Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009075.1 Hibiscus syriacus cultivar Beakdansim tig00112508_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: 1223780
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:311346 original size:2 final size:2
Alignment explanation
Indices: 311341--311481 Score: 69
Period size: 2 Copynumber: 76.0 Consensus size: 2
311331 TATTCTTTTC
*
311341 TA TA TA TA TA TA TA TA TA TA T- TC T- TA TA TA TA CT- 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
* *
311381 TA T- TA TA TG TA TA TA T- TA TA -A GTA TA -A TG TA TA CT- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA
* * * * *
311420 T- TA TA TA TT TA TA T- TG TA TG CA TA -A GTA TA -A TG TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
311458 TA TA -A TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
311482 ATTGTTTCAA
Statistics
Matches: 107, Mismatches: 13, Indels: 38
0.68 0.08 0.24
Matches are distributed among these distances:
1 15 0.14
2 88 0.82
3 4 0.04
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:311395 original size:13 final size:13
Alignment explanation
Indices: 311377--311481 Score: 60
Period size: 13 Copynumber: 8.3 Consensus size: 13
311367 TATATACTTA
311377 TATATATTATATG
1 TATATATTATATG
*
311390 TATATATTATAAG
1 TATATATTATATG
*
311403 TATA-ATGTATA-C
1 TATATAT-TATATG
*
311415 T-TATATTATATA
1 TATATATTATATG
* *
311427 TTTATATTGTATG
1 TATATATTATATG
* *
311440 CATA-AGTATAATG
1 TATATATTAT-ATG
* *
311453 TATATTATAATATA
1 TATA-TATTATATG
311467 TATATA-TATAT-
1 TATATATTATATG
311478 TATA
1 TATA
311482 ATTGTTTCAA
Statistics
Matches: 71, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
11 10 0.14
12 13 0.18
13 39 0.55
14 6 0.08
15 3 0.04
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (13 bp):
TATATATTATATG
Found at i:311420 original size:37 final size:37
Alignment explanation
Indices: 311343--311482 Score: 126
Period size: 35 Copynumber: 3.6 Consensus size: 37
311333 TTCTTTTCTA
* *
311343 TATATATATATATATATATTCTTATA-TATACT-TATA-
1 TATATATATATATATATATT-ATA-AGTATAATGTATAT
*
311379 TATAT-TATATGTATATATTATAAGTATAATGTATACT
1 TATATATATATATATATATTATAAGTATAATGTATA-T
* *
311416 TATATTATATATTTATATTGTATGCATAAGTATAATGTATAT
1 TATA-TATATA--TATA-TATAT-TATAAGTATAATGTATAT
311458 TATAATATATATATATATATTATAA
1 TAT-ATATATATATATATATTATAA
311483 TTGTTTCAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
33 1 0.01
34 7 0.08
35 17 0.20
36 5 0.06
37 4 0.05
38 5 0.06
39 8 0.09
40 4 0.05
41 3 0.04
42 14 0.16
43 17 0.20
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (37 bp):
TATATATATATATATATATTATAAGTATAATGTATAT
Found at i:315926 original size:16 final size:16
Alignment explanation
Indices: 315893--315945 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
315883 TAAATAATCC
* *
315893 GACTTGTTATTGACCT
1 GACTTGATATTTACCT
* *
315909 GATTTGATATTTATCT
1 GACTTGATATTTACCT
315925 GACTTGATATTTACCT
1 GACTTGATATTTACCT
315941 GACTT
1 GACTT
315946 ATAAGTTACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (16 bp):
GACTTGATATTTACCT
Found at i:316118 original size:13 final size:13
Alignment explanation
Indices: 316074--316118 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
316064 TATTTTATAT
316074 ATTAATTATAATC
1 ATTAATTATAATC
*
316087 CTTATATTATAAATC
1 ATTA-ATTAT-AATC
316102 -TTAATTATAATC
1 ATTAATTATAATC
316114 ATTAA
1 ATTAA
316119 ATTAATTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 8 0.29
15 4 0.14
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAATTATAATC
Found at i:316428 original size:45 final size:46
Alignment explanation
Indices: 316373--316491 Score: 147
Period size: 45 Copynumber: 2.6 Consensus size: 46
316363 ATTATATTTG
* *
316373 AGAATTTAGAGAGAAATTGAGAAATTTTGGGACA-TT-AGGAAATTA
1 AGAATTTAGAGAGAAATTGGGAAATTTTGGGAAAGTTGA-GAAATTA
* * *
316418 AGAATATAGAGAGAAATCGGGAAACTTT-GGAAAGTTGAGAAATTA
1 AGAATTTAGAGAGAAATTGGGAAATTTTGGGAAAGTTGAGAAATTA
316463 AGAATTTAGAG-GAAATTTGGGAAATTTTG
1 AGAATTTAGAGAGAAA-TTGGGAAATTTTG
316492 AGAATAGAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
44 8 0.13
45 53 0.85
46 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.28
Consensus pattern (46 bp):
AGAATTTAGAGAGAAATTGGGAAATTTTGGGAAAGTTGAGAAATTA
Found at i:316499 original size:27 final size:28
Alignment explanation
Indices: 316469--316540 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
316459 ATTAAGAATT
*
316469 TAGAGGAAATTTGGGAAATTTTGA-GAA
1 TAGAGGAAATTTGGGAAATTTAGAGGAA
*
316496 TAGAGGGAAA-TTGAGAAATTTAGAGGGAA
1 TAGA-GGAAATTTGGGAAATTTAGA-GGAA
*
316525 TAGA-TAAATTTGGGAA
1 TAGAGGAAATTTGGGAA
316541 GTGAGCGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
27 19 0.51
28 11 0.30
29 7 0.19
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.26
Consensus pattern (28 bp):
TAGAGGAAATTTGGGAAATTTAGAGGAA
Found at i:316535 original size:19 final size:20
Alignment explanation
Indices: 316496--316535 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
316486 ATTTTGAGAA
*
316496 TAGAGGGAAATTGAGAAATT
1 TAGAGGGAAATAGAGAAATT
*
316516 TAGAGGG-AATAGATAAATT
1 TAGAGGGAAATAGAGAAATT
316535 T
1 T
316536 GGGAAGTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (20 bp):
TAGAGGGAAATAGAGAAATT
Found at i:316887 original size:2 final size:2
Alignment explanation
Indices: 316880--317002 Score: 119
Period size: 2 Copynumber: 61.0 Consensus size: 2
316870 CATACATCAC
* * * *
316880 AT AT AT AT ACT -T AC AT AT ACT -T AT AT AT AC AT AT TT AT GT AT
1 AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
*
316922 AT ACT TT AT ACT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
316965 AT AT AT AT AT AT AT AT AT AT AT A- AGT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
317003 TATTTTTCTT
Statistics
Matches: 100, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
1 4 0.04
2 91 0.91
3 5 0.05
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:317108 original size:18 final size:20
Alignment explanation
Indices: 317085--317126 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
317075 CATACATAAT
317085 TACACACACACAT-A-TATA
1 TACACACACACATAAGTATA
317103 TACACACACACATAAGTATA
1 TACACACACACATAAGTATA
317123 TACA
1 TACA
317127 TGCATCATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 13 0.59
19 1 0.05
20 8 0.36
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.21
Consensus pattern (20 bp):
TACACACACACATAAGTATA
Found at i:317168 original size:12 final size:12
Alignment explanation
Indices: 317153--317230 Score: 60
Period size: 12 Copynumber: 6.8 Consensus size: 12
317143 ACATACATGC
*
317153 ATATATATTCTT
1 ATATATATACTT
317165 ATATATATACTT
1 ATATATATACTT
*
317177 ATACTATATAGTT
1 ATA-TATATACTT
*
317190 -TATATACTTACAT
1 ATATATA--TACTT
317203 AT-TATATAC--
1 ATATATATACTT
317212 A-A-ATATACTT
1 ATATATATACTT
317222 ATATATATA
1 ATATATATA
317231 TACTTGTACT
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
8 6 0.11
9 1 0.02
10 1 0.02
11 8 0.15
12 21 0.40
13 15 0.28
14 1 0.02
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.47
Consensus pattern (12 bp):
ATATATATACTT
Found at i:317221 original size:23 final size:22
Alignment explanation
Indices: 317191--317233 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
317181 TATATAGTTT
317191 ATATACTTACATATTATATACAA
1 ATATACTTACATA-TATATACAA
*
317214 ATATACTTATATATATATAC
1 ATATACTTACATATATATAC
317234 TTGTACTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATACTTACATATATATACAA
Found at i:317517 original size:18 final size:19
Alignment explanation
Indices: 317457--317692 Score: 112
Period size: 20 Copynumber: 12.1 Consensus size: 19
317447 CCGCCCCTGA
317457 TTATATACTTATATAGT-TAT
1 TTATATA-TTATATA-TATAT
* * * *
317477 GT-TATATTGTTTATATCT
1 TTATATATTATATATATAT
*
317495 TTATATATTCTATATAT-T
1 TTATATATTATATATATAT
*
317513 TTATATA-TATAT-TCT-T
1 TTATATATTATATATATAT
*
317529 TTCTATA-TATATATATAT
1 TTATATATTATATATATAT
* *
317547 ATATATATTCTTATATATACT
1 TTATATATT-ATATATATA-T
*
317568 TATATATATTATATGTATAT
1 T-TATATATTATATATATAT
* * *
317588 ATTATA-AGTATAATGTATAC
1 -TTATATATTAT-ATATATAT
*
317608 TTATAT-TATATATTTATAT
1 TTATATAT-TATATATATAT
* *
317627 TGTATGCATAAGTATAATGTATAT
1 T-TAT--AT-ATTAT-ATATATAT
317651 TATATATATATATATATATAT
1 T-TATATAT-TATATATATAT
*
317672 ATATATATATATATATATAT
1 TTATATAT-TATATATATAT
317692 T
1 T
317693 ATAATTGTTT
Statistics
Matches: 168, Mismatches: 29, Indels: 38
0.71 0.12 0.16
Matches are distributed among these distances:
16 14 0.08
17 7 0.04
18 22 0.13
19 33 0.20
20 46 0.27
21 17 0.10
22 15 0.09
23 3 0.02
24 11 0.07
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (19 bp):
TTATATATTATATATATAT
Found at i:317524 original size:22 final size:22
Alignment explanation
Indices: 317496--317695 Score: 139
Period size: 22 Copynumber: 8.9 Consensus size: 22
317486 TTTATATCTT
* *
317496 TATATATTCTATATATTTTATA
1 TATATATTATATATATTATATA
*
317518 TATATATTCT-T-T-TCTATATA
1 TATATATTATATATAT-TATATA
*
317538 TATATATATATATATATTCT-TA
1 TATATAT-TATATATATTATATA
*
317560 TATATACTTATATATATTATATG
1 TATATA-TTATATATATTATATA
* *
317583 TATATATTATA-AGTATAATGTA
1 TATATATTATATA-TATTATATA
317605 TACTTATATTATATAT-TTATAT-
1 TA--TATATTATATATATTATATA
* *
317627 TGTATGCATAAGTATA-ATGTATAT-
1 TATAT--ATTA-TATATAT-TATATA
317651 TATATATATATATATATATATATA
1 TATATAT-TATATATAT-TATATA
317675 TATATATATATATATATTATA
1 TATATAT-TATATATATTATA
317696 ATTGTTTCAA
Statistics
Matches: 144, Mismatches: 15, Indels: 37
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.01
20 16 0.11
21 4 0.03
22 53 0.37
23 32 0.22
24 37 0.26
25 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.53
Consensus pattern (22 bp):
TATATATTATATATATTATATA
Found at i:317530 original size:16 final size:16
Alignment explanation
Indices: 317514--317621 Score: 71
Period size: 16 Copynumber: 6.8 Consensus size: 16
317504 CTATATATTT
*
317514 TATATATATATTCTTT
1 TATATATATATTCTTA
* *
317530 TCTATATATA-T-ATA
1 TATATATATATTCTTA
317544 TATATATATATTCTTA
1 TATATATATATTCTTA
*
317560 TATATACTTATATATATTA
1 TATATA--TATAT-TCTTA
* * *
317579 TATGTATATATTATAA
1 TATATATATATTCTTA
* *
317595 GTATA-ATGTATACTTA
1 -TATATATATATTCTTA
317611 TAT-TATATATT
1 TATATATATATT
317622 TATATTGTAT
Statistics
Matches: 70, Mismatches: 15, Indels: 15
0.70 0.15 0.15
Matches are distributed among these distances:
14 10 0.14
15 10 0.14
16 28 0.40
17 8 0.11
18 5 0.07
19 9 0.13
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.54
Consensus pattern (16 bp):
TATATATATATTCTTA
Found at i:317537 original size:2 final size:2
Alignment explanation
Indices: 317532--317695 Score: 122
