAGATACGCTTGGAGGGTCAAATCCCCTTTATCACAATCA
121 ----GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCA
* * *
403022 TCCTCCTTCGTCGTCTCATGATTTCGATATCATTATGAAGAGAGATACGCCGGGAAGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
* *
403087 CTCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATAACATTGTGAAGAGAGATACG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
* *
403152 CTGGGAGGGCCAAATCCACTTCATCACAATCA
131 CCGGGAGGGCCAAATCCCCTTCATCACAATCA
* * * ** *
403184 TCCTCCTTCGTCGCCTCGTGATTTTGATAACATTGTGAAGAGAGATACGTTGAGAGGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
*
403249 CCCTTCATCACAATCATCCTCCTTCGTCACCTCATGATTTCGATATCATTGTGAAGAGAGATACG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
*
403314 CCGGGAGGGCAAAATCCCCTTCATCACAATCA
131 CCGGGAGGGCCAAATCCCCTTCATCACAATCA
* * *
403346 TCCTCATTCGTCGCCTCATGATTTTGATATCATTGTGAAGAGAGATACGCCTGGAGGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
* * * * * *
403411 CACTTCATCATAATCATCCTCATTCGTCTCCTCTTGATTTCGATATCATTATGAAGAGAGATACG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
403476 CCGGGAGGGCCAAATCCCCTTCATCACAATCA
131 CCGGGAGGGCCAAATCCCCTTCATCACAATCA
* * * *
403508 TCCTCTTTCGTCTCCTCATGATTTCGATATCATTGTGAAGAGCGATACGTCGGGAGGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
* * * * *
403573 CCCTTCATCATAATCATCCTCCTTCGTCACCTCATGATTTCGGTATCATTGTGAAGAAAGATACA
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
* *
403638 TCGGGAGGGCCAAAACCCCTTCATCACAATCA
131 CCGGGAGGGCCAAATCCCCTTCATCACAATCA
* * * *
403670 TCCTCCTTTGTCGCCTCATGATTTTGATATCATTGTGAAGAGATATACGCCAGGAGGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
* * * *
403735 CCATTTATCACAATCATCCTCTTTCGTCGCCTCATGATTTTGATATCATTGTGAAGAGAGATACG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
*
403800 CCGGGAGGGCCAAATCCCTTTCCATCACAATCA
131 CCGGGAGGGCCAAATCCCCTT-CATCACAATCA
*
403833 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCGAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
* * *
403898 CCCTTCATCACAATCATCATCCTTCGTCTCCTCATGATTTTGATATCATTGTGAAGAGA
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGA
403957 CCAAACCCCC
Statistics
Matches: 1264, Mismatches: 153, Indels: 33
0.87 0.11 0.02
Matches are distributed among these distances:
161 129 0.10
162 862 0.68
163 126 0.10
168 3 0.00
169 3 0.00
175 9 0.01
176 132 0.10
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (162 bp):
TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
CCGGGAGGGCCAAATCCCCTTCATCACAATCA
Found at i:402799 original size:243 final size:243
Alignment explanation
Indices: 402361--403956 Score: 2183
Period size: 243 Copynumber: 6.5 Consensus size: 243
402351 ACAATCCTCC
* * * * * *
402361 TCCTCATTCGTCGCCTCGTGATTT-GAATAACATTGTGAAGAGAGATACTCCAGGAGGACCAAAT
1 TCCTCCTTCGTCGCCTCATGATTTCG-ATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAAT
* * * * * *
402425 CCCCTTCATCACAATCATCCTCCTTCATCACCTCATAATTTCGATATCATTATGAATAGAGATAA
65 CCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATAC
** * * *
402490 G-CTGGAAACGCCAAATCCCCTTCAGCACAATCATCCTTCTTCGTTGCCTCATGATTTCGATATC
130 GCCTGG-AGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATC
* * *
402554 ATTGTAAAGAGAGATACGTCGGGAGGTCCAAATCCCCTTCATCACAATCA
194 ATTGTGAAGAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCA
*
402604 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGACCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
* * * * *
402669 CCCTTCATCATAATCATCCTCCTTCTTCGCCTCTTGATTTCGATACCATTGTGAAAAGAGATACG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
* ** * *
402734 CCAGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTTTTTGCCTCATGATTTCGGTATCAT
131 CCTGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCAT
* * * *
402799 TTTGAAAAGAGATATGCC-GGAGGACCAAATCCCCTTCATCACAATCA
196 TGTGAAGAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCA
** * * *
402846 TCCTCCTTCGTTACCTTATGATTTCGATATCATTGTGAAGAGAGATACACAGGGAGGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
*
402911 CCCTTCATCACAATCATCCTCTTTCGTCGCCTCATGATTTCGATATCATTGTAAAGAGAGATACG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGT-------GA-A--
* * * *
402976 TGGGGAGAGATACGCTTGGAGGGTCAAATCCCCTTTATCACAATCATCCTCCTTCGTCGTCTCAT
121 ----GAGAGATACGCCTGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCAT
* * *
403041 GATTTCGATATCATTATGAAGAGAGATACGCCGGGAAGGCCAAATCCTCTTCATCACAATCA
182 GATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCA
* *
403103 TCCTCCTTCGTCGCCTCATGATTTCGATAACATTGTGAAGAGAGATACGCTGGGAGGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
* * * *
403168 CACTTCATCACAATCATCCTCCTTCGTCGCCTCGTGATTTTGATAACATTGTGAAGAGAGATACG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
* *
403233 -TTGAGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCACCTCATGATTTCGATATCA
131 CCTG-GAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCA
*
403297 TTGTGAAGAGAGATACGCCGGGAGGGCAAAATCCCCTTCATCACAATCA
195 TTGTGAAGAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCA
* * *
