Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 41 of 106
Found at i:15575900 original size:66 final size:67
Alignment explanation
Indices: 15575714--15575888 Score: 248
Period size: 67 Copynumber: 2.6 Consensus size: 67
15575704 AAGTTAGTTG
* *
15575714 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTG-TAGGTTATGGTTGAGCCTTTGAAAAATC
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATT-ATGAAAGGTTATGGTTGAGCCTTTGAAAAATC
15575778 ACT
65 ACT
* ** *
15575781 TTGGGTTTTGGTTGAGCTTGTGAAAAACCATTATGAAAGGTTGTGGTTGAGCCTTTG-AAAATCC
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTATGAAAGGTTATGGTTGAGCCTTTGAAAAAT-C
15575845 ACT
65 ACT
*
15575848 TTGGGTTTTGGTTGATCCGGT-AAAAACCATTATGAAAGGTT
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTATGAAAGGTT
15575889 TTGGCTAAGC
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
66 27 0.28
67 70 0.72
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCCCGTGAAAAACCATTATGAAAGGTTATGGTTGAGCCTTTGAAAAATCA
CT
Found at i:15580980 original size:21 final size:21
Alignment explanation
Indices: 15580956--15580997 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15580946 AAAAGACAGT
*
15580956 AGGCACTTAGTCGACTAAGAG
1 AGGCACTTAGTCAACTAAGAG
*
15580977 AGGCATTTAGTCAACTAAGAG
1 AGGCACTTAGTCAACTAAGAG
15580998 CATTTTGTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (21 bp):
AGGCACTTAGTCAACTAAGAG
Found at i:15584773 original size:35 final size:34
Alignment explanation
Indices: 15584729--15584893 Score: 124
Period size: 35 Copynumber: 4.9 Consensus size: 34
15584719 TTAGTTGTTG
* *
15584729 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTATA
1 GGTTTTGGTTGAGCCTGTGAAAAACCATTGTT-TA
* * * *
15584764 GGTTATGGTTGAGCCTTTGAAAAACCA--CTTTG
1 GGTTTTGGTTGAGCCTGTGAAAAACCATTGTTTA
* * **
15584796 GGTTTTAGTTGAGCTTGTGAAAAACCATTGTGAAA
1 GGTTTTGGTTGAGCCTGTGAAAAACCATTGT-TTA
* * * *
15584831 GGTTGTGGTTGAGCCTTTGAAAAACCA--CTTTG
1 GGTTTTGGTTGAGCCTGTGAAAAACCATTGTTTA
* *
15584863 GGTTTTGGTTGATCCCG-GTAAAAACCATTGT
1 GGTTTTGGTTGAGCCTGTG-AAAAACCATTGT
15584894 GAAAGGTTTT
Statistics
Matches: 97, Mismatches: 27, Indels: 13
0.71 0.20 0.09
Matches are distributed among these distances:
31 1 0.01
32 45 0.46
33 3 0.03
34 2 0.02
35 46 0.47
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (34 bp):
GGTTTTGGTTGAGCCTGTGAAAAACCATTGTTTA
Found at i:15584807 original size:67 final size:67
Alignment explanation
Indices: 15584726--15584901 Score: 273
Period size: 67 Copynumber: 2.6 Consensus size: 67
15584716 AAGTTAGTTG
* *
15584726 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTATAGGTTATGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTATGGTTGAGCCTTTGAAAAACCA
15584791 CT
66 CT
* * ** *
15584793 TTGGGTTTTAGTTGAGCTTGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTATGGTTGAGCCTTTGAAAAACCA
15584858 CT
66 CT
15584860 TTGGGTTTTGGTTGATCCCG-GTAAAAACCATTGTGAAAGGTT
1 TTGGGTTTTGGTTGATCCCGTG-AAAAACCATTGTGAAAGGTT
15584902 TTGGCTAAGC
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
66 1 0.01
67 96 0.99
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTATGGTTGAGCCTTTGAAAAACCA
CT
Found at i:15584817 original size:32 final size:32
Alignment explanation
Indices: 15584726--15584874 Score: 140
Period size: 35 Copynumber: 4.5 Consensus size: 32
15584716 AAGTTAGTTG
* ** *
15584726 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGT
1 TTGGGTTTTGGTTGAGCCTTTGAAAAACCA--CT
* *
15584760 TATAGGTTATGGTTGAGCCTTTGAAAAACCACT
1 T-TGGGTTTTGGTTGAGCCTTTGAAAAACCACT
*
15584793 TTGGGTTTTAGTTGAG-CTTGTGAAAAACCA-T
1 TTGGGTTTTGGTTGAGCCTT-TGAAAAACCACT
*
15584824 TGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 T-TG---GGTTTTGGTTGAGCCTTTGAAAAACCACT
15584860 TTGGGTTTTGGTTGA
1 TTGGGTTTTGGTTGA
15584875 TCCCGGTAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
31 5 0.05
32 35 0.37
33 2 0.02
34 1 0.01
35 47 0.49
36 5 0.05
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (32 bp):
TTGGGTTTTGGTTGAGCCTTTGAAAAACCACT
Found at i:15587656 original size:2 final size:2
Alignment explanation
Indices: 15587649--15587746 Score: 125
Period size: 2 Copynumber: 49.5 Consensus size: 2
15587639 TATCAATAAC
15587649 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT NA- ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T
15587692 A- AT A- AT ACT A- ACT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15587732 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
15587747 GCATGCTATT
Statistics
Matches: 87, Mismatches: 0, Indels: 18
0.83 0.00 0.17
Matches are distributed among these distances:
1 5 0.06
2 77 0.89
3 5 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:15587888 original size:37 final size:37
Alignment explanation
Indices: 15587847--15587934 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 37
15587837 GCCAACAAAA
** *
15587847 TCAAATCACGCATGGTGCCAAAGCAACTGGTAGAGAG-
1 TCAAATCACGCACAGTGCCAAAACAACTGGTAGAG-GT
* * *
15587884 TCAAATCACACACAGTGCCAAAACAATTGGTGGAGGT
1 TCAAATCACGCACAGTGCCAAAACAACTGGTAGAGGT
*
15587921 TTAAATCACGCACA
1 TCAAATCACGCACA
15587935 ATGTTGAAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 1 0.02
37 41 0.98
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (37 bp):
TCAAATCACGCACAGTGCCAAAACAACTGGTAGAGGT
Found at i:15587957 original size:37 final size:37
Alignment explanation
Indices: 15587916--15588006 Score: 110
Period size: 37 Copynumber: 2.5 Consensus size: 37
15587906 ACAATTGGTG
* * * *
15587916 GAGGTTTAAATCACGCACAATGTTGAAGCAGCCAACA
1 GAGGTTCAAATCACACACAATGTTCAAGCAACCAACA
** * *
15587953 GAGGTTCAAATCACACACGGTGTTCAAGCAACTAGCA
1 GAGGTTCAAATCACACACAATGTTCAAGCAACCAACA
15587990 GAGGTTCAAATCACACA
1 GAGGTTCAAATCACACA
15588007 TGGTGCTGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (37 bp):
GAGGTTCAAATCACACACAATGTTCAAGCAACCAACA
Found at i:15592559 original size:21 final size:21
Alignment explanation
Indices: 15592518--15592559 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
15592508 CCATCAACAC
* *
15592518 AAACCAAAGAAAGTATAAAAA
1 AAACCAAAGAAAGAAAAAAAA
*
15592539 AAACCAAAG-AAGAAAAGAAA
1 AAACCAAAGAAAGAAAAAAAA
15592559 A
1 A
15592560 CTAGGATTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.74, C:0.10, G:0.12, T:0.05
Consensus pattern (21 bp):
AAACCAAAGAAAGAAAAAAAA
Found at i:15607395 original size:20 final size:20
Alignment explanation
Indices: 15607350--15607388 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15607340 CCATTTGACT
15607350 TATTGGAGTATGAATTTGAG
1 TATTGGAGTATGAATTTGAG
15607370 TATTGGAGTAT-AATTTGAG
1 TATTGGAGTATGAATTTGAG
15607389 GGTTTGGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (20 bp):
TATTGGAGTATGAATTTGAG
Found at i:15643158 original size:12 final size:12
Alignment explanation
Indices: 15643141--15643172 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
15643131 TTGACGAAAA
15643141 AAATTTCGTTGG
1 AAATTTCGTTGG
15643153 AAATTTTCGTTGG
1 AAA-TTTCGTTGG
15643166 AAATTTC
1 AAATTTC
15643173 TAACGGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (12 bp):
AAATTTCGTTGG
Found at i:15643162 original size:13 final size:13
Alignment explanation
Indices: 15643144--15643171 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15643134 ACGAAAAAAA
15643144 TTTCGTTGGAAAT
1 TTTCGTTGGAAAT
15643157 TTTCGTTGGAAAT
1 TTTCGTTGGAAAT
15643170 TT
1 TT
15643172 CTAACGGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (13 bp):
TTTCGTTGGAAAT
Found at i:15643926 original size:13 final size:13
Alignment explanation
Indices: 15643908--15643933 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15643898 GAGCTATTAG
15643908 AATATATATATAT
1 AATATATATATAT
15643921 AATATATATATAT
1 AATATATATATAT
15643934 TTNNNNNNNN
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATATATATATAT
Found at i:15648613 original size:2 final size:2
Alignment explanation
Indices: 15648595--15648646 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
15648585 AAGTGGAGAC
* *
15648595 TA TA TA CA TG TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15648636 TA TA TA TA TA T
1 TA TA TA TA TA T
15648647 TGGCTATTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15648684 original size:2 final size:2
Alignment explanation
Indices: 15648677--15648723 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
15648667 GACTCTGNAC
15648677 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15648719 TA TA T
1 TA TA T
15648724 TGGCTATTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15648729 original size:77 final size:76
Alignment explanation
Indices: 15648608--15648750 Score: 277
Period size: 77 Copynumber: 1.9 Consensus size: 76
15648598 ATACATGTAT
15648608 TATATATATATATATATATATATATATATATATATATATTGGCTATTGTTCGTTATGCCGACTCT
1 TATATATATATATATATATATATATATATATATATATATTGGCTATTGTTCGTTATGCCGACTCT
15648673 GNACTATATATA
66 G-ACTATATATA
15648685 TATATATATATATATATATATATATATATATATATATATTGGCTATTGTTCGTTATGCCGACTCT
1 TATATATATATATATATATATATATATATATATATATATTGGCTATTGTTCGTTATGCCGACTCT
15648750 G
66 G
15648751 TTTTGTAATG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (76 bp):
TATATATATATATATATATATATATATATATATATATATTGGCTATTGTTCGTTATGCCGACTCT
GACTATATATA
Found at i:15649709 original size:13 final size:13
Alignment explanation
Indices: 15649693--15649717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15649683 ATGAAAATAG
15649693 AATATTTTTATTC
1 AATATTTTTATTC
15649706 AATATTTTTATT
1 AATATTTTTATT
15649718 TAGTTCGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
