Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 82 of 100
Found at i:14612077 original size:25 final size:24
Alignment explanation
Indices: 14612039--14612086 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
14612029 TATTCAAGGC
14612039 ATTTTTGGCCAAAAATACCTTCTA
1 ATTTTTGGCCAAAAATACCTTCTA
14612063 ATTTTTGGCCAAAAATACCTTCTA
1 ATTTTTGGCCAAAAATACCTTCTA
14612087 TAACTCACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (24 bp):
ATTTTTGGCCAAAAATACCTTCTA
Found at i:14612603 original size:64 final size:64
Alignment explanation
Indices: 14612430--14612868 Score: 327
Period size: 64 Copynumber: 6.7 Consensus size: 64
14612420 AATATTGAAT
** * *
14612430 GGGATTATTGAAGGTGTTTCTGACCAAAAATACCTTCAATAATCCTCTCAATAAATTTTTATGA
1 GGGATTATTGAAGGCATTTTTGACCAAAAATGCCTTCAATAATCCTCTCAATAAATTTTTATGA
** * * * * *
14612494 GAAATTATTGAAGGCATTTTTTACTAAAAGTTCCTTCAATAATCCTCTCAATAAATTTTTATAA
1 GGGATTATTGAAGGCATTTTTGACCAAAAATGCCTTCAATAATCCTCTCAATAAATTTTTATGA
* * * * * *
14612558 GGGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTTAATTATCCTTTC--CAAATTTTGT-TGA
1 GGGATTATTGAAGGCATTTTTGACCAAAAATGCCTTCAATAATCCTCTCAATAAATTTT-TATGA
** *
14612620 GGAGATTATTGAAAACATTTTTGGCCAAAAATGCCTTCCAA-AATACCTTCAATATTCTTCTTAA
1 GG-GATTATTGAAGGCATTTTTGACCAAAAATGCCTT-CAATAAT--C--C-----TC-TC--AA
14612684 TAAATTTTTATGA
52 TAAATTTTTATGA
* ** ** * * *
14612697 GAGATTATTGAAGGTGTTTTTGGTCAAAAATGCCTTTACTAATCC-CTTC--CAAATTTTGT-TG
1 GGGATTATTGAAGGCATTTTTGACCAAAAATGCCTTCAATAATCCTC-TCAATAAATTTT-TATG
14612758 A
64 A
* * ** *
14612759 GGAGGTTATTGAAGGCATTTTTAACCAAAAATGGTTTCAATAATCCTCTCAATAAATTTTTATGT
1 GG-GATTATTGAAGGCATTTTTGACCAAAAATGCCTTCAATAATCCTCTCAATAAATTTTTATGA
* ** *
14612824 GGAATTATTGAAGGTGTTTTTGACCAAAAATGCTTTCAATAATCC
1 GGGATTATTGAAGGCATTTTTGACCAAAAATGCCTTCAATAATCC
14612869 CTTTCAAATT
Statistics
Matches: 292, Mismatches: 58, Indels: 50
0.73 0.14 0.12
Matches are distributed among these distances:
62 22 0.08
63 70 0.24
64 133 0.46
65 12 0.04
66 4 0.01
67 1 0.00
72 2 0.01
73 2 0.01
74 1 0.00
75 1 0.00
76 33 0.11
77 11 0.04
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (64 bp):
GGGATTATTGAAGGCATTTTTGACCAAAAATGCCTTCAATAATCCTCTCAATAAATTTTTATGA
Found at i:14612672 original size:127 final size:129
Alignment explanation
Indices: 14612430--14612895 Score: 394
Period size: 139 Copynumber: 3.6 Consensus size: 129
14612420 AATATTGAAT
* * * * * *
14612430 GGGATTATTGAAGGTGTTTCTGACCAAAAATACCTTCAATAATCCTCTCAATAAATTTT-TATGA
1 GGGATTATTGAAGGTGTTTTTGGCCAAAAATGCCTTTAATAATCCTTTC--CAAATTTTGT-TGA
* ** * * * *
14612494 -GAAATTATTGAAGGCATTTTTTACTAAAAGTTCCTT-CAATAAT-C-CTCTCAATAAATTTTTA
63 GGAGATTATTGAAAACATTTTTAACCAAAA-ATGCTTCCAATAATCCACTCTCAATAAATTTTTA
*
14612555 TAA
127 TGA
** * *
14612558 GGGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTTAATTATCCTTTCCAAATTTTGTTGAGGA
1 GGGATTATTGAAGGTGTTTTTGGCCAAAAATGCCTTTAATAATCCTTTCCAAATTTTGTTGAGGA
** *
14612623 GATTATTGAAAACATTTTTGGCCAAAAATGCCTTCCAA-AATACCTTCAATATTCTTCTTAATAA
66 GATTATTGAAAACATTTTTAACCAAAAATG-CTTCCAATAAT--C--C---A--C-TCTCAATAA
14612687 ATTTTTATGA
120 ATTTTTATGA
* * * *
14612697 GAGATTATTGAAGGTGTTTTTGGTCAAAAATGCCTTTACTAATCCCTTCCAAATTTTGTTGAGGA
1 GGGATTATTGAAGGTGTTTTTGGCCAAAAATGCCTTTAATAATCCTTTCCAAATTTTGTTGAGGA
* ** * * *
14612762 GGTTATTGAAGGCATTTTTAACCAAAAATGGTTTCAATAAT-C-CTCTCAATAAATTTTTATGT
66 GATTATTGAAAACATTTTTAACCAAAAATGCTTCCAATAATCCACTCTCAATAAATTTTTATGA
* * *
14612824 GGAATTATTGAAGGTGTTTTTGACCAAAAATG-CTTTCAATAATCCCTTT-CAAATTTTATTGAG
1 GGGATTATTGAAGGTGTTTTTGGCCAAAAATGCCTTT-AATAAT-CCTTTCCAAATTTTGTTGAG
*
14612887 GGGATTATT
64 GAGATTATT
14612896 AAAGGAATCC
Statistics
Matches: 273, Mismatches: 46, Indels: 39
0.76 0.13 0.11
Matches are distributed among these distances:
126 15 0.05
127 100 0.37
128 48 0.18
132 1 0.00
134 1 0.00
138 6 0.02
139 102 0.37
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (129 bp):
GGGATTATTGAAGGTGTTTTTGGCCAAAAATGCCTTTAATAATCCTTTCCAAATTTTGTTGAGGA
GATTATTGAAAACATTTTTAACCAAAAATGCTTCCAATAATCCACTCTCAATAAATTTTTATGA
Found at i:14612772 original size:63 final size:63
Alignment explanation
Indices: 14612685--14612900 Score: 219
Period size: 63 Copynumber: 3.4 Consensus size: 63
14612675 TCTTCTTAAT
** *
14612685 AAATTTTTATGA-GAGATTATTGAAGGTGTTTTTGGTCAAAAATGCCTTT-ACTAATCCCTTCC
1 AAATTTTTATGAGGAGATTATTGAAGGTGTTTTTGACCAAAAATG-CTTTCAATAATCCCTTCC
* ** * *
14612747 AAATTTTGT-TGAGGAGGTTATTGAAGGCATTTTTAACCAAAAATGGTTTCAATAAT-CCTCTCA
1 AAATTTT-TATGAGGAGATTATTGAAGGTGTTTTTGACCAAAAATGCTTTCAATAATCCCT-TC-
*
14612810 AT
63 -C
* *
14612812 AAATTTTTATGTGGA-ATTATTGAAGGTGTTTTTGACCAAAAATGCTTTCAATAATCCCTTTC
1 AAATTTTTATGAGGAGATTATTGAAGGTGTTTTTGACCAAAAATGCTTTCAATAATCCCTTCC
* *
14612874 AAA-TTTTATTGAGGGGATTATTAAAGG
1 AAATTTTTA-TGAGGAGATTATTGAAGG
14612901 AATCCCCTCA
Statistics
Matches: 124, Mismatches: 20, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
61 5 0.04
62 23 0.19
63 44 0.35
64 37 0.30
65 15 0.12
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (63 bp):
AAATTTTTATGAGGAGATTATTGAAGGTGTTTTTGACCAAAAATGCTTTCAATAATCCCTTCC
Found at i:14612991 original size:64 final size:64
Alignment explanation
Indices: 14612901--14613123 Score: 231
Period size: 63 Copynumber: 3.5 Consensus size: 64
14612891 TTATTAAAGG
* * * * * *
14612901 AATCCCCTCACTAAATTATTGTGAGGGATTATTAAATGCATTTTTGATCAAAAATACCTTTAAT
1 AATCCCCTCAATAAATTTTTATGAGAGATTATTAAATGCATTTTTGGTCAAAAACACCTTTAAT
* * * * * *
14612965 AATCCCCTCAATCAATTTTTATGAGGGATTATTAAAGGCA-TTTTGGCCAAAAACGCTTTTAAT
1 AATCCCCTCAATAAATTTTTATGAGAGATTATTAAATGCATTTTTGGTCAAAAACACCTTTAAT
* * ** *
14613028 AATCCCTTC--CAAATTTTGT-TGATGAGATTATT-AATGGTGTTTTTGGTCAAAAACACCTTCA
1 AATCCCCTCAATAAATTTT-TATGA-GAGATTATTAAAT-GCATTTTTGGTCAAAAACACCTTTA
14613089 AT
63 AT
14613091 AATCCCCTCAATAAATTTTTATGAGAGATTATT
1 AATCCCCTCAATAAATTTTTATGAGAGATTATT
14613124 GAAGGTGTTT
Statistics
Matches: 129, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
61 11 0.09
62 10 0.08
63 53 0.41
64 45 0.35
65 10 0.08
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (64 bp):
AATCCCCTCAATAAATTTTTATGAGAGATTATTAAATGCATTTTTGGTCAAAAACACCTTTAAT
Found at i:14613145 original size:64 final size:62
Alignment explanation
Indices: 14612901--14613155 Score: 212
Period size: 64 Copynumber: 4.0 Consensus size: 62
14612891 TTATTAAAGG
* * * * * * *
14612901 AATCCCCTCACTAAATTATTGTGAGGGATTATTAA-ATGCATTTTTGATCAAAAATACCTTTAAT
1 AATCCCCTCAATAAATTTTTATGAGAGATTATTAAGGTG--TTTTTGCT-AAAAACACCTTTAAT
* * ** * * * *
14612965 AATCCCCTCAATCAATTTTTATGAGGGATTATTAAAGGCATTTTGGCCAAAAACGCTTTTAAT
1 AATCCCCTCAATAAATTTTTATGAGAGATTATT-AAGGTGTTTTTGCTAAAAACACCTTTAAT
* * * *
14613028 AATCCCTTC--CAAATTTTGT-TGATGAGATTATTAATGGTGTTTTTGGTCAAAAACACCTTCAA
1 AATCCCCTCAATAAATTTT-TATGA-GAGATTATTAA-GGTGTTTTTGCT-AAAAACACCTTTAA
14613090 T
62 T
*
14613091 AATCCCCTCAATAAATTTTTATGAGAGATTATTGAAGGTGTTTTTAGCTGAAAACACCTTTAAT
1 AATCCCCTCAATAAATTTTTATGAGAGATTATT-AAGGTGTTTTT-GCTAAAAACACCTTTAAT
14613155 A
1 A
14613156 TTTCCTCTCC
Statistics
