Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 51 of 75
Found at i:16295716 original size:15 final size:15
Alignment explanation
Indices: 16295698--16295728 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16295688 CCACGAAAAA
16295698 CACATTCAATTAAGT
1 CACATTCAATTAAGT
16295713 CACATTCAATTAAGT
1 CACATTCAATTAAGT
16295728 C
1 C
16295729 CTTTGATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (15 bp):
CACATTCAATTAAGT
Found at i:16296179 original size:17 final size:17
Alignment explanation
Indices: 16296147--16296178 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16296137 CAGATGATTT
16296147 TTTAAAATTATTAAAAC
1 TTTAAAATTATTAAAAC
16296164 TTTAAAA-TATTAAAA
1 TTTAAAATTATTAAAA
16296179 ATTATTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAAATTATTAAAAC
Found at i:16296522 original size:2 final size:2
Alignment explanation
Indices: 16296515--16296551 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
16296505 TTGTATAGTT
16296515 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 T
16296552 TTTTACGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16306792 original size:10 final size:10
Alignment explanation
Indices: 16306779--16306813 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
16306769 TTTTATTACT
16306779 TATTTTATAA
1 TATTTTATAA
16306789 TATTTTA-AA
1 TATTTTATAA
*
16306798 TGTTTTATAA
1 TATTTTATAA
16306808 TATTTT
1 TATTTT
16306814 TTATTCAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (10 bp):
TATTTTATAA
Found at i:16309384 original size:12 final size:12
Alignment explanation
Indices: 16309367--16309391 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16309357 GGTGTTCATT
16309367 CGGTTAACCGAC
1 CGGTTAACCGAC
16309379 CGGTTAACCGAC
1 CGGTTAACCGAC
16309391 C
1 C
16309392 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:16309566 original size:9 final size:9
Alignment explanation
Indices: 16309552--16309577 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16309542 TTTGGTTAAA
16309552 AATTACCCG
1 AATTACCCG
16309561 AATTACCCG
1 AATTACCCG
16309570 AATTACCC
1 AATTACCC
16309578 NNNNNNNNNN
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.08, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:16313984 original size:19 final size:19
Alignment explanation
Indices: 16313960--16313997 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16313950 CCCAATGTTG
16313960 CCATAACTCAAAATTTCCC
1 CCATAACTCAAAATTTCCC
16313979 CCATAACTCAAAATTTCCC
1 CCATAACTCAAAATTTCCC
16313998 TTTTTGTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (19 bp):
CCATAACTCAAAATTTCCC
Found at i:16314204 original size:20 final size:20
Alignment explanation
Indices: 16314167--16314205 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16314157 TGAATTGAAA
*
16314167 TGAAATTGTGATATTGAATG
1 TGAAATTATGATATTGAATG
16314187 TGAAATTAT-ATATATGAAT
1 TGAAATTATGATAT-TGAAT
16314206 TGGATTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (20 bp):
TGAAATTATGATATTGAATG
Found at i:16314505 original size:39 final size:39
Alignment explanation
Indices: 16314446--16314520 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
16314436 TATCATATCG
* * *
16314446 AGATCTAGCATTTGTTGTAGATCCTTGGGTAATATAACA
1 AGATCTAACATTTGTCGTAGATCCTCGGGTAATATAACA
*
16314485 AGATCTAACATTTGTCGTAGATTCTCGGGTAATATA
1 AGATCTAACATTTGTCGTAGATCCTCGGGTAATATA
16314521 TGTTGGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (39 bp):
AGATCTAACATTTGTCGTAGATCCTCGGGTAATATAACA
Found at i:16316545 original size:91 final size:90
Alignment explanation
Indices: 16316372--16316545 Score: 222
Period size: 90 Copynumber: 1.9 Consensus size: 90
16316362 AAGGTTTTTG
* * * *
16316372 AATTATTATTTAATTAATTATAATTAAGTAATTGAAGTTCGAAATGGAATTGAATTAATTAATCA
1 AATTATTATTTAATTAATTATAATTAAATAATTAAAATTCGAAATGGAATTAAATTAATTAATCA
* *
16316437 TTATGAATCCATTGAATAGAAAAAT
66 GTATGAATCCATGGAATAGAAAAAT
* * * * *
16316462 AATTATTGTTTAATTAATTATAATTAAATTATTAAAATTTGAAAATGGAATTAAATTAATTAGTT
1 AATTATTATTTAATTAATTATAATTAAATAATTAAAATTCG-AAATGGAATTAAATTAATTAATC
* *
16316527 AGTATGAGTTCATGGAATA
65 AGTATGAATCCATGGAATA
16316546 AGGAAATTAA
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
90 35 0.50
91 35 0.50
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.41
Consensus pattern (90 bp):
AATTATTATTTAATTAATTATAATTAAATAATTAAAATTCGAAATGGAATTAAATTAATTAATCA
GTATGAATCCATGGAATAGAAAAAT
Found at i:16316637 original size:17 final size:17
Alignment explanation
Indices: 16316617--16316653 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
16316607 TTAGAATTGG
*
16316617 ATTGAGAAAATAATTTA
1 ATTGAGAAAATAATCTA
*
16316634 ATTGAGAAATTAATCTA
1 ATTGAGAAAATAATCTA
16316651 ATT
1 ATT
16316654 AATTAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.38
Consensus pattern (17 bp):
ATTGAGAAAATAATCTA
Found at i:16323004 original size:70 final size:71
Alignment explanation
Indices: 16322925--16323129 Score: 322
Period size: 71 Copynumber: 2.9 Consensus size: 71
16322915 TAAAAAAGGG
* *
16322925 GGATCATGCCCAGTAAGTTATGACACAATCTTTTCTTAATTCTCGAGATCGTTTAAAACTTGAG-
1 GGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCCGAGATCGTTTAAAACTTGAGA
16322989 AAAAAA
66 AAAAAA
* **
16322995 GGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCCGAGATTGTTTAATGCTTGAGA
1 GGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCCGAGATCGTTTAAAACTTGAGA
16323060 AAAAAA
66 AAAAAA
* ** *
16323066 TGATCATGCCCAGTAAGTTAGGACACAATCTCCTCTTAATTCCCGAGATCATTTAAAACTTGAG
1 GGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCCGAGATCGTTTAAAACTTGAG
16323130 TTTGAAAGGA
Statistics
Matches: 122, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 59 0.48
71 63 0.52
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (71 bp):
GGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCCGAGATCGTTTAAAACTTGAGA
AAAAAA
Found at i:16323609 original size:35 final size:36
Alignment explanation
Indices: 16323570--16323646 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 36
16323560 AAAGATATAC
* * *
16323570 GTAAATGTATATATATG-TATATATGTATATAAATT
1 GTAAATATATATAAACGATATATATGTATATAAATT
* *
16323605 GTAAA-ATATATAAACGATGTATGTGTATATAAATT
1 GTAAATATATATAAACGATATATATGTATATAAATT
*
16323640 ATAAATA
1 GTAAATA
16323647 AAAACACATG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
34 8 0.24
35 25 0.74
36 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.12, T:0.40
Consensus pattern (36 bp):
GTAAATATATATAAACGATATATATGTATATAAATT
Found at i:16325281 original size:12 final size:13
Alignment explanation
Indices: 16325264--16325795 Score: 235
Period size: 12 Copynumber: 41.6 Consensus size: 13
16325254 TATATACTAC
16325264 TGTTATGTATGT-
1 TGTTATGTATGTA
*
16325276 TGTTAT-TATGTT
1 TGTTATGTATGTA
*
16325288 TGTTATGTATGTC
1 TGTTATGTATGTA
*
16325301 TGTCA--TAT-TA
1 TGTTATGTATGTA
16325311 CTGTTTATGTATGCT-
1 -TG-TTATGTATG-TA
*
16325326 TGTTA-GTATGTC
1 TGTTATGTATGTA
16325338 TGTTATG--TG--
1 TGTTATGTATGTA
*
16325347 TGTTATGAATATGTC
1 TGTTATG--TATGTA
16325362 TGTTA-GTATGTTA
1 TGTTATGTATG-TA
*
16325375 TG-TA-GTATATCA
1 TGTTATGTATGT-A
*
16325387 CTGTTATGTATGTC
1 -TGTTATGTATGTA
16325401 TGTTATGTA--TA
1 TGTTATGTATGTA
*** *
16325412 -AACAT-TATGCA
1 TGTTATGTATGTA
*
16325423 TGTTATGTATATTA
1 TGTTATGTAT-GTA
*
16325437 TTGTTATATATGTA
1 -TGTTATGTATGTA
16325451 TG-TATGTATGTA
1 TGTTATGTATGTA
16325463 TG-TATGTATGTA
1 TGTTATGTATGTA
16325475 TG-TATGTATGTA
1 TGTTATGTATGTA
16325487 TG-TATGTATGTA
1 TGTTATGTATGTA
16325499 TG-TATGTATGTA
1 TGTTATGTATGTA
*
16325511 TG-TACGTATGTA
1 TGTTATGTATGTA
16325523 TG-TATGTATGTA
1 TGTTATGTATGTA
16325535 TG-TATGT-TGTA
1 TGTTATGTATGTA
16325546 TG-TATGTATGTA
1 TGTTATGTATGTA
16325558 TG-TATGTATGTA
1 TGTTATGTATGTA
16325570 TG-TATGTATGTTA
1 TGTTATGTATG-TA
** *
16325583 TGTGGTATAT-TA
1 TGTTATGTATGTA
*
16325595 TTCTTATGTATGTA
1 -TGTTATGTATGTA
*
16325609 TATTATGTACAT-TA
1 TGTTATGT--ATGTA
16325623 TGTTTAT-TACTGTTGA
1 TG-TTATGTA-TG-T-A
* *
16325639 TGAATT-TCTAT-CA
1 TG--TTATGTATGTA
16325652 TGTTTAATGTATGTA
1 TG-TT-ATGTATGTA
*
16325667 TATTATGTATGTTA
1 TGTTATGTATG-TA
* *
16325681 TGTTGTATAT-TA
1 TGTTATGTATGTA
16325693 TTGTTATGTATGTA
1 -TGTTATGTATGTA
*
16325707 TG-TATATATGTA
1 TGTTATGTATGTA
16325719 TG-TATGTATGTA
1 TGTTATGTATGTA
* *
16325731 TATTATGT-GGTA
1 TGTTATGTATGTA
* *
16325743 TATTACTTTTATGTA
1 TGTTA--TGTATGTA
*
16325758 TATTATTGTTTAT-TA
1 TGTTA-TG--TATGTA
16325773 CTGTTTATGTATGTA
1 -TG-TTATGTATGTA
16325788 TGTTATGT
1 TGTTATGT
16325796 TTAGCACTGT
Statistics
Matches: 413, Mismatches: 51, Indels: 111
0.72 0.09 0.19
Matches are distributed among these distances:
9 9 0.02
10 3 0.01
11 27 0.07
12 185 0.45
13 83 0.20
14 47 0.11
15 40 0.10
16 12 0.03
17 7 0.02
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.53
Consensus pattern (13 bp):
TGTTATGTATGTA
Found at i:16325365 original size:50 final size:49
Alignment explanation
Indices: 16325261--16325399 Score: 126
Period size: 50 Copynumber: 2.8 Consensus size: 49
16325251 TTATATATAC
* * * *
16325261 TACTG-TTATGTATGTTGTTATTATGTTTGTTATGTATGTCTGTCATAT
1 TACTGTTTATGTATGTTGTTAGTATGTCTGTTATGTATGTATGTAATAT
*
16325309 TACTGTTTATGTATGCTTGTTAGTATGTCTGTTATGTGTGTTATG-AATAT
1 TACTGTTTATGTATG-TTGTTAGTATGTCTGTTATGTATG-TATGTAATAT
* *
16325359 GT-CTG-TTA-GTATGTTATGTAGTATATCACTGTTATGTATGT
1 -TACTGTTTATGTATGTTGT-TAGTATGT--CTGTTATGTATGT
16325400 CTGTTATGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
47 3 0.04
48 17 0.22
49 13 0.17
50 39 0.51
51 4 0.05
ACGTcount: A:0.20, C:0.06, G:0.21, T:0.53
Consensus pattern (49 bp):
TACTGTTTATGTATGTTGTTAGTATGTCTGTTATGTATGTATGTAATAT
Found at i:16325454 original size:4 final size:4
Alignment explanation
Indices: 16325445--16325731 Score: 258
Period size: 4 Copynumber: 71.8 Consensus size: 4
16325435 TATTGTTATA
16325445 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
16325493 TATG TATG TATG TATG TATG TACG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
16325541 T-TG TATG TATG TATG TATG TATG TATG TATG TATG TATG TTATG T-GG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG -TATG TATG
* * *
16325588 TATAT TAT- TCT- TATG TATG TATAT TATG TACAT- TATG T-T- TAT-
1 TAT-G TATG TATG TATG TATG TAT-G TATG T--ATG TATG TATG TATG
* * * * *
16325630 TACTG T-TG -ATG AATT TCTA TCATG T-T- TAATG TATG TATAT TATG
1 TA-TG TATG TATG TATG TATG T-ATG TATG T-ATG TATG TAT-G TATG