AATATTTTTATTC
Found at i:15654804 original size:13 final size:13
Alignment explanation
Indices: 15654788--15654812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15654778 ATGAAAATAG
15654788 AATATTTTTATTC
1 AATATTTTTATTC
15654801 AATATTTTTATT
1 AATATTTTTATT
15654813 TAGTTCGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
AATATTTTTATTC
Found at i:15655730 original size:23 final size:23
Alignment explanation
Indices: 15655693--15655752 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
15655683 TTTGACATCT
*
15655693 TTAAAATGTATAAACAAA-AAGGAA
1 TTAAAAAG-ATAAACAAATAA-GAA
15655717 TTAAAAAGATAAACAAATAAGAA
1 TTAAAAAGATAAACAAATAAGAA
15655740 TTGAAAAA-ATAAA
1 TT-AAAAAGATAAA
15655753 AATGAAGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 19 0.58
24 14 0.42
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.20
Consensus pattern (23 bp):
TTAAAAAGATAAACAAATAAGAA
Found at i:15655766 original size:22 final size:23
Alignment explanation
Indices: 15655731--15655779 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
15655721 AAAGATAAAC
*
15655731 AAAT-AAGAATTGAA-AAAATAA
1 AAATGAAGAAGTGAATAAAATAA
*
15655752 AAATGAAGAAGTGAATATAATAA
1 AAATGAAGAAGTGAATAAAATAA
15655775 AAATG
1 AAATG
15655780 TATTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 9 0.38
23 11 0.46
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.20
Consensus pattern (23 bp):
AAATGAAGAAGTGAATAAAATAA
Found at i:15655850 original size:22 final size:21
Alignment explanation
Indices: 15655801--15655852 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
15655791 ATATAAATTT
15655801 AAAAA-TAATATAAATATATA
1 AAAAATTAATATAAATATATA
* * *
15655821 TAATATTATATATCAATATATA
1 AAAAATTA-ATATAAATATATA
15655843 AAAAATTAAT
1 AAAAATTAAT
15655853 TTAATTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 3 0.12
21 4 0.16
22 18 0.72
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATTAATATAAATATATA
Found at i:15656567 original size:22 final size:23
Alignment explanation
Indices: 15656521--15656568 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
15656511 TCTCTTCTCC
* **
15656521 CTATCTTTCTTTGTTATTTTCTT
1 CTATCTTCCTTTGTTAGGTTCTT
15656544 CTATCTTCCTTTGTT-GGTTCTT
1 CTATCTTCCTTTGTTAGGTTCTT
15656566 CTA
1 CTA
15656569 CCTCCTGGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.08, C:0.21, G:0.08, T:0.62
Consensus pattern (23 bp):
CTATCTTCCTTTGTTAGGTTCTT
Found at i:15658837 original size:3 final size:3
Alignment explanation
Indices: 15658829--15658867 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
15658819 ATGGAGTCTT
15658829 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15658868 CTTTTTTTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15659813 original size:19 final size:19
Alignment explanation
Indices: 15659786--15659823 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15659776 TCATTTGACT
15659786 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
*
15659805 TATTTGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
15659824 GTTTATAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:15675505 original size:12 final size:12
Alignment explanation
Indices: 15675488--15675521 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15675478 CAGACTTTTT
15675488 AGAGAAAGAGGG
1 AGAGAAAGAGGG
**
15675500 AGAGAAAGAATG
1 AGAGAAAGAGGG
15675512 AGAGAAAGAG
1 AGAGAAAGAG
15675522 TTAGACGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (12 bp):
AGAGAAAGAGGG
Found at i:15677255 original size:2 final size:2
Alignment explanation
Indices: 15677248--15677352 Score: 115
Period size: 2 Copynumber: 52.5 Consensus size: 2
15677238 TGTGATAAAC
*
15677248 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT GGT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
** * * * *
15677290 AT NC CT -T GT GAT AA AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15677332 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
15677353 GCATGATCTT
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
1 2 0.02
2 85 0.96
3 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15678890 original size:33 final size:34
Alignment explanation
Indices: 15678842--15678917 Score: 109
Period size: 33 Copynumber: 2.2 Consensus size: 34
15678832 TGTGCGTGAT
15678842 CTTTAGAAATGGCATTGCAAAAGTTGTGCTTGCTC
1 CTTT-GAAATGGCATTGCAAAAGTTGTGCTTGCTC
* * *
15678877 CTTTGAAA-GGCATTGTAAAGGTTGTGTTTGCTC
1 CTTTGAAATGGCATTGCAAAAGTTGTGCTTGCTC
15678910 CTTTGAAA
1 CTTTGAAA
15678918 AGTCATTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 30 0.79
34 4 0.11
35 4 0.11
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (34 bp):
CTTTGAAATGGCATTGCAAAAGTTGTGCTTGCTC
Found at i:15685143 original size:29 final size:27
Alignment explanation
Indices: 15685099--15685199 Score: 95
Period size: 29 Copynumber: 3.7 Consensus size: 27
15685089 TTTTAAAAAT
*
15685099 TTCAATTAATTCTTATATTTTTATTGTG
1 TTCAATCAATT-TTATATTTTTATTGTG
15685127 TTCAATCAAACTTTTATATTTTTATT-T-
1 TTCAATC-AA-TTTTATATTTTTATTGTG
**
15685154 TT-AATC-A-TANATATTTTTATTGTG
1 TTCAATCAATTTTATATTTTTATTGTG
15685178 TTCAATCATATCTTTATATTTT
1 TTCAATCA-AT-TTTATATTTT
15685200 ATTTTAATCA
Statistics
Matches: 59, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
22 12 0.20
23 1 0.02
24 3 0.05
25 4 0.07
26 4 0.07
27 3 0.05
28 7 0.12
29 23 0.39
30 2 0.03
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.58
Consensus pattern (27 bp):
TTCAATCAATTTTATATTTTTATTGTG
Found at i:15685168 original size:51 final size:48
Alignment explanation
Indices: 15685113--15685213 Score: 143
Period size: 51 Copynumber: 2.1 Consensus size: 48
15685103 ATTAATTCTT
15685113 ATATTTTTATTGTGTTCAATCAAA-CTTTTATATTTTTATTTTTAATCATA
1 ATATTTTTATTGTGTTCAATCAAATC-TTTATA-TTTTA-TTTTAATCATA
*
15685163 NATATTTTTATTGTGTTCAATCATATCTTTATATTTTATTTTAATCA-A
1 -ATATTTTTATTGTGTTCAATCAAATCTTTATATTTTATTTTAATCATA
15685211 ATA
1 ATA
15685214 AATTCTTATA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
47 3 0.06
48 1 0.02
49 9 0.19
50 5 0.10
51 29 0.60
52 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.56
Consensus pattern (48 bp):
ATATTTTTATTGTGTTCAATCAAATCTTTATATTTTATTTTAATCATA
Found at i:15697975 original size:26 final size:28
Alignment explanation
Indices: 15697940--15698001 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 28
15697930 TAATGTTTTA
15697940 AAATATTAATACTTAAATTAT-AATT-T
1 AAATATTAATACTTAAATTATCAATTAT
*
15697966 AAATATTAATATTTAAATTATCAATTAT
1 AAATATTAATACTTAAATTATCAATTAT
*
15697994 TAATATTA
1 AAATATTA
15698002 TTATAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 20 0.62
27 4 0.12
28 8 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (28 bp):
AAATATTAATACTTAAATTATCAATTAT
Found at i:15698002 original size:42 final size:42
Alignment explanation
Indices: 15697911--15697990 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
15697901 TAATAACATC
* *
15697911 TAAATTATAAATAAAATATTAATGTTTTAAAATATTAATACT
1 TAAATTATAAATAAAATATTAATGATTTAAAATATCAATACT
* * *
15697953 TAAATTATAATTTAAATATTAAT-ATTTAAATTATCAAT
1 TAAATTATAAATAAAATATTAATGATTTAAAATATCAAT
15697991 TATTAATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 12 0.36
42 21 0.64
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (42 bp):
TAAATTATAAATAAAATATTAATGATTTAAAATATCAATACT
Found at i:15698266 original size:152 final size:153
Alignment explanation
Indices: 15697922--15698307 Score: 494
Period size: 154 Copynumber: 2.5 Consensus size: 153
15697912 AAATTATAAA
* * * * * * *
15697922 TAAAA-TATTAATGTTTTAA-AATATTAATACTTAAATTATAATTTAAATATTAATATTTAAATT
1 TAAAATTATTAATATTTTAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTAAATT
* * * * *
15697985 ATCAATTATTAATATTATTATAAAAAAGAAAAAAGTTTACAATTTAAATTATATATTATCTAAAT
66 ATCAATTATTAATATTATTACAAAAAAGAAAAAAATTTAAAATTTAAATAATATATTA-CTAAAA
*
15698050 AATATTTTAATTTTAAAAATTAAT
130 AATATTTTAAATTTAAAAATTAAT
* * **
15698074 TAAAATTATTTATATTTTAATCATAATAACATTTCAATTATAAATAAAACGTTAATATTTAAATT
1 TAAAATTATTAATATTTTAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTAAATT
*
15698139 ATCAATTATTAATATTATT-CCAAAAAGAAAAAAAATTTAAAACTTT-AATAATATATTA-TAAA
66 ATCAATTATTAATATTATTACAAAAAAG-AAAAAAATTTAAAA-TTTAAATAATATATTACTAAA
*
15698201 AAATATTTTAAATTTAAAAATTGAT
129 AAATATTTTAAATTTAAAAATTAAT
* * *
15698226 TAAAATTATTAATATTTTAATCATGATATCATTTAAATTATAAACAACAATATTAATATTTAAAT
1 TAAAATTATTAATATTTTAATCATAATAACATTTAAATTATAAATAA-AATATTAATATTTAAAT
*
15698291 GATCAATTATTAATATT
65 TATCAATTATTAATATT
15698308 TTAAATTAAT
Statistics
Matches: 202, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
152 73 0.36
153 49 0.24
154 77 0.38
155 3 0.01
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (153 bp):
TAAAATTATTAATATTTTAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTAAATT
ATCAATTATTAATATTATTACAAAAAAGAAAAAAATTTAAAATTTAAATAATATATTACTAAAAA
ATATTTTAAATTTAAAAATTAAT
Found at i:15698351 original size:27 final size:27
Alignment explanation
Indices: 15698286--15698351 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
15698276 TATTAATATT
* * *
15698286 TAAATGATCAATTATTAATATTTTAAAT
1 TAAAT-ATAAATTATTAATATTTAAAAA
*
15698314 TAATTATAAATTATTAATATTTAAAAAA
1 TAAATATAAATTATTAATATTT-AAAAA
15698342 TAAATA-AAAT
1 TAAATATAAAT
15698352 AAAAATAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 20 0.62
28 12 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
TAAATATAAATTATTAATATTTAAAAA
Found at i:15698414 original size:8 final size:8