Matches: 150, Mismatches: 30, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
61 11 0.07
62 16 0.11
63 40 0.27
64 67 0.45
65 16 0.11
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (62 bp):
AATCCCCTCAATAAATTTTTATGAGAGATTATTAAGGTGTTTTTGCTAAAAACACCTTTAAT
Found at i:14617695 original size:2 final size:2
Alignment explanation
Indices: 14617688--14617724 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
14617678 TCCCTCTTAT
*
14617688 TA TA TA TA TG 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
14617725 TCTTGGTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14620794 original size:22 final size:22
Alignment explanation
Indices: 14620767--14620816 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
14620757 AAATTATATT
14620767 AAATTTA-ATTAATTGAA-AATAA
1 AAATTTATATT-ATTGAATAA-AA
*
14620789 AAATTTATATTATTTAATAAAA
1 AAATTTATATTATTGAATAAAA
14620811 AAATTT
1 AAATTT
14620817 GTTTGCTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATTTATATTATTGAATAAAA
Found at i:14621337 original size:14 final size:15
Alignment explanation
Indices: 14621284--14621337 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
14621274 AATTAGAATT
*
14621284 AATATATTTTTATTGA
1 AATATATTTATA-TGA
*
14621300 AATATATATATATGA
1 AATATATTTATATGA
14621315 ATATATATTTATAT-A
1 A-ATATATTTATATGA
14621330 AATATATT
1 AATATATT
14621338 GGGTTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.21
15 6 0.18
16 21 0.62
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (15 bp):
AATATATTTATATGA
Found at i:14621415 original size:16 final size:15
Alignment explanation
Indices: 14621384--14621427 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
14621374 AAAGTCCAAA
14621384 TTTCTTTCTTTTATT
1 TTTCTTTCTTTTATT
*
14621399 TTTCTTTTTTATTATT
1 TTTCTTTCTT-TTATT
14621415 TTAT-TTTCTTTTA
1 TT-TCTTTCTTTTA
14621428 GATATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 12 0.48
16 12 0.48
17 1 0.04
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTCTTTCTTTTATT
Found at i:14621437 original size:21 final size:21
Alignment explanation
Indices: 14621392--14621435 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
14621382 AATTTCTTTC
*
14621392 TTTTATTTTTCTTTTTTATTA
1 TTTTATTTTTCTTTTATATTA
*
14621413 TTTTA-TTTTCTTTTAGA-TA
1 TTTTATTTTTCTTTTATATTA
14621432 TTTT
1 TTTT
14621436 TTGAAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 10 0.48
21 5 0.24
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTATTTTTCTTTTATATTA
Found at i:14621479 original size:17 final size:17
Alignment explanation
Indices: 14621447--14621526 Score: 62
Period size: 16 Copynumber: 4.9 Consensus size: 17
14621437 TGAAAATTCA
*
14621447 AAAAAATAATCG-AAAAG
1 AAAAAATAAT-GAAAAAT
14621464 AAAAAATAATG-AAAA-
1 AAAAAATAATGAAAAAT
* * *
14621479 AACAGA-AATCAAAAAT
1 AAAAAATAATGAAAAAT
*
14621495 CAAAAA-AATGAAAAAT
1 AAAAAATAATGAAAAAT
14621511 AAAAAATAATAGAAAA
1 AAAAAATAAT-GAAAA
14621527 TAGGATAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
14 3 0.06
15 8 0.16
16 22 0.43
17 13 0.25
18 5 0.10
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAAAATAATGAAAAAT
Found at i:14621527 original size:17 final size:16
Alignment explanation
Indices: 14621447--14621528 Score: 64
Period size: 17 Copynumber: 5.1 Consensus size: 16
14621437 TGAAAATTCA
*
14621447 AAAAAATAATCGAAAAG
1 AAAAAATAAT-GAAAAT
14621464 AAAAAATAATGAAAA-
1 AAAAAATAATGAAAAT
*
14621479 AACAGAAATCA--AAAAT
1 AA-A-AAATAATGAAAAT
*
14621495 CAAAAA-AATGAAAAAT
1 AAAAAATAATG-AAAAT
14621511 AAAAAATAATAGAAAAT
1 AAAAAATAAT-GAAAAT
14621528 A
1 A
14621529 GGATAAATCC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
13 1 0.02
14 3 0.06
15 7 0.13
16 17 0.32
17 24 0.45
18 1 0.02
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAAAATAATGAAAAT
Found at i:14627571 original size:20 final size:20
Alignment explanation
Indices: 14627548--14627597 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
14627538 CCTAAATCCC
14627548 AAACCAAACCTTCAAACCCT
1 AAACCAAACCTTCAAACCCT
**
14627568 AAA-CTTACACTTCAAACCCT
1 AAACCAAAC-CTTCAAACCCT
14627588 AAACCAAACC
1 AAACCAAACC
14627598 CAAACTTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (20 bp):
AAACCAAACCTTCAAACCCT
Found at i:14627814 original size:39 final size:39
Alignment explanation
Indices: 14627734--14627849 Score: 146
Period size: 39 Copynumber: 2.9 Consensus size: 39
14627724 AACCTAAATC
* *
14627734 AACCTTAACCCCAAAACCC-AAACCAAACCCTTTAAACCCT
1 AACCTAAATCCCAAAACCCTAAACCAAA-CC-TTAAACCCT
* *
14627774 AACCTAAATCCC-AACCTCCTAAACCAAACCTTAAATCCT
1 AACCTAAATCCCAAAAC-CCTAAACCAAACCTTAAACCCT
*
14627813 AACCTAAATCCCAAAACCCTAAACTAAACCTTAAACC
1 AACCTAAATCCCAAAACCCTAAACCAAACCTTAAACC
14627850 ACAAAATCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
39 41 0.62
40 17 0.26
41 8 0.12
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (39 bp):
AACCTAAATCCCAAAACCCTAAACCAAACCTTAAACCCT
Found at i:14627839 original size:20 final size:19
Alignment explanation
Indices: 14627767--14627840 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
14627757 CAAACCCTTT
*
14627767 AAACCCTAACCTAAATCCC
1 AAACCCTAAACTAAATCCC
* * *
14627786 AACCTCCTAAACCAAA-CCTT
1 AAAC-CCTAAACTAAATCC-C
* *
14627806 AAATCCTAACCTAAATCCC
1 AAACCCTAAACTAAATCCC
14627825 AAAACCCTAAACTAAA
1 -AAACCCTAAACTAAA
14627841 CCTTAAACCA
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (19 bp):
AAACCCTAAACTAAATCCC
Found at i:14633239 original size:59 final size:58
Alignment explanation
Indices: 14633176--14633333 Score: 156
Period size: 59 Copynumber: 2.7 Consensus size: 58
14633166 AATGCTATAT
*
14633176 TTAATACAAAAAAAATAAAAATAATTACTATGTCGTTTCTAAAAATAAAAA-ATTCGTAA
1 TTAATACAAAAAAAAT-AAAATAAATACTATGTCGTTTCTAAAAATAAAAACATT-GTAA
** * * * * *
14633235 TTAATATGGAAAAAAATAAATTAAATACTATGTCATTTTTTAATATAAAAACATTGTAA
1 TTAATA-CAAAAAAAATAAAATAAATACTATGTCGTTTCTAAAAATAAAAACATTGTAA
* * **
14633294 TTAATATAGAAAAAATTTTAATCAAATACTATGTCGTTTC
1 TTAATACA-AAAAAAATAAAAT-AAATACTATGTCGTTTC
14633334 GAGGTATAGA
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
59 53 0.67
60 26 0.33
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (58 bp):
TTAATACAAAAAAAATAAAATAAATACTATGTCGTTTCTAAAAATAAAAACATTGTAA
Found at i:14633315 original size:21 final size:20
Alignment explanation
Indices: 14633274--14633315 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
14633264 ATGTCATTTT
*
14633274 TTAATATAAAAACATTGTAA
1 TTAATATAAAAAAATTGTAA
*
14633294 TTAATATAGAAAAAATTTTAA
1 TTAATATA-AAAAAATTGTAA
14633315 T
1 T
14633316 CAAATACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAATATAAAAAAATTGTAA
Found at i:14633402 original size:60 final size:61
Alignment explanation
Indices: 14633201--14633405 Score: 217
Period size: 60 Copynumber: 3.4 Consensus size: 61
14633191 TAAAAATAAT
* * * * *
14633201 TACTATGTCGTTTCTAAAAATA-AAA-AATTCGTAATTAATATGGAAAAAA--ATAAATTAAA
1 TACTATGTCGTTTCTGAATATAGAAACAA-T-GTAATTAATATAGAAAAAATTTTAAATCAAA
* * * * *
14633260 TACTATGTCATTTTTTAATATAAAAACATTGTAATTAATATAGAAAAAATTTT-AATCAAA