* *
16325674 TATG TTATG T-TG TATAT TATTG TTATG TATG TATG TATA TATG TATG
1 TATG -TATG TATG TAT-G TA-TG -TATG TATG TATG TATG TATG TATG
16325721 TATG TATG TAT
1 TATG TATG TAT
16325732 ATTATGTGGT
Statistics
Matches: 238, Mismatches: 21, Indels: 48
0.78 0.07 0.16
Matches are distributed among these distances:
2 2 0.01
3 23 0.10
4 182 0.76
5 26 0.11
6 5 0.02
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:16325804 original size:29 final size:30
Alignment explanation
Indices: 16325752--16325808 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
16325742 ATATTACTTT
**
16325752 TATGTATATTATTGTTTATTACTGTTTATG
1 TATGTATATTATTGTTTAGCACTGTTTATG
*
16325782 TATGTATGTTA-TGTTTAGCACTGTTTA
1 TATGTATATTATTGTTTAGCACTGTTTA
16325809 AAATATGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (30 bp):
TATGTATATTATTGTTTAGCACTGTTTATG
Found at i:16326550 original size:30 final size:30
Alignment explanation
Indices: 16326516--16326576 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
16326506 AATAGAGAAT
16326516 GAGCAAATAAGGTTAACTGTAAGTGTAACA
1 GAGCAAATAAGGTTAACTGTAAGTGTAACA
16326546 GAGCAAATAAGGTTAACTGTAAGTGTAACA
1 GAGCAAATAAGGTTAACTGTAAGTGTAACA
16326576 G
1 G
16326577 CTTGTTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.25, T:0.23
Consensus pattern (30 bp):
GAGCAAATAAGGTTAACTGTAAGTGTAACA
Found at i:16328936 original size:19 final size:21
Alignment explanation
Indices: 16328908--16328951 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
16328898 ACCCCTATTT
16328908 CAAAATTTTTAAGTTTT-TTC
1 CAAAATTTTTAAGTTTTGTTC
*
16328928 CAAAATTTTT-TGTTTTGTTC
1 CAAAATTTTTAAGTTTTGTTC
16328948 CAAA
1 CAAA
16328952 TTACTCCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (21 bp):
CAAAATTTTTAAGTTTTGTTC
Found at i:16331244 original size:15 final size:15
Alignment explanation
Indices: 16331224--16331254 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16331214 CTGGAGTAGC
16331224 TCCACCAACTCCTTT
1 TCCACCAACTCCTTT
*
16331239 TCCACCAGCTCCTTT
1 TCCACCAACTCCTTT
16331254 T
1 T
16331255 GATCCTACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.45, G:0.03, T:0.35
Consensus pattern (15 bp):
TCCACCAACTCCTTT
Found at i:16331809 original size:45 final size:45
Alignment explanation
Indices: 16331744--16331829 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
16331734 TATGATGGAT
*
16331744 GGTTTTATTTTGTTGGATCATT-TAGATGGATGTATTTTGATAGAC
1 GGTTTTATTTTGTTGAATCATTCTA-ATGGATGTATTTTGATAGAC
*
16331789 GGTTTTATTTTGTTGAATCATTCTAATGGTTGTATTTTGAT
1 GGTTTTATTTTGTTGAATCATTCTAATGGATGTATTTTGAT
16331830 GGACAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.21, C:0.05, G:0.22, T:0.52
Consensus pattern (45 bp):
GGTTTTATTTTGTTGAATCATTCTAATGGATGTATTTTGATAGAC
Found at i:16332616 original size:16 final size:16
Alignment explanation
Indices: 16332595--16332625 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16332585 GGAGATGTGA
*
16332595 AGGAGATGGAAAATGT
1 AGGAGATAGAAAATGT
16332611 AGGAGATAGAAAATG
1 AGGAGATAGAAAATG
16332626 AAGAAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.35, T:0.16
Consensus pattern (16 bp):
AGGAGATAGAAAATGT
Found at i:16335132 original size:27 final size:27
Alignment explanation
Indices: 16335067--16335142 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
16335057 CGGCAATTGG
** *
16335067 GCCACAAAGTGGTAATGGATATGGGCA
1 GCCACAAAGTTTTAATGGAAATGGGCA
*
16335094 GCCACAATGTTTTAATGGAAATGGGCA
1 GCCACAAAGTTTTAATGGAAATGGGCA
* *
16335121 GCCA-AGAAGTTTAAATAGAAAT
1 GCCACA-AAGTTTTAATGGAAAT
16335143 AGGCCGCATG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.02
27 40 0.98
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.22
Consensus pattern (27 bp):
GCCACAAAGTTTTAATGGAAATGGGCA
Found at i:16355504 original size:23 final size:23
Alignment explanation
Indices: 16355434--16355504 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 23
16355424 TACCTGATCA
** * *
16355434 ATATACGACACACGAGGTGCCTA
1 ATATACGACACATAAAGTGCCTG
* * *
16355457 AAATACGACACATAAAGTTCTTG
1 ATATACGACACATAAAGTGCCTG
16355480 ATATACGACACATAAAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
16355503 AT
1 AT
16355505 CGGCAAAGTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (23 bp):
ATATACGACACATAAAGTGCCTG
Found at i:16355859 original size:26 final size:25
Alignment explanation
Indices: 16355828--16355877 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
16355818 TAGTTCAATA
16355828 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
16355854 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
16355878 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:16356688 original size:11 final size:11
Alignment explanation
Indices: 16356668--16356702 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
16356658 AAAACCCTAG
16356668 TTTTTCCTTTTC
1 TTTTT-CTTTTC
16356680 TTTTTCTTTTC
1 TTTTTCTTTTC
16356691 TTCTTTCTTTTC
1 TT-TTTCTTTTC
16356703 CCCTATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:16356735 original size:5 final size:5
Alignment explanation
Indices: 16356725--16356777 Score: 58
Period size: 5 Copynumber: 10.6 Consensus size: 5
16356715 TTGCTCTCTG
16356725 TTTCT TTTCT TCTT-T GTTT-T GTTTC- TTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT T-TTCT -TTTCT -TTTCT TTTCT TTTCT TTTCT TTTCT
16356770 TTTCT TTT
1 TTTCT TTT
16356778 TTTACTTCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.09
5 37 0.84
6 3 0.07
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:16361591 original size:28 final size:28
Alignment explanation
Indices: 16361551--16361608 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
16361541 AGAAAGGAGA
16361551 AAGGATGAAAACTTCTTTTGTGACTTCT
1 AAGGATGAAAACTTCTTTTGTGACTTCT
16361579 AAGGATGAAAACTTCTTTTGTGACTTCT
1 AAGGATGAAAACTTCTTTTGTGACTTCT
16361607 AA
1 AA
16361609 ATATCTGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (28 bp):
AAGGATGAAAACTTCTTTTGTGACTTCT
Found at i:16368612 original size:2 final size:2
Alignment explanation
Indices: 16368607--16368635 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16368597 AAAAACTTGA
16368607 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
16368636 TGGGTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16370445 original size:15 final size:16
Alignment explanation
Indices: 16370425--16370457 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16370415 AGTTTTTAAT
16370425 TTAAA-TAAAATATCC
1 TTAAATTAAAATATCC
*
16370440 TTAAATTAACATATCC
1 TTAAATTAAAATATCC
16370456 TT
1 TT
16370458 TTTATTCTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAATTAAAATATCC
Found at i:16372791 original size:23 final size:24
Alignment explanation
Indices: 16372746--16372789 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
16372736 TTTGATGTAT
*
16372746 TTACCTATTTAAATTTCAATTTAC
1 TTACCTATTTAAATTTAAATTTAC
16372770 TTACC-ATTTAAA-TTAAATTT
1 TTACCTATTTAAATTTAAATTT
16372790 TATTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (24 bp):
TTACCTATTTAAATTTAAATTTAC
Found at i:16376116 original size:32 final size:32
Alignment explanation
Indices: 16376034--16376125 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 32
16376024 TATTCTCGGG
*
16376034 TCATTTCATGTTTAGGTCATTTCA-AGTCCGAT
1 TCATTTCATGTTTAGGTCATTTCAGA-TTCGAT
* * *
16376066 T--GTTCAAGTTT-GGATCATTTGAGATTCGAT
1 TCATTTCATGTTTAGG-TCATTTCAGATTCGAT
*
16376096 TCATTTCATGTTTAGGTCATTTTAGATTCG
1 TCATTTCATGTTTAGGTCATTTCAGATTCG
16376126 GGTCATTACG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
29 2 0.04
30 21 0.44
31 1 0.02
32 22 0.46
33 2 0.04
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.46
Consensus pattern (32 bp):
TCATTTCATGTTTAGGTCATTTCAGATTCGAT
Found at i:16376132 original size:32 final size:32
Alignment explanation
Indices: 16376029--16376132 Score: 90
Period size: 32 Copynumber: 3.3 Consensus size: 32
16376019 CTAGTTATTC
*
16376029 TCGGGTCATTTCATGTTTAGGTCATTTCA-AG
1 TCGGGTCATTTCATGTTTAGGTCATTTCAGAT
* * * *
16376060 TCCGAT--TGTTCAAGTTT-GGATCATTTGAGAT
1 TCGGGTCAT-TTCATGTTTAGG-TCATTTCAGAT
** *
16376091 TCGATTCATTTCATGTTTAGGTCATTTTAGAT
1 TCGGGTCATTTCATGTTTAGGTCATTTCAGAT
16376123 TCGGGTCATT
1 TCGGGTCATT
16376133 ACGGTGTTGG
Statistics
Matches: 55, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
29 3 0.05
30 15 0.27
31 8 0.15
32 26 0.47
33 3 0.05
ACGTcount: A:0.20, C:0.14, G:0.21, T:0.44
Consensus pattern (32 bp):
TCGGGTCATTTCATGTTTAGGTCATTTCAGAT
Found at i:16380979 original size:21 final size:21
Alignment explanation
Indices: 16380924--16380979 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
16380914 GTGGCTATCC
**
16380924 CACACGCCTGTGTGACTACCT
1 CACACGCCCATGTGACTACCT
**
16380945 CACACGCCTGTGTGACTACCT
1 CACACGCCCATGTGACTACCT
*
16380966 CATACGCCCATGTG
1 CACACGCCCATGTG
16380980 CATGGGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.20, C:0.38, G:0.20, T:0.23
Consensus pattern (21 bp):
CACACGCCCATGTGACTACCT
Found at i:16380979 original size:23 final size:21
Alignment explanation
Indices: 16380908--16380973 Score: 98
Period size: 21 Copynumber: 3.1 Consensus size: 21
16380898 ACAGAGCCCA
*
16380908 GCCTGTGTGGCTATCC-CACAC
1 GCCTGTGTGACTA-CCTCACAC
16380929 GCCTGTGTGACTACCTCACAC
1 GCCTGTGTGACTACCTCACAC
*
16380950 GCCTGTGTGACTACCTCATAC
1 GCCTGTGTGACTACCTCACAC
16380971 GCC
1 GCC
16380974 CATGTGCATG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 2 0.05
21 40 0.95
ACGTcount: A:0.17, C:0.38, G:0.21, T:0.24
Consensus pattern (21 bp):
GCCTGTGTGACTACCTCACAC
Found at i:16394857 original size:12 final size:12
Alignment explanation
Indices: 16394840--16394869 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16394830 CAGAATTTCT
*
16394840 GTCGTGTCAATA
1 GTCGTGGCAATA
16394852 GTCGTGGCAATA
1 GTCGTGGCAATA
16394864 GTCGTG
1 GTCGTG
16394870 CCTACGACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (12 bp):
GTCGTGGCAATA
Found at i:16398692 original size:43 final size:44
Alignment explanation
Indices: 16398644--16398781 Score: 151
Period size: 43 Copynumber: 3.2 Consensus size: 44
16398634 TTGTCAAGAT
* *
16398644 TTGATCTTGGGAT-AATATAGTTTGCTTTAAGGGTCATCGAGAC
1 TTGATCTTGGAATCAATATAGTTTGCTTCAAGGGTCATCGAGAC
* *
16398687 TTGATCTT-GAATCAATTTAGTTTGCTTCAAGGGTCATTGAGAC
1 TTGATCTTGGAATCAATATAGTTTGCTTCAAGGGTCATCGAGAC
* ** *
16398730 TTGATCTT-GAATCAATGAT-GTTCGCTTCAATAGTCGTCGA-AGC