Alignment explanation
Indices: 15698388--15698429 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
15698378 AAATTATAAA
15698388 TAAAATAT
1 TAAAATAT
* *
15698396 TAATATTT
1 TAAAATAT
15698404 TAAAATAT
1 TAAAATAT
*
15698412 T-AAAGAT
1 TAAAATAT
15698419 TAAAATAT
1 TAAAATAT
15698427 TAA
1 TAA
15698430 TAAAATATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (8 bp):
TAAAATAT
Found at i:15698423 original size:15 final size:16
Alignment explanation
Indices: 15698388--15698431 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
15698378 AAATTATAAA
**
15698388 TAAAATATTAATATTT
1 TAAAATATTAATAGAT
15698404 TAAAATATTAA-AGAT
1 TAAAATATTAATAGAT
15698419 TAAAATATTAATA
1 TAAAATATTAATA
15698432 AAATATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
TAAAATATTAATAGAT
Found at i:15698423 original size:68 final size:68
Alignment explanation
Indices: 15698319--15698449 Score: 151
Period size: 68 Copynumber: 1.9 Consensus size: 68
15698309 TAAATTAATT
* *
15698319 ATAAATTATTAATATTTAAAAAATAAATAAAATAAAA-ATAAATAATCATAATAACATTTAAATT
1 ATAAAATATTAATATTTAAAAAATAAATAAAATAAAATATAAATAA-AATAATAACATTTAAATT
15698383 ATAA
65 ATAA
* * * * *
15698387 ATAAAATATTAATATTT-TAAAAT-ATTAAAGATTAAAATATTAATAAAATATTAATATTTAAAT
1 ATAAAATATTAATATTTAAAAAATAAATAAA-A-TAAAATATAAATAAAATAATAACATTTAAAT
15698450 GATCAATTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
66 5 0.09
67 6 0.11
68 35 0.66
69 7 0.13
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (68 bp):
ATAAAATATTAATATTTAAAAAATAAATAAAATAAAATATAAATAAAATAATAACATTTAAATTA
TAA
Found at i:15704650 original size:18 final size:17
Alignment explanation
Indices: 15704622--15704655 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15704612 TTTACAAGAA
*
15704622 AATACTTTATTTTATTG
1 AATACTTTATTATATTG
15704639 AATACTTTTATTATATT
1 AATAC-TTTATTATATT
15704656 CAAATGGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (17 bp):
AATACTTTATTATATTG
Found at i:15705488 original size:15 final size:15
Alignment explanation
Indices: 15705465--15705510 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
15705455 TTCTTAAAAC
15705465 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
*
15705480 AATTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
*
15705495 AGCTTTAAAACCAAA
1 AACTTTAAAACCAAA
15705510 A
1 A
15705511 TCTCTGATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 22 0.85
16 2 0.08
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:15721842 original size:34 final size:34
Alignment explanation
Indices: 15721803--15721895 Score: 123
Period size: 34 Copynumber: 2.7 Consensus size: 34
15721793 GCAAAATTTT
** *
15721803 GCACTTTTTGGCCTCCAAAATCAGCAAAAAAATG
1 GCACTTTTCAGCCTCCAAAACCAGCAAAAAAATG
* * *
15721837 GCACTTTCCAACCTCCAAAACCAGCAGAAAAATG
1 GCACTTTTCAGCCTCCAAAACCAGCAAAAAAATG
*
15721871 GCTCTTTTCAGCCTCCAAAACCAGC
1 GCACTTTTCAGCCTCCAAAACCAGC
15721896 CCTTAAAATG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.35, C:0.31, G:0.13, T:0.20
Consensus pattern (34 bp):
GCACTTTTCAGCCTCCAAAACCAGCAAAAAAATG
Found at i:15727938 original size:16 final size:16
Alignment explanation
Indices: 15727917--15727948 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15727907 GATTTAACCT
15727917 CAAACTAGTTCAAATA
1 CAAACTAGTTCAAATA
15727933 CAAACTAGTTCAAATA
1 CAAACTAGTTCAAATA
15727949 GGAATCGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
CAAACTAGTTCAAATA
Found at i:15738634 original size:32 final size:32
Alignment explanation
Indices: 15738598--15738658 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
15738588 TCAATATTAA
15738598 GAGCTTCATAAAATTCATTGATGGCATGCTAG
1 GAGCTTCATAAAATTCATTGATGGCATGCTAG
15738630 GAGCTTCATAAAATTCATTGATGGCATGC
1 GAGCTTCATAAAATTCATTGATGGCATGC
15738659 CTCGAGAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (32 bp):
GAGCTTCATAAAATTCATTGATGGCATGCTAG
Found at i:15743116 original size:17 final size:17
Alignment explanation
Indices: 15743094--15743128 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15743084 GGAAGTTTTC
15743094 CTCCCCCTAAGTGTGTG
1 CTCCCCCTAAGTGTGTG
*
15743111 CTCCCCCTTAGTGTGTG
1 CTCCCCCTAAGTGTGTG
15743128 C
1 C
15743129 ATATTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.09, C:0.37, G:0.23, T:0.31
Consensus pattern (17 bp):
CTCCCCCTAAGTGTGTG
Found at i:15754536 original size:21 final size:22
Alignment explanation
Indices: 15754507--15754548 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15754497 CTTAAGTAGC
15754507 TAGACTTTTGAG-ATTTTAGGTT
1 TAGACTTTT-AGCATTTTAGGTT
15754529 TAGA-TTTTAGCATTTTAGGT
1 TAGACTTTTAGCATTTTAGGT
15754549 GTTTTTCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 13 0.68
22 4 0.21
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (22 bp):
TAGACTTTTAGCATTTTAGGTT
Found at i:15754619 original size:21 final size:19
Alignment explanation
Indices: 15754581--15754621 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
15754571 ATATGTTGAC
15754581 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
15754600 TAGTTAAATTCTATGTTATTT
1 TAGTT-AATT-TAAGTTATTT
15754621 T
1 T
15754622 GTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 4 0.21
21 10 0.53
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:15760843 original size:21 final size:19
Alignment explanation
Indices: 15760807--15760847 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
15760797 ACATGTTGAG
15760807 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
15760826 TAGTTAAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
15760847 T
1 T
15760848 GTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:15769086 original size:42 final size:42
Alignment explanation
Indices: 15769039--15769142 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
15769029 TTGACCCGGA
* * * *
15769039 TATGTGCTAGTGGGAGTGTGCATAAGCCGATGCTAACTCAGC
1 TATGTGCTAGTGGGAGTGCGCATAAGCCGATGATAACCCAAC
*
15769081 TATGTG-TGAGTGGGAGTGCGCATAAGCCGATGATGACCCAAC
1 TATGTGCT-AGTGGGAGTGCGCATAAGCCGATGATAACCCAAC
*
15769123 CATGTGCTAGTAGGGAGTGC
1 TATGTGCTAGT-GGGAGTGC
15769143 ATATGAGCTG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.02
42 43 0.81
43 9 0.17
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (42 bp):
TATGTGCTAGTGGGAGTGCGCATAAGCCGATGATAACCCAAC
Found at i:15769472 original size:30 final size:30
Alignment explanation
Indices: 15769422--15769499 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
15769412 ATTGGCCTGA
* * *
15769422 TTCTCGCTACAACCAGAAAGTTGTTAAAGC
1 TTCTCGCTGCAACGAGAAAGTTGCTAAAGC
* *
15769452 TTCTTGCTGCAACGAGAAAGTTGCTGAAGC
1 TTCTCGCTGCAACGAGAAAGTTGCTAAAGC
*
15769482 TTCTCGCTGCAGCGAGAA
1 TTCTCGCTGCAACGAGAA
15769500 TGAGTCTCGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (30 bp):
TTCTCGCTGCAACGAGAAAGTTGCTAAAGC
Found at i:15779971 original size:60 final size:61
Alignment explanation
Indices: 15779905--15780034 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 61
15779895 GGAGATTGAA
* * * * *
15779905 TCTCGCTACAGTGAAATTGTAACCCA-GAAATAGAAAGTTTCTTGCTGCAGCTAG-ATTCTT
1 TCTCGCTACAGTGAAATT-CAACCCATGAAACAGAAAGTTTCTCGCTGCAGCGAGAATCCTT
** *
15779965 TCTCGCTACAGTGAAATTCAACTGATGAAACAGAGAGTTTCTCGCTGCAGCGAGAATCCTT
1 TCTCGCTACAGTGAAATTCAACCCATGAAACAGAAAGTTTCTCGCTGCAGCGAGAATCCTT
15780026 T-TCGCTACA
1 TCTCGCTACA
15780035 ACGAGAAGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 4 0.07
60 50 0.83
61 6 0.10
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (61 bp):
TCTCGCTACAGTGAAATTCAACCCATGAAACAGAAAGTTTCTCGCTGCAGCGAGAATCCTT
Found at i:15780452 original size:43 final size:43
Alignment explanation
Indices: 15780405--15780518 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
15780395 TCACCAGCTC
* *
15780405 ATGCGCACTCCCTACTCGCACATGGCTGGATCATCACT-GGGTT
1 ATGCGCACTCCCTACTCGCACATAGCTGGATCATC-CTCGGCTT
* * * *
15780448 ATGCGTACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAGCTGGATCATCCTCGGCTT
* *
15780491 ATGCTCACTCCCTACTTGCACATAGCTG
1 ATGCGCACTCCCTACTCGCACATAGCTG
15780519 AGTTAATATA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 2 0.03
43 57 0.97
ACGTcount: A:0.19, C:0.35, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAGCTGGATCATCCTCGGCTT
Found at i:15784219 original size:21 final size:20
Alignment explanation
Indices: 15784194--15784242 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
15784184 ACTCTTAAAG
15784194 TAAATTAAAATAAAATAACA
1 TAAATTAAAATAAAATAACA
*
15784214 TAAAATTAAACTAAAATAACA
1 T-AAATTAAAATAAAATAACA
15784235 TAAATTAA
1 TAAATTAA
15784243 CTACTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAATTAAAATAAAATAACA
Found at i:15790312 original size:38 final size:38
Alignment explanation
Indices: 15790261--15790337 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
15790251 CACGAATGAG
*
15790261 ATCACCTAAGTAACAAGAATATACAATATTCAAATCTT
1 ATCACCTAAGTAACAAGAATATACAATATTCAAACCTT
*
15790299 ATCACCTAAGTAACATGAATATACAATATTCAAACCTT
1 ATCACCTAAGTAACAAGAATATACAATATTCAAACCTT
15790337 A
1 A
15790338 GTCCAATCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.29
Consensus pattern (38 bp):
ATCACCTAAGTAACAAGAATATACAATATTCAAACCTT
Found at i:15799215 original size:22 final size:22
Alignment explanation
Indices: 15799172--15799215 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
15799162 TCTAAAACAA
* * *
15799172 CTTTAAAACTAAAAATTTTGAT
1 CTTTAAAACCAAAAACTCTGAT
*
15799194 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