1 TACTATGTCGTTTCTGAATATAGAAACAATGTAATTAATATAGAAAAAATTTTAAATCAAA
* *
14633320 TACTATGTCGTTTC-GAGGTATAGAAACAATGTAATTGATATAG-AAAAATTTTAAATCAAA
1 TACTATGTCGTTTCTGA-ATATAGAAACAATGTAATTAATATAGAAAAAATTTTAAATCAAA
*
14633380 TACTATGTTGTTTCTGAATATAGAAA
1 TACTATGTCGTTTCTGAATATAGAAA
14633406 TGCCGTAAGA
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
59 46 0.38
60 72 0.59
61 4 0.03
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.36
Consensus pattern (61 bp):
TACTATGTCGTTTCTGAATATAGAAACAATGTAATTAATATAGAAAAAATTTTAAATCAAA
Found at i:14633420 original size:60 final size:60
Alignment explanation
Indices: 14633297--14633441 Score: 156
Period size: 60 Copynumber: 2.5 Consensus size: 60
14633287 ATTGTAATTA
* * **
14633297 ATATAGAAAAAATTTT-AATCAAATACTATGTCGTTTCGAGGTATAGAAACAATGTAATTG
1 ATATAG-AAAAATTTTAAATCAAATACTATGTCGTTTCGAGATATAGAAACAACGTAAGAG
* ***
14633357 ATATAGAAAAATTTTAAATCAAATACTATGTTGTTTCTGA-ATATAGAAATGCCGTAAGAG
1 ATATAGAAAAATTTTAAATCAAATACTATGTCGTTTC-GAGATATAGAAACAACGTAAGAG
*
14633417 ATATA-AAAAA--TTAAACCAAATACTA
1 ATATAGAAAAATTTTAAATCAAATACTA
14633442 CATCATTTCT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
57 14 0.19
59 14 0.19
60 44 0.59
61 2 0.03
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (60 bp):
ATATAGAAAAATTTTAAATCAAATACTATGTCGTTTCGAGATATAGAAACAACGTAAGAG
Found at i:14635036 original size:20 final size:19
Alignment explanation
Indices: 14634995--14635037 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
14634985 ATTTTTAAAA
*
14634995 TTTATGATTTTTTTGTTAT
1 TTTATGATTTTTTTCTTAT
*
14635014 TTTATGAGTTTTTTTCTTTT
1 TTTATGA-TTTTTTTCTTAT
14635034 TTTA
1 TTTA
14635038 ATTTCCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.74
Consensus pattern (19 bp):
TTTATGATTTTTTTCTTAT
Found at i:14639163 original size:21 final size:21
Alignment explanation
Indices: 14639126--14639165 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14639116 ATATCACATT
*
14639126 ATCATTTGATTTCTCACTTTC
1 ATCATTTGATATCTCACTTTC
14639147 ATCATTTGATGAT-TCACTT
1 ATCATTTGAT-ATCTCACTT
14639166 ATATTTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (21 bp):
ATCATTTGATATCTCACTTTC
Found at i:14640456 original size:20 final size:20
Alignment explanation
Indices: 14640414--14640456 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
14640404 CATATTTCTC
* *
14640414 TTTTTTATATTTTTTTCTTT
1 TTTTTTATATTTTATTCTAT
14640434 TTTTTTATATCTTTATT-TAT
1 TTTTTTATAT-TTTATTCTAT
14640454 TTT
1 TTT
14640457 ACTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTATATTTTATTCTAT
Found at i:14643817 original size:14 final size:14
Alignment explanation
Indices: 14643784--14643817 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14643774 ATATATAATT
14643784 AAAAAACTAAAAAA
1 AAAAAACTAAAAAA
**
14643798 TTAAAACTAAAAAA
1 AAAAAACTAAAAAA
14643812 AAAAAA
1 AAAAAA
14643818 AAAGAAAGAG
Statistics
Matches: 16, Mismatches: 4, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAAACTAAAAAA
Found at i:14645225 original size:130 final size:133
Alignment explanation
Indices: 14644991--14645255 Score: 419
Period size: 130 Copynumber: 2.0 Consensus size: 133
14644981 TAAAACAATA
14644991 ATTTTATCAATATAATACATATATAACTAAAACAAGTAATAAAAAAAAATATTTTATATATACCC
1 ATTTTATCAATATAATACATATATAACTAAAACAAGTAATAAAAAAAAATATTTTATATATACCC
* ** * * * *
14645056 GGAATGGGGCGAAACACCCTAAACTTACCTTCGATCTTACCTCTATTTT-TAA-AAAAACTTGAC
66 GAAATGGAACAAAACACCCCAAACTTACCTTCGATCTTACCTCTATTTTAAAAGAAAAACTCGAC
14645119 ATG
131 ATG
* **
14645122 ATTTTATCAATATAATACATATATAACTAAAATAAGTAAT-AAAAAGTATATTTTATATATACCC
1 ATTTTATCAATATAATACATATATAACTAAAACAAGTAATAAAAAAAAATATTTTATATATACCC
14645186 GAAATGGAACAAAACACCCCAAACTTACCTTCGATCTTACCTCTATTTTAAAAGAAAAACTCGAC
66 GAAATGGAACAAAACACCCCAAACTTACCTTCGATCTTACCTCTATTTTAAAAGAAAAACTCGAC
14645251 ATG
131 ATG
14645254 AT
1 AT
14645256 CGTGAATGTA
Statistics
Matches: 122, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
130 66 0.54
131 41 0.34
132 15 0.12
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.31
Consensus pattern (133 bp):
ATTTTATCAATATAATACATATATAACTAAAACAAGTAATAAAAAAAAATATTTTATATATACCC
GAAATGGAACAAAACACCCCAAACTTACCTTCGATCTTACCTCTATTTTAAAAGAAAAACTCGAC
ATG
Found at i:14652243 original size:23 final size:23
Alignment explanation
Indices: 14652192--14652244 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
14652182 AAGTAAAAGG
*
14652192 AAATTAAAAAAATGATAATATAA
1 AAATTAAAAAAATGAAAATATAA
*
14652215 ATATTAAAAAAA-GTAAAAGTA-AA
1 AAATTAAAAAAATG-AAAA-TATAA
14652238 AAATTAA
1 AAATTAA
14652245 TTTTATTGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 1 0.04
23 22 0.88
24 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.25
Consensus pattern (23 bp):
AAATTAAAAAAATGAAAATATAA
Found at i:14654259 original size:9 final size:9
Alignment explanation
Indices: 14654247--14654350 Score: 50
Period size: 9 Copynumber: 10.8 Consensus size: 9
14654237 AAAAAATTAT
*
14654247 TAAAATTTC
1 TAAAAATTC
14654256 TAAAAATTC
1 TAAAAATTC
*
14654265 TAAAAAGTATT
1 TAAAAA-T-TC
** *
14654276 TTTAAATTA
1 TAAAAATTC
*
14654285 AAAAAATTC
1 TAAAAATTC
14654294 TAAAAAAATTC
1 T--AAAAATTC
14654305 T-AAAATTC
1 TAAAAATTC
14654313 TAAAAAAAATTC
1 T---AAAAATTC
14654325 TAAAAAGTT-
1 TAAAAA-TTC
*
14654334 TAAAAAATTA
1 T-AAAAATTC
14654344 TAAAAAT
1 TAAAAAT
14654351 ATTTTGAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
8 8 0.11
9 34 0.46
10 10 0.14
11 14 0.19
12 8 0.11
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.34
Consensus pattern (9 bp):
TAAAAATTC
Found at i:14654289 original size:29 final size:32
Alignment explanation
Indices: 14654257--14654349 Score: 97
Period size: 31 Copynumber: 3.1 Consensus size: 32
14654247 TAAAATTTCT
* *
14654257 AAAAATTCTAAAAAGTATTTTTAAA-T-T-AA
1 AAAAATTCTAAAAAGTATTCTAAAATTCTAAA
*
14654286 AAAAATTCTAAAAA-AATTCTAAAATTCTAAA
1 AAAAATTCTAAAAAGTATTCTAAAATTCTAAA
** *
14654317 AAAAATTCTAAAAAGT-TTAAAAAATTATAAA
1 AAAAATTCTAAAAAGTATTCTAAAATTCTAAA
14654348 AA
1 AA
14654350 TATTTTGAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 7 0.13
29 15 0.28
30 1 0.02
31 30 0.57
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.31
Consensus pattern (32 bp):
AAAAATTCTAAAAAGTATTCTAAAATTCTAAA
Found at i:14654299 original size:11 final size:11
Alignment explanation
Indices: 14654283--14654381 Score: 68
Period size: 11 Copynumber: 9.5 Consensus size: 11
14654273 ATTTTTAAAT
14654283 TAAAAAAATTC
1 TAAAAAAATTC
14654294 TAAAAAAATTC
1 TAAAAAAATTC
14654305 T---AAAATTC
1 TAAAAAAATTC
14654313 TAAAAAAAATTC
1 T-AAAAAAATTC
*
14654325 T-AAAAAGTT-
1 TAAAAAAATTC
*
14654334 T-AAAAAATTA
1 TAAAAAAATTC
*
14654344 TAAAAATATT-
1 TAAAAAAATTC
** * *
14654354 TTGAAAATTTG
1 TAAAAAAATTC
*
14654365 TAAAAAAATTT
1 TAAAAAAATTC
14654376 TAAAAA
1 TAAAAA
14654382 TTCTTAAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
8 8 0.11
9 8 0.11
10 14 0.20
11 32 0.46
12 8 0.11
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (11 bp):