Period size: 2 Copynumber: 87.0 Consensus size: 2
317522 TATTCTTTTC
*
317532 TA TA TA TA TA TA TA TA TA TA TA T- TC T- TA TA TA TA CT- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
317572 TA TA T- TA TA TG TA TA TA T- TA TA -A GTA TA -A TG TA TA CT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA
* * * * *
317611 TA T- TA TA TA TT TA TA T- TG TA TG CA TA -A GTA TA -A TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
317650 T- 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
317691 T- TA TA
1 TA TA TA
317696 ATTGTTTCAA
Statistics
Matches: 131, Mismatches: 13, Indels: 36
0.73 0.07 0.20
Matches are distributed among these distances:
1 14 0.11
2 113 0.86
3 4 0.03
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:317613 original size:37 final size:37
Alignment explanation
Indices: 317572--317668 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
317562 TATACTTATA
* * *
317572 TATATTATATGTATATATTATAAGTATAATGTATACT-
1 TATATTATATATATATATTATAAGCATAA-GTATAATG
* * *
317609 TATATTATATATTTATATTGTATGCATAAGTATAATG
1 TATATTATATATATATATTATAAGCATAAGTATAATG
317646 TATATTATATATATATATATATA
1 TATATTATATATATATAT-TATA
317669 TATATATATA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
36 6 0.12
37 41 0.82
38 3 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (37 bp):
TATATTATATATATATATTATAAGCATAAGTATAATG
Found at i:324257 original size:17 final size:18
Alignment explanation
Indices: 324225--324259 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
324215 CCCTCATCTC
*
324225 TTTCATTTTTTTAATTAA
1 TTTCATTTTCTTAATTAA
324243 TTTCA-TTTCTTAATTAA
1 TTTCATTTTCTTAATTAA
324260 GCTTTGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTCATTTTCTTAATTAA
Found at i:330290 original size:22 final size:22
Alignment explanation
Indices: 330260--330302 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
330250 AAATCTAATT
* *
330260 TTTTTTATTAATTAATATTTTA
1 TTTTATATTAAATAATATTTTA
*
330282 TTTTATATTAAATAATTTTTT
1 TTTTATATTAAATAATATTTT
330303 CCGGTTAGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATATTAAATAATATTTTA
Found at i:330299 original size:20 final size:20
Alignment explanation
Indices: 330255--330302 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
330245 GGATTAAATC
330255 TAATTTTTTTTATTAATTAA
1 TAATTTTTTTTATTAATTAA
330275 T-ATTTTATTTTA-T-ATTAAA
1 TAATTTT-TTTTATTAATT-AA
330294 TAATTTTTT
1 TAATTTTTT
330303 CCGGTTAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
18 3 0.12
19 11 0.44
20 11 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TAATTTTTTTTATTAATTAA
Found at i:332361 original size:19 final size:19
Alignment explanation
Indices: 332337--332380 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
332327 GAACATCATA
332337 AAAACATGTTAATTTTAAT
1 AAAACATGTTAATTTTAAT
* * *
332356 AAAACATTTTATTTTTATT
1 AAAACATGTTAATTTTAAT
332375 AAAACA
1 AAAACA
332381 CCAAGTTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAACATGTTAATTTTAAT
Found at i:333021 original size:43 final size:43
Alignment explanation
Indices: 332925--333073 Score: 192
Period size: 43 Copynumber: 3.5 Consensus size: 43
332915 CATAATAGAA
* * *
332925 CAAGATCTATCGCGACATTTTTGGAACAAACGCAGCAAAAGGT
1 CAAGATCTATAGCGACATTTTTGGAACAAACGCCGCAAAATGT
* * * * *
332968 CGATAGCTATAACGACGTTTTTGGAACAAACGCCGCAAAATGT
1 CAAGATCTATAGCGACATTTTTGGAACAAACGCCGCAAAATGT
*
333011 CAAGATCTATAGCGGA-ATTTTTGGAACAAAAGCCGCAAAATGT
1 CAAGATCTATAGC-GACATTTTTGGAACAAACGCCGCAAAATGT
*
333054 CAAGATCTATAGCGGCATTT
1 CAAGATCTATAGCGACATTT
333074 CTATAGCGGT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 86 0.97
44 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (43 bp):
CAAGATCTATAGCGACATTTTTGGAACAAACGCCGCAAAATGT
Found at i:333104 original size:57 final size:56
Alignment explanation
Indices: 333016--333125 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 56
333006 AATGTCAAGA
*
333016 TCTATAGCGGAATTTTTGGAACAAAAGCCGCAAAATGTCAAGATCTATAGCGGCATT
1 TCTATAGCGGAATTTTTGGAACAAAAGCCGCAAAAGGTC-AGATCTATAGCGGCATT
** *
333073 TCTATAGCGGTGTTTTTGGAACAAAAGCCGCAAAAGGTCGGATCTATAGCGGC
1 TCTATAGCGGAATTTTTGGAACAAAAGCCGCAAAAGGTCAGATCTATAGCGGC
333126 GTTTTTGGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 13 0.27
57 36 0.73
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (56 bp):
TCTATAGCGGAATTTTTGGAACAAAAGCCGCAAAAGGTCAGATCTATAGCGGCATT
Found at i:333150 original size:100 final size:99
Alignment explanation
Indices: 332984--333166 Score: 260
Period size: 100 Copynumber: 1.8 Consensus size: 99
332974 CTATAACGAC
* * *
332984 GTTTTTGGAACAAACGCCGCAAAATGTCAAGATCTATAGCGGAATTTTTGGAACAAAAGCCGCAA
1 GTTTTTGGAACAAAAGCCGCAAAAGGTCAAGATCTATAGCGGAATTTTTGGAACAAAAGCCACAA
333049 AATGTCAAGATCTATAGCGGCATTTCTATAGCGGT
66 AATGT-AAGATCTATAGCGGCATTTCTATAGCGGT
* ** * *
333084 GTTTTTGGAACAAAAGCCGCAAAAGGTC-GGATCTATAGCGGCGTTTTTGGATTCAAACGCCACA
1 GTTTTTGGAACAAAAGCCGCAAAAGGTCAAGATCTATAGCGGAATTTTTGGA-ACAAAAGCCACA
*
333148 AAATGTTAGATCTATAGCG
65 AAATGTAAGATCTATAGCG
333167 ACGTTTTTGG
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
99 32 0.44
100 41 0.56
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (99 bp):
GTTTTTGGAACAAAAGCCGCAAAAGGTCAAGATCTATAGCGGAATTTTTGGAACAAAAGCCACAA
AATGTAAGATCTATAGCGGCATTTCTATAGCGGT
Found at i:333164 original size:43 final size:43
Alignment explanation
Indices: 333073--333281 Score: 226
Period size: 43 Copynumber: 4.9 Consensus size: 43
333063 TAGCGGCATT
* * * **
333073 TCTATAGCGGTGTTTTTGGA-ACAAAAGCCGCAAAAGGTCGGA
1 TCTATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTTAGA
* *
333115 TCTATAGCGGCGTTTTTGGATTCAAACGCCACAAAATGTTAGA
1 TCTATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTTAGA
* * *
333158 TCTATAGCGACGTTTTTGGATACAAACGCCGCAAAAGGTGAGA
1 TCTATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTTAGA
* * * *
333201 TCGATAGTGGTGTTTTTGGATACAAACACCACAAAAGG-TATGA
1 TCTATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTTA-GA
* * *
333244 TCTATAACGGCGCTTTTT-TATACAAATGCCACAAAAGG
1 TCTATAGCGGCG-TTTTTGGATACAAACGCCACAAAAGG
333282 GCTCATGATA
Statistics
Matches: 138, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
42 20 0.14
43 113 0.82
44 5 0.04
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (43 bp):
TCTATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTTAGA
Found at i:336735 original size:81 final size:83
Alignment explanation
Indices: 336587--336793 Score: 202
Period size: 81 Copynumber: 2.5 Consensus size: 83
336577 GACCACTATA
* * * *
336587 GATGAACCCTATTACGACATTTTTATACAAACGCCGCTAAAGTACTACTCTGTCACGACGTCGGT
1 GATGAACCCTATTACGACATTTGTATAAAAACACCGCTAAAGCACTACTCTGTCACGACGTCGGT
*
336652 TG-AGAAACGCCTCTGTG
66 TGAAAAAACGCCTCTGTG
* * * ** * **
336669 GATGAA-CCTATTGCGGCGTTTGTATAAAAACACCGCTAAAGCACTACTCTGTTGCGGCGTTTGT
1 GATGAACCCTATTACGACATTTGTATAAAAACACCGCTAAAGCACTACTCTGTCACGACGTCGGT
* * *
336733 TGAAAAAACGCCACTATA
66 TGAAAAAACGCCTCTGTG
* * * * * *
336751 GATAAACCCTATTATGGCATTTTTATACAAACACTGCTAAAGC
1 GATGAACCCTATTACGACATTTGTATAAAAACACCGCTAAAGC
336794 TATAATTTTG
Statistics
Matches: 100, Mismatches: 23, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
81 48 0.48
82 22 0.22
83 30 0.30
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (83 bp):
GATGAACCCTATTACGACATTTGTATAAAAACACCGCTAAAGCACTACTCTGTCACGACGTCGGT
TGAAAAAACGCCTCTGTG
Found at i:337234 original size:20 final size:20
Alignment explanation
Indices: 337209--337251 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
337199 TTCTTACAGC
337209 ATCGATACTCTATGAACAAT
1 ATCGATACTCTATGAACAAT
*
337229 ATCGATATTCTATGAACAAT
1 ATCGATACTCTATGAACAAT
337249 ATC
1 ATC
337252 AATATTGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (20 bp):
ATCGATACTCTATGAACAAT
Found at i:337256 original size:20 final size:20
Alignment explanation
Indices: 337217--337257 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
337207 GCATCGATAC
*
337217 TCTATGAACAATATCGATAT
1 TCTATGAACAATATCAATAT
337237 TCTATGAACAATATCAATAT
1 TCTATGAACAATATCAATAT
337257 T
1 T
337258 GTTCATGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (20 bp):
TCTATGAACAATATCAATAT
Found at i:350926 original size:42 final size:43
Alignment explanation
Indices: 350880--351200 Score: 172
Period size: 43 Copynumber: 7.4 Consensus size: 43
350870 TTAGAGACCC
*
350880 CAATTATAAAGGTAAAAAGTGATATTAAAAAAA-TAGGGGCAT
1 CAATTATAAAGGTAAAAAGTGATATTAAAAAAATTAGGGGCCT
* * * *
350922 CAATTTTAAAGGTAAAAAATTAGATTGAAAAAAATTAGGGGCCT
1 CAATTATAAAGGTAAAAAGTGATATT-AAAAAAATTAGGGGCCT
* * * *
350966 AAATTAT-ATGAGTAAAAGATGGGAT-TGAAAAAAATTAGGGGCCT
1 CAATTATAAAG-GTAAAA-A-GTGATATTAAAAAAATTAGGGGCCT
* ** *
351010 CAATTATAAATGTAAAAAGTGAGT-TTGAAAAAAGCT-GGAG-CT
1 CAATTATAAAGGTAAAAAGTGA-TATT-AAAAAAATTAGGGGCCT
* * * ** * * ** *
351052 TAATTATATAA-GTACAAGGTGGGATTGAAAAACTTAGGATCAT
1 CAATTATA-AAGGTAAAAAGTGATATTAAAAAAATTAGGGGCCT
* * *
351095 CAATTATAAATGTAAAAAAAATGGA-ATTAAAAAAATTAAGGGCCT
1 CAATTATAAAGGT--AAAAAGT-GATATTAAAAAAATTAGGGGCCT
** * * * * **
351140 CCGTTATAAAGATAAAAAGTAAGATTACAAAAATTAGGGATCT
1 CAATTATAAAGGTAAAAAGTGATATTAAAAAAATTAGGGGCCT
* *
351183 TAATTATAAAGATAAAAA
1 CAATTATAAAGGTAAAAA
351201 ACTAAAATTA
Statistics
Matches: 207, Mismatches: 55, Indels: 33
0.70 0.19 0.11
Matches are distributed among these distances:
41 6 0.03
42 50 0.24
43 64 0.31
44 55 0.27
45 30 0.14
46 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.26
Consensus pattern (43 bp):
CAATTATAAAGGTAAAAAGTGATATTAAAAAAATTAGGGGCCT
Found at i:350981 original size:44 final size:44
Alignment explanation
Indices: 350891--351042 Score: 141
Period size: 44 Copynumber: 3.5 Consensus size: 44
350881 AATTATAAAG
* * * * * *
350891 GTAAAAAGTGATATT-AAAAAAA-TAGGGGCATCAATTTTA-AA
1 GTAAAAAATGAGATTGAAAAAAATTAGGGGCCTAAATTATATGA
*
350932 GGTAAAAAATTAGATTGAAAAAAATTAGGGGCCTAAATTATATGA
1 -GTAAAAAATGAGATTGAAAAAAATTAGGGGCCTAAATTATATGA
* * * *
350977 GTAAAAGATGGGATTGAAAAAAATTAGGGGCCTCAATTATA-AA
1 GTAAAAAATGAGATTGAAAAAAATTAGGGGCCTAAATTATATGA
* *
351020 TGTAAAAAGTGAGTTTGAAAAAA
1 -GTAAAAAATGAGATTGAAAAAA
351043 GCTGGAGCTT
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
42 12 0.13
43 8 0.09
44 69 0.77
45 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.26
Consensus pattern (44 bp):
GTAAAAAATGAGATTGAAAAAAATTAGGGGCCTAAATTATATGA
Found at i:350997 original size:86 final size:87
Alignment explanation
Indices: 350906--351139 Score: 240
Period size: 86 Copynumber: 2.7 Consensus size: 87
350896 AAGTGATATT
* *
350906 AAAAAAATAGGGGCATCAATTTTAAAGGTAAAAAATTAGATTGAAAAAAATTAGGGGCCTAAATT
1 AAAAAAATAGGGGCATCAATTATAAATGTAAAAAATTAGATTGAAAAAAATTAGGGGCCTAAATT
*
350971 ATATGAGTAAAAGATGGGATTG