15799216 ACCAATCGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:15803410 original size:3 final size:3
Alignment explanation
Indices: 15803402--15803484 Score: 114
Period size: 3 Copynumber: 27.7 Consensus size: 3
15803392 TAAATATAGT
* * *
15803402 TAC TAC TAC TAC TAC TAC TAC TAC TAT TAC CAC TAT TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
*
15803450 TAC TAC TAC TAC TAC T-C ATAT TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC -TAC TAC TAC TAC TAC TA
15803485 GAGATAAAGT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.01
3 69 0.99
ACGTcount: A:0.34, C:0.30, G:0.00, T:0.36
Consensus pattern (3 bp):
TAC
Found at i:15804950 original size:16 final size:15
Alignment explanation
Indices: 15804902--15804950 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
15804892 GTAGAGAAAT
15804902 AAAATAAATAATAAATA
1 AAAATAAATAA-AAA-A
* *
15804919 AAAATAATTGAAAAA
1 AAAATAAATAAAAAA
*
15804934 AAAATAAATAAAGAA
1 AAAATAAATAAAAAA
15804949 AA
1 AA
15804951 GGGTTTTTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 15 0.56
16 3 0.11
17 9 0.33
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (15 bp):
AAAATAAATAAAAAA
Found at i:15805064 original size:24 final size:24
Alignment explanation
Indices: 15805035--15805176 Score: 112
Period size: 24 Copynumber: 5.8 Consensus size: 24
15805025 AATGGATAAA
*
15805035 TGGGTAAACGGGTAAGTGGGCTAC
1 TGGGTAAATGGGTAAGTGGGCTAC
*
15805059 TGGGTAAATAGGTAAGTGGGCTA-
1 TGGGTAAATGGGTAAGTGGGCTAC
* * * *
15805082 TGGGTAATGGGCTTCTGGGTAAATTGG-TAA
1 TGGGTAA-------ATGGGTAAGTGGGCTAC
* *
15805112 TGGGT-AATGGGT-AGTGGACTAG
1 TGGGTAAATGGGTAAGTGGGCTAC
*
15805134 TGGGCAAATGGGTAAGTGGGCTAC
1 TGGGTAAATGGGTAAGTGGGCTAC
15805158 TGGGTAAATGGGTAAGTGG
1 TGGGTAAATGGGTAAGTGG
15805177 CCTATGAGTA
Statistics
Matches: 92, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
21 3 0.03
22 11 0.12
23 14 0.15
24 47 0.51
29 3 0.03
30 14 0.15
ACGTcount: A:0.25, C:0.07, G:0.42, T:0.26
Consensus pattern (24 bp):
TGGGTAAATGGGTAAGTGGGCTAC
Found at i:15805100 original size:15 final size:15
Alignment explanation
Indices: 15805069--15805169 Score: 59
Period size: 15 Copynumber: 6.7 Consensus size: 15
15805059 TGGGTAAATA
15805069 GGTAAGTGGGCTATG
1 GGTAAGTGGGCTATG
*
15805084 GGTAA-TGGGCTTCTG
1 GGTAAGTGGGC-TATG
* *
15805099 GGTAAATTGG-TAATG
1 GGTAAGTGGGCT-ATG
15805114 GGTAA-TGGG-TAGTG
1 GGTAAGTGGGCTA-TG
* *
15805128 GACT-AGTGGGCAAATG
1 G-GTAAGTGGGC-TATG
15805144 GGTAAGTGGGCTACTG
1 GGTAAGTGGGCTA-TG
*
15805160 GGTAAATGGG
1 GGTAAGTGGG
15805170 TAAGTGGCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
13 1 0.01
14 14 0.21
15 27 0.40
16 24 0.36
17 1 0.01
ACGTcount: A:0.24, C:0.07, G:0.43, T:0.27
Consensus pattern (15 bp):
GGTAAGTGGGCTATG
Found at i:15805149 original size:99 final size:99
Alignment explanation
Indices: 15805035--15805214 Score: 288
Period size: 99 Copynumber: 1.8 Consensus size: 99
15805025 AATGGATAAA
* * * * *
15805035 TGGGTAAACGGGTAAGTGGGCTACTGGGTAAATAGGTAAGTGGGCTATGGGTAATGGGCTTCTGG
1 TGGGCAAACGGGTAAGTGGGCTACTGGGTAAATAGGTAAGTGGCCTATGAGTAATGGGCTGCTAG
15805100 GTAAATTGGTAATGGGTAATGGGTAGTGGACTAG
66 GTAAATTGGTAATGGGTAATGGGTAGTGGACTAG
* *
15805134 TGGGCAAATGGGTAAGTGGGCTACTGGGTAAATGGGTAAGTGGCCTATGAGTAATGGGCTGCTAG
1 TGGGCAAACGGGTAAGTGGGCTACTGGGTAAATAGGTAAGTGGCCTATGAGTAATGGGCTGCTAG
*
15805199 GTAAATTGGTAGTGGG
66 GTAAATTGGTAATGGG
15805215 GTGGCCCTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 73 1.00
ACGTcount: A:0.25, C:0.08, G:0.41, T:0.27
Consensus pattern (99 bp):
TGGGCAAACGGGTAAGTGGGCTACTGGGTAAATAGGTAAGTGGCCTATGAGTAATGGGCTGCTAG
GTAAATTGGTAATGGGTAATGGGTAGTGGACTAG
Found at i:15805170 original size:8 final size:8
Alignment explanation
Indices: 15805015--15805172 Score: 50
Period size: 8 Copynumber: 20.5 Consensus size: 8
15805005 AGGGGTTCTA
*
15805015 GTAAGTGG
1 GTAAATGG
15805023 GT-AATGG
1 GTAAATGG
*
15805030 ATAAATGG
1 GTAAATGG
*
15805038 GTAAACGG
1 GTAAATGG
*
15805046 GTAAGTGG
1 GTAAATGG
*
15805054 GCT-ACTGG
1 G-TAAATGG
*
15805062 GTAAATAG
1 GTAAATGG
*
15805070 GTAAGTGG
1 GTAAATGG
15805078 GCT--ATGG
1 G-TAAATGG
15805085 GT-AATGG
1 GTAAATGG
**
15805092 GCT-TCTGG
1 G-TAAATGG
*
15805100 GTAAATTG
1 GTAAATGG
15805108 GT-AATGG
1 GTAAATGG
15805115 GT-AATGG
1 GTAAATGG
*
15805122 GT-AGTGG
1 GTAAATGG
* *
15805129 ACT-AGTGG
1 -GTAAATGG
*
15805137 GCAAATGG
1 GTAAATGG
*
15805145 GTAAGTGG
1 GTAAATGG
*
15805153 GCT-ACTGG
1 G-TAAATGG
15805161 GTAAATGG
1 GTAAATGG
15805169 GTAA
1 GTAA
15805173 GTGGCCTATG
Statistics
Matches: 112, Mismatches: 27, Indels: 22
0.70 0.17 0.14
Matches are distributed among these distances:
6 1 0.01
7 34 0.30
8 74 0.66
9 3 0.03
ACGTcount: A:0.28, C:0.06, G:0.40, T:0.26
Consensus pattern (8 bp):
GTAAATGG
Found at i:15805383 original size:13 final size:13
Alignment explanation
Indices: 15805367--15805433 Score: 53
Period size: 13 Copynumber: 4.7 Consensus size: 13
15805357 TGCATTTTTT
15805367 TATTTTTTTGAAA
1 TATTTTTTTGAAA
15805380 TATTTTTTTTAAGAAAA
1 TA-TTTTTTT--G-AAA
*
15805397 TTTTTTTTTGAAA
1 TATTTTTTTGAAA
* *
15805410 TATTATTTTTTTATA
1 TA-T-TTTTTTGAAA
15805425 TATTTTTTT
1 TATTTTTTT
15805434 AAAAAATTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
13 12 0.27
14 10 0.23
15 10 0.23
16 8 0.18
17 4 0.09
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (13 bp):
TATTTTTTTGAAA
Found at i:15805387 original size:15 final size:15
Alignment explanation
Indices: 15805369--15805433 Score: 80
Period size: 15 Copynumber: 4.3 Consensus size: 15
15805359 CATTTTTTTA
15805369 TTTTTTTGAAATATT
1 TTTTTTTGAAATATT
*
15805384 TTTTTTAAGAAA-ATT
1 TTTTTT-TGAAATATT
15805399 TTTTTTTGAAATATT
1 TTTTTTTGAAATATT
*
15805414 ATTTTTTT-ATATATT
1 -TTTTTTTGAAATATT
15805429 TTTTT
1 TTTTT
15805434 AAAAAATTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
14 9 0.20
15 24 0.55
16 11 0.25
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (15 bp):
TTTTTTTGAAATATT
Found at i:15806929 original size:21 final size:21
Alignment explanation
Indices: 15806887--15806975 Score: 106
Period size: 21 Copynumber: 4.2 Consensus size: 21
15806877 TTGAATGGAG
* * * *
15806887 GCATCAATCTTTATCCTAAAT
1 GCATCAGTCTTTGTCATGAAT
* *
15806908 GCATCTGTCTTTGTTATGAAT
1 GCATCAGTCTTTGTCATGAAT
*
15806929 GCATCAGTTTTTGTCATGAAT
1 GCATCAGTCTTTGTCATGAAT
15806950 GCATCAGTCTTTGTCATGAACT
1 GCATCAGTCTTTGTCATGAA-T
15806972 GCAT
1 GCAT
15806976 AAACATATCC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
21 52 0.91
22 5 0.09
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (21 bp):
GCATCAGTCTTTGTCATGAAT
Found at i:15817467 original size:21 final size:21
Alignment explanation
Indices: 15817443--15817482 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
15817433 GAGATAGTAA
15817443 CTGCAGTGAAAAGGAATCTTG
1 CTGCAGTGAAAAGGAATCTTG
15817464 CTGCAGTGAAAAGGAATCT
1 CTGCAGTGAAAAGGAATCT
15817483 CGCTACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.23
Consensus pattern (21 bp):
CTGCAGTGAAAAGGAATCTTG
Found at i:15821905 original size:38 final size:39
Alignment explanation
Indices: 15821834--15821929 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 39
15821824 CGTGATGACA
* * * *
15821834 GATGTGGGGGGATGCACACGATGGCACTAACTA-TGCAC
1 GATGTAGGGGGATGCACACAATGACACCAACTAGTGCAC
* * * *
15821872 GATGTTGGGGGATGCACACAATGACTCCGACTATGTGCAT
1 GATGTAGGGGGATGCACACAATGACACCAACTA-GTGCAC
15821912 GATGTAGGGGGATGCACA
1 GATGTAGGGGGATGCACA
15821930 TGAGCTAGCT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 27 0.56
40 21 0.44
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (39 bp):
GATGTAGGGGGATGCACACAATGACACCAACTAGTGCAC
Found at i:15824389 original size:37 final size:40
Alignment explanation
Indices: 15824294--15824396 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
15824284 CACTCGGTTT
*
15824294 ATGTACATCCCCCCACATCGTGCACATAGCCTGCGCCATC
1 ATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATC
* * *
15824334 ATGTGCATCCCCCCACATCGTGCACA-A-TCAGTGCCAT-
1 ATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATC
* *
15824371 TTGTACATCCCCCCACATCCTGCACA
1 ATGTACATCCCCCCACATCGTGCACA
15824397 CAGGCACTAG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
37 23 0.41
38 7 0.12
39 1 0.02
40 25 0.45
ACGTcount: A:0.23, C:0.42, G:0.14, T:0.21
Consensus pattern (40 bp):
ATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATC
Found at i:15835139 original size:14 final size:14
Alignment explanation
Indices: 15835120--15835162 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
15835110 TTGACTCACC
15835120 TAAAATAACTAATT
1 TAAAATAACTAATT
* *
15835134 TAAAATAATTAA-A
1 TAAAATAACTAATT
15835147 TAAAATATACTAATT
1 TAAAATA-ACTAATT
15835162 T
1 T
15835163 CTATGTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 7 0.30
14 15 0.65
15 1 0.04
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATAACTAATT
Found at i:15837590 original size:13 final size:13
Alignment explanation
Indices: 15837574--15837599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15837564 GTCAATACAC
15837574 TTACAAAATATAT
1 TTACAAAATATAT
15837587 TTACAAAATATAT
1 TTACAAAATATAT
15837600 ATTTATCCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
TTACAAAATATAT
Found at i:15838343 original size:11 final size:11
Alignment explanation
Indices: 15838320--15838351 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
15838310 TCACATTTAA
15838320 TCATTTT-TCT
1 TCATTTTCTCT
15838330 TCATTTTCTCT
1 TCATTTTCTCT
15838341 TCA-TTTCTCT
1 TCATTTTCTCT
15838351 T
1 T