1 TTGATCTTGGAATCAAT-ATAGTTTGCTTCAAGGGTCATCGAGA-C
16398773 TTGATCTTG
1 TTGATCTTG
16398782 AAAACGGGTT
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
42 4 0.05
43 76 0.94
44 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (44 bp):
TTGATCTTGGAATCAATATAGTTTGCTTCAAGGGTCATCGAGAC
Found at i:16399578 original size:45 final size:46
Alignment explanation
Indices: 16399528--16399646 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
16399518 TTTTTGGATG
* *
16399528 AACAGTTTAAACTCGTGCTTAGGAGTATGATCA-TTATTTTGTGCT
1 AACAGTTTAAACTCGTGCTTAGGAGCATCATCATTTATTTTGTGCT
* *
16399573 AACAGTTTAAGCTCGTGCTTAGGAGCATCATCATTTATTTTG-GAT
1 AACAGTTTAAACTCGTGCTTAGGAGCATCATCATTTATTTTGTGCT
* * * *
16399618 GAACAATTTAAGCTTGTACTTAGGAGCAT
1 -AACAGTTTAAACTCGTGCTTAGGAGCAT
16399647 TATTGTTTGG
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 32 0.49
46 33 0.51
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (46 bp):
AACAGTTTAAACTCGTGCTTAGGAGCATCATCATTTATTTTGTGCT
Found at i:16399628 original size:46 final size:45
Alignment explanation
Indices: 16399519--16399646 Score: 168
Period size: 45 Copynumber: 2.8 Consensus size: 45
16399509 GAGCATCTGT
* * *
16399519 TTTTGGATGAACAGTTTAAACTCGTGCTTAGGAGTATGATCATTA
1 TTTTGGATGAACAGTTTAAGCTCGTGCTTAGGAGCATCATCATTA
*
16399564 TTTTGTGCT-AACAGTTTAAGCTCGTGCTTAGGAGCATCATCATTTA
1 TTTTG-GATGAACAGTTTAAGCTCGTGCTTAGGAGCATCATCA-TTA
* * *
16399610 TTTTGGATGAACAATTTAAGCTTGTACTTAGGAGCAT
1 TTTTGGATGAACAGTTTAAGCTCGTGCTTAGGAGCAT
16399647 TATTGTTTGG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 37 0.51
46 35 0.49
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (45 bp):
TTTTGGATGAACAGTTTAAGCTCGTGCTTAGGAGCATCATCATTA
Found at i:16406394 original size:27 final size:27
Alignment explanation
Indices: 16406364--16406416 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16406354 GTTAAATAAA
*
16406364 ATTAAA-AGGACATTCTAAAATTAAAAG
1 ATTAAATA-GACACTCTAAAATTAAAAG
*
16406391 ATTAAATATACACTCTAAAATTAAAA
1 ATTAAATAGACACTCTAAAATTAAAA
16406417 TTCTACCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (27 bp):
ATTAAATAGACACTCTAAAATTAAAAG
Found at i:16412296 original size:16 final size:15
Alignment explanation
Indices: 16412277--16412306 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16412267 TTCATTTCAT
16412277 TTGCATTTAGGTTAAC
1 TTGCATTTA-GTTAAC
16412293 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
16412307 TTAACTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:16414535 original size:5 final size:5
Alignment explanation
Indices: 16414525--16414549 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16414515 TGTTTATTCT
16414525 TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA
16414550 GGTATTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:16424768 original size:31 final size:30
Alignment explanation
Indices: 16424733--16424799 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
16424723 ACATGAACCA
16424733 TGATTTAATGTGCAATTGTATACATG-AATTT
1 TGATTTAATGT--AATTGTATACATGAAATTT
* * *
16424764 TGATTTTATGTAATTTTATGCATGAAATTT
1 TGATTTAATGTAATTGTATACATGAAATTT
16424794 TGATTT
1 TGATTT
16424800 GATCCAATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 11 0.34
30 11 0.34
31 10 0.31
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (30 bp):
TGATTTAATGTAATTGTATACATGAAATTT
Found at i:16425317 original size:20 final size:19
Alignment explanation
Indices: 16425280--16425316 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16425270 ACTAAAAATT
16425280 TATTTTAAAAATAAAAAAG
1 TATTTTAAAAATAAAAAAG
16425299 TATTTTAAAAATAAAAAA
1 TATTTTAAAAATAAAAAA
16425317 ATAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
TATTTTAAAAATAAAAAAG
Found at i:16427619 original size:4 final size:4
Alignment explanation
Indices: 16427612--16427641 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
16427602 ATTTTTTGCT
16427612 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
16427642 ATTATCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:16432211 original size:45 final size:46
Alignment explanation
Indices: 16432152--16432242 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 46
16432142 TTTTTGTTTC
16432152 TTTTATTCTTTTGGATTTTCTTCCAAATCATTCTTTCATTCATAAT
1 TTTTATTCTTTTGGATTTTCTTCCAAATCATTCTTTCATTCATAAT
16432198 TTTTATT-TTTTGGATTTTCTTCCAAATCATTCTTTCATTCATAAT
1 TTTTATTCTTTTGGATTTTCTTCCAAATCATTCTTTCATTCATAAT
16432243 CATACTATAC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 38 0.84
46 7 0.16
ACGTcount: A:0.22, C:0.16, G:0.04, T:0.57
Consensus pattern (46 bp):
TTTTATTCTTTTGGATTTTCTTCCAAATCATTCTTTCATTCATAAT
Found at i:16433121 original size:15 final size:16
Alignment explanation
Indices: 16433083--16433122 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
16433073 AATATTTAAA
*
16433083 AAAATGATG-AAAATG
1 AAAATGATGAAAAAAG
16433098 AAAATGATGAAAAAAG
1 AAAATGATGAAAAAAG
16433114 AAAA-GATGA
1 AAAATGATGA
16433123 GAGAAGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.65, C:0.00, G:0.20, T:0.15
Consensus pattern (16 bp):
AAAATGATGAAAAAAG
Found at i:16435496 original size:44 final size:44
Alignment explanation
Indices: 16435435--16436178 Score: 370
Period size: 44 Copynumber: 16.7 Consensus size: 44
16435425 GAAGATGGAA
* * *
16435435 AATCTTATCTCCCTAAAGTTACAGTGGAGTAAATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAT
* * * * * **
16435479 AATCCTATCTCCCTAAAGTTGCAATGGAACGAATTAAAGTTACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCA-AT
* * * * * * *
16435523 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAG-AAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAA-T
* * * * * * * *
16435567 AAGTCTTATC-CCTCTGAAATTACAGTGGGGTAGACTGAAGATGGC--G
1 AA-TCTTATCTCC-CTGAAGTTGCAGTGGAGCA-AATTAA-A-GCCAAT
* * * *
16435613 AATCTTATCTCCCTAAAGTTGCAGTGTAGCAGATTAAATCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAT
* * * **
16435657 AATCCTATCTCCCTAAAGTTGCAGTGGAGCGAATTAAAGTTACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCA-AT
* * * *
16435701 AATCTTGTCTCCTTGAAGTTACAGTGAAG-AAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTAAAGCCAAT
* * * * * *
16435745 AGTCTTATCCCCCTGAAGTTGCAGTAGG-GCAGACTGAAGATGGC--G
1 AATCTTATCTCCCTGAAGTTGCAGT-GGAGCA-AATTAA-A-GCCAAT
*
16435790 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAT
* * * **
16435834 AATCTTATCTCCTTGAAGTTGCAATGGAGCGAATTAAAGTTACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCA-AT
* * * ** **
16435878 AATCTTATCTCCCTGAAGTTACAGTGGAGCAAACTAATGATACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAT
*** * *
16435922 AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA-ACGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAT
* * * * * * *
16435965 GAATCCTATAC-CTCTGAAGTTACAGTAGG-TCAGATTAAATCTACTATAAC
1 -AATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAAATTAAAGC--C---AAT
* * * * * *
16436015 AAGTCTTATCTCCTTGAGGTTGCAGTGGAGTAGACTGAAGATGGC-A-
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCA-AATTAA-A-GCCAAT
16436061 AATCTTATCTCCCTGAAGTTGCAGTGGAG-AAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTAAAGCCAAT
* * * * * * *
16436105 AGTCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAT
* *
16436149 AATCCTATCTCCCTAAAGTTGCAGTGGAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGC
16436179 TGATTAAAAC
Statistics
Matches: 517, Mismatches: 139, Indels: 88
0.69 0.19 0.12
Matches are distributed among these distances:
42 6 0.01
43 9 0.02
44 355 0.69
45 104 0.20
46 9 0.02
47 5 0.01
48 1 0.00
49 5 0.01
50 18 0.03
51 4 0.01
52 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAT
Found at i:16435720 original size:88 final size:88
Alignment explanation
Indices: 16435434--16436186 Score: 511
Period size: 88 Copynumber: 8.4 Consensus size: 88
16435424 AGAAGATGGA
* * * *
16435434 AAATCTTATCTCCCTAAAGTTACAGTGGAGTAAATTAAAGCCAATAATCCTATCTCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTAAAGTT
* *
16435499 GCAATGGAACGAATTAAAGTTAC
66 GCAGTGGAGCGAATTAAAGTTAC
* * * * * * *
16435522 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAG-AAAGCAAGTCTTATC-CCTCTGAA
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAA-TAA-TCTTATCTCC-CT-AA
* * * **
16435585 A-TTACAGTGG-G-GTAGACTGAAGATGGC
62 AGTTGCAGTGGAGCG-A-ATTAAAG-TTAC
* * * * * *
16435612 GAATCTTATCTCCCTAAAGTTGCAGTGTAGCAGATTAAATCCAATAATCCTATCTCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTAAAGTT
16435677 GCAGTGGAGCGAATTAAAGTTAC
66 GCAGTGGAGCGAATTAAAGTTAC
* * * * * * *
16435700 AAATCTTGTCTCCTTGAAGTTACAGTGAAGAAGATTAAAGCCAATAGTCTTATCCCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTAAAGTT
* * **
16435765 GCAGTAGG-GC-AGACTGAAGATGGC
66 GCAGT-GGAGCGA-ATTAAAG-TTAC
* * * *
16435789 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTAAAGTT
*
16435854 GCAATGGAGCGAATTAAAGTTAC
66 GCAGTGGAGCGAATTAAAGTTAC
* * * ** ** *
16435877 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAAACTAATGATACCAATCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTAAAGTT
* * *** *
16435942 GCAGTGGAGTGGATTAAAACGAT
66 GCAGTGGAGCGAATTAAAGTTAC
* * * * * *
16435965 GAATCCTATAC-CTCTGAAGTTACAGTAGG-TCAGATTAAATCTACTATAACAAGTCTTATCTCC
1 AAATCTTAT-CTCCCTGAAGTTACAGT-GGAGCAGATTAAAGC--C---AATAA-TCTTATCTCC
* * * * * * **
16436028 TTGAGGTTGCAGTGGAG-TAGACTGAAGATGGC
58 CTAAAGTTGCAGTGGAGCGA-ATTAAAG-TTAC
* * * * * *
16436060 AAATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCAATAGTCTTATCTTCTTGAAGTT
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTAAAGTT
* *
16436125 GCAGTGGAGC-AGATTGAAGCTAC
66 GCAGTGGAGCGA-ATTAAAGTTAC
* * * * *
16436148 TAATCCTATCTCCCTAAAGTTGCAGTGGAGCTGATTAAA
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
16436187 ACGATGAATC
Statistics
Matches: 513, Mismatches: 122, Indels: 60
0.74 0.18 0.09
Matches are distributed among these distances:
87 4 0.01
88 244 0.48
89 148 0.29
90 47 0.09
91 3 0.01
93 5 0.01
94 32 0.06
95 30 0.06
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (88 bp):
AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTAAAGTT
GCAGTGGAGCGAATTAAAGTTAC
Found at i:16435809 original size:133 final size:130
Alignment explanation
Indices: 16435433--16436178 Score: 423
Period size: 133 Copynumber: 5.6 Consensus size: 130
16435423 AAGAAGATGG
* * * * * * *
16435433 AAAATCTTATCTCCCTAAAGTTACAGTGGAGTAAATTAAAGCCAATAATCCTATCTCCCTAAAGT