66 ATATAAGTAAAAGATGGGATTG
* * * * ** * *
350993 AAAAAAATTAGGGGCCTCAATTATAAATGTAAAAAGTGAGTTTGAAAAAAGCT-GGAG-CTTAAT
1 AAAAAAA-TAGGGGCATCAATTATAAATGTAAAAAATTAGATTGAAAAAAATTAGGGGCCTAAAT
* *
351056 TATATAAGTACAAGGTGGGATTG
65 TATATAAGTAAAAGATGGGATTG
** ** * * *
351079 AAAAACTTAGGATCATCAATTATAAATGTAAAAAAAATGGAATT-AAAAAAATTAAGGGCCT
1 AAAAAAATAGGGGCATCAATTATAAATGT-AAAAAATTAG-ATTGAAAAAAATTAGGGGCCT
351140 CCGTTATAAA
Statistics
Matches: 115, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
85 19 0.17
86 43 0.37
87 14 0.12
88 39 0.34
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (87 bp):
AAAAAAATAGGGGCATCAATTATAAATGTAAAAAATTAGATTGAAAAAAATTAGGGGCCTAAATT
ATATAAGTAAAAGATGGGATTG
Found at i:351026 original size:88 final size:88
Alignment explanation
Indices: 350906--351139 Score: 244
Period size: 88 Copynumber: 2.7 Consensus size: 88
350896 AAGTGATATT
* *
350906 AAAAAAA-TAGGGGCATCAATTTTAAAGGTAAAAAATTAGATTGAAAAAAATTAGGGGCCTAAAT
1 AAAAAAATTAGGGGCATCAATTATAAATGTAAAAAATTAGATTGAAAAAAATTAGGGGCCTAAAT
*
350970 TATATGAGTAAAAGATGGGATTG
66 TATATAAGTAAAAGATGGGATTG
* * * * ** * *
350993 AAAAAAATTAGGGGCCTCAATTATAAATGTAAAAAGTGAGTTTGAAAAAAGCT-GGAG-CTTAAT
1 AAAAAAATTAGGGGCATCAATTATAAATGTAAAAAATTAGATTGAAAAAAATTAGGGGCCTAAAT
* *
351056 TATATAAGTACAAGGTGGGATTG
66 TATATAAGTAAAAGATGGGATTG
* ** * * *
351079 -AAAAACTTAGGATCATCAATTATAAATGTAAAAAAAATGGAATT-AAAAAAATTAAGGGCCT
1 AAAAAAATTAGGGGCATCAATTATAAATGT-AAAAAATTAG-ATTGAAAAAAATTAGGGGCCT
351140 CCGTTATAAA
Statistics
Matches: 116, Mismatches: 26, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
85 25 0.22
86 38 0.33
87 14 0.12
88 39 0.34
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (88 bp):
AAAAAAATTAGGGGCATCAATTATAAATGTAAAAAATTAGATTGAAAAAAATTAGGGGCCTAAAT
TATATAAGTAAAAGATGGGATTG
Found at i:355526 original size:55 final size:55
Alignment explanation
Indices: 355443--355983 Score: 703
Period size: 55 Copynumber: 9.9 Consensus size: 55
355433 ATATTACAAT
* ** * * * *
355443 TCATTAT-AAATTCGTGGTTTTGCACACATATTGCCGATACGATAATTCACAAAC
1 TCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
* * * *
355497 TCATTATGAATTACGTGGGGTTGCACACATAATGTCAATACGGAAATTCATAAAC
1 TCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
*
355552 TCATTCTGAATTTCGTGGGGTTTGCACACATAGTGCCAATACTG-AAATTCATAAAC
1 TCATTATGAATTTCGTGGGG-TTGCACACATAGTGCCAATAC-GAAAATTCATAAAC
* * * *
355608 TAATTATGAATTTCGTGAGGTTGCACACATAGGGCCAATACGGAAATTCATAAAC
1 TCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
* * * * *
355663 TAATTATGAATTTCGTGGGGTTGCACACATATTGTCAATATGGAAATTCATAAAC
1 TCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
*
355718 TCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
1 TCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
* * * *
355773 TC--TATGAATTTTGAGAGGTTGCACACATAGTGCAAATACGAAAATTCATAAAC
1 TCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
* * * *
355826 CCACTATGAATTTCGTGGGGTTGCACATATAGTGCAAATACGAAAATTCATAAAC
1 TCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
* * *
355881 CCACTATGAATTTCGTGGGGTTGCACACATAGTGCAAATACGAAAATTCATAAAC
1 TCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
* * * *
355936 CCACTATGAATTTCGTGGGGTTGCATATATAGTGCCAATACGAAAATT
1 TCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATT
355984 GCAACATATA
Statistics
Matches: 440, Mismatches: 41, Indels: 11
0.89 0.08 0.02
Matches are distributed among these distances:
53 49 0.11
54 8 0.02
55 334 0.76
56 48 0.11
57 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (55 bp):
TCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
Found at i:355894 original size:218 final size:218
Alignment explanation
Indices: 355453--355983 Score: 681
Period size: 218 Copynumber: 2.4 Consensus size: 218
355443 TCATTATAAA
** * * * *
355453 TTCGTGGTTTTGCACACATATTGCCGATACGATAATTCACAAACTCATTATGAATTACGTGGGGT
1 TTCGTGGGGTTGCACACATATTG-CAATAGGA-AATTCATAAACTCATTATGAATTTCGTGGGGT
* * * * * *
355518 TGCACACATAATGTCAATACGGAAATTCATAAACTCATTCTGAATTTCGTGGGGTTTGCACACAT
64 TGCACACATAGTGCCAATACGAAAATTCATAAACTCA-TATGAATTTCGAGAGGTTTGCACACAT
* * * *
355583 AGTGCCAATACTGAAATTCATAAACTAATTATGAATTTCGTGAGGTTGCACACATAGGGCCAATA
128 AGTGCAAATACTGAAATTCATAAACCAACTATGAATTTCGTGAGGTTGCACACATAGGGCAAATA
* * *
355648 CGGAAATTCATAAACTAATTATGAAT
193 CGAAAATTCATAAACCAACTATGAAT
*
355674 TTCGTGGGGTTGCACACATATTGTCAATATGGAAATTCATAAACTCATTATGAATTTCGTGAGGT
1 TTCGTGGGGTTGCACACATATTG-CAATA-GGAAATTCATAAACTCATTATGAATTTCGTGGGGT
*
355739 TGCACACATAGTGCCAATACGAAAATTCATAAACTC-TATGAATTTTGAGAGG-TTGCACACATA
64 TGCACACATAGTGCCAATACGAAAATTCATAAACTCATATGAATTTCGAGAGGTTTGCACACATA
* * * *
355802 GTGCAAATAC-GAAAATTCATAAACCCACTATGAATTTCGTGGGGTTGCACATATAGTGCAAATA
129 GTGCAAATACTG-AAATTCATAAACCAACTATGAATTTCGTGAGGTTGCACACATAGGGCAAATA
*
355866 CGAAAATTCATAAACCCACTATGAAT
193 CGAAAATTCATAAACCAACTATGAAT
* * * *
355892 TTCGTGGGGTTGCACACATAGTGCAAATACGAAAATTCATAAACCCACTATGAATTTCGTGGGGT
1 TTCGTGGGGTTGCACACATATTGC-AATA-GGAAATTCATAAACTCATTATGAATTTCGTGGGGT
* *
355957 TGCATATATAGTGCCAATACGAAAATT
64 TGCACACATAGTGCCAATACGAAAATT
355984 GCAACATATA
Statistics
Matches: 272, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
217 2 0.01
218 169 0.62
219 12 0.04
221 87 0.32
222 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (218 bp):
TTCGTGGGGTTGCACACATATTGCAATAGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTG
CACACATAGTGCCAATACGAAAATTCATAAACTCATATGAATTTCGAGAGGTTTGCACACATAGT
GCAAATACTGAAATTCATAAACCAACTATGAATTTCGTGAGGTTGCACACATAGGGCAAATACGA
AAATTCATAAACCAACTATGAAT
Found at i:356322 original size:22 final size:22
Alignment explanation
Indices: 356292--356346 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
356282 AGGCTGATTA
*
356292 GTATTGATACTTCTATACTATG
1 GTATCGATACTTCTATACTATG
356314 GTATCGATACTTCTATACTATG
1 GTATCGATACTTCTATACTATG
356336 GTATCGATACT
1 GTATCGATACT
356347 CCCTTCAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (22 bp):
GTATCGATACTTCTATACTATG
Found at i:361780 original size:3 final size:3
Alignment explanation
Indices: 361772--361810 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
361762 TAGAATATAC
*
361772 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
361811 TCAAGTTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:362520 original size:55 final size:55
Alignment explanation
Indices: 362461--362635 Score: 206
Period size: 55 Copynumber: 3.2 Consensus size: 55
362451 CATATTGCCG
* * * * *
362461 ATACGGTAATTCAAAAACTCATTATAAATTACATGTGGTTACACACATAGTGTAA
1 ATACGGAAATTCATAAACTCATTATGAATTACATGGGGTTACACACATAGTGCAA
* * * *
362516 ATACGGAAATTCATAAACTCATTATGAATTTCATGGGGTTGCACAGATAGTGCCA
1 ATACGGAAATTCATAAACTCATTATGAATTACATGGGGTTACACACATAGTGCAA
* * * * * * *
362571 ATACAGAAATTCATAAACTCATTATGAATTTCGTGAGTTTGCACACATAGTGCCA
1 ATACGGAAATTCATAAACTCATTATGAATTACATGGGGTTACACACATAGTGCAA
362626 ATACGGAAAT
1 ATACGGAAAT
362636 CCGTTATGAG
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 105 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (55 bp):
ATACGGAAATTCATAAACTCATTATGAATTACATGGGGTTACACACATAGTGCAA
Found at i:365297 original size:3 final size:3
Alignment explanation
Indices: 365289--365330 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
365279 TAGAATATAC
*
365289 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
365331 TCAAGTTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:366088 original size:55 final size:55
Alignment explanation
Indices: 365983--366157 Score: 217
Period size: 55 Copynumber: 3.2 Consensus size: 55
365973 CATATTGTCG
* * * * * * **
365983 ATACGGTAATTCAAAAACTCATTATAAATTAT-ATGTGGTTACACACATAGTGTAA
1 ATACGGAAATTCATAAACTCATTATGAATT-TCGTGAGGTTGCACACATAGTGCCA
* * *
366038 ATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGTACAGATAGTGCCA
1 ATACGGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCA
* *
366093 ATACAGAAATTCATAAACTCATTATGAATTTCGTGAGTTTGCACACATAGTGCCA
1 ATACGGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCA
366148 ATACGGAAAT
1 ATACGGAAAT
366158 CCGTTATGAG
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 1 0.01
55 102 0.99
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (55 bp):
ATACGGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCA
Found at i:369528 original size:55 final size:55
Alignment explanation
Indices: 369469--369988 Score: 389
Period size: 55 Copynumber: 9.5 Consensus size: 55
369459 TCGTGGTTTT
* * * * * *
369469 GTACACATATTGTCGATACGGTAATTCAAAAATTCATTATGAATTACATGGGGTG
1 GTACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTACATGGGGTG
* ** * * *
369524 GTACACATAGTGCCAATACTGAAATTCATAAACTCATTACCAATTTCGTGGGGTT
1 GTACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTACATGGGGTG
* * ** *
369579 GCACACATAGTACCAATACGGAAATTCATAAACTCATTATGAATTTA-ATTAGGTT
1 GTACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAA-TTACATGGGGTG
* * * * * * * * *
369634 GCACGCATAGTGCAAATACGAAAATTCATATACTCATTATGAATTTCGTGGTGTT
1 GTACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTACATGGGGTG
* * * * * ** * * *
369689 GCACACATATTGTCAATACGAAAAATCATAAACTTTTTATGAATTTCATGAGGTT
1 GTACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTACATGGGGTG
* * * *** * *
369744 GCACACATAGTGCTAATACGAAAATTCATAAACTCATTATGAATTTTGTGAGGTT
1 GTACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTACATGGGGTG
* * *** *
369799 GCACACATAGTGCTAATAC-GAAATTCATAAACTCATTATGAATTTTGTGGGGTT
1 GTACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTACATGGGGTG
* * * *** * *
369853 GCACACATAGTGCCAATACGAAAATTCATAAACACATTATGAATTTTGTGAGGTT
1 GTACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTACATGGGGTG
* * ** *** *
369908 GCACACATAGTGTCAATACATAAATTCATAAACTCATTATGAATTTTGTGGGGTT
1 GTACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTACATGGGGTG
* *
369963 GTA-AGCACAGTGCCAATACAGAAATT
1 GTACA-CATAGTGCCAATACGGAAATT
369989 GCAACATATA
Statistics
Matches: 396, Mismatches: 65, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
54 54 0.14
55 340 0.86
56 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (55 bp):
GTACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTACATGGGGTG
Found at i:369643 original size:110 final size:110
Alignment explanation
Indices: 369447--369953 Score: 601
Period size: 110 Copynumber: 4.6 Consensus size: 110
369437 ATATTACAAT
* * * * * * * * *
369447 TCATTATAAATTTCGTG-GTTTTGTACACATATTGTCGATACGGTAATTCAAAAATTCATTATGA
1 TCATTATGAATTTCGTGAG-GTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGA
* * *
369511 A-TTACATGGGGTGGTACACATAGTGCCAATACTG-AAATTCATAAAC
65 ATTTA-ATGAGGTTGCACACATAGTGCCAATAC-GAAAATTCATAAAC