TAAAAAAATTC
Found at i:14654302 original size:20 final size:20
Alignment explanation
Indices: 14654279--14654350 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 20
14654269 AAGTATTTTT
14654279 AAATTAAAAAAATTCTAAAA
1 AAATTAAAAAAATTCTAAAA
**
14654299 AAATT-CTAAAATTCTAAAAA
1 AAATTAAAAAAATTCT-AAAA
* *
14654319 AAATTCTAAAAAGTT-T-AAA
1 AAATT-AAAAAAATTCTAAAA
*
14654338 AAATTATAAAAAT
1 AAATTAAAAAAAT
14654351 ATTTTGAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
18 5 0.12
19 16 0.39
20 14 0.34
21 1 0.02
22 5 0.12
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.29
Consensus pattern (20 bp):
AAATTAAAAAAATTCTAAAA
Found at i:14654380 original size:9 final size:9
Alignment explanation
Indices: 14654317--14654391 Score: 51
Period size: 10 Copynumber: 7.6 Consensus size: 9
14654307 AAATTCTAAA
*
14654317 AAAAATTCT
1 AAAAATTTT
*
14654326 AAAAAGTTTA
1 AAAAA-TTTT
*
14654336 AAAAATTATA
1 AAAAATT-TT
14654346 AAAATATTTT
1 AAAA-ATTTT
*
14654356 GAAAATTTGT
1 AAAAATTT-T
14654366 AAAAAAATTTT
1 --AAAAATTTT
14654377 AAAAATTCTT
1 AAAAATT-TT
14654387 AAAAA
1 AAAAA
14654392 ACTAAGGAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
9 18 0.33
10 25 0.46
11 4 0.07
12 7 0.13
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (9 bp):
AAAAATTTT
Found at i:14654389 original size:21 final size:20
Alignment explanation
Indices: 14654317--14654392 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 20
14654307 AAATTCTAAA
* * *
14654317 AAAAATTCT-AAAAAGTTTA
1 AAAAATTTTAAAAAAATTTT
* *
14654336 AAAAATTATAAAAATATTTT
1 AAAAATTTTAAAAAAATTTT
*
14654356 GAAAATTTGTAAAAAAATTTT
1 AAAAATTT-TAAAAAAATTTT
14654377 AAAAATTCTTAAAAAA
1 AAAAATT-TTAAAAAA
14654393 CTAAGGAACT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 8 0.17
20 13 0.28
21 24 0.52
22 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (20 bp):
AAAAATTTTAAAAAAATTTT
Found at i:14654608 original size:10 final size:10
Alignment explanation
Indices: 14654562--14654607 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
14654552 AAATACAATC
14654562 ATTTTTAAAA
1 ATTTTTAAAA
*
14654572 ATTTTAAAAA
1 ATTTTTAAAA
14654582 ATTTTTAAAAA
1 ATTTTT-AAAA
14654593 ATTTTT-AAA
1 ATTTTTAAAA
14654602 ATTTTT
1 ATTTTT
14654608 TTATTCTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 9 0.27
10 14 0.42
11 10 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTTTAAAA
Found at i:14654610 original size:11 final size:11
Alignment explanation
Indices: 14654562--14654602 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
14654552 AAATACAATC
14654562 ATTTTT-AAAA
1 ATTTTTAAAAA
14654572 A-TTTTAAAAA
1 ATTTTTAAAAA
14654582 ATTTTTAAAAA
1 ATTTTTAAAAA
14654593 ATTTTTAAAA
1 ATTTTTAAAA
14654603 TTTTTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 4 0.14
10 6 0.21
11 19 0.66
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTTTAAAAA
Found at i:14654971 original size:9 final size:10
Alignment explanation
Indices: 14654936--14655001 Score: 60
Period size: 10 Copynumber: 6.4 Consensus size: 10
14654926 ATTTATTAAC
*
14654936 ATTTTCTAGAA
1 ATTTTTTAG-A
*
14654947 ATTTTTGAGA
1 ATTTTTTAGA
*
14654957 ATTTTTTTGA
1 ATTTTTTAGA
14654967 ATTTTTTAGA
1 ATTTTTTAGA
* *
14654977 ATGTTTTAACA
1 AT-TTTTTAGA
*
14654988 ATTTTTTAAA
1 ATTTTTTAGA
14654998 ATTT
1 ATTT
14655002 GAAAAAATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
10 30 0.67
11 15 0.33
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (10 bp):
ATTTTTTAGA
Found at i:14654971 original size:31 final size:31
Alignment explanation
Indices: 14654936--14654994 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
14654926 ATTTATTAAC
* *
14654936 ATTTTCTAGAAAT-TTTTGAGAATTTTTTTGA
1 ATTTTCTAG-AATGTTTTAACAATTTTTTTGA
*
14654967 ATTTTTTAGAATGTTTTAACAATTTTTT
1 ATTTTCTAGAATGTTTTAACAATTTTTT
14654995 AAAATTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (31 bp):
ATTTTCTAGAATGTTTTAACAATTTTTTTGA
Found at i:14655030 original size:10 final size:11
Alignment explanation
Indices: 14655009--14655034 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14654999 TTTGAAAAAA
14655009 TTTAGAATTTT
1 TTTAGAATTTT
14655020 TTTAGAATTTT
1 TTTAGAATTTT
14655031 TTTA
1 TTTA
14655035 AAAATTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (11 bp):
TTTAGAATTTT
Found at i:14655040 original size:30 final size:29
Alignment explanation
Indices: 14655004--14655063 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
14654994 TAAAATTTGA
* *
14655004 AAAAATTTAGAATTTTTTTAGAATTTTTTT
1 AAAAATTAACAATTTTTTT-GAATTTTTTT
*
14655034 AAAAATTAACTATTTTTTTGAATTTTTTT
1 AAAAATTAACAATTTTTTTGAATTTTTTT
14655063 A
1 A
14655064 TGCTAACATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (29 bp):
AAAAATTAACAATTTTTTTGAATTTTTTT
Found at i:14655459 original size:7 final size:7
Alignment explanation
Indices: 14655447--14655500 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
14655437 TAAATATACC
14655447 ATTATTA
1 ATTATTA
14655454 ATTATTA
1 ATTATTA
14655461 A-T-TTA
1 ATTATTA
14655466 A-TATTA
1 ATTATTA
*
14655472 ATTAATA
1 ATTATTA
14655479 ATT-TTA
1 ATTATTA
*
14655485 ATTTAATA
1 A-TTATTA
14655493 ATTATTA
1 ATTATTA
14655500 A
1 A
14655501 AGGCATTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 5 0.13
6 8 0.21
7 23 0.59
8 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
ATTATTA
Found at i:14655472 original size:18 final size:19
Alignment explanation
Indices: 14655449--14655496 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
14655439 AATATACCAT
14655449 TATTAATTATTAA-TTTAA
1 TATTAATTATTAATTTTAA
*
14655467 TATTAATTAATAATTTTAA
1 TATTAATTATTAATTTTAA
*
14655486 T-TTAATAATTA
1 TATTAATTATTA
14655497 TTAAAGGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTAATTATTAATTTTAA
Found at i:14655617 original size:29 final size:27
Alignment explanation
Indices: 14655554--14655627 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 27
14655544 CCAGTGTATC
14655554 TAAACTTTAATTTAA-TATTATAATGA
1 TAAACTTTAATTTAATTATTATAATGA
**
14655580 TAATTTTTAATTTAAATTATCCT-TAATGA
1 TAAACTTTAATTT-AATTAT--TATAATGA
14655609 TAAACTTTAATTTTAATTA
1 TAAACTTTAA-TTTAATTA
14655628 CAATTTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 11 0.28
27 2 0.05
28 3 0.08
29 19 0.49
30 4 0.10
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (27 bp):
TAAACTTTAATTTAATTATTATAATGA
Found at i:14658748 original size:20 final size:20
Alignment explanation
Indices: 14658706--14658748 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
14658696 CATATTTCTC
* *
14658706 TTTTTTATATTTTTTTCTTT
1 TTTTTTATATTTTATTCTAT
14658726 TTTTTTATATCTTTATT-TAT
1 TTTTTTATAT-TTTATTCTAT
14658746 TTT
1 TTT
14658749 ACTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTATATTTTATTCTAT
Found at i:14662103 original size:14 final size:14
Alignment explanation
Indices: 14662070--14662103 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14662060 ATATATAATT
14662070 AAAAAACTAAAAAA
1 AAAAAACTAAAAAA
**
14662084 TTAAAACTAAAAAA