1 AAAATCTTATCTCCTTGAAGTTACAGTGAAG-AGATTAAAGCCAA-AGTCTTATCTCCCTGAAGT
* * * * ** *
16435498 TGCAATGGAAC-GAATTAA-AGTTACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAA
64 TGCAGTGGAGCAGACTGAAGA-TGGCAAATCTTATCTCCCTGAAGTTGCAGT-G-G-AG-C-GAA
*
16435561 -GAAAG-C
123 TTAAAGCC
* * ** * * * *
16435567 -AAGTCTTATC-CCTCTGAAATTACAGTGGGGTAGACTGAAGATGGCGAA-TCTTATCTCCCTAA
1 AAAATCTTATCTCCT-TGAAGTTACAGTGAAG-AGA-TTAA-A-GCCAAAGTCTTATCTCCCTGA
* * * * *
16435629 AGTTGCAGTGTAGCAGA-TTAA-AT-CCAATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGAAT
61 AGTTGCAGTGGAGCAGACTGAAGATGGC-A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCGAAT
**
16435691 TAAAGTT
124 TAAAGCC
* *
16435698 ACAAATCTTGTCTCCTTGAAGTTACAGTGAAGAAGATTAAAGCCAATAGTCTTATCCCCCTGAAG
1 A-AAATCTTATCTCCTTGAAGTTACAGTGAAG-AGATTAAAGCCAA-AGTCTTATCTCCCTGAAG
*
16435763 TTGCAGTAGG-GCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTA
63 TTGCAGT-GGAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGA-ATTA
16435826 AAGCC
126 AAGCC
* * * * *
16435831 AATAATCTTATCTCCTTGAAGTTGCAATGGAGCGAATTAAAGTTACAAA-TCTTATCTCCCTGAA
1 AA-AATCTTATCTCCTTGAAGTTACAGTGAAGAG-ATTAAAG--CCAAAGTCTTATCTCCCTGAA
* * * * * *
16435895 GTTACAGTGGAGCAAACT-AATGAT-ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTA
62 GTTGCAGTGGAGCAGACTGAA-GATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGAATTA
* *
16435958 AAACG
126 AAGCC
* * * * *
16435963 ATGAATCCTAT-ACCTCTGAAGTTACAGT-AGGTCAGATTAAATCTACTATAACAAGTCTTATCT
1 A-AAATCTTATCTCCT-TGAAGTTACAGTGAAG--AGATTAAAGC--C----A-AAGTCTTATCT
* * *
16436026 CCTTGAGGTTGCAGTGGAGTAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG-
55 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
*
16436090 AAGATTAAAGCC
120 GA-ATTAAAGCC
* * * * * * * *
16436102 AATAGTCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAA-TCCTATCTCCCTAAA
1 AA-AATCTTATCTCCTTGAAGTTACAGTGAAG-AGATTAAAGC--CAAAGTCTTATCTCCCTGAA
16436166 GTTGCAGTGGAGC
62 GTTGCAGTGGAGC
16436179 TGATTAAAAC
Statistics
Matches: 478, Mismatches: 90, Indels: 89
0.73 0.14 0.14
Matches are distributed among these distances:
129 3 0.01
130 8 0.02
131 8 0.02
132 102 0.21
133 178 0.37
134 62 0.13
135 8 0.02
136 4 0.01
137 2 0.00
138 31 0.06
139 69 0.14
140 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (130 bp):
AAAATCTTATCTCCTTGAAGTTACAGTGAAGAGATTAAAGCCAAAGTCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAGCC
Found at i:16435930 original size:177 final size:176
Alignment explanation
Indices: 16435425--16435946 Score: 686
Period size: 177 Copynumber: 2.9 Consensus size: 176
16435415 GTGGATTGAA
** * * *
16435425 GAAGATGGAAAATCTTATCTCCCTAAAGTTACAGTGGAGTAAATTAAAGCCAATAATCCTATCTC
1 GAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
* * * * *
16435490 CCTAAAGTTGCAATGGAACGAATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAG
66 CCTAAAGTTGCAATGGAGCGAATTAAAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAA
* * * * * *
16435555 ACTGAAGAAAGCAAGTCTTATCCCTCTGAAATTACAGTGGGGTAGACT
131 ACT-AAGAAAACAA-TCTTATCCCCCTGAAGTTGCAGTAGGGCAGACT
* *
16435603 GAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGTAGCAGATTAAATCCAATAATCCTATCTC
1 GAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
* * * *
16435668 CCTAAAGTTGCAGTGGAGCGAATTAAAGTTACAAATCTTGTCTCCTTGAAGTTACAGTGAAG-AA
66 CCTAAAGTTGCAATGGAGCGAATTAAAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAA
* ** * *
16435732 GATTAAAGCCAATAGTCTTATCCCCCTGAAGTTGCAGTAGGGCAGACT
131 -ACT-AAGAAAACAATCTTATCCCCCTGAAGTTGCAGTAGGGCAGACT
* *
16435780 GAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTC
1 GAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
* *
16435845 CTTGAAGTTGCAATGGAGCGAATTAAAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAA
66 CCTAAAGTTGCAATGGAGCGAATTAAAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAA
* * *
16435910 ACTAATGATACCAATCTTATCTCCCTGAAGTTGCAGT
131 ACTAA-GAAAACAATCTTATCCCCCTGAAGTTGCAGT
16435947 GGAGTGGATT
Statistics
Matches: 296, Mismatches: 45, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
176 2 0.01
177 173 0.58
178 121 0.41
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (176 bp):
GAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTC
CCTAAAGTTGCAATGGAGCGAATTAAAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAA
ACTAAGAAAACAATCTTATCCCCCTGAAGTTGCAGTAGGGCAGACT
Found at i:16436197 original size:44 final size:43
Alignment explanation
Indices: 16436061--16436217 Score: 136
Period size: 44 Copynumber: 3.6 Consensus size: 43
16436051 GAAGATGGCA
* * *
16436061 AATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCAAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACAAT
* * * * * * *
16436105 AGTCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC-AAT
* * *
16436149 AATCCTATCTCCCTAAAGTTGCAGTGGAGCTGATTAAAACGAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAAT
**
16436192 GAATCCTATAC-CTTTGAAGTTGCAGT
1 -AATCCTAT-CTCCCTGAAGTTGCAGT
16436218 AGGTCGGATT
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
43 2 0.02
44 87 0.97
45 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (43 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAAT
Found at i:16439512 original size:20 final size:20
Alignment explanation
Indices: 16439476--16439513 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16439466 ATTTCAGATA
*
16439476 TAAAATAGCCATGAATCATT
1 TAAAATAGCCATCAATCATT
16439496 TAAAATA-CTCATCAATCA
1 TAAAATAGC-CATCAATCA
16439514 AATCCACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAAATAGCCATCAATCATT
Found at i:16456653 original size:16 final size:18
Alignment explanation
Indices: 16456632--16456664 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
16456622 CACGTTCTGT
16456632 AATTTT-TTTTT-TTTGC
1 AATTTTGTTTTTCTTTGC
16456648 AATTTTGTTTTTCTTTG
1 AATTTTGTTTTTCTTTG
16456665 TGACATTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.73
Consensus pattern (18 bp):
AATTTTGTTTTTCTTTGC
Found at i:16464674 original size:16 final size:16
Alignment explanation
Indices: 16464653--16464686 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16464643 ATTACAGGGT
*
16464653 TGATGAAAAGTAAGCG
1 TGATGAAAAGTAAACG
16464669 TGATGAAAAGTAAACG
1 TGATGAAAAGTAAACG
16464685 TG
1 TG
16464687 GTTACAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.29, T:0.21
Consensus pattern (16 bp):
TGATGAAAAGTAAACG
Found at i:16471986 original size:27 final size:24
Alignment explanation
Indices: 16471934--16471986 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
16471924 CGAGGAATAG
*
16471934 GAGGAAGAAGAAGAAAGCGGCGAT
1 GAGGAAGAAGAAGAAAGCGGCCAT
*
16471958 GAGGATGAAGAAGAAGAGCCGGTCCAT
1 GAGGAAGAAGAAGAA-AG-CGG-CCAT
16471985 GA
1 GA
16471987 CAAGGACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 14 0.58
25 2 0.08
26 3 0.12
27 5 0.21
ACGTcount: A:0.42, C:0.11, G:0.40, T:0.08
Consensus pattern (24 bp):
GAGGAAGAAGAAGAAAGCGGCCAT
Found at i:16479236 original size:12 final size:13
Alignment explanation
Indices: 16479221--16479253 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
16479211 TTTATCTTAA
16479221 TAAATATTAA-AT
1 TAAATATTAATAT
16479233 TAAAT-TTAATAT
1 TAAATATTAATAT
16479245 TAAATATTA
1 TAAATATTA
16479254 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 12 0.63
13 3 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATATTAATAT
Found at i:16479247 original size:27 final size:26
Alignment explanation
Indices: 16479195--16479247 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
16479185 ACTTTAATAC
*
16479195 TAAATTTAAACTAATATTTATCTTAA
1 TAAATTTAAACTAATATTTATATTAA
*
16479221 TAAATATTAAATTAA-ATTTAATATTAA
1 TAAAT-TTAAACTAATATTT-ATATTAA
16479248 ATATTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (26 bp):
TAAATTTAAACTAATATTTATATTAA
Found at i:16486541 original size:45 final size:45
Alignment explanation
Indices: 16486477--16486567 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
16486467 CTCCAATACT
* *
16486477 TAGAATTGCCGAGTAAGTCAGCACCACTTTGTTTGGTCCATCGTG
1 TAGAATTCCCAAGTAAGTCAGCACCACTTTGTTTGGTCCATCGTG
16486522 TAGAATTCCCAAGTAAGTCAGCACCACTTTGTTTGGTCCATCGTG
1 TAGAATTCCCAAGTAAGTCAGCACCACTTTGTTTGGTCCATCGTG
16486567 T
1 T
16486568 TGTTGACCAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (45 bp):
TAGAATTCCCAAGTAAGTCAGCACCACTTTGTTTGGTCCATCGTG
Found at i:16501137 original size:28 final size:28
Alignment explanation
Indices: 16501073--16501171 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
16501063 AATGATAAAG
16501073 ATAAAAA-ATAAGAAATTATTAA-ATTTTA
1 ATAAAAATATAA-AAA-TATTAATATTTTA
*
16501101 ATAAAAAATATAAAAATATTAATTTTTTA
1 AT-AAAAATATAAAAATATTAATATTTTA
* * * *
16501130 ATAAAAAT-TAGAGATAATAATAATTGTA
1 ATAAAAATATAAAAATATTAAT-ATTTTA
16501158 A-AAAAATATAAAAA
1 ATAAAAATATAAAAA
16501172 AGTGTAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
27 16 0.28
28 23 0.40
29 15 0.26
30 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (28 bp):
ATAAAAATATAAAAATATTAATATTTTA
Found at i:16506357 original size:17 final size:17
Alignment explanation
Indices: 16506332--16506365 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16506322 CTAATAGTTC
16506332 TATCAATTCTCTCAATT
1 TATCAATTCTCTCAATT
*
16506349 TATCCATTCTCTCAATT
1 TATCAATTCTCTCAATT
16506366 CTCTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (17 bp):
TATCAATTCTCTCAATT
Found at i:16508476 original size:6 final size:6
Alignment explanation
Indices: 16508465--16508520 Score: 76
Period size: 6 Copynumber: 9.3 Consensus size: 6
16508455 ACGGAGGAAC
* * * *
16508465 AAGATG AAGATG AAGATG AAGATG AAGATG GAGCTC AAGGTG AAGATG
1 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG
16508513 AAGATG AA
1 AAGATG AA
16508521 TAAGATAAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.46, C:0.04, G:0.34, T:0.16
Consensus pattern (6 bp):
AAGATG
Found at i:16509518 original size:19 final size:19
Alignment explanation
Indices: 16509494--16509532 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16509484 GTAAGGATGC
16509494 TAAGAAAAAATATGTTTCT
1 TAAGAAAAAATATGTTTCT
16509513 TAAGAAAAAATATGTTTCT
1 TAAGAAAAAATATGTTTCT
16509532 T
1 T
16509533 TGACCACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (19 bp):
TAAGAAAAAATATGTTTCT
Found at i:16513559 original size:20 final size:20
Alignment explanation