** * *
369557 TCATTACCAATTTCGTGGGGTTGCACACATAGTACCAATACGGAAATTCATAAACTCATTATGAA
1 TCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAA
* * * *
369622 TTTAATTAGGTTGCACGCATAGTGCAAATACGAAAATTCATATAC
66 TTTAATGAGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
* * * * **
369667 TCATTATGAATTTCGTG-GTGTTGCACACATATTGTCAATACGAAAAATCATAAACTTTTTATGA
1 TCATTATGAATTTCGTGAG-GTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGA
* *
369731 ATTTCATGAGGTTGCACACATAGTGCTAATACGAAAATTCATAAAC
65 ATTTAATGAGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
* *
369777 TCATTATGAATTTTGTGAGGTTGCACACATAGTGCTAATAC-GAAATTCATAAACTCATTATGAA
1 TCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAA
** *
369841 TTTTGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
66 TTTAATGAGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
* * * **
369886 ACATTATGAATTTTGTGAGGTTGCACACATAGTGTCAATACATAAATTCATAAACTCATTATGAA
1 TCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAA
369951 TTT
66 TTT
369954 TGTGGGGTTG
Statistics
Matches: 343, Mismatches: 48, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
109 100 0.29
110 238 0.69
111 5 0.01
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (110 bp):
TCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAA
TTTAATGAGGTTGCACACATAGTGCCAATACGAAAATTCATAAAC
Found at i:369907 original size:164 final size:165
Alignment explanation
Indices: 369491--369963 Score: 630
Period size: 165 Copynumber: 2.9 Consensus size: 165
369481 TCGATACGGT
* * * * * *
369491 AATTCAAAAATTCATTATGAATTACATGGGGTGGTACACATAGTGCCAATACTG-AAATTCATAA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC-GAAAATTCATAA
** * * * *
369555 ACTCATTACCAATTTCGTGGGGTTGCACACATAGTACCAATACGGAAATTCATAAACTCATTATG
65 ACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCTAATACGAAAATTCATAAACTCATTATG
** * *
369620 AATTTAATTAGGTTGCACGCATAGTGCAAATACGAA
130 AATTTTGTGAGGTTGCACACATAGTGCAAATACGAA
* * * * *
369656 AATTCATATACTCATTATGAATTTCGTGGTGTTGCACACATATTGTCAATACGAAAAATCATAAA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAA
** *
369721 CTTTTTATGAATTTCATGAGGTTGCACACATAGTGCTAATACGAAAATTCATAAACTCATTATGA
66 CTCATTATGAATTTCGTGAGGTTGCACACATAGTGCTAATACGAAAATTCATAAACTCATTATGA
*
369786 ATTTTGTGAGGTTGCACACATAGTGCTAATACG-A
131 ATTTTGTGAGGTTGCACACATAGTGCAAATACGAA
*
369820 AATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAA
* *
369885 CACATTATGAATTTTGTGAGGTTGCACACATAGTG-TCAATAC-ATAAATTCATAAACTCATTAT
66 CTCATTATGAATTTCGTGAGGTTGCACACATAGTGCT-AATACGA-AAATTCATAAACTCATTAT
*
369948 GAATTTTGTGGGGTTG
129 GAATTTTGTGAGGTTG
369964 TAAGCACAGT
Statistics
Matches: 268, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
163 2 0.01
164 130 0.49
165 136 0.51
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (165 bp):
AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCATAAA
CTCATTATGAATTTCGTGAGGTTGCACACATAGTGCTAATACGAAAATTCATAAACTCATTATGA
ATTTTGTGAGGTTGCACACATAGTGCAAATACGAA
Found at i:372465 original size:17 final size:17
Alignment explanation
Indices: 372445--372494 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
372435 TCCAGTAATG
** *
372445 TTGTAGTACTGATACTT
1 TTGTAGTACCAATACTA
*
372462 TTGTATTACCAATACTA
1 TTGTAGTACCAATACTA
*
372479 TTGTAGTATCAATACT
1 TTGTAGTACCAATACT
372495 CTCTAGCATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (17 bp):
TTGTAGTACCAATACTA
Found at i:380376 original size:19 final size:19
Alignment explanation
Indices: 380347--380393 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
380337 TGAAAAGATT
*
380347 TAATAAA-ATAAAATGGATAA
1 TAATAAATA-AAAAGGGA-AA
380367 TAATAAATAAAAAGGGAAA
1 TAATAAATAAAAAGGGAAA
380386 TAATAAAT
1 TAATAAAT
380394 TAATAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 10 0.40
20 14 0.56
21 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (19 bp):
TAATAAATAAAAAGGGAAA
Found at i:383555 original size:76 final size:73
Alignment explanation
Indices: 383342--383567 Score: 244
Period size: 76 Copynumber: 3.1 Consensus size: 73
383332 TAAAACATCT
* * * *
383342 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATAC---CTAAAAAATAATATTTAAA
1 TAAAACCTAATTAAAATAC-TAAAACTATTTAAACTAAAATACAAAATAAAATATAATATTTAAA
*
383404 ATATTATTC
65 ATATTATCC
* * * * *
383413 TTAATCCTAATTAAAATACTAAAACTTATTTAAACTAAAATACCTAAAACAAAGATAAAATA-TA
1 TAAAACCTAATTAAAATACTAAAAC-TATTTAAACTAAAATA-C-AAAATAAA-ATATAATATTT
*
383477 AAAATAATATCC
62 AAAATATTATCC
* *
383489 TAAAACTTAATTAAAATACTAAAAACTATTTAAACTAAAATACAAAGATAAAATATAATGTTTAA
1 TAAAACCTAATTAAAATACT-AAAACTATTTAAACTAAAATACAAA-ATAAAATATAATATTTAA
383554 AATATTATCC
64 AATATTATCC
383564 TAAA
1 TAAA
383568 CTTGAGTTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
70 6 0.05
71 33 0.26
72 1 0.01
74 9 0.07
75 21 0.16
76 47 0.37
77 11 0.09
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (73 bp):
TAAAACCTAATTAAAATACTAAAACTATTTAAACTAAAATACAAAATAAAATATAATATTTAAAA
TATTATCC
Found at i:384773 original size:18 final size:18
Alignment explanation
Indices: 384746--384780 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
384736 TGACACTCTA
*
384746 CCATGGGTATCGATACTT
1 CCATGAGTATCGATACTT
384764 CCATGAGTATCGATACT
1 CCATGAGTATCGATACT
384781 AAATAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (18 bp):
CCATGAGTATCGATACTT
Found at i:399585 original size:40 final size:40
Alignment explanation
Indices: 399541--399616 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
399531 GATGTTGAGG
* *
399541 TTTGCTTTGTGTAGGATCTACTGGATCTTTATTTTTCTAC
1 TTTGCTTTGAGTAGGATCTACTGGATCTGTATTTTTCTAC
* *
399581 TTTGCTTTGAGTAGGATTTACTGTATCTGTATTTTT
1 TTTGCTTTGAGTAGGATCTACTGGATCTGTATTTTT
399617 TTCATTGTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.16, C:0.12, G:0.18, T:0.54
Consensus pattern (40 bp):
TTTGCTTTGAGTAGGATCTACTGGATCTGTATTTTTCTAC
Found at i:410990 original size:2 final size:2
Alignment explanation
Indices: 410983--411019 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
410973 ACTTTTAAGC
*
410983 GA GA GA GA GC GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
411020 CTGTATAGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:412233 original size:28 final size:26
Alignment explanation
Indices: 412201--412253 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
412191 TTAATTAGTT
*
412201 AATCATTGATTTCTATTAATAAAATTTA
1 AATCA-TG-TTTCTATCAATAAAATTTA
*
412229 AATCATGTTTTTATCAATAAAATTT
1 AATCATGTTTCTATCAATAAAATTT
412254 TGATTTGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 16 0.70
27 2 0.09
28 5 0.22
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.47
Consensus pattern (26 bp):
AATCATGTTTCTATCAATAAAATTTA
Found at i:416831 original size:11 final size:11
Alignment explanation
Indices: 416815--416839 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
416805 ATACCAAAAA
416815 GAAGTGCAAGT
1 GAAGTGCAAGT
416826 GAAGTGCAAGT
1 GAAGTGCAAGT
416837 GAA
1 GAA
416840 AGAAAATAAA
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:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (11 bp):
GAAGTGCAAGT
Found at i:421145 original size:20 final size:19
Alignment explanation
Indices: 421117--421168 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
421107 TATGTTCGTG
*
421117 GGTACCGATACTGACCCT-TT
1 GGTATCGATACT-A-CCTATT
421137 GGTATCGATACCTACCTATT
1 GGTATCGATA-CTACCTATT
421157 GGTATCGATACT
1 GGTATCGATACT
421169 CCCTGACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.17
20 22 0.76
21 2 0.07
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (19 bp):
GGTATCGATACTACCTATT
Found at i:428276 original size:42 final size:41
Alignment explanation
Indices: 428162--428565 Score: 264
Period size: 43 Copynumber: 9.5 Consensus size: 41
428152 TGTTATCTTT
* * *
428162 CTTTTTACCTTTATAATT-ATGGCTCTTATTTTTTTCAATACCA
1 CTTTTTACCTTTATAATTGA-GGC-CCTAATTTTTT-AATATCA
* * **
428205 CTTTTTACCTTTATAATCGAGGATCCTAATTTTTTCAATCCCA
1 CTTTTTACCTTTATAATTGAGG-CCCTAATTTTTT-AATATCA
*
428248 ATTTTTACCTTTATAATTGAGGCCCTAATTTTTTAATA-CAA
1 CTTTTTACCTTTATAATTGAGGCCCTAATTTTTTAATATC-A
* * * *
428289 CTTCTTACCTTTATAACTTAAGCCCCTAATTGTTTT-TTATTCACA
1 CTTTTTACCTTTATAA-TTGAGGCCCTAATT-TTTTAATA-T--CA
* * * * *
428334 CTTTTAACCTTTATAATTGAAGCCCTAAATTTTTCAATCTTA
1 CTTTTTACCTTTATAATTGAGGCCCT-AATTTTTTAATATCA
* ** * *
428376 TTTTTTATGTTTATAA-TGAGGTACCTAATTTTGTTAGTATCA
1 CTTTTTACCTTTATAATTGAGG-CCCTAATTTT-TTAATATCA
* **
428418 CTTTTTGCCTTTATAATTGAGATTCCTAATTTTGTTAATATCA
1 CTTTTTACCTTTATAATTGAG-GCCCTAATTTT-TTAATATCA
** * *
428461 CTTTTT-CCTTTATAATTGAGATTCCTAATTTTGTTAGTCTCA
1 CTTTTTACCTTTATAATTGAG-GCCCTAATTTT-TTAATATCA
* * * *
428503 CTTTTTGCCTTTATAATT-ACGACCTTTAGTTTTTTCAATATCA
1 CTTTTTACCTTTATAATTGA-GGCC-CTAATTTTTT-AATATCA
428546 -TATTTTACCTTTATAATTGA
1 CT-TTTTACCTTTATAATTGA
428566 TCCTCTAATT
Statistics
Matches: 291, Mismatches: 49, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
40 1 0.00
41 28 0.10
42 103 0.35
43 125 0.43
44 13 0.04
45 20 0.07
46 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.07, T:0.50
Consensus pattern (41 bp):
CTTTTTACCTTTATAATTGAGGCCCTAATTTTTTAATATCA
Found at i:428543 original size:85 final size:85
Alignment explanation
Indices: 428385--428565 Score: 230
Period size: 85 Copynumber: 2.1 Consensus size: 85
428375 ATTTTTTATG
*
428385 TTTATAA-TGAGGTACCTAATTTTGTTAGTATCACTTTTTGCCTTTATAATTGAGATTCCTAATT
1 TTTATAATTGAGATACCTAATTTTGTTAGTATCACTTTTTGCCTTTATAATTGAGATT-CTAATT
428449 TTGTTAATATCACT-TTTT-CC
65 TTGTTAATATCA-TATTTTACC
* * *
428469 TTTATAATTGAGATTCCTAATTTTGTTAGTCTCACTTTTTGCCTTTATAATT-ACGACCTT-TAG
1 TTTATAATTGAGATACCTAATTTTGTTAGTATCACTTTTTGCCTTTATAATTGA-GA--TTCTAA
428532 TTTT-TTCAATATCATATTTTACC
63 TTTTGTT-AATATCATATTTTACC
428555 TTTATAATTGA
1 TTTATAATTGA
428566 TCCTCTAATT
Statistics
Matches: 86, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
84 11 0.13
85 60 0.70
86 13 0.15
87 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.51
Consensus pattern (85 bp):
TTTATAATTGAGATACCTAATTTTGTTAGTATCACTTTTTGCCTTTATAATTGAGATTCTAATTT
TGTTAATATCATATTTTACC
Found at i:433451 original size:23 final size:23
Alignment explanation
Indices: 433425--433472 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
433415 ATAAAGTACA
*
433425 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
433448 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
433471 AT
1 AT
433473 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:433879 original size:21 final size:20
Alignment explanation
Indices: 433849--433902 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
433839 GATAGACACT
*
433849 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