1 AAAAAACTAAAAAA
14662098 AAAAAA
1 AAAAAA
14662104 AAAGAAAGAG
Statistics
Matches: 16, Mismatches: 4, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAAACTAAAAAA
Found at i:14662870 original size:2 final size:2
Alignment explanation
Indices: 14662863--14662892 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14662853 GACATTGAGT
14662863 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
14662893 GCCAATCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14663525 original size:131 final size:133
Alignment explanation
Indices: 14663290--14663555 Score: 464
Period size: 131 Copynumber: 2.0 Consensus size: 133
14663280 TAAAATAATA
14663290 ATTTTATCAATATAATACATATATAACTAAAACAAGTAATAAAAAAATATATTTTATATATACCC
1 ATTTTATCAATATAATACATATATAACTAAAACAAGTAATAAAAAAATATATTTTATATATACCC
* * * *
14663355 GGAATGGAGCAAAACACCCTAAACTTACCTTCGATCTTACCTCTATTTTTAAA-AAAAACTTGAC
66 GAAATGGAACAAAACACCCCAAACTTACCTTCGATCTTACCTCTATTTTTAAAGAAAAACTCGAC
14663419 ATG
131 ATG
* *
14663422 ATTTTATCAATATAATACATATATAACTAAAATAAGTAAT-AAAAAGTATATTTTATATATACCC
1 ATTTTATCAATATAATACATATATAACTAAAACAAGTAATAAAAAAATATATTTTATATATACCC
14663486 GAAATGGAACAAAACACCCCAAACTTACCTTCGATCTTACCTCTATTTTTAAAGAAAAACTCGAC
66 GAAATGGAACAAAACACCCCAAACTTACCTTCGATCTTACCTCTATTTTTAAAGAAAAACTCGAC
14663551 ATG
131 ATG
14663554 AT
1 AT
14663556 CTTGAATGTA
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
131 73 0.57
132 54 0.43
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.32
Consensus pattern (133 bp):
ATTTTATCAATATAATACATATATAACTAAAACAAGTAATAAAAAAATATATTTTATATATACCC
GAAATGGAACAAAACACCCCAAACTTACCTTCGATCTTACCTCTATTTTTAAAGAAAAACTCGAC
ATG
Found at i:14669174 original size:17 final size:17
Alignment explanation
Indices: 14669139--14669170 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14669129 TCTGTATCTC
14669139 TTAGATAAATTTTTATA
1 TTAGATAAATTTTTATA
14669156 TTAG-TAAATTTTTAT
1 TTAGATAAATTTTTAT
14669171 TATTCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TTAGATAAATTTTTATA
Found at i:14669758 original size:16 final size:16
Alignment explanation
Indices: 14669737--14669780 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
14669727 ATTATTCAAA
14669737 TTTTTGTGAGTTATTT
1 TTTTTGTGAGTTATTT
14669753 TTTTTGTGAGTTATTT
1 TTTTTGTGAGTTATTT
14669769 TTTTTGTGAGTT
1 TTTTTGTGAGTT
14669781 TTTCTGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.11, C:0.00, G:0.20, T:0.68
Consensus pattern (16 bp):
TTTTTGTGAGTTATTT
Found at i:14670536 original size:23 final size:23
Alignment explanation
Indices: 14670485--14670537 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
14670475 AAGTAAAAGG
*
14670485 AAATTAAAAAAATGATAATATAA
1 AAATTAAAAAAATGAAAATATAA
*
14670508 ATATTAAAAAAA-GTAAAAGTA-AA
1 AAATTAAAAAAATG-AAAA-TATAA
14670531 AAATTAA
1 AAATTAA
14670538 TTTTATTGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 1 0.04
23 22 0.88
24 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.25
Consensus pattern (23 bp):
AAATTAAAAAAATGAAAATATAA
Found at i:14672568 original size:49 final size:48
Alignment explanation
Indices: 14672515--14672624 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 48
14672505 ATTTTTAAAA
* * *
14672515 AAAAATTCTATAAGCT-TTTTAAAATTTCAAAAAAATTAT-TAAAATTTCT
1 AAAAATTCTAAAAG-TATTTTAAAA-TT-AAAAAAATTATAAAAAAATTCT
* *
14672564 AAAAATTCTAAAAGTATTTTTAAATTAAAAAAATTCTAAAAAAATTCT
1 AAAAATTCTAAAAGTATTTTAAAATTAAAAAAATTATAAAAAAATTCT
14672612 AAAAATTCTAAAA
1 AAAAATTCTAAAA
14672625 AAAAATTCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
47 10 0.19
48 24 0.44
49 20 0.37
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (48 bp):
AAAAATTCTAAAAGTATTTTAAAATTAAAAAAATTATAAAAAAATTCT
Found at i:14672605 original size:11 final size:11
Alignment explanation
Indices: 14672589--14672689 Score: 70
Period size: 11 Copynumber: 9.5 Consensus size: 11
14672579 ATTTTTAAAT
14672589 TAAAAAAATTC
1 TAAAAAAATTC
14672600 TAAAAAAATTC
1 TAAAAAAATTC
14672611 T--AAAAATTC
1 TAAAAAAATTC
14672620 TAAAAAAAAATTC
1 T--AAAAAAATTC
*
14672633 T-AAAAAGTT-
1 TAAAAAAATTC
*
14672642 T-AAAAAATTA
1 TAAAAAAATTC
*
14672652 TAAAAATATT-
1 TAAAAAAATTC
** * *
14672662 TTGAAAATTTG
1 TAAAAAAATTC
*
14672673 TAAAAAAATTT
1 TAAAAAAATTC
14672684 TAAAAA
1 TAAAAA
14672690 TTCTTAAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
9 17 0.24
10 14 0.19
11 32 0.44
13 9 0.12
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (11 bp):
TAAAAAAATTC
Found at i:14672608 original size:20 final size:20
Alignment explanation
Indices: 14672585--14672627 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
14672575 AAGTATTTTT
14672585 AAATTAAAAAAATTCTAAAA
1 AAATTAAAAAAATTCTAAAA
**
14672605 AAATTCTAAAAATTCTAAAA
1 AAATTAAAAAAATTCTAAAA
14672625 AAA
1 AAA
14672628 AATTCTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATTAAAAAAATTCTAAAA
Found at i:14672626 original size:22 final size:22
Alignment explanation
Indices: 14672592--14672648 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
14672582 TTTAAATTAA
14672592 AAAAATTCT--AAAAAAATTCT
1 AAAAATTCTAAAAAAAAATTCT
14672612 AAAAATTCTAAAAAAAAATTCT
1 AAAAATTCTAAAAAAAAATTCT
14672634 AAAAAGTT-TAAAAAA
1 AAAAA-TTCTAAAAAA
14672649 TTATAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.26
22 23 0.68
23 2 0.06
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAAATTCTAAAAAAAAATTCT
Found at i:14672638 original size:9 final size:9
Alignment explanation
Indices: 14672554--14672625 Score: 56
Period size: 9 Copynumber: 7.7 Consensus size: 9
14672544 AAAAAATTAT
*
14672554 TAAAATTTC
1 TAAAAATTC
14672563 TAAAAATTC
1 TAAAAATTC
14672572 TAAAAGTATT-
1 TAAAA--ATTC
** *
14672582 TTTAAATTA
1 TAAAAATTC
*
14672591 AAAAAATTC
1 TAAAAATTC
14672600 TAAAAAAATTC
1 T--AAAAATTC
14672611 TAAAAATTC
1 TAAAAATTC
14672620 TAAAAA
1 TAAAAA
14672626 AAAATTCTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
8 3 0.06
9 32 0.64
10 3 0.06
11 12 0.24
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (9 bp):
TAAAAATTC
Found at i:14672645 original size:9 final size:10
Alignment explanation
Indices: 14672585--14672689 Score: 52
Period size: 10 Copynumber: 10.2 Consensus size: 10
14672575 AAGTATTTTT
14672585 AAATTA-AAA
1 AAATTATAAA
*
14672594 AAATTCTAAAA
1 AAATTAT-AAA
*
14672605 AAATTCTAAA
1 AAATTATAAA
* *
14672615 AATTCTAAAAAA
1 AAAT-T-ATAAA
*
14672627 AAATTCTAAA
1 AAATTATAAA
*
14672637 AAGTT-TAAA
1 AAATTATAAA
14672646 AAATTATAAA
1 AAATTATAAA
* *
14672656 AATATTTTGAA
1 AA-ATTATAAA
* *
14672667 AATTTGTAAAA
1 AAATTAT-AAA
*
14672678 AAATTTTAAA
1 AAATTATAAA
14672688 AA
1 AA
14672690 TTCTTAAAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 13
0.72 0.16 0.13
Matches are distributed among these distances:
9 13 0.18
10 27 0.37
11 27 0.37
12 6 0.08
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (10 bp):
AAATTATAAA
Found at i:14672696 original size:10 final size:9
Alignment explanation
Indices: 14672625--14672699 Score: 51
Period size: 10 Copynumber: 7.6 Consensus size: 9