403346 TCCTCATTCGTCGCCTCATGATTTTGATATCATTGTGAAGAGAGATACGCCTGGAGGGCCAAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
* * * * * *
403411 CACTTCATCATAATCATCCTCATTCGTCTCCTCTTGATTTCGATATCATTATGAAGAGAGATACG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
* * *
403476 CCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCTTTCGTCTCCTCATGATTTCGATATCAT
131 CCTGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCAT
* * *
403541 TGTGAAGAGCGATACGTCGGGAGGGCCAAATCCCCTTCATCATAATCA
196 TGTGAAGAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCA
* * * ** *
403589 TCCTCCTTCGTCACCTCATGATTTCGGTATCATTGTGAAGAAAGATACATCGGGAGGGCCAAAAC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
* * *
403654 CCCTTCATCACAATCATCCTCCTTTGTCGCCTCATGATTTTGATATCATTGTGAAGAGATATACG
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
* * * * *
403719 CCAGGAGGGCCAAATCCCATTTATCACAATCATCCTCTTTCGTCGCCTCATGATTTTGATATCAT
131 CCTGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCAT
*
403784 TGTGAAGAGAGATACGCCGGGAGGGCCAAATCCCTTTCCATCACAATCA
196 TGTGAAGAGAGATACGCCGGGAGGGCCAAATCCCCTT-CATCACAATCA
*
403833 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCGAATC
1 TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
* * *
403898 CCCTTCATCACAATCATCATCCTTCGTCTCCTCATGATTTTGATATCATTGTGAAGAGA
66 CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGA
403957 CCAAACCCCC
Statistics
Matches: 1202, Mismatches: 131, Indels: 39
0.88 0.10 0.03
Matches are distributed among these distances:
242 137 0.11
243 718 0.60
244 129 0.11
249 3 0.00
250 3 0.00
256 80 0.07
257 132 0.11
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (243 bp):
TCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACGCCGGGAGGGCCAAATC
CCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTGTGAAGAGAGATACG
CCTGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCAT
TGTGAAGAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCA
Found at i:403048 original size:95 final size:95
Alignment explanation
Indices: 402898--403156 Score: 303
Period size: 81 Copynumber: 2.9 Consensus size: 95
402888 AGATACACAG
* *
402898 GGAGGGCCAAATCCCCTTCATCACAATCATCCTCTTTCGTCGCCTCATGATTTCGATATCATTGT
1 GGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTAT
402963 AAAGAGAGATACGTGGGGAGAGATACGCTT
66 AAAGAGAGATACGTGGGGAGAGATACGCTT
* * *
402993 GGAGGGTCAAATCCCCTTTATCACAATCATCCTCCTTCGTCGTCTCATGATTTCGATATCATTAT
1 GGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTAT
**
403058 -------GA-A------GAGAGATACGCCG
66 AAAGAGAGATACGTGGGGAGAGATACGCTT
* * * *
403074 GGAAGGCCAAATCCTCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATAACATTGT
1 GGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTAT
*
403139 GAAGAGAGATACGCTGGG
66 AAAGAGAGATACG-TGGG
403157 AGGGCCAAAT
Statistics
Matches: 135, Mismatches: 14, Indels: 29
0.76 0.08 0.16
Matches are distributed among these distances:
81 69 0.51
87 1 0.01
88 4 0.03
89 1 0.01
95 60 0.44
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (95 bp):
GGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATTTCGATATCATTAT
AAAGAGAGATACGTGGGGAGAGATACGCTT
Found at i:403115 original size:81 final size:81
Alignment explanation
Indices: 402980--403956 Score: 1477
Period size: 81 Copynumber: 12.0 Consensus size: 81
402970 GATACGTGGG
** * * *
402980 GAGAGATACGCTTGGAGGGTCAAATCCCCTTTATCACAATCATCCTCCTTCGTCGTCTCATGATT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
*
403045 TCGATATCATTATGAA
66 TCGATATCATTGTGAA
* *
403061 GAGAGATACGCCGGGAAGGCCAAATCCTCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
*
403126 TCGATAACATTGTGAA
66 TCGATATCATTGTGAA
* * *
403142 GAGAGATACGCTGGGAGGGCCAAATCCACTTCATCACAATCATCCTCCTTCGTCGCCTCGTGATT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
* *
403207 TTGATAACATTGTGAA
66 TCGATATCATTGTGAA
** * *
403223 GAGAGATACGTTGAGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCACCTCATGATT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
403288 TCGATATCATTGTGAA
66 TCGATATCATTGTGAA
* *
403304 GAGAGATACGCCGGGAGGGCAAAATCCCCTTCATCACAATCATCCTCATTCGTCGCCTCATGATT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
*
403369 TTGATATCATTGTGAA
66 TCGATATCATTGTGAA
* * * * * *
403385 GAGAGATACGCCTGGAGGGCCAAATCCACTTCATCATAATCATCCTCATTCGTCTCCTCTTGATT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
*
403450 TCGATATCATTATGAA
66 TCGATATCATTGTGAA
* *
403466 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCTTTCGTCTCCTCATGATT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
403531 TCGATATCATTGTGAA
66 TCGATATCATTGTGAA
* * * *
403547 GAGCGATACGTCGGGAGGGCCAAATCCCCTTCATCATAATCATCCTCCTTCGTCACCTCATGATT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
*
403612 TCGGTATCATTGTGAA
66 TCGATATCATTGTGAA
* ** * *
403628 GAAAGATACATCGGGAGGGCCAAAACCCCTTCATCACAATCATCCTCCTTTGTCGCCTCATGATT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
*
403693 TTGATATCATTGTGAA
66 TCGATATCATTGTGAA
* * * * *
403709 GAGATATACGCCAGGAGGGCCAAATCCCATTTATCACAATCATCCTCTTTCGTCGCCTCATGATT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