Indices: 16513534--16513574 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16513524 GCATTATCGT
*
16513534 TATTGGTGGCTTGTCTACAC
1 TATTGGTGGATTGTCTACAC
*
16513554 TATTGGTGGATTGTCTGCAC
1 TATTGGTGGATTGTCTACAC
16513574 T
1 T
16513575 TATATTGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.17, G:0.27, T:0.41
Consensus pattern (20 bp):
TATTGGTGGATTGTCTACAC
Found at i:16521049 original size:2 final size:2
Alignment explanation
Indices: 16521042--16521086 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
16521032 CTTATAATGT
*
16521042 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16521084 AG A
1 AG A
16521087 AACTTTAGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16521996 original size:2 final size:2
Alignment explanation
Indices: 16521989--16522014 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16521979 AAAAGAGTGA
16521989 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
16522015 TATTCCCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:16523405 original size:30 final size:28
Alignment explanation
Indices: 16523355--16523412 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
16523345 TAAAAATCTT
* *
16523355 TTCTAAAATAGAATAAAAGAAAATAAGA
1 TTCTAAAATAGAAGAAAAGAAAAGAAGA
16523383 TTCTAAAAATAAGAAGAAAAGAAAAGAAGA
1 TTCT-AAAAT-AGAAGAAAAGAAAAGAAGA
16523413 AGAGAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 4 0.15
29 5 0.19
30 17 0.65
ACGTcount: A:0.66, C:0.03, G:0.14, T:0.17
Consensus pattern (28 bp):
TTCTAAAATAGAAGAAAAGAAAAGAAGA
Found at i:16523409 original size:13 final size:13
Alignment explanation
Indices: 16523393--16523423 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16523383 TTCTAAAAAT
16523393 AAGAAGAAAAGAA
1 AAGAAGAAAAGAA
*
16523406 AAGAAGAAGAGAA
1 AAGAAGAAAAGAA
16523419 AAGAA
1 AAGAA
16523424 AAATAGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAAGAA
Found at i:16526880 original size:93 final size:93
Alignment explanation
Indices: 16526511--16526889 Score: 356
Period size: 93 Copynumber: 4.1 Consensus size: 93
16526501 CACCTTTTAA
* * * * * * *
16526511 TGGAAATTGCTCGCTAAGTTAATAGTAGAAATACTATTAGCCTCTTAAGGTACTTAGCCAAATTT
1 TGGATATTGCTCGCTAAGTTAATAGAAAAAACACAACTAGCCTCTTAAGGCACTTAGCCAAATTT
* * *
16526576 -AGTAATTTTAAAGAAGACACCCCTAAG
66 CAATAATTTTAAAGTAGACACCCCTTAG
* * * * * *
16526603 TGGATACTACTTGCTAAGTTAATAGAAGAAAA-ACGTTACTAGCCTCCTAAAGCACTTAGCCAAA
1 TGGATATTGCTCGCTAAGTTAATAGAA-AAAACAC--AACTAGCCTCTTAAGGCACTTAGCCAAA
* *
16526667 TTTCAGTAATGTTAAAGTAGA-ACCCCTTCAG
63 TTTCAATAATTTTAAAGTAGACACCCCTT-AG
* * ** * *
16526698 TGGATATTGCTTGTTAAGTTAATAGCAAAAAA-A-ATGTTAGCTTATTAAGGCACTTAGCCAAAT
1 TGGATATTGCTCGCTAAGTTAATAG-AAAAAACACA-ACTAGCCTCTTAAGGCACTTAGCCAAAT
** * *
16526761 TTCAATAATTTTAAAACAAACGCCCCTTAG
64 TTCAATAATTTTAAAGTAGACACCCCTTAG
* * * *
16526791 TGGACATTGCCCGCTAAGTTAATA-AAATAAACACAACTAGTCTCTTAAGGGACTTAGCCAAATT
1 TGGATATTGCTCGCTAAGTTAATAGAAA-AAACACAACTAGCCTCTTAAGGCACTTAGCCAAATT
*
16526855 TCAATAATTTTAAAGTAGACACCCCTCAG
65 TCAATAATTTTAAAGTAGACACCCCTTAG
16526884 TGGATA
1 TGGATA
16526890 CTATTTGTTA
Statistics
Matches: 231, Mismatches: 45, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
91 3 0.01
92 27 0.12
93 115 0.50
94 40 0.17
95 44 0.19
96 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (93 bp):
TGGATATTGCTCGCTAAGTTAATAGAAAAAACACAACTAGCCTCTTAAGGCACTTAGCCAAATTT
CAATAATTTTAAAGTAGACACCCCTTAG
Found at i:16540148 original size:25 final size:26
Alignment explanation
Indices: 16540085--16540151 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
16540075 TGTAATTGTG
* * *
16540085 TTCTTATTAGATTTTGTTGTTATGAG
1 TTCTTTTTAGATTTTATTGTTATGAA
16540111 TTCTTTTTAGATTTTATTGTTAT-AA
1 TTCTTTTTAGATTTTATTGTTATGAA
*
16540136 TTTTTTTTAGATTTTA
1 TTCTTTTTAGATTTTA
16540152 CTATATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 16 0.43
26 21 0.57
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.64
Consensus pattern (26 bp):
TTCTTTTTAGATTTTATTGTTATGAA
Found at i:16545392 original size:84 final size:84
Alignment explanation
Indices: 16545291--16545449 Score: 180
Period size: 84 Copynumber: 1.9 Consensus size: 84
16545281 GTAAGAGTCT
* ** * * *
16545291 GCATGGACTACTTTTCAAGGAAGAGT-TCGCATGGACTATCTTTCAAGTAAGA-TTTCGCATGGA
1 GCATGGACTACTCTTCAAGGAAGAGTCT-GCATAAACTACCTTTCAAGCAAGAGTCT-GCATGGA
16545354 TTACCTTTCAAGCAAGAGACC
64 TTACCTTTCAAGCAAGAGACC
** *
16545375 GCATGGACTA-TCCTTCAATTAAGAGTCTGCATAAACTACCTTTCAAGCAATAGTCTGCATGGAT
1 GCATGGACTACT-CTTCAAGGAAGAGTCTGCATAAACTACCTTTCAAGCAAGAGTCTGCATGGAT
*
16545439 TATCTTTCAAG
65 TACCTTTCAAG
16545450 TAGGATTTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
83 1 0.02
84 58 0.94
85 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (84 bp):
GCATGGACTACTCTTCAAGGAAGAGTCTGCATAAACTACCTTTCAAGCAAGAGTCTGCATGGATT
ACCTTTCAAGCAAGAGACC
Found at i:16545445 original size:28 final size:28
Alignment explanation
Indices: 16545283--16545489 Score: 152
Period size: 28 Copynumber: 7.4 Consensus size: 28
16545273 CGCAAGAAGT
*
16545283 AAGAGTCTGCATGGACTA-CTTTTCAAGG
1 AAGAGTCTGCATGGACTATC-TTTCAAGC
*
16545311 AAGAGT-TCGCATGGACTATCTTTCAAGT
1 AAGAGTCT-GCATGGACTATCTTTCAAGC
* * *
16545339 AAGA-TTTCGCATGGATTACCTTTCAAGC
1 AAGAGTCT-GCATGGACTATCTTTCAAGC
* * * **
16545367 AAGAGACCGCATGGACTATCCTTCAATT
1 AAGAGTCTGCATGGACTATCTTTCAAGC
** *
16545395 AAGAGTCTGCATAAACTACCTTTCAAGC
1 AAGAGTCTGCATGGACTATCTTTCAAGC
* * *
16545423 AATAGTCTGCATGGATTATCTTTCAAGT
1 AAGAGTCTGCATGGACTATCTTTCAAGC
* * * * *
16545451 AGGA-TTTCACATGGAGTATCTTTCAAAC
1 AAGAGTCT-GCATGGACTATCTTTCAAGC
*
16545479 AAGATTCTGCA
1 AAGAGTCTGCA
16545490 AAGGCTATTT
Statistics
Matches: 137, Mismatches: 36, Indels: 12
0.74 0.19 0.06
Matches are distributed among these distances:
27 4 0.03
28 130 0.95
29 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (28 bp):
AAGAGTCTGCATGGACTATCTTTCAAGC
Found at i:16545488 original size:56 final size:56
Alignment explanation
Indices: 16545291--16545489 Score: 204
Period size: 56 Copynumber: 3.6 Consensus size: 56
16545281 GTAAGAGTCT
* *
16545291 GCATGGACTACTTTTCAAGGAAGAGT-TCGCATGGACTATCTTTCAAGTAAGATTTC
1 GCATGGACTACCTTTCAAGCAAGAGTCT-GCATGGACTATCTTTCAAGTAAGATTTC
* * * * * *
16545347 GCATGGATTACCTTTCAAGCAAGAGACCGCATGGACTATCCTTCAATTAAGA-GTC
1 GCATGGACTACCTTTCAAGCAAGAGTCTGCATGGACTATCTTTCAAGTAAGATTTC
** * * *
16545402 TGCATAAACTACCTTTCAAGCAATAGTCTGCATGGATTATCTTTCAAGTAGGATTTC
1 -GCATGGACTACCTTTCAAGCAAGAGTCTGCATGGACTATCTTTCAAGTAAGATTTC
* * * * *
16545459 ACATGGAGTATCTTTCAAACAAGATTCTGCA
1 GCATGGACTACCTTTCAAGCAAGAGTCTGCA
16545490 AAGGCTATTT
Statistics
Matches: 113, Mismatches: 27, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
55 2 0.02
56 109 0.96
57 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (56 bp):
GCATGGACTACCTTTCAAGCAAGAGTCTGCATGGACTATCTTTCAAGTAAGATTTC
Found at i:16546598 original size:25 final size:24
Alignment explanation
Indices: 16546522--16546647 Score: 143
Period size: 25 Copynumber: 5.3 Consensus size: 24
16546512 CACTAATGAA
*
16546522 AGAGAGCACTGAAGTGCTAT-A-C
1 AGAGAGCACTGACGTGCTATAATC
* *
16546544 AGAGAGCACAGATGTGCTA-AA-C
1 AGAGAGCACTGACGTGCTATAATC
16546566 AGAGAGCACTGACGTGCTAGTAATC
1 AGAGAGCACTGACGTGCTA-TAATC
* *
16546591 AGAAAGCACTAACGTGCTAATAATC
1 AGAGAGCACTGACGTGCT-ATAATC
*
16546616 AGAGAGCACTGATGTGCTAATAATC
1 AGAGAGCACTGACGTGCT-ATAATC
16546641 AGAGAGC
1 AGAGAGC
16546648 GCACTAAAGT
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
22 36 0.40
24 2 0.02
25 51 0.57
26 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (24 bp):
AGAGAGCACTGACGTGCTATAATC
Found at i:16548398 original size:44 final size:44
Alignment explanation
Indices: 16548335--16548446 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 44
16548325 TCAGTCTACT
* * * *
16548335 CCACTGTAACTGCAGGGAGATAAGACTTG-TAACTTCAATCTGCC
1 CCACTGTAACTTCAAGGAGATAAGA-TTGATAACTTCAACCGGCC
* * * *
16548379 CCACTGCAACTTCAAGGAGATAATATTGATATCTTCAACCGGCT
1 CCACTGTAACTTCAAGGAGATAAGATTGATAACTTCAACCGGCC
16548423 CCACTGTAACTTC-AGAGAGATAAG
1 CCACTGTAACTTCAAG-GAGATAAG
16548447 GTTGGTTATC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 5 0.09
44 51 0.91
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (44 bp):
CCACTGTAACTTCAAGGAGATAAGATTGATAACTTCAACCGGCC
Found at i:16548754 original size:132 final size:132
Alignment explanation
Indices: 16548542--16548945 Score: 596
Period size: 132 Copynumber: 3.1 Consensus size: 132
16548532 AATGCCAAGG
* * * *
16548542 AGATAAGATTCGCTACCTTTGATCTGCTCCACTACTGCTTAGGGATACAGGATATACAATTTTCA
1 AGATAAGATTTGCTACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATTTTCA
16548607 ACCTACTCCACTGCATCTCAGGGAGAAGGGATTGGTGGCTTAAATCTACTTCCCTACTACCTTGG
66 ACCTACTCCACTGCATCTCAGGGAGAAGGGATTGGTGGCTTAAATCTACTTCCCTACTACCTTGG
16548672 GA
131 GA
* * * *
16548674 AGATAGGATTTGCTGCCTTCGATCTGCTCCATTACTACTTAGGGAGACAGGATCTACAATTTTCA
1 AGATAAGATTTGCTACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATTTTCA
16548739 ACCTACTCCACTGCATCTCAGGGAGAAGGGATTGGTGGCTTAAATCTACTTCCCTACTACCTTGG
66 ACCTACTCCACTGCATCTCAGGGAGAAGGGATTGGTGGCTTAAATCTACTTCCCTACTACCTTGG
16548804 GA
131 GA
* * * * * *
16548806 AGATAAGATTTACCATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
1 AGATAAGATTTGCTACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATTTTCA
* * * * * *
16548871 ACCTATTCTACTAC-TGCTCAGTGATATA-GGATTGGTGGCTTAAATCTGCTTCCCTACTACCTT
66 ACCTACTCCACTGCAT-CTCAGGGAGA-AGGGATTGGTGGCTTAAATCTACTTCCCTACTACCTT
16548934 GGGA
129 GGGA
16548938 AGATAAGA
1 AGATAAGA
16548946 CTCGCCGTCT
Statistics
Matches: 246, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
131 1 0.00
132 244 0.99
133 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
AGATAAGATTTGCTACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATTTTCA
ACCTACTCCACTGCATCTCAGGGAGAAGGGATTGGTGGCTTAAATCTACTTCCCTACTACCTTGG
GA
Found at i:16549002 original size:45 final size:45
Alignment explanation
Indices: 16548953--16549849 Score: 1065
Period size: 45 Copynumber: 20.1 Consensus size: 45
16548943 AGACTCGCCG
* * * *
16548953 TCTTCGATCTACTTCGCTACCAGTATAGGAAGACAAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
16548998 TCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATATGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
16549043 TCTTCAATCTACTTCACTGCTAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