14672615 AATTCTAAAA
*
14672625 AAAAATTCT
1 AAAAATTTT
*
14672634 AAAAAGTTTA
1 AAAAA-TTTT
*
14672644 AAAAATTATA
1 AAAAATT-TT
14672654 AAAATATTTT
1 AAAA-ATTTT
*
14672664 GAAAATTTGT
1 AAAAATTT-T
14672674 AAAAAAATTTT
1 --AAAAATTTT
14672685 AAAAATTCTT
1 AAAAATT-TT
14672695 AAAAA
1 AAAAA
14672700 ACTAAGGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
9 18 0.33
10 25 0.46
11 4 0.07
12 7 0.13
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (9 bp):
AAAAATTTT
Found at i:14672697 original size:21 final size:20
Alignment explanation
Indices: 14672625--14672700 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 20
14672615 AATTCTAAAA
* * *
14672625 AAAAATTCT-AAAAAGTTTA
1 AAAAATTTTAAAAAAATTTT
* *
14672644 AAAAATTATAAAAATATTTT
1 AAAAATTTTAAAAAAATTTT
*
14672664 GAAAATTTGTAAAAAAATTTT
1 AAAAATTT-TAAAAAAATTTT
14672685 AAAAATTCTTAAAAAA
1 AAAAATT-TTAAAAAA
14672701 CTAAGGAAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 8 0.17
20 13 0.28
21 24 0.52
22 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (20 bp):
AAAAATTTTAAAAAAATTTT
Found at i:14672864 original size:19 final size:19
Alignment explanation
Indices: 14672840--14672901 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
14672830 ATTTAAGGTA
*
14672840 AAAAATTATAAACTTTTTT
1 AAAAATTATAAACATTTTT
* *
14672859 AAAAA-TACAATCATTTTT
1 AAAAATTATAAACATTTTT
* *
14672877 AAAAATTTTAAAAAATTTTT
1 AAAAATTAT-AAACATTTTT
14672897 AAAAA
1 AAAAA
14672902 ATTTTTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 15 0.44
19 6 0.18
20 13 0.38
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTATAAACATTTTT
Found at i:14672917 original size:10 final size:10
Alignment explanation
Indices: 14672871--14672916 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
14672861 AAATACAATC
14672871 ATTTTTAAAA
1 ATTTTTAAAA
*
14672881 ATTTTAAAAA
1 ATTTTTAAAA
14672891 ATTTTTAAAAA
1 ATTTTT-AAAA
14672902 ATTTTT-AAA
1 ATTTTTAAAA
14672911 ATTTTT
1 ATTTTT
14672917 TTATTCTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 9 0.27
10 14 0.42
11 10 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTTTAAAA
Found at i:14672919 original size:11 final size:11
Alignment explanation
Indices: 14672871--14672911 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
14672861 AAATACAATC
14672871 ATTTTT-AAAA
1 ATTTTTAAAAA
14672881 A-TTTTAAAAA
1 ATTTTTAAAAA
14672891 ATTTTTAAAAA
1 ATTTTTAAAAA
14672902 ATTTTTAAAA
1 ATTTTTAAAA
14672912 TTTTTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 4 0.14
10 6 0.21
11 19 0.66
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTTTAAAAA
Found at i:14673015 original size:28 final size:27
Alignment explanation
Indices: 14672931--14673015 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 27
14672921 TCTTACCATT
14672931 TTAAATTTTTATATATTTTTTGAATTTTA
1 TTAAATTTTTA-AT-TTTTTTGAATTTTA
** * *
14672960 AAAACATTTTTGAATTTTTTGGATTTTTA
1 TTAA-ATTTTT-AATTTTTTTGAATTTTA
*
14672989 TTAAATTTTTAAGTTTTTTTTAATTTT
1 TTAAATTTTTAA-TTTTTTTGAATTTT
14673016 TTATTGTCAT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
27 2 0.05
28 17 0.39
29 16 0.36
30 8 0.18
31 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (27 bp):
TTAAATTTTTAATTTTTTTGAATTTTA
Found at i:14673271 original size:10 final size:10
Alignment explanation
Indices: 14673246--14673309 Score: 65
Period size: 10 Copynumber: 6.4 Consensus size: 10
14673236 ATTTATTAAC
*
14673246 ATTTTCTAGA
1 ATTTTTTAGA
* *
14673256 AATTTTGAGA
1 ATTTTTTAGA
*
14673266 ATTTTTTTGA
1 ATTTTTTAGA
14673276 ATTTTTTAGA
1 ATTTTTTAGA
* *
14673286 ATGTTTTAAA
1 ATTTTTTAGA
*
14673296 ATTTTTTAAA
1 ATTTTTTAGA
14673306 ATTT
1 ATTT
14673310 GAAAAAATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 44 1.00
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (10 bp):
ATTTTTTAGA
Found at i:14673355 original size:29 final size:28
Alignment explanation
Indices: 14673290--14673370 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 28
14673280 TTTAGAATGT
* ***
14673290 TTTAAAATTTTTTA-AAATTTGAAAAAA
1 TTTAAAATTTTTTAGAATTTTTTTAAAA
14673317 TTTAAAATTTTTTAGAATTTTTTTAAAA
1 TTTAAAATTTTTTAGAATTTTTTTAAAA
* *
14673345 TTTAACTATTTTTTTGAATTTTTTTA
1 TTTAA-AATTTTTTAGAATTTTTTTA
14673371 TGCTAACATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 14 0.30
28 14 0.30
29 18 0.39
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (28 bp):
TTTAAAATTTTTTAGAATTTTTTTAAAA
Found at i:14673749 original size:7 final size:7
Alignment explanation
Indices: 14673739--14673792 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
14673729 ATAAATATAC
14673739 ATTATTA
1 ATTATTA
14673746 ATTATTA
1 ATTATTA
14673753 A-T-TTA
1 ATTATTA
14673758 A-TATTA
1 ATTATTA
*
14673764 ATTAATA
1 ATTATTA
14673771 ATT-TTA
1 ATTATTA
*
14673777 ATTTAATA
1 A-TTATTA
14673785 ATTATTA
1 ATTATTA
14673792 A
1 A
14673793 AGGCATTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 5 0.13
6 8 0.21
7 23 0.59
8 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
ATTATTA
Found at i:14673764 original size:18 final size:19
Alignment explanation
Indices: 14673741--14673788 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
14673731 AAATATACAT
14673741 TATTAATTATTAA-TTTAA
1 TATTAATTATTAATTTTAA
*
14673759 TATTAATTAATAATTTTAA
1 TATTAATTATTAATTTTAA
*
14673778 T-TTAATAATTA
1 TATTAATTATTA
14673789 TTAAAGGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTAATTATTAATTTTAA
Found at i:14673905 original size:29 final size:26
Alignment explanation
Indices: 14673847--14673921 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 26
14673837 TCAGTGTATC
14673847 TAAACTTTAATTTAATATTATTAATGA
1 TAAACTTTAATTTAA-ATTATTAATGA
**
14673874 TAATTTTTAATTTAAATTATCCTTAATGA
1 TAAACTTTAATTTAAATTA---TTAATGA
*
14673903 TAAACTTTAATTTTAATTA
1 TAAACTTTAATTTAAATTA
14673922 CAATTTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.10
27 13 0.32
29 23 0.57
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (26 bp):
TAAACTTTAATTTAAATTATTAATGA
Found at i:14682389 original size:2 final size:2
Alignment explanation
Indices: 14682382--14682407 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14682372 GATAGATTAG
14682382 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
14682408 GGTCATCGAT
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:14713296 original size:35 final size:35
Alignment explanation
Indices: 14713257--14713324 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
14713247 TATATGTCAA
* * * *
14713257 GTCAATTGTAGGTTTATGCTCAGAAAATATTTGCT
1 GTCAATTATAGATTAATGCTCAGAAAACATTTGCT
*
14713292 GTCAATTATATATTAATGCTCAGAAAACATTTG
1 GTCAATTATAGATTAATGCTCAGAAAACATTTG
14713325 GTTTTTATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (35 bp):
GTCAATTATAGATTAATGCTCAGAAAACATTTGCT
Found at i:14714146 original size:265 final size:266
Alignment explanation
Indices: 14713669--14714176 Score: 856
Period size: 265 Copynumber: 1.9 Consensus size: 266
14713659 ACATAATCAC
* * *
14713669 ACCATTCTTTATGGACTTCATCCACTTCCTCTTTCATGAAACTTTCTTTACTCTCTCACTAAAAA