*
403774 TTGATATCATTGTGAA
66 TCGATATCATTGTGAA
*
403790 GAGAGATACGCCGGGAGGGCCAAATCCCTTTCCATCACAATCATCCTCCTTCGTCGCCTCATGAT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTT-CATCACAATCATCCTCCTTCGTCGCCTCATGAT
403855 TTCGATATCATTGTGAA
65 TTCGATATCATTGTGAA
* * *
403872 GAGAGATACGCCGGGAGGGCCGAATCCCCTTCATCACAATCATCATCCTTCGTCTCCTCATGATT
1 GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
*
403937 TTGATATCATTGTGAA
66 TCGATATCATTGTGAA
403953 GAGA
1 GAGA
403957 CCAAACCCCC
Statistics
Matches: 817, Mismatches: 78, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
81 741 0.91
82 76 0.09
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (81 bp):
GAGAGATACGCCGGGAGGGCCAAATCCCCTTCATCACAATCATCCTCCTTCGTCGCCTCATGATT
TCGATATCATTGTGAA
Found at i:404015 original size:66 final size:66
Alignment explanation
Indices: 403897--404020 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 66
403887 AGGGCCGAAT
** ** *
403897 CCCCTTCATCACAATCATCATCCTTCGTCTCCTCATGATTTTGATATCATTGTGAAGAGACCAAA
1 CCCCTTCATCACAATCATCATCCTTCGTCTCCTCATGATTTCAATAGAATTGTAAAGAGACCAAA
403962 C
66 C
* *
403963 CCCCTTCATCATAATCATCCTCCTTCGTCGT-CTCATGATTTCAATAGAATTGTAAAGA
1 CCCCTTCATCACAATCATCATCCTTCGTC-TCCTCATGATTTCAATAGAATTGTAAAGA
404021 TAGATACATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 49 0.98
67 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (66 bp):
CCCCTTCATCACAATCATCATCCTTCGTCTCCTCATGATTTCAATAGAATTGTAAAGAGACCAAA
C
Found at i:405446 original size:12 final size:12
Alignment explanation
Indices: 405431--405460 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
405421 ATTTTCTACT
405431 TTATTTATTTGA
1 TTATTTATTTGA
*
405443 TTATTTATTTGT
1 TTATTTATTTGA
405455 TTATTT
1 TTATTT
405461 TCTCATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (12 bp):
TTATTTATTTGA
Found at i:407255 original size:19 final size:19
Alignment explanation
Indices: 407210--407255 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
407200 GCGTGTGATT
*
407210 TTTTTTATTTTGAATTTTA
1 TTTTTTATTTTGAATATTA
** *
407229 AATATTATTTTGAATATTA
1 TTTTTTATTTTGAATATTA
407248 TTTTTTAT
1 TTTTTTAT
407256 ATTTTAGTTT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTTATTTTGAATATTA
Found at i:407716 original size:15 final size:15
Alignment explanation
Indices: 407677--407718 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
407667 TAAAATTTTA
407677 ATTTTAATATTTATT
1 ATTTTAATATTTATT
407692 -TTTATAATATTTATT
1 ATTT-TAATATTTATT
*
407707 ATTTTTATATTT
1 ATTTTAATATTT
407719 TAATTTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTAATATTTATT
Found at i:418807 original size:217 final size:208
Alignment explanation
Indices: 418434--418865 Score: 666
Period size: 217 Copynumber: 2.0 Consensus size: 208
418424 TTCCTCAAGT
418434 AAAACATGTGTACCTTCTCATCTCCAAAGCTACACCACATTTATGACAGATAACATTATTTGCAG
1 AAAACATGTGTACCTTCTCATCTCCAAAGCTACACCACATTTATGACAGATAACATTATTTGCAG
* ** *
418499 GTTCTTGAGAGGACAGTACTTATTCATCACCAGAGTACGGAGTATCACCTCATTTGCATTTCTTG
66 GTTATCAAGAGGACAGTACTTATTCATCACCAGAGTACGGAGTATCACCTCATTTACATTTCTTG
* *
418564 GTCCAGATTGAATTTTGTGATGCATTCCTTGACACAAGCGGTTGGATGTTGAAATTTAAGAAACA
131 GTCCAGATTGAATTTTATGATGCATTCCTTGACACAAGCGGTTGGATGTCGAAATTTAAGAAACA
418629 CACGGTAAAGATA
196 CACGGTAAAGATA
*
418642 AAAACATGTGTACCTTCTCATCTCCAAAGCTACACCACATTTATGGCAGATAACAAACATTATTT
1 AAAACATGTGTACCTTCTCATCTCCAAAGCTACACCACATTTATGACAGAT----AACATTA-TT
418707 GTGCAGAGGTTATCAAGAGGACAGTACTTATTTCATCACCAGAGTACGGAGTATCACCTCATTTA
61 -TGC--AGGTTATCAAGAGGACAGTACTTA-TTCATCACCAGAGTACGGAGTATCACCTCATTTA
* *
418772 CATTTCTTGGTCCAGATTGAATTTTATGCTGCATTCTTTGACACAAGCGGTTGGATGTCGAAATT
122 CATTTCTTGGTCCAGATTGAATTTTATGATGCATTCCTTGACACAAGCGGTTGGATGTCGAAATT
* **
418837 TATGAAACACGTGGTAAAGATA
187 TAAGAAACACACGGTAAAGATA
*
418859 AAGACAT
1 AAAACAT
418866 AACCAAAGCA
Statistics
Matches: 202, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
208 50 0.25
212 7 0.03
213 2 0.01
214 3 0.01
216 21 0.10
217 119 0.59
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (208 bp):
AAAACATGTGTACCTTCTCATCTCCAAAGCTACACCACATTTATGACAGATAACATTATTTGCAG
GTTATCAAGAGGACAGTACTTATTCATCACCAGAGTACGGAGTATCACCTCATTTACATTTCTTG
GTCCAGATTGAATTTTATGATGCATTCCTTGACACAAGCGGTTGGATGTCGAAATTTAAGAAACA
CACGGTAAAGATA
Found at i:432247 original size:145 final size:144
Alignment explanation
Indices: 431893--432428 Score: 384
Period size: 145 Copynumber: 3.7 Consensus size: 144
431883 TTGCTGCGCT
* * * * * * * *
431893 GCCGTGCCACCGTCCGATTGTCCTGAAATTTCAGTATGTTGTTCGTGTTGA-CATCGCGCAATTT
1 GCCGT-CCACCGTCTGATCGTCCTCAATTTTCAGTATGTTGTTCATGCTGATC-TCTCGCAACTT
* * * * * * * * * * * * *
431957 TTGACCGTTCGGAATATTAATCGAAGGTTCCGATCAC-CGACGAGAGGCTAAAAACCGTCTGGAT
64 TCGACCGTTC-GAATATTGATCGAAGATCCCGATCGCAGGA-AAAACGCCAAAAACCAT-TCGAA
* *
432021 TTGTTTTCTCCCGATTCACC
126 TTATTTTCT-CCGATCCACC
* * ** * * * * * * *
432041 ACCGTCTATGGTCTGATCGTCATGAAATTTCAGTATGCTGTTCGTGTTGA-CAT-TACACAACTT
1 GCCGTCCACCGTCTGATCGTCCTCAATTTTCAGTATGTTGTTCATGCTGATC-TCT-CGCAAC-T