433870 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
433893 TTACATTATA
1 TTACATTATA
433903 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:433890 original size:23 final size:23
Alignment explanation
Indices: 433864--433926 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
433854 ATATAACCAT
433864 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
433887 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
433910 TACCTATTACATCATAT
1 TACCTATTACATTATAT
433927 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:434247 original size:431 final size:431
Alignment explanation
Indices: 433584--434880 Score: 2545
Period size: 431 Copynumber: 3.0 Consensus size: 431
433574 GGATCGATAC
433584 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
433649 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
433714 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
433779 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
433844 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
433909 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
433974 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
434015 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
434080 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
434145 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
434210 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
434275 ACACTTTACAATATAACCATTACCTATTACA-T-TATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
434338 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
434403 GATAC-TTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
434443 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
434508 ATTTGATTGTTTTGATATTTTATAAAATATTA-TTAGAATTTTTAA-TT--TAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
434569 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
434634 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
434699 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
434764 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
434829 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
434870 TTTAACAGTGT
1 TTTAACAGTGT
434881 ACTGCGAATT
Statistics
Matches: 863, Mismatches: 0, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
424 175 0.20
425 1 0.00
426 103 0.12
427 59 0.07
428 132 0.15
429 101 0.12
430 1 0.00
431 291 0.34
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
Found at i:434310 original size:21 final size:20
Alignment explanation
Indices: 434280--434331 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
434270 GATAGACACT
*
434280 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
434301 TTACATTATAAACGATACCTA
1 TTACATTAT-AACCATACCTA
434322 TTACATTATA
1 TTACATTATA
434332 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.82
22 4 0.14
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:434342 original size:23 final size:22
Alignment explanation
Indices: 434285--434355 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
434275 ACACTTTACA
*
434285 ATATAACCATTACCTATTACATT
1 ATATAACGA-TACCTATTACATT
434308 ATA-AACGATACCTATTACATT
1 ATATAACGATACCTATTACATT
* * *
434329 ATATAAGGGCTACCTATTACATC
1 ATATAA-CGATACCTATTACATT
434352 ATAT
1 ATAT
434356 GTTTACCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.38
22 6 0.14
23 20 0.48
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (22 bp):
ATATAACGATACCTATTACATT
Found at i:434734 original size:21 final size:20
Alignment explanation
Indices: 434704--434757 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
434694 GATAGACACT
*
434704 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
434725 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
434748 TTACATTATA
1 TTACATTATA
434758 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:434745 original size:23 final size:23
Alignment explanation
Indices: 434719--434781 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
434709 ATATAACCAT
434719 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
434742 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
434765 TACCTATTACATCATAT
1 TACCTATTACATTATAT
434782 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:437996 original size:183 final size:184
Alignment explanation
Indices: 437327--437987 Score: 1272
Period size: 183 Copynumber: 3.6 Consensus size: 184
437317 TTTTAAATGG
*
437327 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
437392 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
437457 GATGTGTAAAATGTCGACAC-TTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
437510 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
437575 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
437640 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACA-TTTTTCTTCCAA
437695 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
437760 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAT-ATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
437824 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
437878 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
437943 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
437988 TTATTATATG
Statistics
Matches: 473, Mismatches: 3, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
183 270 0.57
184 74 0.16
185 129 0.27
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
Found at i:439362 original size:3 final size:3
Alignment explanation
Indices: 439354--439404 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
439344 TACTGTTTGG
* * * *
439354 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
439402 ATC
1 ATC
439405 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:439371 original size:12 final size:12
Alignment explanation
Indices: 439354--439416 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
439344 TACTGTTTGG
439354 ATCATCATCTTC
1 ATCATCATCTTC
*
439366 ATCATCATCGTC
1 ATCATCATCTTC
*
439378 ATCATCATCATC
1 ATCATCATCTTC
*
439390 ATCGTCATCTTC
1 ATCATCATCTTC
* *
439402 ATCGTCAGCTTC
1 ATCATCATCTTC
439414 ATC
1 ATC
439417 TTCTGCGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:439415 original size:18 final size:18
Alignment explanation
Indices: 439358--439419 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
439348 GTTTGGATCA
439358 TCATCTTCATCATCATCG
1 TCATCTTCATCATCATCG
*
439376 TCATCATCATCATCATCG
1 TCATCTTCATCATCATCG
* * *
439394 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCATCG
439412 TCATCTTC
1 TCATCTTC
439420 TGCGACCGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:439419 original size:6 final size:6
Alignment explanation
Indices: 439358--439419 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
439348 GTTTGGATCA
* * * * * *
439358 TCATCT TCATCA TCATCG TCATCA TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
439406 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
439420 TGCGACCGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:441272 original size:195 final size:197
Alignment explanation
Indices: 440869--442045 Score: 1872
Period size: 194 Copynumber: 6.1 Consensus size: 197
440859 TTTAAATTAG
* *
440869 TATCGACACAAAATATATTAGTGTCGACACA-TATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
440933 ATTGTA-CGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
440997 GACAC-TTTTATATATGGATCGACACTTTATTGATTCACCTTGTAAAAATTCATTCT-GGAAAAA
131 GACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGGAAAAA
441060 AA
196 AA
441062 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
441127 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * * *
441191 CGACAC-TTTT-TATATGGATCGACACTTTATTGATTCACCTCGTAAAAATTCATTCTGGAAAAA
130 CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGGAAAA
441254 AAA
195 AAA
441257 TATCGACACAAACTATATTAGTGTCG----ATTATTT-GACTTATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
441316 ATTGTA-CGG-TAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* ***
441379 GACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 GACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTG-TAAAAATTCATTCTGGGAAA
441444 AAAA
194 AAAA
441448 TATCGACACAAA-TATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
441512 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* ***
441577 CGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
130 CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTG-TAAAAATTCATTCTGGGAAA
441641 AAAA
194 AAAA
441645 TATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAA-CGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
441707 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
441771 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGT----TTTAATTCTGGGAAA
130 CGACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGGAAA
441832 AAAA
194 AAAA
441836 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
441901 ATTGTACCGGTTAGATTAAAAATTACATA-TACATTATAC-TTTGGGTTCGATGA-TTTGGGATC
66 ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* * *
441963 GACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTAGAAAAA
131 GACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGGAAAA
442028 AAA
195 AAA
442031 TA-CGACACAAACTAT
1 TATCGACACAAACTAT
442046 TAGTAACATG
Statistics
Matches: 934, Mismatches: 22, Indels: 55
0.92 0.02 0.05
Matches are distributed among these distances:
186 37 0.04
187 20 0.02
188 3 0.00
189 21 0.02
190 56 0.06
191 121 0.13
192 24 0.03
193 84 0.09
194 156 0.17
195 148 0.16
196 129 0.14
197 72 0.08
198 11 0.01
199 52 0.06
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGGAAAAA
AA
Found at i:442155 original size:19 final size:19
Alignment explanation
Indices: 442128--442187 Score: 102
Period size: 19 Copynumber: 3.2 Consensus size: 19
442118 ATTCACATAA
*
442128 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
442147 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
442166 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
442185 AAA
1 AAA
442188 TTAACTCGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:442850 original size:21 final size:20
Alignment explanation
Indices: 442820--442859 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
442810 GCTGCTTCAG
442820 TTGTAAACAT-ACTATCATAA
1 TTGTAAACATGACTA-CATAA
442840 TTGTACAACATGACTACATA
1 TTGTA-AACATGACTACATA
442860 TCCAACACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (20 bp):
TTGTAAACATGACTACATAA
Found at i:443985 original size:33 final size:33
Alignment explanation
Indices: 443948--444010 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