15838352 AGAATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.09, C:0.25, G:0.00, T:0.66
Consensus pattern (11 bp):
TCATTTTCTCT
Found at i:15845102 original size:22 final size:22
Alignment explanation
Indices: 15845076--15845126 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
15845066 TAAGAATCAA
15845076 TTCTCAAACAAAAAGAACTAAC
1 TTCTCAAACAAAAAGAACTAAC
* *
15845098 TTCTCAGACACAAAGAACTAAC
1 TTCTCAAACAAAAAGAACTAAC
15845120 TTCTCAA
1 TTCTCAA
15845127 GAATAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.47, C:0.25, G:0.06, T:0.22
Consensus pattern (22 bp):
TTCTCAAACAAAAAGAACTAAC
Found at i:15847519 original size:2 final size:2
Alignment explanation
Indices: 15847512--15847552 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
15847502 ATAGGCAATC
15847512 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T GAT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT A
15847553 CACATACACA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 35 0.95
3 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15852217 original size:42 final size:42
Alignment explanation
Indices: 15852165--15852326 Score: 182
Period size: 42 Copynumber: 3.9 Consensus size: 42
15852155 CATCTCATAT
* ** *
15852165 GCAATGGCTTATGCATACTCCCACTCGCATATAGCCGAGTCA
1 GCAACGGCTTATGTGTACTCCCACTCGCACATAGCCGAGTCA
* * *
15852207 GCAACGGCTTATGTGTACTCCCACTCACACATAACCGGGTCA
1 GCAACGGCTTATGTGTACTCCCACTCGCACATAGCCGAGTCA
* * *
15852249 GCAACGGCTTATGTGCACTCCTATTCGCACATAGCC-AGATCA
1 GCAACGGCTTATGTGTACTCCCACTCGCACATAGCCGAG-TCA
* * * *
15852291 GCAACGGCTTATGTGCACTCCTAGTGGCACATAGCC
1 GCAACGGCTTATGTGTACTCCCACTCGCACATAGCC
15852327 AGGTCCACAT
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 103 0.99
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (42 bp):
GCAACGGCTTATGTGTACTCCCACTCGCACATAGCCGAGTCA
Found at i:15863571 original size:21 final size:21
Alignment explanation
Indices: 15863547--15863590 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
15863537 TTCTAGGTCA
15863547 CAATTTCGCTGCAGCGAGATT
1 CAATTTCGCTGCAGCGAGATT
15863568 CAATTTCGCTGCAGCGAGATT
1 CAATTTCGCTGCAGCGAGATT
15863589 CA
1 CA
15863591 GCGAAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (21 bp):
CAATTTCGCTGCAGCGAGATT
Found at i:15867938 original size:26 final size:26
Alignment explanation
Indices: 15867878--15867939 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
15867868 ACCATATACC
*
15867878 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
15867904 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
15867930 CATCATCATC
1 CATCATCATC
15867940 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:15872482 original size:10 final size:10
Alignment explanation
Indices: 15872467--15872494 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
15872457 ATAGGCTTTG
15872467 AAGTTAGGCC
1 AAGTTAGGCC
15872477 AAGTTAGGCC
1 AAGTTAGGCC
15872487 AAGTTAGG
1 AAGTTAGG
15872495 TGGAGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.21
Consensus pattern (10 bp):
AAGTTAGGCC
Found at i:15873147 original size:3 final size:3
Alignment explanation
Indices: 15873139--15873197 Score: 64
Period size: 3 Copynumber: 19.7 Consensus size: 3
15873129 TAAATATAGT
* * * * * *
15873139 TAC TAC TAC TAC TAC CAC TAT TAC TAC TAC TAT TAC TAT TAC TAT TAT
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
15873187 TAC TAC TAC TA
1 TAC TAC TAC TA
15873198 TTAGAGATAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.34, C:0.25, G:0.00, T:0.41
Consensus pattern (3 bp):
TAC
Found at i:15873200 original size:12 final size:12
Alignment explanation
Indices: 15873139--15873194 Score: 76
Period size: 12 Copynumber: 4.7 Consensus size: 12
15873129 TAAATATAGT
*
15873139 TACTACTACTAC
1 TACTACTATTAC
*
15873151 TACCACTATTAC
1 TACTACTATTAC
15873163 TACTACTATTAC
1 TACTACTATTAC
* *
15873175 TATTACTATTAT
1 TACTACTATTAC
15873187 TACTACTA
1 TACTACTA
15873195 CTATTAGAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.34, C:0.25, G:0.00, T:0.41
Consensus pattern (12 bp):
TACTACTATTAC
Found at i:15875147 original size:21 final size:21
Alignment explanation
Indices: 15875118--15875164 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
15875108 CTAACTTTGA
*
15875118 ATGATGGCATCAGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
* *
15875139 ATGAAGGCATCTGTTTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
15875160 ATGAA
1 ATGAA
15875165 TTGCATGAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (21 bp):
ATGAAGGCATCAGTCTTTGTC
Found at i:15877727 original size:43 final size:42
Alignment explanation
Indices: 15877610--15877730 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
15877600 TGACTCGGCT
* **
15877610 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCAGCC
* *
15877652 ATATGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCTAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACC-AGCC
* * *
15877695 ATGTGTGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
15877731 TGATGATGGG
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 34 0.51
43 32 0.48
ACGTcount: A:0.24, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCAGCC
Found at i:15879829 original size:14 final size:14
Alignment explanation
Indices: 15879810--15879852 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
15879800 TTGACTCACC
15879810 TAAAATAACTAATT
1 TAAAATAACTAATT
* *
15879824 TAAAATAATTAA-A
1 TAAAATAACTAATT
15879837 TAAAATATACTAATT
1 TAAAATA-ACTAATT
15879852 T
1 T
15879853 CTATGCATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 7 0.30
14 15 0.65
15 1 0.04
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATAACTAATT
Found at i:15883361 original size:29 final size:29
Alignment explanation
Indices: 15883336--15883434 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
15883326 CCAATATTAT
* *
15883336 TTGTCACTTACAAGCCATGCCTATATATA
1 TTGTCAATTACAAGCAATGCCTATATATA
*
15883365 TTGTGAATTACACA-CAATGCCTATATATA
1 TTGTCAATTACA-AGCAATGCCTATATATA
* *
15883394 TTGTCAATTACATGCAATGCCTATATATT
1 TTGTCAATTACAAGCAATGCCTATATATA
*
15883423 TTGTCAGTTACA
1 TTGTCAATTACA
15883435 CTTTATGTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
29 60 0.98
30 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (29 bp):
TTGTCAATTACAAGCAATGCCTATATATA
Found at i:15885729 original size:21 final size:21
Alignment explanation
Indices: 15885703--15885745 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
15885693 TCATCTCTTA
15885703 CCTAAAC-CTTCAACCATAAAC
1 CCTAAACAC-TCAACCATAAAC
*
15885724 CCTAAACACTCAACCCTAAAC
1 CCTAAACACTCAACCATAAAC
15885745 C
1 C
15885746 AGTGCAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (21 bp):
CCTAAACACTCAACCATAAAC
Found at i:15886392 original size:22 final size:20
Alignment explanation
Indices: 15886348--15886388 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15886338 TGCTACACGC
* *
15886348 CATACATATAATCCTAAGAT
1 CATACACATAATCCTAAAAT
15886368 CATACACATAATGCCTAAAAT
1 CATACACATAAT-CCTAAAAT
15886389 TCATTGGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (20 bp):
CATACACATAATCCTAAAAT
Found at i:15887106 original size:50 final size:50
Alignment explanation
Indices: 15887044--15887171 Score: 159
Period size: 50 Copynumber: 2.5 Consensus size: 50
15887034 CCCTTATTTT
*
15887044 AGTTAAAGTCAATTTTATATTATCAAGTTTAAAAGAAAAACAGTC-AAATA
1 AGTTAAA-TCAATTTTATATTATCAAGTTTAAAAGAAAAACAGTCAAAAAA
* **
15887094 AGTTAATATCAATTTTATATTATCATGTTTAAAAGAAAAGTAGTCAAAAAA
1 AGTTAA-ATCAATTTTATATTATCAAGTTTAAAAGAAAAACAGTCAAAAAA
* * *
15887145 AATTAACGTCAATTTTATATCATCAAG
1 AGTTAA-ATCAATTTTATATTATCAAG
15887172 AAATTAACAG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 40 0.60
51 27 0.40
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (50 bp):
AGTTAAATCAATTTTATATTATCAAGTTTAAAAGAAAAACAGTCAAAAAA
Found at i:15887188 original size:28 final size:28
Alignment explanation
Indices: 15887144--15887199 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
15887134 TAGTCAAAAA
15887144 AAATTAACGTCAATTTTATATCATCAAG
1 AAATTAACGTCAATTTTATATCATCAAG
*
15887172 AAATTAACAG-CAGTTTTATATCATCAAG
1 AAATTAAC-GTCAATTTTATATCATCAAG
15887200 TTTAAATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (28 bp):
AAATTAACGTCAATTTTATATCATCAAG
Found at i:15889586 original size:38 final size:35
Alignment explanation
Indices: 15889517--15889587 Score: 88
Period size: 38 Copynumber: 1.9 Consensus size: 35
15889507 TCCACTATAA
* *
15889517 ACTACATTTCAAGGACCAAGCATAACCTCACAAAC
1 ACTACATTTCAAGGACCAAGCACAACATCACAAAC
*
15889552 ACTACATTTTCAAGAGGATCAAGCACAACATCACAA
1 ACTACA-TTTC-A-AGGACCAAGCACAACATCACAA
15889588 TGTCACTGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 6 0.20
36 4 0.13
37 1 0.03
38 19 0.63
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.18
Consensus pattern (35 bp):
ACTACATTTCAAGGACCAAGCACAACATCACAAAC
Found at i:15889614 original size:38 final size:38
Alignment explanation
Indices: 15889572--15889660 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 38
15889562 CAAGAGGATC
* * * **
15889572 AAGCACAACATCACAATGTCACTGCCTTTTTTAGGTTA
1 AAGCACAACATCACAATATCACTACCCTTTCAAGGTTA
*
15889610 AAGCACAACCTTTCACAATATCACTACCCTTTCAAGGTTA
1 AAGCACAA-C-ATCACAATATCACTACCCTTTCAAGGTTA
15889650 AAGCACAACAT
1 AAGCACAACAT
15889661 TTCACAAAGC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
38 9 0.21
39 2 0.05
40 31 0.74
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.27
Consensus pattern (38 bp):
AAGCACAACATCACAATATCACTACCCTTTCAAGGTTA