* * * *
432104 TTC-ACCGTTTC-AAGTATTGATCGGAGATCCCGATCGCCGGAAAAAGGCTAAAAACCATTCGAA
63 TTCGACCG-TTCGAA-TATTGATCGAAGATCCCGATCGCAGGAAAAACGCCAAAAACCATTCGAA
432167 TTATTTTCTCCGATCCACC
126 TTATTTTCTCCGATCCACC
*
432186 GCCGTCCACCGTCTGATTGTCCTCAATTTTCAGTATGTTGTTCATGCTGATCTCTCGCAACTTTC
1 GCCGTCCACCGTCTGATCGTCCTCAATTTTCAGTATGTTGTTCATGCTGATCTCTCGCAACTTTC
* * * * * * **
432251 GACCGTTCGGAATGTTGATCGAAGATCCGGATCTCAGGAAAGACGCCAAAAATCGTTCGGCTTAT
66 GACCGTTC-GAATATTGATCGAAGATCCCGATCGCAGGAAAAACGCCAAAAACCATTCGAATTAT
432316 TTTCTCCGATCCACC
130 TTTCTCCGATCCACC
* * * * *
432331 GCCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCT-TGAGCAACTTT
1 GCCGTCCACCGTCTGATCGTCCTCAATTTTCAGTATGTTGTTCATGCTGATCTCT-CGCAACTTT
* ** * *
432395 TGACCGTTCGGAATGGTGATCTAAGATTCCGATC
65 CGACCGTTC-GAATATTGATCGAAGATCCCGATC
432429 AACGGTGAGA
Statistics
Matches: 317, Mismatches: 60, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
144 8 0.03
145 199 0.63
146 17 0.05
147 81 0.26
148 12 0.04
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (144 bp):
GCCGTCCACCGTCTGATCGTCCTCAATTTTCAGTATGTTGTTCATGCTGATCTCTCGCAACTTTC
GACCGTTCGAATATTGATCGAAGATCCCGATCGCAGGAAAAACGCCAAAAACCATTCGAATTATT
TTCTCCGATCCACC
Found at i:432965 original size:3 final size:3
Alignment explanation
Indices: 432941--432991 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
432931 CTACAAAAGC
* * *
432941 AAT ATT AAT ATT AAT AAAT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
432987 AAT AA
1 AAT AA
432992 CGGGATGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:433522 original size:109 final size:111
Alignment explanation
Indices: 433184--433655 Score: 671
Period size: 111 Copynumber: 4.2 Consensus size: 111
433174 TTCAGGGAAG
* * * * * **
433184 ATTGAATCAGGGTAGACTTGTTCCATTATCACTTC-TGAAATATCAAATCTTGAAAGAGATTTGA
1 ATTGAATCAAGGTAGACTTGTTCCACTGTCAC-TCAGGGAATATCAAATCTTGAAAGAGA-GGGA
* * * *
433248 TTTGTTCCACTTCTTTTGAGGGAATATATCAGATCTAGGAAAGTTGATCC
64 TTTGTTCCACTTCCTCTGAGGG-A-ATATCAGATCTGGGAAAGTTGATTC
* *
433298 ATTGAATCAGGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
1 ATTGAATCAAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATT
* * *
433363 TGTTCCGCTTCCTCTGAGGGAATATCATATCTGGGAAAGTTGATTT
66 TGTTCCACTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
* * *
433409 ATTGAATCAAGGTAGACTTGTTCCGCTGTCATTCAGGGAATATCAAATCTTG-AA-AGAGGGATA
1 ATTGAATCAAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATT
433472 TGTTCCACTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
66 TGTTCCACTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
* * *
433518 ATTGAATCAAGGTAGACTTGTTCCGCTGTCACTCAAGGAATACCAAATCTTGAAAGAGAGGGATT
1 ATTGAATCAAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATT
433583 TGTTCCACTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
66 TGTTCCACTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
* *
433629 ATTGAATCAAAGCAGACTTGTTCCACT
1 ATTGAATCAAGGTAGACTTGTTCCACT
433656 TACTCTGAAT
Statistics
Matches: 327, Mismatches: 28, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
109 100 0.31
110 4 0.01
111 148 0.45
112 1 0.00
113 22 0.07
114 52 0.16
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (111 bp):
ATTGAATCAAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATT
TGTTCCACTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
Found at i:433571 original size:220 final size:223
Alignment explanation
Indices: 433184--433655 Score: 691
Period size: 220 Copynumber: 2.1 Consensus size: 223
433174 TTCAGGGAAG
* * * *
433184 ATTGAATCAGGGTAGACTTGTTCCATTATCACTTCTGAAATATCAAATCTTGAAAGAGATTTGAT
1 ATTGAATCAAGGTAGACTTGTTCCACTATCACTTCGGAAATATCAAATCTTGAAAGAG--TGGAT
* * * *
433249 TTGTTCCACTTCTTTTGAGGGAATATATCAGATCTAGGAAAGTTGATCCATTGAATCAGGGTAGA
64 ATGTTCCACTTCCTCTGAGGGAATATATCAGATCTAGGAAAGTTGATCCATTGAATCAAGGTAGA
* * *
433314 CTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCTCTG
129 CTTGTTCCACTGTCACTCAAGGAATACCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCTG
* *
433379 AGGGAATATCATATCTGGGAAAGTTGATTT
194 AGGGAATATCAGATCTGGGAAAGTTGATTC
* * *
433409 ATTGAATCAAGGTAGACTTGTTCCGCTGTCA-TTCAGGGAATATCAAATCTTGAAAGAG-GGATA
1 ATTGAATCAAGGTAGACTTGTTCCACTATCACTTC-GGAAATATCAAATCTTGAAAGAGTGGATA
* *
433472 TGTTCCACTTCCTCTGAGGG-A-ATATCAGATCTGGGAAAGTTGATTCATTGAATCAAGGTAGAC
65 TGTTCCACTTCCTCTGAGGGAATATATCAGATCTAGGAAAGTTGATCCATTGAATCAAGGTAGAC
* *
433535 TTGTTCCGCTGTCACTCAAGGAATACCAAATCTTGAAAGAGAGGGATTTGTTCCACTTCCTCTGA
130 TTGTTCCACTGTCACTCAAGGAATACCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCTGA
433600 GGGAATATCAGATCTGGGAAAGTTGATTC
195 GGGAATATCAGATCTGGGAAAGTTGATTC
* *
433629 ATTGAATCAAAGCAGACTTGTTCCACT
1 ATTGAATCAAGGTAGACTTGTTCCACT
433656 TACTCTGAAT
Statistics
Matches: 223, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
220 150 0.67
221 1 0.00
222 21 0.09
224 3 0.01
225 48 0.22
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (223 bp):
ATTGAATCAAGGTAGACTTGTTCCACTATCACTTCGGAAATATCAAATCTTGAAAGAGTGGATAT
GTTCCACTTCCTCTGAGGGAATATATCAGATCTAGGAAAGTTGATCCATTGAATCAAGGTAGACT