443938 CATCTTAATA
*
443948 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
443981 TCACCCCTCAACACCTCTACTTCTTTCACC
1 TCACCCCTCAACACCGAAACTTCTTTCACC
444011 CTCATCTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.24, C:0.46, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:446227 original size:21 final size:19
Alignment explanation
Indices: 446172--446218 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
446162 TCCGGTATCA
446172 TTTTACCGTTTTATCATTT
1 TTTTACCGTTTTATCATTT
**
446191 TGATACCGGTTTTATCATATT
1 TTTTACC-GTTTTATCAT-TT
446212 TTTTACC
1 TTTTACC
446219 TGTTATATCG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.23
20 10 0.45
21 7 0.32
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGTTTTATCATTT
Found at i:446378 original size:20 final size:20
Alignment explanation
Indices: 446330--446379 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
446320 TATCGACTTT
446330 TAATTTTACCGGTTTTATCA
1 TAATTTTACCGGTTTTATCA
*
446350 T-TTTGTTACCGGTTTTATCA
1 TAATT-TTACCGGTTTTATCA
446370 TAATTTTACC
1 TAATTTTACC
446380 TGGTATATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (20 bp):
TAATTTTACCGGTTTTATCA
Found at i:448168 original size:2 final size:2
Alignment explanation
Indices: 448161--448197 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
448151 CCCGATTTAT
*
448161 TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
448198 TTTTTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:452259 original size:19 final size:18
Alignment explanation
Indices: 452232--452268 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
452222 GTTGAAAATG
*
452232 TATAATAAAATAAATAAT
1 TATAATAAAAAAAATAAT
452250 TATAAGTAAAAAAAATAAT
1 TATAA-TAAAAAAAATAAT
452269 AAAATAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
TATAATAAAAAAAATAAT
Found at i:452995 original size:71 final size:75
Alignment explanation
Indices: 452914--453103 Score: 257
Period size: 76 Copynumber: 2.6 Consensus size: 75
452904 TAAAACATCT
* * *
452914 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCT-AA-AAA-ATAATATGT-AA
1 TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAACAAATATAAAATATAAA
*
452975 AATAATATTC
66 AATAATATCC
452985 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAATATAAAATATA
1 TAAATCCTAATTAAAATACTTAAAA-CTATTTAAACTAAAATACCT-AAACAAATATAAAATATA
453049 AAAATAATATCC
64 AAAATAATATCC
* *
453061 TAAAACTTAATTAAAATA-TTAAAACTTATTTAAACTAAAATAC
1 TAAATCCTAATTAAAATACTTAAAAC-TATTTAAACTAAAATAC
453104 AAAGATAAAA
Statistics
Matches: 105, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
70 5 0.05
71 38 0.36
73 2 0.02
74 3 0.03
75 8 0.08
76 49 0.47
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.31
Consensus pattern (75 bp):
TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAACAAATATAAAATATAAA
AATAATATCC
Found at i:453043 original size:25 final size:24
Alignment explanation
Indices: 452996--453043 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
452986 AAATCCTAAT
** *
452996 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACAAATATAAAC
453020 TAAAATACCTAAAACAAATATAAA
1 TAAAATA-CTAAAACAAATATAAA
453044 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAATACTAAAACAAATATAAAC
Found at i:453064 original size:32 final size:31
Alignment explanation
Indices: 453023--453084 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
453013 TTTAAACTAA
453023 AATACCTAAAAC-AAATATAAAATATAAAAAT
1 AATACCTAAAACTAAAT-TAAAATATAAAAAT
* *
453054 AATATCCTAAAACTTAATTAAAATATTAAAA
1 AATA-CCTAAAACTAAATTAAAATATAAAAA
453085 CTTATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 4 0.15
32 20 0.74
33 3 0.11
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (31 bp):
AATACCTAAAACTAAATTAAAATATAAAAAT
Found at i:453127 original size:76 final size:72
Alignment explanation
Indices: 452914--453139 Score: 215
Period size: 76 Copynumber: 3.1 Consensus size: 72
452904 TAAAACATCT
* * **
452914 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAAATA-ATATG-T-AAA
1 TAAAACCTAATTAAAATA-TTAAAACTATTTAAACTAAAATACAAAAAAAATATAT-TGTTAAAA
*
452976 ATAATATTC
64 ATAATATCC
* * * ***
452985 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAATATAAAATATAA
1 TAAAACCTAATTAAAATATTAAAA-CTATTTAAACTAAAATA-C-AAAAAAAATATATTGT-TAA
453050 AAATAATATCC
62 AAATAATATCC
* *
453061 TAAAACTTAATTAAAATATTAAAACTTATTTAAACTAAAATACAAAGATAAAATATATTGTTTAA
1 TAAAACCTAATTAAAATATTAAAAC-TATTTAAACTAAAATACAAA-A-AAAATATATTGTTAAA
* *
453126 AATATTATCA
63 AATAATATCC
453136 TAAA
1 TAAA
453140 CTTGAGTTTA
Statistics
Matches: 126, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
70 5 0.04
71 34 0.27
72 1 0.01
73 7 0.06
74 4 0.03
75 19 0.15
76 56 0.44
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.31
Consensus pattern (72 bp):
TAAAACCTAATTAAAATATTAAAACTATTTAAACTAAAATACAAAAAAAATATATTGTTAAAAAT
AATATCC
Found at i:457828 original size:4 final size:4
Alignment explanation
Indices: 457812--457844 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
457802 AGATAAAAAT
*
457812 TAAA TAAA CAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
457845 TGGGATAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:458313 original size:12 final size:12
Alignment explanation
Indices: 458298--458327 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
458288 AAAAGTATGC
458298 GAAAAATAGAGA
1 GAAAAATAGAGA
*
458310 GAAAACTAGAGA
1 GAAAAATAGAGA
458322 GAAAAA
1 GAAAAA
458328 GAAGATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:458585 original size:75 final size:70
Alignment explanation
Indices: 458424--458611 Score: 227
Period size: 75 Copynumber: 2.6 Consensus size: 70
458414 TAAAACATCT
* * * * *
458424 TAAATCATAATTAAAACACTTAAAA-ATATTTAAACTAAAATACCTAAAAATAATATTTAAAATA
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAAATAAAATTAAAAATA
*
458488 ATATTC
65 ATATCC
458494 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAAATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCT-----AAAAATAAAAT-TAA
458559 AAATAATATCC
60 AAATAATATCC
* *
458570 TAAA-CTTAATTAAAATAATAAAACCTATTTAAACTAAAATAC
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC
458612 AAAGATAAAA
Statistics
Matches: 103, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
69 5 0.05
70 36 0.35
75 46 0.45
76 16 0.16
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (70 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAAATAAAATTAAAAATAA
TATCC
Found at i:458635 original size:75 final size:74
Alignment explanation
Indices: 458450--458650 Score: 245
Period size: 75 Copynumber: 2.8 Consensus size: 74
458440 CACTTAAAAA
* *
458450 TATTTAAACTAAAATACC-----TAAAAATAATATTTAAAATAATATTCTAAATCCTAATTAAAA
1 TATTTAAACTAAAATACCTAAAATAAAAATAATATTTAAAATAATATCCTAAA-CTTAATTAAAA
*
458510 TACTAAAACC
65 TAATAAAACC
* * *
458520 TATTTAAACTAAAATACCTAAAACAAAAATAAAATATAAAAATAATATCCTAAACTTAATTAAAA
1 TATTTAAACTAAAATACCTAAAATAAAAATAATAT-TTAAAATAATATCCTAAACTTAATTAAAA
458585 TAATAAAACC
65 TAATAAAACC
* *
458595 TATTTAAACTAAAATA-C-AAAGATAAAATATAATATTTAAAATATTATCTTAAACTT
1 TATTTAAACTAAAATACCTAAA-ATAAAA-ATAATATTTAAAATAATATCCTAAACTT
458651 GAGTTTAATT
Statistics
Matches: 112, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
70 18 0.16
73 3 0.03
74 24 0.21
75 51 0.46
76 16 0.14
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (74 bp):
TATTTAAACTAAAATACCTAAAATAAAAATAATATTTAAAATAATATCCTAAACTTAATTAAAAT
AATAAAACC
Found at i:463446 original size:42 final size:41
Alignment explanation
Indices: 463387--463480 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 41
463377 TATTAAGACA
** *
463387 TTCGGGCCATCAATAAGTCTTTTGA-GAATGATGATTAAATCC
1 TTCGGGCCATCTGTAAGTCTTTTGATCAA-GATGA-TAAATCC
* *
463429 TTCGGGTCATCTGTAAGTCTTTTGATCAAGATGATAAGTCC
1 TTCGGGCCATCTGTAAGTCTTTTGATCAAGATGATAAATCC
463470 TTCGGGCCATC
1 TTCGGGCCATC
463481 CATAAAACCT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 16 0.36
42 27 0.60
43 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (41 bp):
TTCGGGCCATCTGTAAGTCTTTTGATCAAGATGATAAATCC
Found at i:463679 original size:237 final size:235
Alignment explanation
Indices: 463145--463667 Score: 715
Period size: 235 Copynumber: 2.2 Consensus size: 235
463135 TCGAAGATGA
* * * * * *
463145 TAAGTCCTTCGGGCCATCAGTAAGTCTGTCGAGCATGATGATTAAATCATTCGGGTCATCTATAA
1 TAAGACCTTCGGGCCATCAGTAAGTCTTTTGAGAATGATGATTAAATCCTTCGGGTCATCTGTAA
* * * ** * * *
463210 GCCTTCCAAGGAAGATAATAAGTCTCTCGGGTCATCCATAGGACCTTTGGGCAGGATGTTTTCAT
66 GTCTTCCAAGCAAGATAATAAGTCTCTCGGGCCATCCATAAAACCTTCGGGCAGGATATTTTCAC
* * *
463275 ATGAATTTGAAAATTAGAAAGCGATTTTAAAAGTTTATCATTTAATGTTTTTTGAAGATGAAATT
131 ATAAATTTGAAAATGAGAAAGCGATTTTAAAAGTTTATCATTTAATGTTTTTTAAAGATGAAATT
* *
463340 TTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAT
196 TTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAG
* *
463380 TAAGACATTCGGGCCATCAATAAGTCTTTTGAGAATGATGATTAAATCCTTCGGGTCATCTGTAA
1 TAAGACCTTCGGGCCATCAGTAAGTCTTTTGAGAATGATGATTAAATCCTTCGGGTCATCTGTAA
*** * * *
463445 GTCTTTTGATCAAGATGATAAGTC-CTTCGGGCCATCCATAAAACCTTCGGGTAGGATATTTTCA
66 GTCTTCCAAGCAAGATAATAAGTCTC-TCGGGCCATCCATAAAACCTTCGGGCAGGATATTTTCA
* * *
463509 CATAAATTTGAAAAATGAGAAAGTGATTTTCAAAGTTTCTCATTTAATGTTTTTTAAAGATGAAA
130 CATAAATTTG-AAAATGAGAAAGCGATTTTAAAAGTTTATCATTTAATGTTTTTTAAAGATGAAA
*
463574 TTTTTGAAAAGTAATAAAGCGATTTCCAAAGTTTCTTACTTAG
194 -TTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAG
* *
463617 TAAGACCTTCGAGCCATCAGTAAGTCTTTTGAGTATGATGATTAAATCCTT
1 TAAGACCTTCGGGCCATCAGTAAGTCTTTTGAGAATGATGATTAAATCCTT
463668 TACGTCATCT
Statistics
Matches: 250, Mismatches: 35, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
234 1 0.00
235 114 0.46
236 49 0.20
237 86 0.34
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (235 bp):
TAAGACCTTCGGGCCATCAGTAAGTCTTTTGAGAATGATGATTAAATCCTTCGGGTCATCTGTAA
GTCTTCCAAGCAAGATAATAAGTCTCTCGGGCCATCCATAAAACCTTCGGGCAGGATATTTTCAC
ATAAATTTGAAAATGAGAAAGCGATTTTAAAAGTTTATCATTTAATGTTTTTTAAAGATGAAATT
TTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACTTAG
Found at i:463815 original size:37 final size:37
Alignment explanation
Indices: 463765--463857 Score: 150
Period size: 37 Copynumber: 2.5 Consensus size: 37
463755 CTATCTAAAA
* * *
463765 CCTTCACAGAAGAGTAGTGAAGTAAATCGATCTTAAG
1 CCTTCACGGAAGAGTAGTGAAGGAAATCAATCTTAAG
*
463802 CCTTCATGGAAGAGTAGTGAAGGAAATCAATCTTAAG
1 CCTTCACGGAAGAGTAGTGAAGGAAATCAATCTTAAG
463839 CCTTCACGGAAGAGTAGTG
1 CCTTCACGGAAGAGTAGTG
463858 GAGCAAAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (37 bp):
CCTTCACGGAAGAGTAGTGAAGGAAATCAATCTTAAG
Found at i:465807 original size:19 final size:21
Alignment explanation