16549088 TCTTGGATCTACTTCGCTACCAATACAGGAAGACAAGATTTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
16549133 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTACTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
16549178 TCTTCAATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* **
16549223 TATTCGATCTACTTCATTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
16549268 TCTTCGATCTACTTCGCTGCCAGTGCATGAAGACAAGATCTACTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * * * *** * * * *
16549313 TTTTCAACCTACTCCACTGCTGCT-CAGGGAGATAAG-GCTGGTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * * *
16549356 TCTTCAATCTACTTTGCTGCTAGTACAGAAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
16549401 TCTTCGATCTACTTCGCTACCAGTATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
16549446 TCTTCGATCTACTTCACTGCCAATACAGGAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
16549491 TCTTCGATCTACTTCACTGCCAGTACAGGAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
16549536 TCTTCGATCTACTTCGCTGCTAATATAGGAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
16549581 TCTTCGATCTACTTCGCTGTCAGTACAGGAAAACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
16549626 TCTTCAATCTACTTTGCTGCCAATACAGGAAGACAAGATATGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
*
16549671 TCTTCGATCTACTTCGCTGCCAATACCGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
16549716 ACTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* ****
16549761 TCTTCGATATACTT--C--CC--NNNNGGAAGACAAGATCTGCTAA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT-A
* * * * *
16549801 CCTTCAATCTA-TTCGCTGCCAATATAGGAAGACAAAATCTGCTC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
16549845 TCTTC
1 TCTTC
16549850 AACCTACTCC
Statistics
Matches: 729, Mismatches: 114, Indels: 19
0.85 0.13 0.02
Matches are distributed among these distances:
39 18 0.02
40 9 0.01
41 3 0.00
43 24 0.03
44 22 0.03
45 653 0.90
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
Found at i:16552099 original size:12 final size:11
Alignment explanation
Indices: 16552078--16552117 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
16552068 TGGCCTCTCA
*
16552078 TTTTCCTTTTC
1 TTTTTCTTTTC
16552089 TTTTTCTTTTTC
1 TTTTTC-TTTTC
*
16552101 ATTTTCTTTTC
1 TTTTTCTTTTC
16552112 TTTTTC
1 TTTTTC
16552118 CATCAGTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:16552105 original size:7 final size:6
Alignment explanation
Indices: 16552078--16552117 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
16552068 TGGCCTCTCA
* *
16552078 TTTTCC TTTTCT TTTTCT TTTTCA TTTTC- TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
16552118 CATCAGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:16552105 original size:18 final size:17
Alignment explanation
Indices: 16552078--16552117 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
16552068 TGGCCTCTCA
*
16552078 TTTTCCTTTTCTTTTTCT
1 TTTTCATTTTC-TTTTCT
16552096 TTTTCATTTTCTTTTCT
1 TTTTCATTTTCTTTTCT
16552113 TTTTC
1 TTTTC
16552118 CATCAGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTCATTTTCTTTTCT
Found at i:16554746 original size:16 final size:16
Alignment explanation
Indices: 16554721--16554755 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16554711 TTCTATGATG
*
16554721 AAATGCCATGCAGTCA
1 AAATGCCATGCAGCCA
*
16554737 AAATGTCATGCAGCCA
1 AAATGCCATGCAGCCA
16554753 AAA
1 AAA
16554756 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGCCATGCAGCCA
Found at i:16557332 original size:17 final size:16
Alignment explanation
Indices: 16557306--16557339 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
16557296 CCAAATTTTC
16557306 TTTCTTTCCTTCCCTT
1 TTTCTTTCCTTCCCTT
*
16557322 TTTCTTTTCCTTTCCTT
1 TTTC-TTTCCTTCCCTT
16557339 T
1 T
16557340 CTCCCCTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTCTTTCCTTCCCTT
Found at i:16557486 original size:23 final size:23
Alignment explanation
Indices: 16557456--16557502 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
16557446 AATAAGTATG
16557456 TACATATATTAATTACAAATGTA
1 TACATATATTAATTACAAATGTA
* *
16557479 TACATATATTTATTACACATGTA
1 TACATATATTAATTACAAATGTA
16557502 T
1 T
16557503 TTATAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (23 bp):
TACATATATTAATTACAAATGTA
Found at i:16558313 original size:26 final size:26
Alignment explanation
Indices: 16558284--16558338 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
16558274 AGATGACTTT
16558284 AACCCATAATAACATTTCCTGATTAG
1 AACCCATAATAACATTTCCTGATTAG
16558310 AACCCATAATAACATTTCCTGATTAG
1 AACCCATAATAACATTTCCTGATTAG
16558336 AAC
1 AAC
16558339 TGACCTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (26 bp):
AACCCATAATAACATTTCCTGATTAG
Found at i:16559362 original size:23 final size:23
Alignment explanation
Indices: 16559334--16559378 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
16559324 GTTCAAAATT
*
16559334 TTAAAATAAACAATATATATGAG
1 TTAAAACAAACAATATATATGAG
*
16559357 TTAAAACAAATAATATATATGA
1 TTAAAACAAACAATATATATGA
16559379 ATGTACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACAAACAATATATATGAG
Found at i:16569068 original size:9 final size:9
Alignment explanation
Indices: 16569054--16569083 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
16569044 ATTAAAATAT
16569054 TAATTAAAC
1 TAATTAAAC
*
16569063 TAATTAAAT
1 TAATTAAAC
16569072 TAATTAAAC
1 TAATTAAAC
16569081 TAA
1 TAA
16569084 AACAACATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAC
Found at i:16570358 original size:6 final size:6
Alignment explanation
Indices: 16570347--16570388 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
16570337 CTCAAGAAAT
* * *
16570347 AAAACA AAAACA CAAA-A AATACG AAAACA AAAACA AAAACA A
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA A
16570389 CTAAATGGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
5 3 0.10
6 26 0.90
ACGTcount: A:0.79, C:0.17, G:0.02, T:0.02
Consensus pattern (6 bp):
AAAACA
Found at i:16570906 original size:13 final size:13
Alignment explanation
Indices: 16570888--16570912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16570878 TATTTTATTT
16570888 TATTTTATTTTTC
1 TATTTTATTTTTC
16570901 TATTTTATTTTT
1 TATTTTATTTTT
16570913 TTGTGCAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTATTTTTC
Found at i:16572533 original size:66 final size:66
Alignment explanation
Indices: 16572427--16572568 Score: 214
Period size: 66 Copynumber: 2.2 Consensus size: 66
16572417 ATCTCAAGTG
* *
16572427 CCAAATTATCTTAAAGCTTATATATGTGTAATGTGATGTATGCCTAAAGGAGTTTGTGGTTGCTA
1 CCAAATTATCTTAAAGATTATATATGTGTAATGTGATGTATGCCTAAAGGAGTATGTGGTTGCTA
16572492 T
66 T
* *
16572493 CCAAATTTTCTTAAA-ATGTATATATGTGTAATGTGATGTATGCCTAAATGAGTATGTGGTTGCT
1 CCAAATTATCTTAAAGAT-TATATATGTGTAATGTGATGTATGCCTAAAGGAGTATGTGGTTGCT
16572557 AT
65 AT
* *
16572559 GCAAGTTATC
1 CCAAATTATC
16572569 GTTTAAATGT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 1 0.01
66 67 0.99
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (66 bp):
CCAAATTATCTTAAAGATTATATATGTGTAATGTGATGTATGCCTAAAGGAGTATGTGGTTGCTA
T
Found at i:16574161 original size:59 final size:59
Alignment explanation
Indices: 16574090--16574202 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 59
16574080 AACGAGCTTG
*
16574090 TTTTCTAACTCTTTTATATGTTTTTATTACGTTTTCAGTTTTTAGTAGTTTAAGCTTTT
1 TTTTCTAACTCTTTTATATGTTTTTATTACATTTTCAGTTTTTAGTAGTTTAAGCTTTT
* *
16574149 TTTTCTAACTCTTTTATATGTTTTTATTACATTTTTAGTTTTTAGTATTTTAAG
1 TTTTCTAACTCTTTTATATGTTTTTATTACATTTTCAGTTTTTAGTAGTTTAAG
16574203 TTTCATTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (59 bp):
TTTTCTAACTCTTTTATATGTTTTTATTACATTTTCAGTTTTTAGTAGTTTAAGCTTTT
Found at i:16576041 original size:19 final size:20
Alignment explanation
Indices: 16575998--16576046 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
16575988 ACCAAACTAG
16575998 AAAAAATTAGTTGTGGATTT
1 AAAAAATTAGTTGTGGATTT
*
16576018 AAAAAATTAGTTGTTGATTT
1 AAAAAATTAGTTGTGGATTT
16576038 AAAAGAATT
1 AAAA-AATT
16576047 TACACTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (20 bp):
AAAAAATTAGTTGTGGATTT
Found at i:16587522 original size:17 final size:16
Alignment explanation
Indices: 16587479--16587523 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
16587469 TATAATATAT
16587479 ATTATTAACTTCAGTTA
1 ATTATTAA-TTCAGTTA
*
16587496 ATTGATTAATTCGGTTA
1 ATT-ATTAATTCAGTTA
16587513 ATTATGTAATT
1 ATTAT-TAATT
16587524 TGTAGTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 2 0.08
17 18 0.72
18 5 0.20
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (16 bp):
ATTATTAATTCAGTTA
Found at i:16588568 original size:18 final size:18
Alignment explanation
Indices: 16588534--16588569 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16588524 AAGTGCCTAA
*
16588534 CACGCAAACTCATAGTGT
1 CACGCAAACTCAAAGTGT
*
16588552 CACGCAAACTTAAAGTGT
1 CACGCAAACTCAAAGTGT
16588570 GAACCGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (18 bp):
CACGCAAACTCAAAGTGT
Found at i:16596555 original size:131 final size:131
Alignment explanation
Indices: 16596276--16597015 Score: 889
Period size: 131 Copynumber: 5.7 Consensus size: 131
16596266 CACAAGTGAG
* ** *
16596276 ATTGTTCATGATCTTAAATC-AAGTGAACTTCGGTTATGATCTTGAATCAACTAACCTTAATAAT
1 ATTGTTCATGATCTTAAATCGAA-TGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAAT
* * * * * *
16596340 ATCAACTGCGATCTTAAATCAG-AAGTTGTTTAGAGTTGTGATCTTAAATCATCTAACTCAAATA
65 ATCAATTGTGATCTTAAATCAGCGAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATA
16596404 AA
130 AA
* * *
16596406 ATTGTTCCTGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAAACTTAAAAATA
1 ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATA
*** * * * * * *
16596471 TTGGTTGTGGTCTTAAATTAGTGAGTTGTTCAGAGTTGCAATTTTAAATTC-GCTAACTCGAATA
66 TCAATTGTGATCTTAAATCAGCGAGTTGTTCAGAGTTGCGATCTTAAA-TCAGCTAACTCAAATA
16596535 AA
130 AA
* * *
16596537 ATTTTTCATGATCTTAAATCGAATGAACTTAGGTTGGGATCTTAAATCAGCTAACCTTAATAATA
1 ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATA
* * * * * * * * *
16596602 TCGACTGGGATCTTAACTTAGTGAGCTGTGT-AGAGTTGTGATCTTAAATCAGCTAACTCGAATA
66 TCAATTGTGATCTTAAATCAGCGAGTTGT-TCAGAGTTGCGATCTTAAATCAGCTAACTCAAATA
16596666 AA
130 AA
* * * * *
16596668 ATTTTTCATGATCTTAAATTGAAT-AACTTTGGTTGCAATCTTAAATCAGCTAACCTTAATAATA
1 ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATA
* * * * * *
16596732 TCAATTGTGATCTTAAATCGGCGAGTTGTTCGGAGTTGCGATATTAAATTAGCTATCTCAAACAA
66 TCAATTGTGATCTTAAATCAGCGAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAA
16596797 A
131 A
16596798 ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATA
1 ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATA
* * * * * **
16596863 TTAGTTTTGATCTTAAATCAACAAACTGTTC-GAAGTTGCGATCTTAAATCAGCTAACTCAAATA
66 TCAATTGTGATCTTAAATCAGCGAGTTGTTCAG-AGTTGCGATCTTAAATCAGCTAACTCAAATA
16596927 AA
130 AA
* * * *
16596929 ATTGTTCATGATCTTAAATTGAGTGAACTTAGGTTGCGATCTTAAATTAGCTAACCTTAATAATA
1 ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATA
*
16596994 TCAGTTGTGATCTTAAATCAGC
66 TCAATTGTGATCTTAAATCAGC
16597016 TACAATCTTA
Statistics
Matches: 522, Mismatches: 80, Indels: 15
0.85 0.13 0.02
Matches are distributed among these distances:
129 1 0.00
130 180 0.34
131 338 0.65
132 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (131 bp):
ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATA
TCAATTGTGATCTTAAATCAGCGAGTTGTTCAGAGTTGCGATCTTAAATCAGCTAACTCAAATAA
A
Found at i:16596682 original size:67 final size:65
Alignment explanation
Indices: 16596369--16596983 Score: 381
Period size: 67 Copynumber: 9.4 Consensus size: 65
16596359 CAGAAGTTGT
* * * *
16596369 TTAGAGTTGTGATCTTAAATCATCTAACTCAAATAAAATTGTTCCTGATCTTAAATCGAATGAAC
1 TTAGAGTTGCGATCTTAAATCAGCTAACTCGAATAAAATTGTTCATGATCTTAAATCGAATGAAC
* * * * * *
16596434 TTAG-GTTGCGATCTTAAATCAACTAAACT-TAA-AAATATTGGTT-GTGGTCTTAAAT-TAGTG
1 TTAGAGTTGCGATCTTAAATCAGCT-AACTCGAATAAA-ATT-GTTCATGATCTTAAATCGAATG
**
16596494 AGTTG
63 A--AC
* * *
16596499 TTCAGAGTTGCAATTTTAAATTC-GCTAACTCGAATAAAATTTTTCATGATCTTAAATCGAATGA
1 TT-AGAGTTGCGATCTTAAA-TCAGCTAACTCGAATAAAATTGTTCATGATCTTAAATCGAATGA
16596563 AC
64 AC
* * * * * * * *
16596565 TTAG-GTTGGGATCTTAAATCAGCTAAC-CTTAATAATATCG-AC-TGGGATCTTAACT-TAGTG
1 TTAGAGTTGCGATCTTAAATCAGCTAACTC-GAATAAAATTGTTCAT--GATCTTAAATCGAATG
*
16596625 AGC
63 AAC
* * *
16596628 TGTGTAGAGTTGTGATCTTAAATCAGCTAACTCGAATAAAATTTTTCATGATCTTAAATTGAAT-
1 --T-TAGAGTTGCGATCTTAAATCAGCTAACTCGAATAAAATTGTTCATGATCTTAAATCGAATG
16596692 AAC
63 AAC
* * * * ** * *
16596695 TTTG-GTTGCAATCTTAAATCAGCTAAC-CTTAATAATATCAATT-GTGATCTTAAATCGGCGA-
1 TTAGAGTTGCGATCTTAAATCAGCTAACTC-GAATAAAAT-TGTTCATGATCTTAAATC-G-AAT
***
16596756 GTTG
62 GAAC
* * * * * *
16596760 TTCGGAGTTGCGATATTAAATTAGCTATCTCAAACAAAATTGTTCATGATCTTAAATCGAATGAA
1 TT-AGAGTTGCGATCTTAAATCAGCTAACTCGAATAAAATTGTTCATGATCTTAAATCGAATGAA
16596825 C
65 C
* * * * **
16596826 TTAG-GTTGCGATCTTAAATCAACTAAC-CTTAATAATATTAGTT-TTGATCTTAAATC-AACAA
1 TTAGAGTTGCGATCTTAAATCAGCTAACTC-GAATAAAATT-GTTCATGATCTTAAATCGAATGA
16596887 AC
64 AC
* * * *
16596889 TGTTCGAAGTTGCGATCTTAAATCAGCTAACTCAAATAAAATTGTTCATGATCTTAAATTGAGTG
1 --TTAG-AGTTGCGATCTTAAATCAGCTAACTCGAATAAAATTGTTCATGATCTTAAATCGAATG
16596954 AAC
63 AAC
*
16596957 TTAG-GTTGCGATCTTAAATTAGCTAAC
1 TTAGAGTTGCGATCTTAAATCAGCTAAC
16596984 CTTAATAATA
Statistics
Matches: 415, Mismatches: 92, Indels: 87
0.70 0.15 0.15
Matches are distributed among these distances:
62 2 0.00
63 61 0.15
64 131 0.32
65 28 0.07
66 26 0.06
67 147 0.35
68 19 0.05
69 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (65 bp):
TTAGAGTTGCGATCTTAAATCAGCTAACTCGAATAAAATTGTTCATGATCTTAAATCGAATGAAC
Found at i:16596748 original size:261 final size:260
Alignment explanation
Indices: 16596276--16597015 Score: 980
Period size: 261 Copynumber: 2.8 Consensus size: 260
16596266 CACAAGTGAG
* ** *
16596276 ATTGTTCATGATCTTAAATC-AAGTGAACTTCGGTTATGATCTTGAATCAACTAACCTTAATAAT
1 ATTGTTCATGATCTTAAATCGAA-TGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAAT
* *
16596340 ATCAACTGCGATCTTAAATCAGAAGTTGTTTAGAGTTGTGATCTTAAATCATCTAACTCAAATAA
65 ATCAACTGCGATCTTAAATCAGAAGCTG-TTAGAGTTGTGATCTTAAATCAGCTAACTCAAATAA
* * * * *
16596405 AATTGTTCCTGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAAACTTAAAAAT
129 AATTGTTCATGATCTTAAATTGAATGAACTTAGGTTGCGATCTTAAATCAGCTAACCTTAATAAT
** * * * * * * *
16596470 ATTGGTTGTGGTCTTAAATTAGTGAGTTGTTCAGAGTTGCAATTTTAAATTCGCTAACTCGAATA
194 ATCAGTTGTGATCTTAAATCAGCGAGTTGTTCAGAGTTGCAATATTAAATTAGCTAACTCAAACA
16596535 AA
259 AA
* * *
16596537 ATTTTTCATGATCTTAAATCGAATGAACTTAGGTTGGGATCTTAAATCAGCTAACCTTAATAATA
1 ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATA
* * * * * *
16596602 TCGACTGGGATCTTAACTTAGTGAGCTGTGTAGAGTTGTGATCTTAAATCAGCTAACTCGAATAA
66 TCAACTGCGATCTTAAATCAG-AAGCTGT-TAGAGTTGTGATCTTAAATCAGCTAACTCAAATAA
* * *
16596667 AATTTTTCATGATCTTAAATTGAAT-AACTTTGGTTGCAATCTTAAATCAGCTAACCTTAATAAT
129 AATTGTTCATGATCTTAAATTGAATGAACTTAGGTTGCGATCTTAAATCAGCTAACCTTAATAAT
* * * * *
16596731 ATCAATTGTGATCTTAAATCGGCGAGTTGTTCGGAGTTGCGATATTAAATTAGCTATCTCAAACA
194 ATCAGTTGTGATCTTAAATCAGCGAGTTGTTCAGAGTTGCAATATTAAATTAGCTAACTCAAACA
16596796 AA
259 AA
16596798 ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATA
1 ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATA
* ** ** * * * *
16596863 TTAGTTTTGATCTTAAATCAACAAACTGTTCGAAGTTGCGATCTTAAATCAGCTAACTCAAATAA
66 TCAACTGCGATCTTAAATC-AGAAGCTGTTAG-AGTTGTGATCTTAAATCAGCTAACTCAAATAA
* *
16596928 AATTGTTCATGATCTTAAATTGAGTGAACTTAGGTTGCGATCTTAAATTAGCTAACCTTAATAAT
129 AATTGTTCATGATCTTAAATTGAATGAACTTAGGTTGCGATCTTAAATCAGCTAACCTTAATAAT
16596993 ATCAGTTGTGATCTTAAATCAGC
194 ATCAGTTGTGATCTTAAATCAGC
16597016 TACAATCTTA
Statistics
Matches: 413, Mismatches: 60, Indels: 11
0.85 0.12 0.02
Matches are distributed among these distances:
260 2 0.00
261 292 0.71
262 119 0.29
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (260 bp):
ATTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAACTAACCTTAATAATA
TCAACTGCGATCTTAAATCAGAAGCTGTTAGAGTTGTGATCTTAAATCAGCTAACTCAAATAAAA
TTGTTCATGATCTTAAATTGAATGAACTTAGGTTGCGATCTTAAATCAGCTAACCTTAATAATAT
CAGTTGTGATCTTAAATCAGCGAGTTGTTCAGAGTTGCAATATTAAATTAGCTAACTCAAACAAA
Found at i:16599312 original size:22 final size:23
Alignment explanation
Indices: 16599227--16599327 Score: 70
Period size: 22 Copynumber: 4.6 Consensus size: 23
16599217 AGAATATGTC
*
16599227 ATAAAGGCCAAATCAAATTAGACT
1 ATAAAGGCCAAATCAAAAT-GACT
* * *
16599251 ACAAAGG-CTAAT-AAAATG-CC
1 ATAAAGGCCAAATCAAAATGACT
* * *
16599271 ACAAAAGCCATAA-CAGAATG-CT
1 ATAAAGGCCA-AATCAAAATGACT
16599293 ATAAAGGCCAAATCAAAATGAC-
1 ATAAAGGCCAAATCAAAATGACT
*
16599315 ATAAATGCCAAAT
1 ATAAAGGCCAAAT
16599328 TAGAATACAC
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
20 7 0.12
21 4 0.07
22 38 0.63
23 5 0.08
24 6 0.10
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.17
Consensus pattern (23 bp):
ATAAAGGCCAAATCAAAATGACT
Found at i:16616238 original size:21 final size:22
Alignment explanation
Indices: 16616196--16616238 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
16616186 TTCGCTATTA
*
16616196 ATAAGATTGTTTTGTTGATTTG
1 ATAAGATTGTTTTGTAGATTTG
16616218 ATAAGATTGTTTT-TAGATTTG
1 ATAAGATTGTTTTGTAGATTTG
16616239 TTTGCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (22 bp):
ATAAGATTGTTTTGTAGATTTG
Found at i:16618453 original size:25 final size:25
Alignment explanation
Indices: 16618423--16618482 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
16618413 CATGTAATTG
* *
16618423 GGAAGCTCTTCCGAGCTATGTAACA
1 GGAAGCTCTTACGAGCTATATAACA
* *
16618448 GGAAGCTCATATGAGCTATATAACA
1 GGAAGCTCTTACGAGCTATATAACA
16618473 GGAAGCTCTT
1 GGAAGCTCTT
16618483 GCTAGCCAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (25 bp):
GGAAGCTCTTACGAGCTATATAACA
Found at i:16618572 original size:25 final size:25
Alignment explanation
Indices: 16618499--16618660 Score: 127
Period size: 25 Copynumber: 6.6 Consensus size: 25
16618489 CAATTATTGG
*
16618499 GAAGCTCAT-ACGAGCCATA-AA-TA
1 GAAGCTCATGA-GAGCCATATAACGA
*
16618522 GGAAGCTCATGAGAG-CATATACCGA
1 -GAAGCTCATGAGAGCCATATAACGA
*
16618547 GAAGCTCGTGAGAGCCATATAACGA
1 GAAGCTCATGAGAGCCATATAACGA
** * *
16618572 GAAGCTCAAAAGAGCAAT-TAATCGG
1 GAAGCTCATGAGAGCCATATAA-CGA
* * *
16618597 GAAGCTCATGAGAGCTAAATAACGG
1 GAAGCTCATGAGAGCCATATAACGA
* * *
16618622 GAAGCTCGTGAGAGCCAAATATCGA
1 GAAGCTCATGAGAGCCATATAACGA
* *
16618647 GATGCTCATAAGAG
1 GAAGCTCATGAGAG
16618661 ATATGGTGTG
Statistics
Matches: 112, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
23 4 0.04
24 29 0.26
25 76 0.68
26 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.17
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCATATAACGA
Found at i:16618636 original size:50 final size:50
Alignment explanation
Indices: 16618448--16618636 Score: 124
Period size: 50 Copynumber: 3.8 Consensus size: 50
16618438 CTATGTAACA
* * * * ** *
16618448 GGAAGCTCATATGAGCTATATAACAGGAAGCTCTTGCTAGCCAATT-ATTG
1 GGAAGCTCATACGAGCTAAATAACGGGAAGCTCATGAGAG-CAATTAATCG
*
16618498 GGAAGCTCATACGAGCCATAAAT-A--GGAAGCTCATGAGAGC-A-TATACCG
1 GGAAGCTCATACGAG-C-TAAATAACGGGAAGCTCATGAGAGCAATTA-ATCG
* * * * * **
16618546 AGAAGCTCGTGA-GAGCCATATAACGAGAAGCTCAAAAGAGCAATTAATCG
1 GGAAGCTCAT-ACGAGCTAAATAACGGGAAGCTCATGAGAGCAATTAATCG
*
16618596 GGAAGCTCATGA-GAGCTAAATAACGGGAAGCTCGTGAGAGC
1 GGAAGCTCAT-ACGAGCTAAATAACGGGAAGCTCATGAGAGC
16618637 CAAATATCGA
Statistics
Matches: 106, Mismatches: 23, Indels: 20
0.71 0.15 0.13
Matches are distributed among these distances:
46 4 0.04
47 3 0.03
48 14 0.13
49 26 0.25
50 51 0.48
51 4 0.04
52 4 0.04
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (50 bp):
GGAAGCTCATACGAGCTAAATAACGGGAAGCTCATGAGAGCAATTAATCG
Found at i:16618637 original size:75 final size:74
Alignment explanation
Indices: 16618522--16618660 Score: 206
Period size: 75 Copynumber: 1.9 Consensus size: 74
16618512 GCCATAAATA
* * *
16618522 GGAAGCTCATGAGAGCATATACCGAGAAGCTCGTGAGAGCCATATAACGAGAAGCTCAAAAGAGC
1 GGAAGCTCATGAGAGCAAATAACGAGAAGCTCGTGAGAGCCAAATAACGAGAAGCTCAAAAGAGC
16618587 AATTAATCG
66 AATTAATCG
* * * *
16618596 GGAAGCTCATGAGAGCTAAATAACGGGAAGCTCGTGAGAGCCAAATATCGAGATGCTCATAAGAG
1 GGAAGCTCATGAGAGC-AAATAACGAGAAGCTCGTGAGAGCCAAATAACGAGAAGCTCAAAAGAG
16618661 ATATGGTGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
74 16 0.28
75 41 0.72
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.17
Consensus pattern (74 bp):
GGAAGCTCATGAGAGCAAATAACGAGAAGCTCGTGAGAGCCAAATAACGAGAAGCTCAAAAGAGC
AATTAATCG
Found at i:16618654 original size:50 final size:49
Alignment explanation
Indices: 16618522--16618660 Score: 143
Period size: 50 Copynumber: 2.8 Consensus size: 49
16618512 GCCATAAATA
* * * *