1 ACCATTCTTTACGGACTTCATCCACTTCCTCTTCCATGAAACTTTCTTTACTCTCTAACTAAAAA
* * *
14713734 AAATATTAAAAGTAAATGGTAAGAAATGAGAACATAATGTACCTTTTTTATTTTTTTGAAGATAT
66 AAATATCAAAAGTAAATGCTAAGAAATGAAAACATAATGTACCTTTTTTATTTTTTTGAAGATAT
* * *
14713799 AACGAGTTTATGAGATTTTTACTAACCTTGAATGGTGTGGTCATAAAATCATGTAACACCATTTT
131 AACGAGTTTATGAGATTTATACTAACCTTGAATAGTGTGGTCATAAAATCATGTAACACCATCTT
* *
14713864 TTGCATAAAATGAAGGACATAATTGCTTAGTAAGCATATAAGCATTATATGTAACACCATATAAG
196 TCGCATAAAACGAAGGACATAATTGCTTAGTAAGCATATAAGCATTATATGTAACACCATATAAG
14713929 CATAAA
261 CATAAA
* * * *
14713935 ACCATTCTTTACGGACTTTATCCACTTCTTCTTCCGTGAAGCTTTCTTTACTCTCTAACTAAAAA
1 ACCATTCTTTACGGACTTCATCCACTTCCTCTTCCATGAAACTTTCTTTACTCTCTAACTAAAAA
*
14714000 AAA-ATCAATAGTAAATGCTAAGAAATGAAAACATAATGTACCTTTTTTATTTTTTTGAAGATAT
66 AAATATCAAAAGTAAATGCTAAGAAATGAAAACATAATGTACCTTTTTTATTTTTTTGAAGATAT
14714064 AACGAGTTTATGAGATTTATACTAACCTTGAATAGTGTGGTCATAAAATCATGTAACACCATCTT
131 AACGAGTTTATGAGATTTATACTAACCTTGAATAGTGTGGTCATAAAATCATGTAACACCATCTT
*
14714129 TCGCATAAAACGAAGGACATAATTTCTTAGTAAGCATATAAGCATTAT
196 TCGCATAAAACGAAGGACATAATTGCTTAGTAAGCATATAAGCATTAT
14714177 TAAAATCAAT
Statistics
Matches: 225, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
265 164 0.73
266 61 0.27
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (266 bp):
ACCATTCTTTACGGACTTCATCCACTTCCTCTTCCATGAAACTTTCTTTACTCTCTAACTAAAAA
AAATATCAAAAGTAAATGCTAAGAAATGAAAACATAATGTACCTTTTTTATTTTTTTGAAGATAT
AACGAGTTTATGAGATTTATACTAACCTTGAATAGTGTGGTCATAAAATCATGTAACACCATCTT
TCGCATAAAACGAAGGACATAATTGCTTAGTAAGCATATAAGCATTATATGTAACACCATATAAG
CATAAA
Found at i:14714720 original size:15 final size:16
Alignment explanation
Indices: 14714687--14714727 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
14714677 TATTAATAAA
*
14714687 GAAAATAAAAGGAAAG
1 GAAAAGAAAAGGAAAG
*
14714703 GAAAAGAAAA-GAATG
1 GAAAAGAAAAGGAAAG
14714718 GAAAAGAAAA
1 GAAAAGAAAA
14714728 TTTTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (16 bp):
GAAAAGAAAAGGAAAG
Found at i:14716845 original size:239 final size:238
Alignment explanation
Indices: 14716440--14716954 Score: 678
Period size: 239 Copynumber: 2.1 Consensus size: 238
14716430 GTTTTTGGAT
* * * *
14716440 CAAAATGCCTTTAATATTCCAAACGA-AACTTTTAATGGTCGAATTATTGAAGGCGGTTATATCC
1 CAAAATGCCTTTAATATTCCAAACAATAAATTTT--TGGTCGAATTATTGAACGCGATTATATCC
* * * * * *
14716504 ATAAACGCCTTCAATAAAATTTTGTTAGGGTTTATTCAAGGCATTACCCATAGGAATACGCCTTT
64 AGAAACGCCTTCAATAAAATTTTGTTAGGGATTATTAAAGGCATTACCCATAGGAAAACACCTAT
* *
14716569 CATAATCCATTTGATTAATTTTTAGTTGGTATTATTGAAGGTATTTTTTTAAAACT-CCTTTAAT
129 CATAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGTAATTTTTTAAAA-TGCCTTTAAT
*** * *
14716633 AATTTATACAAAAAAGACTCGAA-GGATTCTTGAAGGCATTTTTTAC-C
193 AAGCCATAC-AAAAAGACAC-AACAGATTCTTGAAGGCATTTTTT-CTC
* * *
14716680 TAAAATGCCTTTAATATTCCACACAATAAATTTTTGGTGGAATTATTGAACGCGATTATATCCAG
1 CAAAATGCCTTTAATATTCCAAACAATAAATTTTTGGTCGAATTATTGAACGCGATTATATCCAG
* * *
14716745 AAACGCCTTCAGTAATATTTTGTTAGGGATTATTAAAGGCATTACCCATCGGAAAACACCTATCA
66 AAACGCCTTCAATAAAATTTTGTTAGGGATTATTAAAGGCATTACCCATAGGAAAACACCTATCA
*
14716810 TAATCCATTCGATTAATTTTTAGTTGGTTTTATTGAAGGTAATTTTTTAAAATGCCTTTAATAAG
131 TAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGTAATTTTTTAAAATGCCTTTAATAAG
* *
14716875 CCATACAAAAAGGCACAACAGATTCTTGATGGCATTTTTTCTTTC
196 CCATACAAAAAGACACAACAGATTCTTGAAGGCATTTTTTC--TC
* *
14716920 CAAAATGCCTTTAATATTCCATACAATTAATTTTT
1 CAAAATGCCTTTAATATTCCAAACAATAAATTTTT
14716955 AGGGTGATTA
Statistics
Matches: 240, Mismatches: 29, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
237 3 0.01
238 28 0.12
239 147 0.61
240 56 0.23
241 6 0.03
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (238 bp):
CAAAATGCCTTTAATATTCCAAACAATAAATTTTTGGTCGAATTATTGAACGCGATTATATCCAG
AAACGCCTTCAATAAAATTTTGTTAGGGATTATTAAAGGCATTACCCATAGGAAAACACCTATCA
TAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGTAATTTTTTAAAATGCCTTTAATAAG
CCATACAAAAAGACACAACAGATTCTTGAAGGCATTTTTTCTC
Found at i:14717012 original size:239 final size:238
Alignment explanation
Indices: 14716440--14717013 Score: 653
Period size: 239 Copynumber: 2.4 Consensus size: 238
14716430 GTTTTTGGAT
* * * * * * *
14716440 CAAAATGCCTTTAATATTCCAAACGA-AACTTTTAATGGTCGAATTATTGAAGGCGGTTATATCC
1 CAAAATGCCTTTAATATTCCACACAATAAATTTT--TGGTGGAATTATCGAACGCGATTATATCC
* * * * * *
14716504 ATAAACGCCTTCAATAAAATTTTGTTAGGGTTTATTCAAGGCATTACCCATAGGAATACGCCTTT
64 AAAAACGCCTTC-ATAAAATTTTGTTAGGGATTATTAAAGGCATTACCCATAGGAAAACACCTAT
* *
14716569 CATAATCCATTTGATTAATTTTTAGTTGGTATTATTGAAGGTATTTTTTTAAAACTCCTTTAATA
128 CATAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGTAATTTTTTAAAACTCCTTTAATA
*** * *
14716634 ATTTATACAAAAAAGACTCGAAGGATTCTTGAAGGCATTTTTTACC
193 AGCCATACAAAAAAGACACGAAAGATTCTTGAAGGCATTTTTTACC
* * *
14716680 TAAAATGCCTTTAATATTCCACACAATAAATTTTTGGTGGAATTATTGAACGCGATTATATCCAG
1 CAAAATGCCTTTAATATTCCACACAATAAATTTTTGGTGGAATTATCGAACGCGATTATATCCAA
* *
14716745 AAACGCCTTCAGTAATATTTTGTTAGGGATTATTAAAGGCATTACCCATCGGAAAACACCTATCA
66 AAACGCCTTCA-TAAAATTTTGTTAGGGATTATTAAAGGCATTACCCATAGGAAAACACCTATCA
*
14716810 TAATCCATTCGATTAATTTTTAGTTGGTTTTATTGAAGGTAATTTTTTAAAA-TGCCTTTAATAA
130 TAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGTAATTTTTTAAAACT-CCTTTAATAA
* *
14716874 GCCATAC-AAAAAGGCAC-AACAGATTCTTGATGGCATTTTTT-CTTTC
194 GCCATACAAAAAAGACACGAA-AGATTCTTGAAGGCATTTTTTAC---C
* * * * *
14716920 CAAAATGCCTTTAATATTCCATACAATTAATTTTTAGG-GTG-ATTATCGAAGGCGATTTTGGT-
1 CAAAATGCCTTTAATATTCCACACAATAAATTTTT-GGTG-GAATTATCGAACGCGATTAT-ATC
* *
14716982 TAAAAACGCCTTCA-AAAATTTCTATTAGGGAT
63 CAAAAACGCCTTCATAAAATTT-TGTTAGGGAT
14717014 GATTCAAGCC
Statistics
Matches: 287, Mismatches: 36, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
237 3 0.01
238 35 0.12
239 155 0.54
240 84 0.29
241 10 0.03
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (238 bp):
CAAAATGCCTTTAATATTCCACACAATAAATTTTTGGTGGAATTATCGAACGCGATTATATCCAA
AAACGCCTTCATAAAATTTTGTTAGGGATTATTAAAGGCATTACCCATAGGAAAACACCTATCAT
AATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGTAATTTTTTAAAACTCCTTTAATAAGC
CATACAAAAAAGACACGAAAGATTCTTGAAGGCATTTTTTACC
Found at i:14720498 original size:80 final size:80
Alignment explanation
Indices: 14720359--14720549 Score: 242
Period size: 80 Copynumber: 2.4 Consensus size: 80
14720349 ACTCAAGAAC
* *
14720359 ACCATTCAACATACGATTCAGCCCTCCAATATCATACAAAATCATTCAGTAAAATAATATCAGAC
1 ACCATTCAACATACGATTCAGCCCTCCAATATCATACAAAATCATTCAGCAAAACAATATCAGAC
* *
14720424 ATTAAGGTTTAGCAA
66 AATAAGGTTCAGCAA
* * * * * * *
14720439 ACCATTCAGCATATGATTCAGCCTTTCAATATCATACAATA-CATTCCAGCAATACAATATCATA
1 ACCATTCAACATACGATTCAGCCCTCCAATATCATACAAAATCATT-CAGCAAAACAATATCAGA
14720503 CAATAAGGTTCAGCAA
65 CAATAAGGTTCAGCAA
*
14720519 ACCATTCAACATACAATTCAGTCCC-CCAATA
1 ACCATTCAACATACGATTCAG-CCCTCCAATA
14720550 CCATTTAGCA
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 4 0.04
80 87 0.94
81 2 0.02
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (80 bp):