Found at i:15889634 original size:40 final size:39
Alignment explanation
Indices: 15889582--15889703 Score: 122
Period size: 40 Copynumber: 3.1 Consensus size: 39
15889572 AAGCACAACA
*
15889582 TCACAATGTCACTGCCTTTTTTAGGTTAAAGCACAACCTT
1 TCACAATATCACT-CCTTTTTTAGGTTAAAGCACAACCTT
* ** *
15889622 TCACAATATCACTACCCTTTCAAGGTTAAAGCACAACATT
1 TCACAATATCACT-CCTTTTTTAGGTTAAAGCACAACCTT
* *
15889662 TCACAA-AGC-CTCCATCTTTTTAAGGTCAAAGCACAACCTT
1 TCACAATATCACTCC-T-TTTTT-AGGTTAAAGCACAACCTT
15889702 TC
1 TC
15889704 TACCTTTTAC
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
37 2 0.03
38 2 0.03
39 5 0.07
40 58 0.87
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (39 bp):
TCACAATATCACTCCTTTTTTAGGTTAAAGCACAACCTT
Found at i:15892407 original size:2 final size:2
Alignment explanation
Indices: 15892400--15892439 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
15892390 TTTTACTTAT
*
15892400 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
15892440 CAATTAGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:15894113 original size:32 final size:33
Alignment explanation
Indices: 15894020--15894116 Score: 90
Period size: 32 Copynumber: 2.9 Consensus size: 33
15894010 AAAAGTTGGT
* *
15894020 TGTTGGGTTTTGGTTGATCCCG-GTAAAAACCAT
1 TGTTGGGTTTTGGTTGATCCCGTG-AAAAACAAC
* * ** *
15894053 TGTTGTAGGTTGTGGTTGAGCCTTTGAAAAATAAC
1 TGTTG--GGTTTTGGTTGATCCCGTGAAAAACAAC
15894088 T-TTGGGTTTTGGTTGATCCCGTGAAAAAC
1 TGTTGGGTTTTGGTTGATCCCGTGAAAAAC
15894117 CATTGCTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
32 20 0.41
33 5 0.10
34 3 0.06
35 20 0.41
36 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (33 bp):
TGTTGGGTTTTGGTTGATCCCGTGAAAAACAAC
Found at i:15894149 original size:67 final size:67
Alignment explanation
Indices: 15894022--15894149 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 67
15894012 AAGTTGGTTG
* ** * * **
15894022 TTGGGTTTTGGTTGATCCCGGTAAAAACCATTGTTGTAGGTTGTGGTTGAGCCTTTGAAAAATAA
1 TTGGGTTTTGGTTGATCCCGGTAAAAACCATTGCTAAAGGTTGTGGCTAAGCCTACGAAAAATAA
15894087 CT
66 CT
15894089 TTGGGTTTTGGTTGATCCC-GTGAAAAACCATTGCTAAAGGTTGTGGCTAAGCCTACGAAAA
1 TTGGGTTTTGGTTGATCCCGGT-AAAAACCATTGCTAAAGGTTGTGGCTAAGCCTACGAAAA
15894150 GCCATTGTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
66 2 0.04
67 51 0.96
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCCCGGTAAAAACCATTGCTAAAGGTTGTGGCTAAGCCTACGAAAAATAA
CT
Found at i:15895095 original size:35 final size:35
Alignment explanation
Indices: 15895044--15895148 Score: 111
Period size: 35 Copynumber: 2.8 Consensus size: 35
15895034 TTGTATAGAG
**
15895044 AACAACTAAAACAAGTGAAGTGCTACTTCACGCGA
1 AACAACTAAAACAAGTGAAGCACTACTTCACGCGA
* *
15895079 AACAGCTAAAACAAGTGAAGCACTACTTCACGTAGAA
1 AACAACTAAAACAAGTGAAGCACTACTTCACG-CG-A
*
15895116 CAACTAGAACTAGAACAAGTGAAGCACTACTTC
1 -AAC---AACTAAAACAAGTGAAGCACTACTTC
15895149 TCGCAGAGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
35 29 0.50
36 1 0.02
37 1 0.02
38 3 0.05
41 24 0.41
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.17
Consensus pattern (35 bp):
AACAACTAAAACAAGTGAAGCACTACTTCACGCGA
Found at i:15895133 original size:41 final size:41
Alignment explanation
Indices: 15895047--15895165 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 41
15895037 TATAGAGAAC
* **
15895047 AACTAAAACAAGTGAAGTGCTACTTCACGC-G-A-AAC-AG
1 AACTAGAACAAGTGAAGCACTACTTCACGCAGAACAACTAG
* *
15895084 --CTAAAACAAGTGAAGCACTACTTCACGTAGAACAACTAG
1 AACTAGAACAAGTGAAGCACTACTTCACGCAGAACAACTAG
* *
15895123 AACTAGAACAAGTGAAGCACTACTTCTCGCAGAGCAACTAG
1 AACTAGAACAAGTGAAGCACTACTTCACGCAGAACAACTAG
15895164 AA
1 AA
15895166 TAAGTAGAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
35 25 0.36
36 1 0.01
37 1 0.01
38 3 0.04
39 2 0.03
41 37 0.54
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.17
Consensus pattern (41 bp):
AACTAGAACAAGTGAAGCACTACTTCACGCAGAACAACTAG
Found at i:15895502 original size:28 final size:29
Alignment explanation
Indices: 15895432--15895504 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
15895422 GCATACACTT
* *
15895432 TCTTTTCTTGTACCTATTCATGTGCAGCT
1 TCTTTTCTTGTACCTTTTCATGTGCAGCA
*
15895461 TCTTTTCTTGTACCTTTTCATGTGTA-CA
1 TCTTTTCTTGTACCTTTTCATGTGCAGCA
15895489 TCTTTTCTAT-TACCTT
1 TCTTTTCT-TGTACCTT
15895505 CTACTCGAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 15 0.38
29 25 0.62
ACGTcount: A:0.14, C:0.23, G:0.10, T:0.53
Consensus pattern (29 bp):
TCTTTTCTTGTACCTTTTCATGTGCAGCA
Found at i:15902323 original size:2 final size:2
Alignment explanation
Indices: 15902316--15902341 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15902306 TCAAATTTTA
15902316 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15902342 TAAACATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15902386 original size:2 final size:2
Alignment explanation
Indices: 15902379--15902404 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15902369 ACTAAATTTA
15902379 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15902405 TAAAACATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15902455 original size:63 final size:61
Alignment explanation
Indices: 15902314--15902436 Score: 174
Period size: 63 Copynumber: 1.9 Consensus size: 61
15902304 AATCAAATTT
* *
15902314 TAATATATATATATATATATATATATATTAAACATGTAATTTATTTAATTATTCNACTAAA
1 TAATATATATATATATATATATATATATTAAACATGTAATTTATTTAATTATTCAACCAAA
15902375 TTTAATATATATATATATATATATATATATTAAAACATGTAAATTTTATTTTAATTATTCAA
1 --TAATATATATATATATATATATATATATT-AAACATGT-AA-TTTA-TTTAATTATTCAA
15902437 ACCCAAAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
63 29 0.53
64 8 0.15
65 2 0.04
66 4 0.07
67 12 0.22
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (61 bp):
TAATATATATATATATATATATATATATTAAACATGTAATTTATTTAATTATTCAACCAAA
Found at i:15909341 original size:550 final size:550
Alignment explanation
Indices: 15908296--15909399 Score: 2068
Period size: 550 Copynumber: 2.0 Consensus size: 550
15908286 GATTCTTGGC
*
15908296 TTTAGTATGTGGCAATGTGAAGTTTATATAGCCGTATCAAGTTTTTCACATTATGGATGCATTTA
1 TTTAGTATGTGACAATGTGAAGTTTATATAGCCGTATCAAGTTTTTCACATTATGGATGCATTTA
15908361 TGAGAGGCTACTCATTTTACATTTCAACTTAAGATGTTAAGCATCATAATATAATAAAACTTTAT
66 TGAGAGGCTACTCATTTTACATTTCAACTTAAGATGTTAAGCATCATAATATAATAAAACTTTAT
15908426 AAAAAAAAGAACAAAATAAACTAAAACTAGGGACTATGGTAAGGACACGAGCAATTTAATCTTGC
131 AAAAAAAAGAACAAAATAAACTAAAACTAGGGACTATGGTAAGGACACGAGCAATTTAATCTTGC
15908491 ATAATGTCCTCATCACTTGTCTCCAACTCCATATCCACTGATGTGGTTGTCACATTTGACCTGAT
196 ATAATGTCCTCATCACTTGTCTCCAACTCCATATCCACTGATGTGGTTGTCACATTTGACCTGAT
* *
15908556 TAGCTAGCTTTCTTGCATTACATTATCCACTCTTTCATGTGCCACTCCATTAATCCCTACCTCAA
261 TAGCTAGCTTTCCTGCATTACATTATCCACTCTTTCATGTGCCACTCCATTAATCCCTACCCCAA
*
15908621 TATTCTCTACCACTATCCCTTGAGTCTAGGTGGTTGTGTTGGGTGAAAAGGTTTATGGTAAGGTA
326 TATTCTCTACCACTATCCCTTGAGTCTAGGTGGTTGTGTTGGGTGAAAAGGTTCATGGTAAGGTA
15908686 ATGGCCTTGCTTCTATTTGTTTTAGATCCTGCATGGGTACTTATGATGTCTCAACCGATAACACT
391 ATGGCCTTGCTTCTATTTGTTTTAGATCCTGCATGGGTACTTATGATGTCTCAACCGATAACACT
*
15908751 AATTTATCTTTGAGTTGATTCGGTGTTTTATTTATCTCAGATGAAGCTATTCTAACAAG-ACCTT
456 AATTTATCTTTGAGTTGATTCAGTGTTTTATTTATCTCAGATGAAGCTATTCTAACAAGAACC-T
15908815 ACACCTTCACTTTCCCTACAGCTTTGAGGGG
520 ACACCTTCACTTTCCCTACAGCTTTGAGGGG
15908846 TTTAGTATGTGACAATGTGAAGTTTATATAGCCGTATCAAGTTTTTCACATTATGGATGCATTTA
1 TTTAGTATGTGACAATGTGAAGTTTATATAGCCGTATCAAGTTTTTCACATTATGGATGCATTTA
*
15908911 TGAGAGGCTACTTATTTTACATTTCAACTTAAGATGTTAAGCATCATAATATAATAAAACTTTAT
66 TGAGAGGCTACTCATTTTACATTTCAACTTAAGATGTTAAGCATCATAATATAATAAAACTTTAT
15908976 AAAAAAAAGAACAAAATAAACTAAAACTAGGGACTATGGTAAGGACACGAGCAATTTAATCTTGC
131 AAAAAAAAGAACAAAATAAACTAAAACTAGGGACTATGGTAAGGACACGAGCAATTTAATCTTGC
15909041 ATAATGTCCTCATCACTTGTCTCCAACTCCATATCCACTGATGTGGTTGTCACATTTGACCTGAT
196 ATAATGTCCTCATCACTTGTCTCCAACTCCATATCCACTGATGTGGTTGTCACATTTGACCTGAT
*
15909106 TAGGTAGCTTTCCTGCATTACATTATCCACT-TATTCATGTGCCACTCCATTAATCCCTACCCCA
261 TAGCTAGCTTTCCTGCATTACATTATCCACTCT-TTCATGTGCCACTCCATTAATCCCTACCCCA
*
15909170 ATATTCTCTACCACTGTCCCTTGAGTCTAGGTGGTTGTGTTGGGTGAAAAGGTTCATGGTAAGGT
325 ATATTCTCTACCACTATCCCTTGAGTCTAGGTGGTTGTGTTGGGTGAAAAGGTTCATGGTAAGGT
15909235 AATGGCCTTGCTTCTATTTGTTTTAGATCCTGCATGGGTACTTATGATGTCTCAACCGATAACAC
390 AATGGCCTTGCTTCTATTTGTTTTAGATCCTGCATGGGTACTTATGATGTCTCAACCGATAACAC
* *
15909300 TAATTTATCTTTGAGTTGATTCAGTGTTTTATTTGTCTCAGATGATGCTATTCTAACAAGAACCT
455 TAATTTATCTTTGAGTTGATTCAGTGTTTTATTTATCTCAGATGAAGCTATTCTAACAAGAACCT
**
15909365 ACACCTTCACTTTCCCTGTAGCTTTGAGGGG
520 ACACCTTCACTTTCCCTACAGCTTTGAGGGG
15909396 TTTA
1 TTTA
15909400 TATCTCTATT
Statistics
Matches: 540, Mismatches: 12, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
549 1 0.00
550 536 0.99
551 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (550 bp):
TTTAGTATGTGACAATGTGAAGTTTATATAGCCGTATCAAGTTTTTCACATTATGGATGCATTTA
TGAGAGGCTACTCATTTTACATTTCAACTTAAGATGTTAAGCATCATAATATAATAAAACTTTAT
AAAAAAAAGAACAAAATAAACTAAAACTAGGGACTATGGTAAGGACACGAGCAATTTAATCTTGC
ATAATGTCCTCATCACTTGTCTCCAACTCCATATCCACTGATGTGGTTGTCACATTTGACCTGAT
TAGCTAGCTTTCCTGCATTACATTATCCACTCTTTCATGTGCCACTCCATTAATCCCTACCCCAA
TATTCTCTACCACTATCCCTTGAGTCTAGGTGGTTGTGTTGGGTGAAAAGGTTCATGGTAAGGTA
ATGGCCTTGCTTCTATTTGTTTTAGATCCTGCATGGGTACTTATGATGTCTCAACCGATAACACT
AATTTATCTTTGAGTTGATTCAGTGTTTTATTTATCTCAGATGAAGCTATTCTAACAAGAACCTA
CACCTTCACTTTCCCTACAGCTTTGAGGGG
Found at i:15912758 original size:29 final size:28
Alignment explanation
Indices: 15912726--15912789 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