TGTTCCACTGTCACTCAAGGAATACCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCTGAG
GGAATATCAGATCTGGGAAAGTTGATTC
Found at i:433708 original size:66 final size:66
Alignment explanation
Indices: 433582--434289 Score: 1216
Period size: 66 Copynumber: 10.8 Consensus size: 66
433572 AGAGAGGGAT
* * * * *
433582 TTGTTCCACTTCCTCTG-AGGGAATATCAGATCTGGGA-AAGTTGATTCATTGAATCAAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
433645 C
66 C
* * *
433646 TTGTTCCACTTACTCTGAATGAAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
433711 C
66 C
* * *
433712 TTATTCCACTTACTCTGAAGGGAATATCAAATC-TGGAG-AGTTGGTCCATTGAATCAAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
433775 C
66 C
*
433776 -TGTTCCACTTACTCTGAAGGGAATATCAAATCTTAGAGAAGTTGATCCATTGAATCGAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
433840 C
66 C
433841 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
433906 C
66 C
*
433907 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAG-TGATCCATTGAATCGAAGTAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
433971 C
66 C
433972 TTGTTCCACTTACTCTGAAGGG-A-ATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
434035 C
66 C
*
434036 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGTAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
434101 C
66 C
434102 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
434167 C
66 C
**
434168 TTGTTCCACTTTTTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
434233 C
66 C
434234 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAAT
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAAT
434290 TGGGATCGAA
Statistics
Matches: 609, Mismatches: 27, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
63 48 0.08
64 88 0.14
65 90 0.15
66 383 0.63
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (66 bp):
TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
C
Found at i:434001 original size:195 final size:198
Alignment explanation
Indices: 433582--434289 Score: 1216
Period size: 195 Copynumber: 3.6 Consensus size: 198
433572 AGAGAGGGAT
* * * * *
433582 TTGTTCCACTTCCTCTG-AGGGAATATCAGATCTGGGA-AAGTTGATTCATTGAATCAAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
* * *
433645 CTTGTTCCACTTACTCTGAATGAAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAG
66 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAG
* * *
433710 ACTTATTCCACTTACTCTGAAGGGAATATCAAATC-TGGAG-AGTTGGTCCATTGAATCAAAGCA
131 ACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCA
433773 GAC
196 GAC
*
433776 -TGTTCCACTTACTCTGAAGGGAATATCAAATCTTAGAGAAGTTGATCCATTGAATCGAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
433840 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAG
66 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAG
*
433905 ACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAG-TGATCCATTGAATCGAAGTA
131 ACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCA
433969 GAC
196 GAC
433972 TTGTTCCACTTACTCTGAAGGG-A-ATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
*
434035 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGTAG
66 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAG
434100 ACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCA
131 ACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCA
434165 GAC
196 GAC
**
434168 TTGTTCCACTTTTTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
434233 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAAT
66 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAAT
434290 TGGGATCGAA
Statistics
Matches: 488, Mismatches: 18, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
193 15 0.03
194 17 0.03
195 267 0.55
196 68 0.14
197 24 0.05
198 97 0.20
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (198 bp):
TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAG
ACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCA
GAC
Found at i:434062 original size:261 final size:262
Alignment explanation
Indices: 433582--434289 Score: 1203
Period size: 261 Copynumber: 2.7 Consensus size: 262
433572 AGAGAGGGAT
* * * * *
433582 TTGTTCCACTTCCTCTG-AGGGAATATCAGATCTGGGA-AAGTTGATTCATTGAATCAAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
* * *
433645 CTTGTTCCACTTACTCTGAATGAAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAG
66 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAG-AAGTGATCCATTGAATCGAAGCAG
* *
433710 ACTTATTCCACTTACTCTGAAGGGAATATCAAATC-TGGAG-AGTTGGTCCATTGAATCAAAGCA
130 ACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCAAAGCA
433773 GACTGTTCCACTTACTCTGAAGGGAATATCAAATCTTAGAGAAGTTGATCCATTGAATCGAAGCA
195 GACTGTTCCACTTACTCTGAAGGGAATATCAAATCTTAGAGAAGTTGATCCATTGAATCGAAGCA
433838 GAC
260 GAC
433841 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
*
433906 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTGATCCATTGAATCGAAGTAGA
66 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTGATCCATTGAATCGAAGCAGA
*
433971 CTTGTTCCACTTACTCTGAAGGG-A-ATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAG
131 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCAAAGCAG
* *
434034 ACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGTA
196 AC-TGTTCCACTTACTCTGAAGGGAATATCAAATCTTAGAGAAGTTGATCCATTGAATCGAAGCA
434099 GAC
260 GAC
434102 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
1 TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
**
434167 CTTGTTCCACTTTTTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAG
66 CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAG-TGATCCATTGAATCGAAGCAG
434232 ACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAAT
130 ACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAAT
434290 TGGGATCGAA
Statistics
Matches: 424, Mismatches: 17, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
258 8 0.02
259 22 0.05
260 87 0.21
261 231 0.54
262 44 0.10
263 1 0.00
264 31 0.07
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (262 bp):
TTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGA
CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTGATCCATTGAATCGAAGCAGA
CTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCAAAGCAG
ACTGTTCCACTTACTCTGAAGGGAATATCAAATCTTAGAGAAGTTGATCCATTGAATCGAAGCAG
AC
Found at i:435488 original size:14 final size:14
Alignment explanation
Indices: 435471--435506 Score: 58
Period size: 12 Copynumber: 2.7 Consensus size: 14
435461 TTTTTTTTTT
435471 TTCATTTTTTTCCA
1 TTCATTTTTTTCCA
435485 TTCA--TTTTTCCA
1 TTCATTTTTTTCCA
435497 TTCATTTTTT
1 TTCATTTTTT
435507 CAGGCGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 12 0.60
14 8 0.40
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (14 bp):
TTCATTTTTTTCCA
Found at i:446897 original size:2 final size:2
Alignment explanation
Indices: 446892--446952 Score: 101
Period size: 2 Copynumber: 32.0 Consensus size: 2
446882 TTATAACTTT
446892 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
446934 TA TA TA TA -A T- TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
446953 ATGTACGAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.05
2 53 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:447862 original size:145 final size:144
Alignment explanation
Indices: 447508--448043 Score: 488
Period size: 145 Copynumber: 3.7 Consensus size: 144
447498 TTGCTGCACT
* * * * * * * *
447508 GCCGTGCCACCGTCCGATTGTCCTGAAATTTTAGTATGCTGTTCGTGTTGA-CATCGTGCAATTT
1 GCCGT-CCACCGTCTGATCGTCCTG-AATTTCAGTATGTTGTTCGTGATGATC-TTGCGCAACTT
* * * * * * * * * *
447572 TTGACCGTTCGGAATATTGATCGAAGGTTCCGATCAC-CGACGAGAGGCCAAAAACCGTCTGGAT
63 TTCACCGTTTGGAATGTTGATCGGAGATCCCGATCGCAGGA-AAGAGGCCAAAAACCGT-TCGA-
* * *
447636 TTTTTTTTCTCCGATTCACC
125 CTTATTTTCTCCGATCCACC
* * * * * * * * *
447656 ACCGTCTACGGTCCGATCGTCATGAAATTTCAGTATGCTGTTCGTGTTGA-CATTACACAACTTT
1 GCCGTCCACCGTCTGATCGTCCTG-AATTTCAGTATGTTGTTCGTGATGATC-TTGCGCAACTTT
* * * * * *
447720 TCACTGTTTGAAATATTGATCGGAGATCCCGATCGCTGGCAAA-AGGCTAAAAACCGTTCGTCTT
64 TCACCGTTTGGAATGTTGATCGGAGATCCCGATCGCAGG-AAAGAGGCCAAAAACCGTTCGACTT
447784 ATTTTCTCCGATCCACC
128 ATTTTCTCCGATCCACC
* *
447801 GCCGTCCACCGTCTGATCGTCCTGAATGTTCAGTATGTTGTTCGTGCTGATCTCGCGCAAC-TTT
1 GCCGTCCACCGTCTGATCGTCCTGAAT-TTCAGTATGTTGTTCGTGATGATCTTGCGCAACTTTT
* * * *
447865 CGACCGTTCGGAATGTTGATCGAAGATCTCGATCGCAGGAAAGAGGCCAAAAGCCGTTCGACTTA
65 C-ACCGTTTGGAATGTTGATCGGAGATCCCGATCGCAGGAAAGAGGCCAAAAACCGTTCGACTTA
447930 TTTTCTCCGATCCACC
129 TTTTCTCCGATCCACC
* * *
447946 GCCGTCCACCGTCTGATCGTCCTGAATTTTCAGTACGTTGTTCGTGATGGTCTTGAGCAACTTTT
1 GCCGTCCACCGTCTGATCGTCCTGAA-TTTCAGTATGTTGTTCGTGATGATCTTGCGCAACTTTT
* * * *
448011 GACCATTTGGAATGGTGATCGGAGATTCCGATC
65 CACCGTTTGGAATGTTGATCGGAGATCCCGATC
448044 AACAGAGAGA
Statistics
Matches: 321, Mismatches: 59, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
144 10 0.03
145 207 0.64
146 7 0.02
147 90 0.28
148 6 0.02
149 1 0.00
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.31
Consensus pattern (144 bp):
GCCGTCCACCGTCTGATCGTCCTGAATTTCAGTATGTTGTTCGTGATGATCTTGCGCAACTTTTC
ACCGTTTGGAATGTTGATCGGAGATCCCGATCGCAGGAAAGAGGCCAAAAACCGTTCGACTTATT
TTCTCCGATCCACC
Found at i:448580 original size:3 final size:3
Alignment explanation
Indices: 448556--448606 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
448546 CTACAAAAGC
* * *
448556 AAT ATT AAT ATT AAT AAAT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
448602 AAT AA
1 AAT AA
448607 CGGGATGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:449221 original size:16 final size:16
Alignment explanation
Indices: 449200--449259 Score: 84
Period size: 16 Copynumber: 3.8 Consensus size: 16
449190 TAATAAATAA
*
449200 ACGAACATAAACGAAT
1 ACGAACATAAACGAAC
449216 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
449232 ATGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
449248 AAGAACATAAAC
1 ACGAACATAAAC
449260 ATTGGAAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:449650 original size:14 final size:14
Alignment explanation
Indices: 449633--449664 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
449623 AATGAACATA