Indices: 465782--465822 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
465772 ATATATATAC
465782 AATAT-ATATAGTTTTTGAAG
1 AATATAATATAGTTTTTGAAG
465802 ATATATAATATAGTTTTTGAA
1 A-ATATAATATAGTTTTTGAA
465823 TTTTTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 4 0.21
22 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (21 bp):
AATATAATATAGTTTTTGAAG
Found at i:465964 original size:77 final size:77
Alignment explanation
Indices: 465826--465974 Score: 203
Period size: 77 Copynumber: 1.9 Consensus size: 77
465816 TTTTGAATTT
* * * *
465826 TTTTTGAAAACATTTAATATATAGCTTTTAAAAAACGATTTTTGAAAACATATAATATATAGTTT
1 TTTTTGAAAACATATAAAATATAGCTTTTAAAAAACAATTTTTGAAAACATATAATATATAGTAT
465891 TTAAAAAAATGG
66 TTAAAAAAATGG
* *
465903 TTTTT-AAAACATATAAAATATAGTTTTTTAAAAAACAATTTTTGAAAACGTAT-ATAATATAGT
1 TTTTTGAAAACATATAAAATATAG-CTTTTAAAAAACAATTTTTGAAAACATATAAT-ATATAGT
*
465966 ATTTGAAAA
64 ATTTAAAAA
465975 CATATTATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
76 18 0.29
77 45 0.71
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (77 bp):
TTTTTGAAAACATATAAAATATAGCTTTTAAAAAACAATTTTTGAAAACATATAATATATAGTAT
TTAAAAAAATGG
Found at i:465965 original size:39 final size:39
Alignment explanation
Indices: 465826--465963 Score: 181
Period size: 38 Copynumber: 3.5 Consensus size: 39
465816 TTTTGAATTT
* *
465826 TTTTTGAAAACATTTAATATATAG-CTTTTAAAAAACGA
1 TTTTTGAAAACATATAATATATAGTTTTTTAAAAAACGA
* * *
465864 TTTTTGAAAACATATAATATATAGTTTTTAAAAAAATGG
1 TTTTTGAAAACATATAATATATAGTTTTTTAAAAAACGA
* *
465903 TTTTT-AAAACATATAAAATATAGTTTTTTAAAAAACAA
1 TTTTTGAAAACATATAATATATAGTTTTTTAAAAAACGA
465941 TTTTTGAAAACGTATATAATATA
1 TTTTTGAAAAC--ATATAATATA
465964 GTATTTGAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
38 56 0.66
39 20 0.24
41 9 0.11
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (39 bp):
TTTTTGAAAACATATAATATATAGTTTTTTAAAAAACGA
Found at i:465974 original size:24 final size:24
Alignment explanation
Indices: 465943--466013 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 24
465933 AAAAACAATT
*
465943 TTTGAAAACGTATATAATATAGTA
1 TTTGAAAACATATATAATATAGTA
* ** *
465967 TTTGAAAACATATTATTAAAACGGTT
1 TTTGAAAACATA-TA-TAATATAGTA
465993 TTTGAAAACATATATAATATA
1 TTTGAAAACATATATAATATA
466014 TAATCTTTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 15 0.41
25 4 0.11
26 18 0.49
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (24 bp):
TTTGAAAACATATATAATATAGTA
Found at i:465988 original size:37 final size:38
Alignment explanation
Indices: 465844--465989 Score: 104
Period size: 38 Copynumber: 3.8 Consensus size: 38
465834 AACATTTAAT
* * * * *
465844 ATATAGCT-TTTAAAAAACGATTTTTGAAAACATATAAT
1 ATATAGTTATTTAAAAAACAATTATT-AAAACGTATAAA
* * *
465882 ATATAGTT-TTTAAAAAA-ATGGTTTTTAAAACATATAAA
1 ATATAGTTATTTAAAAAACA--ATTATTAAAACGTATAAA
* * *
465920 ATATAGTTTTTTAAAAAACAATTTTTGAAAACGTATATA
1 ATATAGTTATTTAAAAAACAATTATT-AAAACGTATAAA
*
465959 ATATAG-TATTT-GAAAACATATTATTAAAACG
1 ATATAGTTATTTAAAAAACA-ATTATTAAAACG
465990 GTTTTTGAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
37 12 0.13
38 49 0.53
39 30 0.33
40 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.38
Consensus pattern (38 bp):
ATATAGTTATTTAAAAAACAATTATTAAAACGTATAAA
Found at i:466055 original size:21 final size:21
Alignment explanation
Indices: 466004--466057 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
465994 TTGAAAACAT
466004 ATATAATATATAATCTTTGAA
1 ATATAATATATAATCTTTGAA
* ** ** *
466025 AAATGTTATATTGTTTTTGAA
1 ATATAATATATAATCTTTGAA
466046 ATATAATATATA
1 ATATAATATATA
466058 TTATATAATT
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (21 bp):
ATATAATATATAATCTTTGAA
Found at i:466126 original size:6 final size:6
Alignment explanation
Indices: 466097--466149 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
466087 AATATTAATA
* * *
466097 TTTTAT TTTCCAT TTTTAT CTTTAT TTTTAT TTTATTT ATTTTAT TTTTAT
1 TTTTAT TTT-TAT TTTTAT TTTTAT TTTTAT TTT-TAT -TTTTAT TTTTAT
466148 TT
1 TT
466150 CAGGTCCATC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 26 0.68
7 9 0.24
8 3 0.08
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:466137 original size:15 final size:15
Alignment explanation
Indices: 466098--466149 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 15
466088 ATATTAATAT
466098 TTTATTTTCCATTTTTA
1 TTTATTTT--ATTTTTA
466115 TCTTTATTTT-TATTTTA
1 --TTTATTTTAT-TTTTA
466132 TTTATTTTATTTTTA
1 TTTATTTTATTTTTA
466147 TTT
1 TTT
466150 CAGGTCCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 16 0.52
16 2 0.06
17 5 0.16
19 8 0.26
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTTATTTTTA
Found at i:467305 original size:10 final size:10
Alignment explanation
Indices: 467287--467321 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
467277 ATTCATTTTA
467287 ATTTT-ATTT
1 ATTTTAATTT
467296 ATTTTAATTT
1 ATTTTAATTT
467306 ATTTTAATTTT
1 ATTTTAA-TTT
467317 ATTTT
1 ATTTT
467322 TTTTCACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.21
10 11 0.46
11 8 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTAATTT
Found at i:467309 original size:25 final size:26
Alignment explanation
Indices: 467281--467334 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
467271 CAATTTATTC
467281 ATTTTAATTTTATTTATTTT-AATTT
1 ATTTTAATTTTATTTATTTTCAATTT
* *
467306 ATTTTAATTTTATTTTTTTTCACTTT
1 ATTTTAATTTTATTTATTTTCAATTT
467332 ATT
1 ATT
467335 CTAGCCCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (26 bp):
ATTTTAATTTTATTTATTTTCAATTT
Found at i:467311 original size:15 final size:15
Alignment explanation
Indices: 467272--467317 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
467262 AATTATTTCC
*
467272 AATTTA-TTCATTTT
1 AATTTATTTTATTTT
467286 AATTT-TATTTATTTT
1 AATTTAT-TTTATTTT
467301 AATTTATTTTAATTTT
1 AATTTATTTT-ATTTT
467317 A
1 A
467318 TTTTTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 15 0.56
16 7 0.26
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
AATTTATTTTATTTT
Found at i:467320 original size:15 final size:14
Alignment explanation
Indices: 467272--467309 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
467262 AATTATTTCC
*
467272 AATTTATTCATTTT
1 AATTTATTTATTTT
467286 AATTTTATTTATTTT
1 AA-TTTATTTATTTT
467301 AATTTATTT
1 AATTTATTT
467310 TAATTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
AATTTATTTATTTT
Found at i:467325 original size:15 final size:15
Alignment explanation
Indices: 467281--467325 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
467271 CAATTTATTC
*
467281 ATTTTAATTTTATTT
1 ATTTTAATTTTTTTT
*
467296 ATTTTAATTTATTTTA
1 ATTTTAATTT-TTTTT
467312 ATTTT-ATTTTTTTT
1 ATTTTAATTTTTTTT
467326 CACTTTATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 14 0.54
16 8 0.31
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTAATTTTTTTT
Found at i:477174 original size:25 final size:25
Alignment explanation
Indices: 477123--477174 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
477113 TTTTTCATCA
* * * * *
477123 TATTATTATTATTATATATATATAT
1 TATTAATATTATTAAATAAAAAAAT
477148 TATTAATATTATTAAATAAAAAAAT
1 TATTAATATTATTAAATAAAAAAAT
477173 TA
1 TA
477175 CAGACCCAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTAATATTATTAAATAAAAAAAT
Found at i:478549 original size:33 final size:35
Alignment explanation
Indices: 478505--478579 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
478495 CATATAAACA
* *
478505 TATATAATAAAT-AATATT-TATTTACT-TATTTTT
1 TATATAATAAATAAACATTCTATTTA-TAAATTTTT
*
478538 TATATATTAAATAAACATTCTATTTATAAATTTTT
1 TATATAATAAATAAACATTCTATTTATAAATTTTT
478573 TATATAA
1 TATATAA
478580 ATTACTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 11 0.31
34 6 0.17
35 18 0.51
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (35 bp):
TATATAATAAATAAACATTCTATTTATAAATTTTT
Found at i:478724 original size:141 final size:137
Alignment explanation
Indices: 478573--478834 Score: 350
Period size: 137 Copynumber: 1.9 Consensus size: 137
478563 ATAAATTTTT
*
478573 TATATAAATTACTTTTAAGAAAAATAATCATATT-TTAATATTTATTTATTTTTTAATATTAAGA
1 TATATAAATTA-TTTTAAGAAAAAT-AT--T-TTATTAATATTAATTTATTTTTTAATATTAAGA
478637 AATAGG-CTGTCTTAAAACACCTAGAAGTCCTTTTTCTGATA-TTCTTAAATAAATAAATATCCC
61 AAT-GGACTGTCTTAAAACACCTAGAAGTCCTTTTTCTGATATTTC-TAAATAAATAAATATCCC
478700 ATTTTTATAAATTA
124 ATTTTTATAAATTA
* * * * *
478714 TATATTAATTATTTTTAGAGAAATGTTTTATTAATATTAATTTATTTTTTAATATTAAGGAATGG
1 TATATAAATTATTTTAAGAAAAATATTTTATTAATATTAATTTATTTTTTAATATTAAGAAATGG
* * * *
478779 ATTGTCTTAAAGCACCTAGAAGTTCTTTTTCTGATATTTCTAAGTAAATAAATATC
66 ACTGTCTTAAAACACCTAGAAGTCCTTTTTCTGATATTTCTAAATAAATAAATATC
478835 TTATTTAAAT
Statistics
Matches: 108, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
136 4 0.04
137 79 0.73
138 3 0.03
139 1 0.01
140 11 0.10
141 10 0.09
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.45
Consensus pattern (137 bp):
TATATAAATTATTTTAAGAAAAATATTTTATTAATATTAATTTATTTTTTAATATTAAGAAATGG
ACTGTCTTAAAACACCTAGAAGTCCTTTTTCTGATATTTCTAAATAAATAAATATCCCATTTTTA
TAAATTA
Found at i:478847 original size:137 final size:138
Alignment explanation
Indices: 478607--478856 Score: 362
Period size: 137 Copynumber: 1.8 Consensus size: 138
478597 TAATCATATT
*
478607 TTAATATTTATTTATTTTTTAATATTAAGAAATAGGCTGTCTTAAAACACCTAGAAGTCCTTTTT
1 TTAATATTAATTTATTTTTTAATATTAAGAAATAGGCTGTCTTAAAACACCTAGAAGTCCTTTTT
** *
478672 CTGATATTCTTAAATAAATAAATATCCCATTTTTAT-AAATTATATATTAATTATTTTTAGAGAA
66 CTGATATTCTTAAATAAATAAATATCCCATTTAAATAAAAATATATATTAATTATTTTTAGAGAA
478736 ATGTTTTA
131 ATGTTTTA
* * * *
478744 TTAATATTAATTTATTTTTTAATATTAAGGAAT-GGATTGTCTTAAAGCACCTAGAAGTTCTTTT
1 TTAATATTAATTTATTTTTTAATATTAAGAAATAGG-CTGTCTTAAAACACCTAGAAGTCCTTTT
* **
478808 TCTGATATT-TCTAAGTAAATAAATATCTTATTTAAATAAAAATATATAT
65 TCTGATATTCT-TAAATAAATAAATATCCCATTTAAATAAAAATATATAT
478857 CGATATATTT
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
136 3 0.03
137 86 0.87
138 10 0.10
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (138 bp):
TTAATATTAATTTATTTTTTAATATTAAGAAATAGGCTGTCTTAAAACACCTAGAAGTCCTTTTT
CTGATATTCTTAAATAAATAAATATCCCATTTAAATAAAAATATATATTAATTATTTTTAGAGAA
ATGTTTTA
Found at i:479066 original size:21 final size:23
Alignment explanation
Indices: 479040--479092 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
479030 CTTTTTATTA
479040 TTAAAA-A-GAATGAATTTTTGG
1 TTAAAACACGAATGAATTTTTGG
*
479061 TTAAAACACTAATGAATTTTTGG
1 TTAAAACACGAATGAATTTTTGG
479084 TTAAAACAC
1 TTAAAACAC
479093 AGACCAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 6 0.21
22 1 0.03
23 22 0.76
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (23 bp):