15912716 CTTTTAAATA
* *
15912726 TATTTTAATGTCATATTTTTTTTATTTTT
1 TATTATAATCTCATA-TTTTTTTATTTTT
*
15912755 TATTATAATCTTATATTTTTTTATTTTT
1 TATTATAATCTCATATTTTTTTATTTTT
15912783 TAATTAT
1 T-ATTAT
15912790 TTTTTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (28 bp):
TATTATAATCTCATATTTTTTTATTTTT
Found at i:15912810 original size:21 final size:21
Alignment explanation
Indices: 15912745--15912813 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 21
15912735 GTCATATTTT
* *
15912745 TTTTATTTTTTAT-TATAATC
1 TTTTATTTTTTATATATATTA
* * *
15912765 TTATATTTTTT-TATTTTTTA
1 TTTTATTTTTTATATATATTA
*
15912785 -ATTATTTTTTATATATATTA
1 TTTTATTTTTTATATATATTA
15912805 TTTTATTTT
1 TTTTATTTT
15912814 ATATTTNGTA
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
19 9 0.25
20 20 0.56
21 7 0.19
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTATTTTTTATATATATTA
Found at i:15912819 original size:39 final size:38
Alignment explanation
Indices: 15912738--15912819 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 38
15912728 TTTTAATGTC
*
15912738 ATATTTTTTTTATTTTTTATTATAATCTTATATTTTTT
1 ATATTTTTTTTATTTTTTATTATAATATTATATTTTTT
*
15912776 -TATTTTTTAATTATTTTTTA-TAT-ATATTATTTTATTTT
1 ATATTTTTT--TTATTTTTTATTATAATATTATATT-TTTT
15912814 ATATTT
1 ATATTT
15912820 NGTAATAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
37 16 0.42
38 7 0.18
39 15 0.39
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (38 bp):
ATATTTTTTTTATTTTTTATTATAATATTATATTTTTT
Found at i:15914583 original size:2 final size:2
Alignment explanation
Indices: 15914568--15914613 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
15914558 TTTAAATGAT
*
15914568 GA GA -A GA G- GA GA GA GA GA GA GA GA G- GA AA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15914607 GTA GA GA
1 G-A GA GA
15914614 AAAAAAAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
1 3 0.08
2 33 0.87
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (2 bp):
GA
Found at i:15914594 original size:17 final size:17
Alignment explanation
Indices: 15914568--15914607 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
15914558 TTTAAATGAT
*
15914568 GAGA-AGAGGAGAGAGA
1 GAGAGAGAGGAAAGAGA
15914584 GAGAGAGAGGAAAGAGA
1 GAGAGAGAGGAAAGAGA
15914601 GAGAGAG
1 GAGAGAG
15914608 TAGAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (17 bp):
GAGAGAGAGGAAAGAGA
Found at i:15914875 original size:21 final size:21
Alignment explanation
Indices: 15914851--15914892 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15914841 TGAGTTTCAA
*
15914851 GTATCGATACCTTATGA-ACAT
1 GTATCGACACCTT-TGAGACAT
*
15914872 GTATTGACACCTTTGAGACAT
1 GTATCGACACCTTTGAGACAT
15914893 AATGCTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (21 bp):
GTATCGACACCTTTGAGACAT
Found at i:15917690 original size:88 final size:87
Alignment explanation
Indices: 15917587--15917748 Score: 234
Period size: 88 Copynumber: 1.9 Consensus size: 87
15917577 ATTAGGTGCC
** * * * *
15917587 TGAATATTTGTTGAGCATTGTGTGAGTTCTTTATAAGCATTACGTGACTAAATATATGTTGAGCG
1 TGAATATTTGTTGAGCATTGCATGAGTTCTTTACAAGCATTACATAACTAAATATATGTT-AGCA
15917652 TTGCGTGACAGTTACTACATGAT
65 TTGCGTGACAGTTACTACATGAT
* * *
15917675 TGAATATTTGTTGAGCATTGCATGAGTTCTTTACATGCATTACATAACTGAATATTTGTTAGCAT
1 TGAATATTTGTTGAGCATTGCATGAGTTCTTTACAAGCATTACATAACTAAATATATGTTAGCAT
15917740 TGCGTGACA
66 TGCGTGACA
15917749 AGCGTTACGT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
87 13 0.20
88 52 0.80
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (87 bp):
TGAATATTTGTTGAGCATTGCATGAGTTCTTTACAAGCATTACATAACTAAATATATGTTAGCAT
TGCGTGACAGTTACTACATGAT
Found at i:15918435 original size:30 final size:30
Alignment explanation
Indices: 15918348--15918437 Score: 153
Period size: 30 Copynumber: 3.0 Consensus size: 30
15918338 GGAGGTGCCT
*
15918348 TTGAGTGTGAGGGACCAGTTGCACATAATC
1 TTGAGTGTGAGGGACCAGTTGCACATATTC
* *
15918378 TTAAGTGTGAGGGACCAATTGCACATATTC
1 TTGAGTGTGAGGGACCAGTTGCACATATTC
15918408 TTGAGTGTGAGGGACCAGTTGCACATATTC
1 TTGAGTGTGAGGGACCAGTTGCACATATTC
15918438 CAGCAGGAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (30 bp):
TTGAGTGTGAGGGACCAGTTGCACATATTC
Found at i:15919287 original size:111 final size:112
Alignment explanation
Indices: 15919073--15919505 Score: 478
Period size: 111 Copynumber: 3.8 Consensus size: 112
15919063 GGTGCGTGAC
* * * *
15919073 TGACTTATGCAATTCATGTGTTGCTTT-GAGGCTATTGTTCAGTAGTTTTTTAAGCAGTGCGTGA
1 TGACTTGTGCAATTCATGTGTT-ATTTAGAGGCTTTTGTTCAGTAGTTTTTTAAGC-TTGCGTGA
* *
15919137 CTGGTTTTTATATATTGCGTTGCCTGTTGTAGCT-AGAGTGGTGGCGCG
64 CTGGTTTTTATATATTGCGTTACCTGTTGTAGATGAGAGTGGTGGCGCG
* * * * *
15919185 TGACTTGTGCAATTCATGTATTGTTTTGAGGCTTTTGTTCAGTACTTTTTTAGGCTTGCGTGACT
1 TGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAGTTTTTTAAGCTTGCGTGACT
* * *
15919250 GGTTTTTATATATTGCGTTACTTGTTGTAG-TGTGAGTGGTGGCGCA
66 GGTTTTTATATATTGCGTTACCTGTTGTAGATGAGAGTGGTGGCGCG
* * * * * * * *
15919296 AGACTTGTGCAATCCATGTGTTATTTAGGGGCTTATGTTCAGTAG-TTTTTAGGGTTACGTGACC
1 TGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAGTTTTTTAAGCTTGCGTGACT
** * *
15919360 CATTTTTATATATTGCGTTACCTGTTGTTATGTATAACGAGAGTGGTTGCACG
66 GGTTTTTATATATTGCGTTACCTGTTG-TA-G-AT---GAGAGTGGTGGCGCG
** *
15919413 TGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAGTTTTTTAATATTGCGTTACT
1 TGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAGTTTTTTAAGCTTGCGTGACT
* * *
15919478 GGTTTTTATGTATTACGTGACCTGTTGT
66 GGTTTTTATATATTGCGTTACCTGTTGT
15919506 TATATATTGC
Statistics
Matches: 267, Mismatches: 44, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
110 41 0.15
111 91 0.34
112 46 0.17
114 1 0.00
117 53 0.20
118 35 0.13
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.44
Consensus pattern (112 bp):
TGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAGTTTTTTAAGCTTGCGTGACT
GGTTTTTATATATTGCGTTACCTGTTGTAGATGAGAGTGGTGGCGCG
Found at i:15919544 original size:118 final size:117
Alignment explanation
Indices: 15919297--15919545 Score: 291
Period size: 118 Copynumber: 2.1 Consensus size: 117
15919287 GGTGGCGCAA
* * * *
15919297 GACTTGTGCAATCCATGTGTTATTTAGGGGCTTATGTTCAGTAGTTTTTAGGGTTACGTGACCCA
1 GACTTGTGCAATTCATGTGTTATTTAGAGGCTTATGTTCAGTAGTTTTTAAGATTACGTGACCCA
* * * * *
15919362 TTTTTATATATTGCGTTACCTGTTGTTATGTATAACGAGAGTGGTTGCACGT
66 TTTTTATATATTACGTGACCTGTTGTTATATATAACGAGAGCGGTGGCACGT
* * * * **
15919414 GACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAGTTTTTTAATATTGCGTTACTG
1 GACTTGTGCAATTCATGTGTTATTTAGAGGCTTATGTTCAGTAG-TTTTTAAGATTACGTGACCC
* * ** **
15919479 GTTTTTATGTATTACGTGACCTGTTGTTATATATTGCGAGAGCGGTGGCGTGT
65 ATTTTTATATATTACGTGACCTGTTGTTATATATAACGAGAGCGGTGGCACGT
*
15919532 GACTTGTACAATTC
1 GACTTGTGCAATTC
15919546 GCCTCTTGTT
Statistics
Matches: 109, Mismatches: 22, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
117 41 0.38
118 68 0.62
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (117 bp):
GACTTGTGCAATTCATGTGTTATTTAGAGGCTTATGTTCAGTAGTTTTTAAGATTACGTGACCCA
TTTTTATATATTACGTGACCTGTTGTTATATATAACGAGAGCGGTGGCACGT
Found at i:15919558 original size:118 final size:118
Alignment explanation
Indices: 15919362--15919577 Score: 254
Period size: 118 Copynumber: 1.8 Consensus size: 118
15919352 ACGTGACCCA
* * * * * *
15919362 TTTTTATATATTGCGTTACCTGTTGTTATGTATAACGAGAGTGGTTGCACGTGACTTGTGCAATT
1 TTTTTATATATTACGTGACCTGTTGTTATATATAACGAGAGCGGTGGCACGTGACTTGTACAATT
** * * *
15919427 CATGTGTTATTTAGAG-GCTTTTGTTCAGTAGTTTTTTAATATTGCGTTACTGG
66 CACCTCTTATTTAG-GTGCGTTTGTTCACTAGTTTTTTAATATTGCGTTACTGG
* ** **
15919480 TTTTTATGTATTACGTGACCTGTTGTTATATATTGCGAGAGCGGTGGCGTGTGACTTGTACAATT
1 TTTTTATATATTACGTGACCTGTTGTTATATATAACGAGAGCGGTGGCACGTGACTTGTACAATT
* *
15919545 CGCCTCTTGTTTAGGTGCGTTTGTTCACTAGTT
66 CACCTCTTATTTAGGTGCGTTTGTTCACTAGTT
15919578 ATTAAGCATT
Statistics
Matches: 79, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
117 1 0.01
118 78 0.99
ACGTcount: A:0.19, C:0.13, G:0.24, T:0.44
Consensus pattern (118 bp):
TTTTTATATATTACGTGACCTGTTGTTATATATAACGAGAGCGGTGGCACGTGACTTGTACAATT
CACCTCTTATTTAGGTGCGTTTGTTCACTAGTTTTTTAATATTGCGTTACTGG
Found at i:15925377 original size:21 final size:21
Alignment explanation
Indices: 15925353--15925477 Score: 72
Period size: 21 Copynumber: 5.7 Consensus size: 21
15925343 AACAAAACCT
15925353 AGTCACGCAATGCCCAAAGTA
1 AGTCACGCAATGCCCAAAGTA
* *
15925374 AGTCACGCAATGCCTACCAACT-
1 AGTCACGCAATGCC--CAAAGTA
* * * *
15925396 ACTCACGTAATGCCTTAACAGAAA
1 AGTCACGCAATGCC-CAA-AG-TA
* *
15925420 CTAGTCACTCAATGTCCAAAGTA
1 --AGTCACGCAATGCCCAAAGTA
* * *
15925443 AGTCTCGCAATGTCCAAGGTA
1 AGTCACGCAATGCCCAAAGTA
*
15925464 AGTCACACAATGCC
1 AGTCACGCAATGCC
15925478 TCATGTTAAA
Statistics
Matches: 76, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
21 44 0.58
22 13 0.17
23 5 0.07
24 2 0.03
25 2 0.03
26 10 0.13
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (21 bp):
AGTCACGCAATGCCCAAAGTA
Found at i:15925632 original size:15 final size:16
Alignment explanation
Indices: 15925612--15925647 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
15925602 AGAATACAAG
*
15925612 AAGAAGATA-AAAAAA
1 AAGAAGAAAGAAAAAA
15925627 AAGAAGAAAGAAAAAA
1 AAGAAGAAAGAAAAAA
15925643 AAGAA
1 AAGAA
15925648 TGGGAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AAGAAGAAAGAAAAAA
Found at i:15925632 original size:18 final size:18
Alignment explanation
Indices: 15925609--15925644 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
15925599 TAAAGAATAC