449633 AACGAACATAACCG
1 AACGAACATAACCG
449647 AACGAACATAACCG
1 AACGAACATAACCG
449661 AACG
1 AACG
449665 TTCACGAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.28, G:0.16, T:0.06
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:450713 original size:53 final size:52
Alignment explanation
Indices: 450645--450773 Score: 204
Period size: 53 Copynumber: 2.5 Consensus size: 52
450635 TAAGGGTTAC
*
450645 GGTTAGAGAAGATAAAAAGAGACAGAAGATAAAGAGGCTCGGTTTAGGTTTGG
1 GGTTAGAGAAGATAAATAGAGACAGAAGATAAAGAGGCTCGGTTTAGGTTT-G
* * * *
450698 GGTTAGAGAATATAAATAGAGATAGAAGATGAAGAGGCTCGGTTTGGGTTTG
1 GGTTAGAGAAGATAAATAGAGACAGAAGATAAAGAGGCTCGGTTTAGGTTTG
450750 GGTTAGAGAAGATAAATAGAGACA
1 GGTTAGAGAAGATAAATAGAGACA
450774 AAAGGTGAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
52 23 0.33
53 46 0.67
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.22
Consensus pattern (52 bp):
GGTTAGAGAAGATAAATAGAGACAGAAGATAAAGAGGCTCGGTTTAGGTTTG
Found at i:450800 original size:52 final size:53
Alignment explanation
Indices: 450645--450838 Score: 176
Period size: 53 Copynumber: 3.7 Consensus size: 53
450635 TAAGGGTTAC
* * * * *
450645 GGTTAGAGAAGATAAAAAGAGACAGAAGATAAAGAGGCTCGGTTTAGGTTTGG
1 GGTTAGAGAAGATAAATAGAGACAAAAGATGAAGAGGCTAGGTTTAGGTTTAG
* * * * *
450698 GGTTAGAGAATATAAATAGAGATAGAAGATGAAGAGGCTCGGTTTGGGTTT-G
1 GGTTAGAGAAGATAAATAGAGACAAAAGATGAAGAGGCTAGGTTTAGGTTTAG
* * *** *
450750 GGTTAGAGAAGATAAATAGAGACAAAAGGTGAATATTTTAGGTTAAGGTTTAG
1 GGTTAGAGAAGATAAATAGAGACAAAAGATGAAGAGGCTAGGTTTAGGTTTAG
* * * * *
450803 GATTAGAAAAGATGAACATAGACAGAAAG-TGAAGAG
1 GGTTAGAGAAGATAAATAGAGACA-AAAGATGAAGAG
450839 ACTCGGTTAG
Statistics
Matches: 116, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
52 41 0.35
53 71 0.61
54 4 0.03
ACGTcount: A:0.41, C:0.04, G:0.31, T:0.23
Consensus pattern (53 bp):
GGTTAGAGAAGATAAATAGAGACAAAAGATGAAGAGGCTAGGTTTAGGTTTAG
Found at i:450857 original size:6 final size:6
Alignment explanation
Indices: 450843--450873 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
450833 GAAGAGACTC
*
450843 GGTTAG GGTTTG GGTTTG GGTTTG GGTTTG G
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG G
450874 ATTTAAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.52, T:0.45
Consensus pattern (6 bp):
GGTTTG
Found at i:451541 original size:26 final size:26
Alignment explanation
Indices: 451512--451660 Score: 135
Period size: 26 Copynumber: 5.6 Consensus size: 26
451502 AATAAATTAA
451512 TATATAGTTTATATATACTAATGAAC
1 TATATAGTTTATATATACTAATGAAC
451538 TATATAATATATAGTTTATATATACTAATGAAC
1 -------TATATAGTTTATATATACTAATGAAC
* * * *
451571 TATATACTATATAGTTTA-T-ATAAAC
1 TATATAGTTTATA-TATACTAATGAAC
**
451596 TAGGTAGTTTATATATACTAATGAAC
1 TATATAGTTTATATATACTAATGAAC
*
451622 TATATAGTTTATATAAACTAATGAAC
1 TATATAGTTTATATATACTAATGAAC
451648 TATATA--TTATATA
1 TATATAGTTTATATA
451661 GTTTATATAC
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
24 10 0.10
25 15 0.15
26 46 0.46
27 3 0.03
33 26 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (26 bp):
TATATAGTTTATATATACTAATGAAC
Found at i:451543 original size:15 final size:15
Alignment explanation
Indices: 451523--451579 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
451513 ATATAGTTTA
451523 TATATACTAATGAAC
1 TATATACTAATGAAC
* *
451538 TATATAATATATAGTTTA-
1 TATATACTA-AT-G--AAC
451556 TATATACTAATGAAC
1 TATATACTAATGAAC
451571 TATATACTA
1 TATATACTA
451580 TATAGTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 1 0.03
15 17 0.52
16 3 0.09
17 3 0.09
18 8 0.24
19 1 0.03
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (15 bp):
TATATACTAATGAAC
Found at i:451546 original size:33 final size:33
Alignment explanation
Indices: 451509--451835 Score: 404
Period size: 33 Copynumber: 9.5 Consensus size: 33
451499 TTTAATAAAT
451509 TAATATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
451542 TAATATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* * *
451575 TACTATATAGTTTATATAAACTAGGTAGTTTATA-TATA
1 TAATATATAGTTTATATATACTA---A--TGA-ACTATA
*
451613 CTAATGAACTATATAGTTTATATAAACTAATGAACTATA
1 -TAAT--A-TATA--GTTTATATATACTAATGAACTATA
* *
451652 TATTATATAGTTTATATACACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* *
451685 TAATATATATAATTTATATATACTAATGAACAATA
1 T-A-ATATATAGTTTATATATACTAATGAACTATA
* *
451720 TATTGTATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
451753 TACTATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* *
451786 TAATATATAATTTATATATACAAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
451819 TAATATATAGTTTATAT
1 TAATATATAGTTTATAT
451836 TAATAAACCA
Statistics
Matches: 258, Mismatches: 21, Indels: 30
0.83 0.07 0.10
Matches are distributed among these distances:
33 182 0.71
34 2 0.01
35 32 0.12
36 2 0.01
38 10 0.04
39 10 0.04
41 2 0.01
42 4 0.02
44 14 0.05
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (33 bp):
TAATATATAGTTTATATATACTAATGAACTATA
Found at i:451659 original size:110 final size:102
Alignment explanation
Indices: 451512--451835 Score: 381