TTAAAACACGAATGAATTTTTGG
Found at i:479074 original size:23 final size:23
Alignment explanation
Indices: 479048--479092 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
479038 TATTAAAAAG
479048 AATGAATTTTTGGTTAAAACACT
1 AATGAATTTTTGGTTAAAACACT
479071 AATGAATTTTTGGTTAAAACAC
1 AATGAATTTTTGGTTAAAACAC
479093 AGACCAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (23 bp):
AATGAATTTTTGGTTAAAACACT
Found at i:480942 original size:8 final size:7
Alignment explanation
Indices: 480918--480958 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
480908 TTTTCATACA
480918 TGCA-TT
1 TGCATTT
480924 TGCATTT
1 TGCATTT
480931 TGCATCTT
1 TGCAT-TT
480939 TGCATTT
1 TGCATTT
480946 T-CATTT
1 TGCATTT
*
480952 TTCATTT
1 TGCATTT
480959 ATACTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 10 0.31
7 15 0.47
8 7 0.22
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:481047 original size:20 final size:20
Alignment explanation
Indices: 481013--481059 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
481003 TGTTACGTTC
*
481013 ACATATTTACATTTGTATTT
1 ACATTTTTACATTTGTATTT
* *
481033 GCATTTTTACGTTTGTATTT
1 ACATTTTTACATTTGTATTT
481053 ACATTTT
1 ACATTTT
481060 CATTTTTGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (20 bp):
ACATTTTTACATTTGTATTT
Found at i:487816 original size:22 final size:22
Alignment explanation
Indices: 487788--487844 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
487778 ATATCTACAT
*
487788 TCTTCAAAAATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
487810 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
487832 TTTTCAAAGATGA
1 TCTTCAAAGATGA
487845 AAGCTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:488578 original size:45 final size:45
Alignment explanation
Indices: 488511--488680 Score: 229
Period size: 45 Copynumber: 3.8 Consensus size: 45
488501 CTATTTCCCA
* * *
488511 CATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTAGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
488556 CATCTGTAAG-CCTTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGACC-TTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
488601 CATCTATAAGACCTTCAGTGCATGATG-TTT-AAAATCATTCGGGT
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAA-CCTTCGGGT
* * *
488645 CATCTGTAAGTCCTACAGTGCAGGATGTTTTCAAAA
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAA
488681 AAGCCTTCGG
Statistics
Matches: 112, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
43 4 0.04
44 36 0.32
45 66 0.59
46 6 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:488672 original size:89 final size:90
Alignment explanation
Indices: 488511--488680 Score: 238
Period size: 89 Copynumber: 1.9 Consensus size: 90
488501 CTATTTCCCA
* * * *
488511 CATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCTTTCAGTG
1 CATCTATAAGACCTTCAATGCATGATGTTTTCAAAACATTAGGGTCATCTGTAAGCCTTACAGTG
*
488576 CATGATGTTTTCAAAACCTTCGGGT
66 CAGGATGTTTTCAAAACCTTCGGGT
* *
488601 CATCTATAAGACCTTCAGTGCATGATG-TTT-AAAATCATTCGGGTCATCTGTAAGTCC-TACAG
1 CATCTATAAGACCTTCAATGCATGATGTTTTCAAAA-CATTAGGGTCATCTGTAAG-CCTTACAG
488663 TGCAGGATGTTTTCAAAA
64 TGCAGGATGTTTTCAAAA
488681 AAGCCTTCGG
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
88 4 0.06
89 41 0.58
90 26 0.37
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (90 bp):
CATCTATAAGACCTTCAATGCATGATGTTTTCAAAACATTAGGGTCATCTGTAAGCCTTACAGTG
CAGGATGTTTTCAAAACCTTCGGGT
Found at i:488753 original size:45 final size:45
Alignment explanation
Indices: 488699--488972 Score: 417
Period size: 45 Copynumber: 6.1 Consensus size: 45
488689 GGAAGCTTTT
* *
488699 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
488744 TGATGTTTTCAAAAACTTCGGGTCATCTGTAAGCCCTTCAGTTCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
488789 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
488834 TGTTGTTTTCAAAACCTTCGGGTAATCTGTAAGCTCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
488879 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
488924 TGATG-TTT-AAAATCCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAA-CCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
488968 AGATG
1 TGATG
488973 ATATGACCTC
Statistics
Matches: 211, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
43 4 0.02
44 37 0.18
45 170 0.81
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:488917 original size:20 final size:20
Alignment explanation
Indices: 488892--488959 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
488882 TGTTTTCAAA
488892 ACCTTCGGGTCATCTGTAAG
1 ACCTTCGGGTCATCTGTAAG
* * *
488912 ACCTTC-AGTGCATGATGTTTAAA
1 ACCTTCGGGT-CAT-CTG--TAAG
488935 ATCCTTCGGGTCATCTGTAAG
1 A-CCTTCGGGTCATCTGTAAG
488956 ACCT
1 ACCT
488960 ACAGTGCAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 2 0.06
20 12 0.33
21 6 0.17
23 6 0.17
24 8 0.22
25 2 0.06
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
ACCTTCGGGTCATCTGTAAG
Found at i:489128 original size:3 final size:3
Alignment explanation
Indices: 489122--489183 Score: 99
Period size: 3 Copynumber: 20.7 Consensus size: 3
489112 TTTTTCATCA
489122 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
489170 TAT TAA TAT TAT TA
1 TAT TAT TAT TAT TA
489184 AATAAAAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 50 0.91
4 3 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:490221 original size:2 final size:2
Alignment explanation
Indices: 490214--490254 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
490204 AGTCATTACC
490214 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
490255 GAGTGCCCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:490411 original size:28 final size:30
Alignment explanation
Indices: 490369--490476 Score: 95
Period size: 29 Copynumber: 3.7 Consensus size: 30
490359 CAAATTAGAG
*
490369 CACTAAGTTTAAATA-TTTTATATTTTAAT
1 CACTAAGTTTTAATACTTTTATATTTTAAT
* *
490398 CACTAA-TTTTAATACTTTCATTTTTTAA-
1 CACTAAGTTTTAATACTTTTATATTTTAAT
* *
490426 CTGC-AAGTTTTATTACTTTTTATATTTTAAT
1 C-ACTAAGTTTTAATAC-TTTTATATTTTAAT
490457 -ACTATAGTTTTAA-A-TTTTAT
1 CACTA-AGTTTTAATACTTTTAT
490477 TTATTTCAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
28 16 0.25
29 27 0.43
30 13 0.21
31 7 0.11
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (30 bp):
CACTAAGTTTTAATACTTTTATATTTTAAT
Found at i:497186 original size:23 final size:23
Alignment explanation
Indices: 497160--497208 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
497150 ATAAAAAACC
*
497160 AAAATAAACTT-AAATATACCATT
1 AAAATAAACTTCAAACAT-CCATT
*
497183 AAAATAAAGTTCAAACATCCATT
1 AAAATAAACTTCAAACATCCATT
497206 AAA
1 AAA
497209 CTAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTTCAAACATCCATT
Found at i:499257 original size:22 final size:23
Alignment explanation
Indices: 499231--499278 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
499221 GGATATTCAG
499231 GGTGT-CAGAACAGTGCGGATCA
1 GGTGTACAGAACAGTGCGGATCA
* *
499253 GGTGTCACAGAACGGTGCTGATCA
1 GGTGT-ACAGAACAGTGCGGATCA
499277 GG
1 GG
499279 AGTTGGGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
24 17 0.77
ACGTcount: A:0.25, C:0.19, G:0.38, T:0.19
Consensus pattern (23 bp):
GGTGTACAGAACAGTGCGGATCA
Found at i:509121 original size:26 final size:26
Alignment explanation
Indices: 509092--509147 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
509082 AAACTTTGAA
509092 ATTCAAAAACATTATTTGAATTTATC
1 ATTCAAAAACATTATTTGAATTTATC
509118 ATTCAAAAACATTATTTGAATTTATC
1 ATTCAAAAACATTATTTGAATTTATC
509144 ATTC
1 ATTC
509148 GACTCTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (26 bp):
ATTCAAAAACATTATTTGAATTTATC
Found at i:514606 original size:4 final size:4
Alignment explanation
Indices: 514597--514631 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
514587 GCAGAAATAA
514597 AAAT AAAT AAAT AAAT AAAT GAAAT AAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAA
514632 AAAAGTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
4 22 0.76
5 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:517101 original size:169 final size:166
Alignment explanation
Indices: 516893--517202 Score: 419
Period size: 169 Copynumber: 1.8 Consensus size: 166
516883 TGTCATCGAG
**
516893 CTGAATGGAATCGAACTCAATAGTTTTTGTTGACAGATAGATTTTCTTGTC-TTAAGTTATGCTG
1 CTGAATGGAATCGAACTCAATAGTTTTTGTTGACAGATAGACCTTCTTG-CATTAAGTTATGCTG
* *
516957 TAAATTTGATATGCCCTTGAGCTGAAT-GTAATCAAACTCGAAGGTTTTGGTTGACAGATAGCCC
65 TAAA-TTCA-ATGCCCTTGAGCTGAATAG-AATCAAACTCGAAGGTTTTGGTTGACAAATA-CCC
*
517021 TTCTCACCTTGAGCTATGCTATAAATTTGGCTACCCTTGAA
126 TTATCACCTTGAGCTATGCTATAAATTTGGCTACCCTTGAA
* * * * *
517062 CTGAATGTAATTGAACTCGAA-GGTTTTTGTTGACAGATAGCCCTTCTTGCATTAAGTTATGTTG
1 CTGAATGGAATCGAACTC-AATAGTTTTTGTTGACAGATAGACCTTCTTGCATTAAGTTATGCTG
* *
517126 TAAATTCACTGCCCTTGAGCTGAATAGAATCAAACTCGAAGGTTTTTGTTGACAAATACCCTTAT
65 TAAATTCAATGCCCTTGAGCTGAATAGAATCAAACTCGAAGGTTTTGGTTGACAAATACCCTTAT
**
517191 TGCCTTGAGCTA
130 CACCTTGAGCTA
517203 CTATAATAGG
Statistics
Matches: 124, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
166 16 0.13
167 45 0.36
168 5 0.04
169 56 0.45
170 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (166 bp):
CTGAATGGAATCGAACTCAATAGTTTTTGTTGACAGATAGACCTTCTTGCATTAAGTTATGCTGT
AAATTCAATGCCCTTGAGCTGAATAGAATCAAACTCGAAGGTTTTGGTTGACAAATACCCTTATC
ACCTTGAGCTATGCTATAAATTTGGCTACCCTTGAA
Found at i:517130 original size:84 final size:82
Alignment explanation
Indices: 516890--517193 Score: 317
Period size: 84 Copynumber: 3.6 Consensus size: 82
516880 ATATGTCATC
* * * ***
516890 GAGCTGAATGGAATCGAACTC-AATAGTTTTTGTTGACAGATAGATTTTCTTGTCTTAAGTTATG
1 GAGCTGAATGTAATCAAACTCGAA-GGTTTTTGTTGACAGATAGCCCTTCTTG-CTTAAGTTATG
*
516954 CTGTAAATTTGATATGCCCTT
64 CTGTAAATTTGCTA--CCCTT
* ** * *
516975 GAGCTGAATGTAATCAAACTCGAAGGTTTTGGTTGACAGATAGCCCTTCTCACCTTGAGCTATGC
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCT-TGCTTAAGTTATGC
*
517040 TATAAATTTGGCTACCCTT
65 TGTAAATTT-GCTACCCTT
* ** *
517059 GAACTGAATGTAATTGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTTGCATTAAGTTATGT
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTTGC-TTAAGTTATGC
** *
517124 TGTAAATTCACTGCCCTT
65 TGTAAATTTGCTACCCTT
* *
517142 GAGCTGAATAG-AATCAAACTCGAAGGTTTTTGTTGACAAATA-CCCTTATTGC
1 GAGCTGAAT-GTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTTGC
517194 CTTGAGCTAC
Statistics
Matches: 183, Mismatches: 31, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
82 9 0.05
83 44 0.24
84 67 0.37
85 58 0.32
86 5 0.03
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (82 bp):
GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTTGCTTAAGTTATGCT
GTAAATTTGCTACCCTT
Done.