15925609 AAGAAG-AAGATAAAAAAA
1 AAGAAGAAAGA-AAAAAAA
15925627 AAGAAGAAAGAAAAAAAA
1 AAGAAGAAAGAAAAAAAA
15925645 GAATGGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (18 bp):
AAGAAGAAAGAAAAAAAA
Found at i:15929757 original size:47 final size:47
Alignment explanation
Indices: 15929688--15929788 Score: 184
Period size: 47 Copynumber: 2.1 Consensus size: 47
15929678 CAATATCAAA
*
15929688 TACTCACGCGATTCTAAATCTTAATGGTTCATGAGATCCATATTTAC
1 TACTCACGCGATTCTAAATCTTAACGGTTCATGAGATCCATATTTAC
*
15929735 TACTCACGCGATTCTAAATCTTAACGGTTCATGAGATTCATATTTAC
1 TACTCACGCGATTCTAAATCTTAACGGTTCATGAGATCCATATTTAC
15929782 TACTCAC
1 TACTCAC
15929789 ACGACTCCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (47 bp):
TACTCACGCGATTCTAAATCTTAACGGTTCATGAGATCCATATTTAC
Found at i:15930167 original size:23 final size:23
Alignment explanation
Indices: 15930135--15930200 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 23
15930125 TTATCATATG
*
15930135 AATGAATACAAAGAATAATATGTA
1 AATG-ATACAAAGAATAATATGGA
15930159 AATGATACAACAAAGAATAATATGGA
1 AATGAT---ACAAAGAATAATATGGA
15930185 AATGATAC--AGAATAAT
1 AATGATACAAAGAATAAT
15930201 GTTACTATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 8 0.21
23 4 0.11
24 4 0.11
26 22 0.58
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.23
Consensus pattern (23 bp):
AATGATACAAAGAATAATATGGA
Found at i:15930173 original size:26 final size:26
Alignment explanation
Indices: 15930142--15930193 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
15930132 ATGAATGAAT
*
15930142 ACAAAGAATAATATGTAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
15930168 ACAAAGAATAATATGGAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
15930194 GAATAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATGATACA
Found at i:15931950 original size:24 final size:24
Alignment explanation
Indices: 15931923--15931968 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15931913 CAGCATGAAA
* *
15931923 GGCAGCACCCGAAGCAGGAGGAAG
1 GGCAGCACCAGAAGCAAGAGGAAG
*
15931947 GGCAGCAGCAGAAGCAAGAGGA
1 GGCAGCACCAGAAGCAAGAGGA
15931969 GCAGCAGCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.22, G:0.41, T:0.00
Consensus pattern (24 bp):
GGCAGCACCAGAAGCAAGAGGAAG
Found at i:15944565 original size:10 final size:10
Alignment explanation
Indices: 15944526--15944570 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
15944516 AATATCATTC
*
15944526 ATATAAATAC
1 ATATAAATAT
15944536 ATATAAATAT
1 ATATAAATAT
*
15944546 TTATAAATAT
1 ATATAAATAT
*
15944556 ATATATATAT
1 ATATAAATAT
15944566 A-ATAA
1 ATATAA
15944571 GCCACATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 3 0.10
10 27 0.90
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATAAATAT
Found at i:15946490 original size:28 final size:28
Alignment explanation
Indices: 15946458--15946522 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
15946448 TAAGACAAAA
* *
15946458 AAATAT-TTTATCTTGTTTAAATTGAGAC
1 AAATATGTTT-TCTTGTCTAAATTAAGAC
15946486 AAATATGTTTTCTTGTCTAAATTAAGAC
1 AAATATGTTTTCTTGTCTAAATTAAGAC
*
15946514 AAAAATGTT
1 AAATATGTT
15946523 AAAGCTGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 30 0.91
29 3 0.09
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (28 bp):
AAATATGTTTTCTTGTCTAAATTAAGAC
Found at i:15952369 original size:47 final size:48
Alignment explanation
Indices: 15952295--15952748 Score: 401
Period size: 47 Copynumber: 9.7 Consensus size: 48
15952285 GCAGGCCATA
* * * * *
15952295 TGTGACATGACATGGTGGGAATGTGTGACACGACAAG-GTTTAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGACAAGCGTTCAGAGTT
*
15952342 TGTGACACGCCATGGAGGGAATTTGTGACACGAC-AGCGTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGACAAGCGTTCAGAGTT
* * ** * * *
15952389 TCTAACACGCTGTGGAGGGAATCTGTGACACGAC-AGTGTTCAAAGAT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGACAAGCGTTCAGAGTT
* *
15952436 TGTGACACAG-CATGGAGGGAATCTATGACAC-ACTAA-CGTTCAAAGTT
1 TGTGACAC-GCCATGGAGGGAATCTGTGACACGAC-AAGCGTTCAGAGTT
* ** * * *
15952483 TGTGACATGCCATGGAAAGAATCTATGACACGAC-AGCATTCAGAATT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGACAAGCGTTCAGAGTT
* * *
15952530 TGTGACACGCCATGGAGGGAATTTGTGACA-GTC-AGTGTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGACAAGCGTTCAGAGTT
* * * * * *
15952576 TGTGACATGCCATGGAGAGAATCTGTGATATGACAAG-GTTAAAAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGACAAGCGTTCAGAGTT
* ** * **
15952623 TGTGACATGCCATGGAAAGAATCTGTGATACG-GTAGCGTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGACAAGCGTTCAGAGTT
* * * * *
15952670 TGTGACACACCATGAAGGGAATCTATGACACG-CCAGAGTTCAGAGTT
1 TGTGACACGCCATGGAGGGAATCTGTGACACGACAAGCGTTCAGAGTT
* * * *
15952717 TGTGACACCCCATTGAAGGAATCTGTAACACG
1 TGTGACACGCCATGGAGGGAATCTGTGACACG
15952749 GTAGGGTTTA
Statistics
Matches: 333, Mismatches: 64, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
46 46 0.14
47 281 0.84
48 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (48 bp):
TGTGACACGCCATGGAGGGAATCTGTGACACGACAAGCGTTCAGAGTT
Found at i:15952602 original size:23 final size:23
Alignment explanation
Indices: 15952481--15952650 Score: 85
Period size: 23 Copynumber: 7.3 Consensus size: 23
15952471 ACGTTCAAAG
15952481 TTTGTGACATGCCATGGAAAGAA
1 TTTGTGACATGCCATGGAAAGAA
* * * * * *
15952504 TCTATGACACGACA-GCATTCAGAA
1 TTTGTGACATGCCATGGA--AAGAA
* **
15952528 TTTGTGACACGCCATGGAGGGAA
1 TTTGTGACATGCCATGGAAAGAA
* *** *
15952551 TTTGTGACA-GTCAGTGTTCAGAG
1 TTTGTGACATGCCA-TGGAAAGAA
*
15952574 TTTGTGACATGCCATGGAGAGAA
1 TTTGTGACATGCCATGGAAAGAA
* * * * *
15952597 TCTGTGATATGACAAGGTTAAA-AG
1 TTTGTGACATGCCATGG--AAAGAA
15952621 TTTGTGACATGCCATGGAAAGAA
1 TTTGTGACATGCCATGGAAAGAA
*
15952644 TCTGTGA
1 TTTGTGA
15952651 TACGGTAGCG
Statistics
Matches: 104, Mismatches: 35, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
22 8 0.08
23 60 0.58
24 32 0.31
25 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (23 bp):
TTTGTGACATGCCATGGAAAGAA
Found at i:15952694 original size:187 final size:188
Alignment explanation
Indices: 15952320--15952748 Score: 474
Period size: 187 Copynumber: 2.3 Consensus size: 188
15952310 TGGGAATGTG
* *
15952320 TGACACGACA-AGGTTTAGAGTTTGTGACACGCCATGGAGGGAATTTGTGACACGACAGCGTTCA
1 TGACACGACAGA-GTTCAGAATTTGTGACACGCCATGGAGGGAATTTGTGACACGACAGCGTTCA
** * *
15952384 GAGTTTCTAACACGCTGTGGAGGGAATCTGTGACACGACAGTGTTCAAAGATTGTGACACAGCAT
65 GAGTTTCTAACACGCCATGGAGAGAATCTGTGACACGACAGTGTTAAAAGATTGTGACACAGCAT
** **
15952449 GGAGGGAATCTATGACACACTAACGTTCAAAGTTTGTGACATGCCATGGAAAGAATCTA
130 GGAAAGAATCTATGACACACTAACGTTCAAAGTTTGTGACACACCATGGAAAGAATCTA
* *
15952508 TGACACGACAGCA-TTCAGAATTTGTGACACGCCATGGAGGGAATTTGTGACA-GTCAGTGTTCA
1 TGACACGACAG-AGTTCAGAATTTGTGACACGCCATGGAGGGAATTTGTGACACGACAGCGTTCA
* * * * * * *
15952571 GAGTTTGTGACATGCCATGGAGAGAATCTGTGATATGACAAG-GTTAAAAGTTTGTGACA-TGCC
65 GAGTTTCTAACACGCCATGGAGAGAATCTGTGACACGAC-AGTGTTAAAAGATTGTGACACAG-C
* * ** * * *
15952634 ATGGAAAGAATCTGTGATACGGTAGCGTTCAGAGTTTGTGACACACCAT-GAAGGGAATCTA
128 ATGGAAAGAATCTATGACACACTAACGTTCAAAGTTTGTGACACACCATGGAA-AGAATCTA
* * * * * * *
15952695 TGACACGCCAGAGTTCAGAGTTTGTGACACCCCATTGAAGGAATCTGTAACACG
1 TGACACGACAGAGTTCAGAATTTGTGACACGCCATGGAGGGAATTTGTGACACG
15952749 GTAGGGTTTA
Statistics
Matches: 201, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
186 5 0.02
187 145 0.72
188 50 0.25
190 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (188 bp):
TGACACGACAGAGTTCAGAATTTGTGACACGCCATGGAGGGAATTTGTGACACGACAGCGTTCAG
AGTTTCTAACACGCCATGGAGAGAATCTGTGACACGACAGTGTTAAAAGATTGTGACACAGCATG
GAAAGAATCTATGACACACTAACGTTCAAAGTTTGTGACACACCATGGAAAGAATCTA
Found at i:15952741 original size:94 final size:94
Alignment explanation
Indices: 15952320--15952814 Score: 409
Period size: 94 Copynumber: 5.3 Consensus size: 94
15952310 TGGGAATGTG
* * **
15952320 TGACACGACA-AGGTTTAGAGTTTGTGACACGCCATGGAGGGAATTTGTGACACGACAGCGTTCA
1 TGACACGACAGA-GTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGGTAGCGTTCA
* * ** * * *
15952384 GAGTTTCTAACACGCTGTGGAGGGAATCTG
65 GAGTTTGTGACACGCCATGAAGAGAATCTA
* * * * ** *
15952414 TGACACGACAGTGTTCAAAGATTGTGACACAG-CATGGAGGGAATCTATGACACACTAACGTTCA
1 TGACACGACAGAGTTCAGAGTTTGTGACAC-GCCATGGAGGGAATCTGTGACACGGTAGCGTTCA
* *
15952478 AAGTTTGTGACATGCCATGGAA-AGAATCTA
65 GAGTTTGTGACACGCCAT-GAAGAGAATCTA
* * *
15952508 TGACACGACAGCA-TTCAGAATTTGTGACACGCCATGGAGGGAATTTGTGACA--GTCAGTGTTC
1 TGACACGACAG-AGTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGGT-AGCGTTC
* * *
15952570 AGAGTTTGTGACATGCCATGGAGAGAATCTG
64 AGAGTTTGTGACACGCCATGAAGAGAATCTA
* * * * * ** *
15952601 TGATATGACA-AGGTTAAAAGTTTGTGACATGCCATGGAAAGAATCTGTGATACGGTAGCGTTCA
1 TGACACGACAGA-GTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGGTAGCGTTCA
* *
15952665 GAGTTTGTGACACACCATGAAGGGAATCTA
65 GAGTTTGTGACACGCCATGAAGAGAATCTA
* * * * * * *
15952695 TGACACGCCAGAGTTCAGAGTTTGTGACACCCCATTGAAGGAATCTGTAACACGGTAGGGTTTAG
1 TGACACGACAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGGTAGCGTTCAG
* * *
15952760 AGTTTGTCAGACTCCATG--GAG-ATCTA
66 AGTTTGTGACACGCCATGAAGAGAATCTA
* * *
15952786 TGACACGGAAAG-GTTTAGAGTGTGTGACA
1 TGACAC-GACAGAGTTCAGAGTTTGTGACA
15952815 GGGAAGGGTT
Statistics
Matches: 320, Mismatches: 68, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
91 27 0.08
92 8 0.03
93 70 0.22
94 209 0.65
95 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (94 bp):
TGACACGACAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGGTAGCGTTCAG
AGTTTGTGACACGCCATGAAGAGAATCTA
Done.