16618522 GGAAGCTCATGAGAGCATATACCGAGAAGCTCGTGAGAGCCATATAACG
1 GGAAGCTCATGAGAGCAAATATCGAGAAGCTCATGAGAGCCAAATAACG
* ** * * *
16618571 AGAAGCTCAAAAGAGCAATTAATCGGGAAGCTCATGAGAGCTAAATAACG
1 GGAAGCTCATGAGAGCAAAT-ATCGAGAAGCTCATGAGAGCCAAATAACG
* * *
16618621 GGAAGCTCGTGAGAGCCAAATATCGAGATGCTCATAAGAG
1 GGAAGCTCATGAGAG-CAAATATCGAGAAGCTCATGAGAG
16618661 ATATGGTGTG
Statistics
Matches: 70, Mismatches: 18, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
49 15 0.21
50 51 0.73
51 4 0.06
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.17
Consensus pattern (49 bp):
GGAAGCTCATGAGAGCAAATATCGAGAAGCTCATGAGAGCCAAATAACG
Found at i:16622777 original size:15 final size:15
Alignment explanation
Indices: 16622759--16622807 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 15
16622749 ATTTATATTA
16622759 AATAAAAATTAAAAT
1 AATAAAAATTAAAAT
16622774 AATAATAAAGGTTAAAAT
1 AATAA-AAA--TTAAAAT
*
16622792 AAT-AACATTAAAAT
1 AATAAAAATTAAAAT
16622806 AA
1 AA
16622808 AAGAATCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 9 0.30
15 5 0.17
16 5 0.17
17 1 0.03
18 10 0.33
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (15 bp):
AATAAAAATTAAAAT
Found at i:16622782 original size:18 final size:18
Alignment explanation
Indices: 16622759--16622796 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16622749 ATTTATATTA
16622759 AATAAAAATTAAAATAAT
1 AATAAAAATTAAAATAAT
**
16622777 AATAAAGGTTAAAATAAT
1 AATAAAAATTAAAATAAT
16622795 AA
1 AA
16622797 CATTAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AATAAAAATTAAAATAAT
Found at i:16628871 original size:19 final size:19
Alignment explanation
Indices: 16628847--16628898 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
16628837 GTGACCCTTG
16628847 TTTCCAAAATTTTCAAATT
1 TTTCCAAAATTTTCAAATT
*
16628866 TTTCCAAAATTTTCAAGTT
1 TTTCCAAAATTTTCAAATT
*
16628885 TTCCCAAAATTTTC
1 TTTCCAAAATTTTC
16628899 TATTTTGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (19 bp):
TTTCCAAAATTTTCAAATT
Found at i:16628873 original size:10 final size:10
Alignment explanation
Indices: 16628847--16628898 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
16628837 GTGACCCTTG
16628847 TTTCCAAAAT
1 TTTCCAAAAT
*
16628857 TTT-CAAATT
1 TTTCCAAAAT
16628866 TTTCCAAAAT
1 TTTCCAAAAT
*
16628876 TTT-C-AAGT
1 TTTCCAAAAT
16628884 TTTCCCAAAAT
1 TTT-CCAAAAT
16628895 TTTC
1 TTTC
16628899 TATTTTGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 6 0.18
9 9 0.26
10 13 0.38
11 6 0.18
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (10 bp):
TTTCCAAAAT
Found at i:16628904 original size:18 final size:18
Alignment explanation
Indices: 16628850--16628904 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
16628840 ACCCTTGTTT
*
16628850 CCAAAATTTTCAAATTTTT
1 CCAAAATTTTC-AATTTTC
16628869 CCAAAATTTTCAAGTTTTC
1 CCAAAATTTTCAA-TTTTC
*
16628888 CCAAAATTTTCTATTTT
1 CCAAAATTTTCAATTTT
16628905 GTTTCAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 6 0.18
19 27 0.82
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (18 bp):
CCAAAATTTTCAATTTTC
Found at i:16631136 original size:4 final size:4
Alignment explanation
Indices: 16631129--16631153 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
16631119 AGTAGTGCAG
16631129 AGAT AGAT AGAT AGAT AGAT AGAT A
1 AGAT AGAT AGAT AGAT AGAT AGAT A
16631154 TTTCTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AGAT
Found at i:16632512 original size:21 final size:20
Alignment explanation
Indices: 16632483--16632521 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16632473 AAATTATGCA
16632483 AAGTAAAAAATAATTAATACT
1 AAGTAAAAAATAA-TAATACT
*
16632504 AAGTGAAAAATAATAATA
1 AAGTAAAAAATAATAATA
16632522 TATTATTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
AAGTAAAAAATAATAATACT
Found at i:16632971 original size:114 final size:113
Alignment explanation
Indices: 16632787--16633116 Score: 520
Period size: 114 Copynumber: 2.9 Consensus size: 113
16632777 AAAATAAGCA
* * * * * *
16632787 TTAGTGGCGTTTTTGAGAAAGCGCCGCAAAAAAA-CTAATCCCAACGACGTCGTTTCCCGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
16632851 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAAGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAG-AAGCGCCGCTAATGCTCAAGGCT
*
16632900 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
16632965 TCGGGGATTTAGCGGCGTTTTGAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAG-AAGCGCCGCTAATGCTCAAGGCT
16633014 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
16633079 TCAGGGATTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAA
66 TCGGGGATTTAGCGGCGTTTTT--AAGAAGCGCCGCTAA
16633117 AAATATTTTA
Statistics
Matches: 201, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
113 32 0.16
114 167 0.83
116 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGCTCAAGGCT
Found at i:16633384 original size:15 final size:15
Alignment explanation
Indices: 16633364--16633394 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16633354 CATATTTTAA
16633364 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
16633379 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
16633394 G
1 G
16633395 ATTAGGGGNN
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:16639557 original size:43 final size:43
Alignment explanation
Indices: 16639496--16639717 Score: 347
Period size: 43 Copynumber: 5.2 Consensus size: 43
16639486 CACCAAACAA
*
16639496 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
*
16639539 TAACGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* *
16639582 TAGCGGCGTTT-TCAGGAAAAGCGCCGCTAAAGAACTTGGCCTT
1 TAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGAACATGGCCTT
* * *
16639625 TAGCGGCGTTTGCGGAAAAAACGCCGCTAAAGAACATGGCCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* *
16639668 TAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
16639711 TAGCGGC
1 TAGCGGC
16639718 ATTAACATCA
Statistics
Matches: 164, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 1 0.01
43 163 0.99
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
Found at i:16640732 original size:21 final size:20
Alignment explanation
Indices: 16640703--16640741 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16640693 AAATTATGCC
16640703 AAGTAAAAAATAATTAATACT
1 AAGTAAAAAATAA-TAATACT
*
16640724 AAGTGAAAAATAATAATA
1 AAGTAAAAAATAATAATA
16640742 TATTGTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
AAGTAAAAAATAATAATACT
Found at i:16641069 original size:9 final size:9
Alignment explanation
Indices: 16641055--16641085 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16641045 GTTAAACGAA
16641055 TCGAGTTAT
1 TCGAGTTAT
*
16641064 TCGAGTTAA
1 TCGAGTTAT
16641073 TCGAGTTAT
1 TCGAGTTAT
16641082 TCGA
1 TCGA
16641086 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:16643861 original size:13 final size:14
Alignment explanation
Indices: 16643836--16643868 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
16643826 TTAGCTGAAT
16643836 TTTTTTACTATCAA
1 TTTTTTACTATCAA
16643850 TTTTTTAC-ATCAA
1 TTTTTTACTATCAA
16643863 TTTTTT
1 TTTTTT
16643869 TATAATAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTTACTATCAA
Found at i:16643869 original size:14 final size:15
Alignment explanation
Indices: 16643833--16643870 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
16643823 AAATTAGCTG
16643833 AATTTTTTTACTATC
1 AATTTTTTTACTATC
16643848 AA-TTTTTTAC-ATC
1 AATTTTTTTACTATC
16643861 AATTTTTTTA
1 AATTTTTTTA
16643871 TAATAAGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 15 0.68
15 2 0.09
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (15 bp):
AATTTTTTTACTATC
Found at i:16643938 original size:22 final size:21
Alignment explanation
Indices: 16643884--16643940 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
16643874 TAAGGTCAAA
16643884 ATTAAATTATAA-T-T-ATTT
1 ATTAAATTATAATTATCATTT
*
16643902 -TTAAATATGTAATTATCACTTT
1 ATTAAAT-TATAATTATCA-TTT
16643924 ATTAAATTATAATTATC
1 ATTAAATTATAATTATC
16643941 CTAAATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 6 0.19
18 4 0.13
19 1 0.03
20 1 0.03
21 1 0.03
22 12 0.39
23 6 0.19
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTAAATTATAATTATCATTT
Found at i:16646314 original size:40 final size:40
Alignment explanation
Indices: 16646259--16646420 Score: 324
Period size: 40 Copynumber: 4.0 Consensus size: 40
16646249 TTACATAAAA
16646259 TCCTTATTATATACCATTATGAAAGCTATTTATTAAGTGC
1 TCCTTATTATATACCATTATGAAAGCTATTTATTAAGTGC
16646299 TCCTTATTATATACCATTATGAAAGCTATTTATTAAGTGC
1 TCCTTATTATATACCATTATGAAAGCTATTTATTAAGTGC
16646339 TCCTTATTATATACCATTATGAAAGCTATTTATTAAGTGC
1 TCCTTATTATATACCATTATGAAAGCTATTTATTAAGTGC
16646379 TCCTTATTATATACCATTATGAAAGCTATTTATTAAGTGC
1 TCCTTATTATATACCATTATGAAAGCTATTTATTAAGTGC
16646419 TC
1 TC
16646421 GTTCAATGAC
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (40 bp):
TCCTTATTATATACCATTATGAAAGCTATTTATTAAGTGC
Found at i:16650292 original size:125 final size:125
Alignment explanation
Indices: 16649975--16650340 Score: 581
Period size: 124 Copynumber: 2.9 Consensus size: 125
16649965 GGTCCGGGAA
*** **
16649975 GAAATAATTTTGAGTTGACGTTTCTGCTCAAATAGTATAAAATCGCTTCTAGCAAGATGCTATTT
1 GAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAAGATGCTATTT
* * *
16650040 GAGAAGAATTTGTGAAATCGCGCCTTCGTGGACGCGTTTTTGCTACAGTAGGTCATGGAT
66 GAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAT
*
16650100 GAAATAA-TTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
1 GAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAAGATGCTATTT
* * *
16650164 GAGAATAATTTGTAAAATCACGCCCTCGTGGTCGCGCTTTTGCTACAGTAGGTCATGGAT
66 GAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAT
* *
16650224 GAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTAGAAAATTGCTTCTAGCAAGATGCTATTT
1 GAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAAGATGCTATTT
*
16650289 GAGAAGAATTTGTGAAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 GAGAAGAATTTGT-AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
16650341 CATGTTTGGG
Statistics
Matches: 220, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
124 112 0.51
125 73 0.33
126 35 0.16
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (125 bp):
GAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAAGATGCTATTT
GAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAT
Done.