Period size: 101 Copynumber: 3.1 Consensus size: 102
451502 AATAAATTAA
451512 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATA
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATA
* *
451577 CTATATAGTTTATATAAACTAGGTAGTTTATAT-ATACTAATGA-AC
66 ATATATA-TTTATATAAA-TA--TA--CTA-ATGA-AC-AAT-ATAC
* * *
451622 TATATAGTTTATATAAACTAATGAACTATATATTATATAGTTTATATACACTAATGAACTATATA
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATA
* * * *
451687 ATATATA-TAATTTATATATACTAATGAACAATATAT
66 ATATATATTTATATAAATATACTAATGAACAATATAC
* *
451723 TGTATAGTTTATATATACTAATGAACTATATACTATATAGTTTATATATACTAATGAACTATATA
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATA
* * * *
451788 ATATATAATT-TAT--ATATACAAATGAACTATATAA
66 ATATATATTTATATAAATATACTAATGAACAATATAC
451822 TATATAGTTTATAT
1 TATATAGTTTATAT
451836 TAATAAACCA
Statistics
Matches: 192, Mismatches: 19, Indels: 17
0.84 0.08 0.07
Matches are distributed among these distances:
99 31 0.16
100 1 0.01
101 74 0.39
102 5 0.03
103 3 0.02
105 2 0.01
107 2 0.01
108 6 0.03
110 68 0.35
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (102 bp):
TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATA
ATATATATTTATATAAATATACTAATGAACAATATAC
Found at i:451754 original size:15 final size:15
Alignment explanation
Indices: 451734--451787 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
451724 GTATAGTTTA
451734 TATATACTAATGAAC
1 TATATACTAATGAAC
*
451749 TATATACTATATAGTTTA-
1 TATATACTA-AT-G--AAC
451767 TATATACTAATGAAC
1 TATATACTAATGAAC
451782 TATATA
1 TATATA
451788 ATATATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 1 0.03
15 15 0.47
16 3 0.09
17 3 0.09
18 9 0.28
19 1 0.03
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (15 bp):
TATATACTAATGAAC
Found at i:451775 original size:18 final size:18
Alignment explanation
Indices: 451512--451615 Score: 80
Period size: 18 Copynumber: 6.1 Consensus size: 18
451502 AATAAATTAA
451512 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
451530 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
451545 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
*
451563 TA-AT-G--AACTATATAC
1 TATATAGTTTA-TATATAC
*
451578 TATATAGTTTATATAAAC
1 TATATAGTTTATATATAC
**
451596 TAGGTAGTTTATATATAC
1 TATATAGTTTATATATAC
451614 TA
1 TA
451616 ATGAACTATA
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
14 2 0.03
15 17 0.26
16 6 0.09
17 6 0.09
18 33 0.50
19 2 0.03
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:451848 original size:22 final size:22
Alignment explanation
Indices: 451823--451879 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
451813 ACTATATAAT
451823 ATATAGTTTATATTAATAAACC
1 ATATAGTTTATATTAATAAACC
451845 ATATAGTTTATATTAATAAACC
1 ATATAGTTTATATTAATAAACC
451867 ATATAGTTTATAT
1 ATATAGTTTATAT
451880 ATTGTTCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (22 bp):
ATATAGTTTATATTAATAAACC
Found at i:452712 original size:94 final size:94
Alignment explanation
Indices: 452592--452769 Score: 266
Period size: 94 Copynumber: 1.9 Consensus size: 94
452582 GAACCTGAAG
* * * *
452592 TAACCTGGTCTTTAACTGCTCTGGACCTGAACTGTCACCGATCAGAACTGAAATAAACTTGAACT
1 TAACCTGGTCTTTAACTACTCCGGACCTGAACTGACACCGATCAGAACTGAAAGAAACTTGAACT
*
452657 GAACCTAGTGTCAAATCAAACAGAAAAAT
66 GAACATAGTGTCAAATCAAACAGAAAAAT
* * * *
452686 TAACTTGGTCTTTAACTACTCCGGACCTGAACTGACATCGATCTGAACTGAAAGGAACTTGAACT
1 TAACCTGGTCTTTAACTACTCCGGACCTGAACTGACACCGATCAGAACTGAAAGAAACTTGAACT
*
452751 GAACATGGTGTCAAATCAA
66 GAACATAGTGTCAAATCAA
452770 CCTAAAAATG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (94 bp):
TAACCTGGTCTTTAACTACTCCGGACCTGAACTGACACCGATCAGAACTGAAAGAAACTTGAACT
GAACATAGTGTCAAATCAAACAGAAAAAT
Found at i:453376 original size:20 final size:21
Alignment explanation
Indices: 453351--453443 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
453341 TTTTCCCAAT
*
453351 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
453371 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
453392 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
453412 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
453433 TCGCAATGCGA
1 TCGCAATGCGA
453444 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:453396 original size:41 final size:41
Alignment explanation
Indices: 453351--453443 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
453341 TTTTCCCAAT
453351 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
453392 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
453433 TCGCAATGCGA
1 TCGCAATGCGA
453444 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:453456 original size:41 final size:41
Alignment explanation
Indices: 453370--453504 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
453360 GAATAAGTAA
* *
453370 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
453411 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
453452 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
453493 TTCGCAACGCGA
1 ATCGCAACGCGA
453505 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Done.