ACCATTCAACATACGATTCAGCCCTCCAATATCATACAAAATCATTCAGCAAAACAATATCAGAC
AATAAGGTTCAGCAA
Found at i:14730698 original size:134 final size:134
Alignment explanation
Indices: 14730476--14730891 Score: 451
Period size: 134 Copynumber: 3.1 Consensus size: 134
14730466 AGTAATAGCA
* ** * * * *
14730476 TTTTTCTTATAAAAACACCACTAAATTAACAGTATCTCAAAGATACAAACATCGCTAATAT-GAA
1 TTTTTCTCATAAAAATGCCACTAAATTAACGGCATCTCAAAGATACAAACACCACTAATATAG-A
** * * * * * * *
14730540 GATGTTTTCATATATAAATACCTCTAAAGTAGCGGCGTTTTTATTTACAAACA-TCACCAAAGCA
65 GACATTTTCAAATACAAACACCTCTAAAGTAGCAGCATTTTTAGTTACAAACACT-ACCAAAGTA
*
14730604 ATGACG
129 ACGACG
* * * *
14730610 TTTTTTTCATAAAAATGCCACTAAATTAACGGCGTCTCAAAGATATAAACACCACTAAAATAGAG
1 TTTTTCTCATAAAAATGCCACTAAATTAACGGCATCTCAAAGATACAAACACCACTAATATAGAG
* * *** * *
14730675 ACATTTTCAGATACAAACGCCTCTAAAGTAGCAATTTTTTTAGTTACAAACGCTACTAAAGTAAC
66 ACATTTTCAAATACAAACACCTCTAAAGTAGCAGCATTTTTAGTTACAAACACTACCAAAGTAAC
**
14730740 GGTG
131 GACG
* ** *
14730744 TTTTTCTCAT-AAAATGTCACTAAATTAGTGGCATCTCAAAGATACAAACGCCACTAATATAGAG
1 TTTTTCTCATAAAAATGCCACTAAATTAACGGCATCTCAAAGATACAAACACCACTAATATAGAG
* * * *
14730808 GCAGTTTCAAATACAAACACCTCTAAAGTAGTAGCATTTTCAGTTACAAACACTACCAAAGTAAC
66 ACATTTTCAAATACAAACACCTCTAAAGTAGCAGCATTTTTAGTTACAAACACTACCAAAGTAAC
14730873 GACG
131 GACG
14730877 TTTTTCTCATAAAAA
1 TTTTTCTCATAAAAA
14730892 CGTAATTAAT
Statistics
Matches: 230, Mismatches: 49, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
133 113 0.49
134 115 0.50
135 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (134 bp):
TTTTTCTCATAAAAATGCCACTAAATTAACGGCATCTCAAAGATACAAACACCACTAATATAGAG
ACATTTTCAAATACAAACACCTCTAAAGTAGCAGCATTTTTAGTTACAAACACTACCAAAGTAAC
GACG
Found at i:14730806 original size:133 final size:133
Alignment explanation
Indices: 14730493--14730890 Score: 406
Period size: 133 Copynumber: 3.0 Consensus size: 133
14730483 TATAAAAACA
* * * * * * * *
14730493 CCACTAAATTAACAGTATCTCAAAGATACAAACATCGCTAATAT-GAAGA-TGTTTTCATATATA
1 CCACTAAATTAACGGCATCTCAAAGATACAAACACCACTAAAATAG-AGACAG-TTTCAAATACA
* ** * * * * * *
14730556 AATACCTCTAAAGTAGCGGCGTTTTTATTTACAAACA-TCACCAAAGCAATGACGTTTTTTTCAT
64 AACACCTCTAAAGTAGCAACATTTTCAGTTACAAACACT-ACCAAAGTAACGACGTTTTTCTCAT
14730620 AAAAATG
128 -AAAATG
* * * *
14730627 CCACTAAATTAACGGCGTCTCAAAGATATAAACACCACTAAAATAGAGACATTTTCAGATACAAA
1 CCACTAAATTAACGGCATCTCAAAGATACAAACACCACTAAAATAGAGACAGTTTCAAATACAAA
* ** * * * **
14730692 CGCCTCTAAAGTAGCAATTTTTTTAGTTACAAACGCTACTAAAGTAACGGTGTTTTTCTCATAAA
66 CACCTCTAAAGTAGCAACATTTTCAGTTACAAACACTACCAAAGTAACGACGTTTTTCTCATAAA
14730757 ATG
131 ATG
* ** * * *
14730760 TCACTAAATTAGTGGCATCTCAAAGATACAAACGCCACTAATATAGAGGCAGTTTCAAATACAAA
1 CCACTAAATTAACGGCATCTCAAAGATACAAACACCACTAAAATAGAGACAGTTTCAAATACAAA
* *
14730825 CACCTCTAAAGTAGTAGCATTTTCAGTTACAAACACTACCAAAGTAACGACGTTTTTCTCATAAA
66 CACCTCTAAAGTAGCAACATTTTCAGTTACAAACACTACCAAAGTAACGACGTTTTTCTCATAAA
14730890 A
131 A
14730891 ACGTAATTAA
Statistics
Matches: 216, Mismatches: 45, Indels: 7
0.81 0.17 0.03
Matches are distributed among these distances:
133 117 0.54
134 97 0.45
135 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.29
Consensus pattern (133 bp):
CCACTAAATTAACGGCATCTCAAAGATACAAACACCACTAAAATAGAGACAGTTTCAAATACAAA
CACCTCTAAAGTAGCAACATTTTCAGTTACAAACACTACCAAAGTAACGACGTTTTTCTCATAAA
ATG
Found at i:14731562 original size:13 final size:14
Alignment explanation
Indices: 14731526--14731571 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
14731516 AGGATTTTAT
14731526 TTTTTGTAATATGA
1 TTTTTGTAATATGA
* *
14731540 TTCTTATAATA-GA
1 TTTTTGTAATATGA
*
14731553 TTTTTGTAATGTGA
1 TTTTTGTAATATGA
14731567 TTTTT
1 TTTTT
14731572 TAAGATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.59
Consensus pattern (14 bp):
TTTTTGTAATATGA
Found at i:14731999 original size:32 final size:32
Alignment explanation
Indices: 14731963--14732023 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
14731953 TATATTTTTA
*
14731963 AATAATATTAAATTATTTGAAATTAAAAATAC
1 AATAATATTAAATTATTTGAAATAAAAAATAC
14731995 AATAATATTAAATTATTTGAAATAAAAAA
1 AATAATATTAAATTATTTGAAATAAAAAA
14732024 ATTTATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (32 bp):
AATAATATTAAATTATTTGAAATAAAAAATAC
Found at i:14732165 original size:72 final size:71
Alignment explanation
Indices: 14732072--14732519 Score: 290
Period size: 72 Copynumber: 6.3 Consensus size: 71
14732062 TAAATTATAA
* * ** * * *
14732072 TTTCAAAATTCTAAAATTTTAATAAGAATCGTATTCATAATATATGAAATATAGTTGATGTTGAA
1 TTTCAAAATT-TAAAATTTTAACAAAAATCACATTCATAAGATAAGAAATATAGTAGATGTTGAA
14732137 ACTTTAGT
65 ACTTTA-T
* * ** * *
14732145 TTTGAAAATTTAAAATTTTAACAAAAATTACATTTTTAAGATAAGAAATGTAGTAGATGTTGGAA
1 TTTCAAAATTTAAAATTTTAACAAAAATCACATTCATAAGATAAGAAATATAGTAGATGTTGAAA
14732210 CTTTAT
66 CTTTAT
* ** ** * * *
14732216 TTTCAAAATTTTGAAATTTTAACAAAAATCATGTTTTTAAGATAA-AAAAAGTAGTAAATATTGA
1 TTTCAAAA-TTTAAAATTTTAACAAAAATCACATTCATAAGATAAGAAATA-TAGTAGATGTTGA
14732280 AACTTTAT
64 AACTTTAT
**** ** *
14732288 TTTCAAAATTATAAAATTTTAACAAAAATTGTGTTTTTAAGATAAAAAATATAGT-GAATGTTG-
1 TTTCAAAATT-TAAAATTTTAACAAAAATCACATTCATAAGATAAGAAATATAGTAG-ATGTTGA
14732351 AA----AT
64 AACTTTAT
* * * * * * * *
14732355 TTTGAAAATTTGAAATTTTAACAAAGAT-AGTATGT-TTAAGATAAG-AATCCTAATGGATGTT-
1 TTTCAAAATTTAAAATTTTAACAAAAATCA-CAT-TCATAAGATAAGAAAT-ATAGTAGATGTTG
14732416 -AACGTTTTAT
63 AAAC--TTTAT
* * * ** * *
14732426 ATTCAAAATTTTAGAATTTTAACAAATATCACATTTTTAAGATAAGAAATGTAGTGGATGTTGAA
1 TTTCAAAA-TTTAAAATTTTAACAAAAATCACATTCATAAGATAAGAAATATAGTAGATGTTGAA
14732491 ACTTTAT
65 ACTTTAT
**
14732498 TTTTGAAATTCTAAAATTTTAA
1 TTTCAAAATT-TAAAATTTTAA
14732520 GATAAAAAAA
Statistics
Matches: 304, Mismatches: 49, Indels: 45
0.76 0.12 0.11
Matches are distributed among these distances:
65 5 0.02
66 35 0.12
67 13 0.04
71 26 0.09
72 205 0.67
73 17 0.06
74 3 0.01
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.40
Consensus pattern (71 bp):
TTTCAAAATTTAAAATTTTAACAAAAATCACATTCATAAGATAAGAAATATAGTAGATGTTGAAA
CTTTAT
Found at i:14732556 original size:52 final size:54
Alignment explanation
Indices: 14732460--14732565 Score: 162
Period size: 52 Copynumber: 2.0 Consensus size: 54
14732450 AATATCACAT
** * *
14732460 TTTTAAGATAAGAAATGTAGTGGATGTTGAAACTTTATTTTTGAAATTCTAAAA
1 TTTTAAGATAAGAAAAATAGTGGATGTTGAAACTTTATTCTTGAAACTCTAAAA
14732514 TTTTAAGATAA-AAAAATAGTGGATGTTG-AACTTTATTCTTGAAACTCTAAAA
1 TTTTAAGATAAGAAAAATAGTGGATGTTGAAACTTTATTCTTGAAACTCTAAAA
14732566 ACTTAACAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 22 0.46
53 15 0.31
54 11 0.23
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (54 bp):
TTTTAAGATAAGAAAAATAGTGGATGTTGAAACTTTATTCTTGAAACTCTAAAA
Found at i:14733714 original size:28 final size:30
Alignment explanation
Indices: 14733674--14733745 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 30
14733664 TTAATAAATT
*
14733674 AAATTTGGTAAAATTAATTTT-AAATA-TTA
1 AAATTT-GAAAAATTAATTTTAAAATATTTA
14733703 AAATTAT-AAAAA-T-ATTTTAAAATATTTA
1 AAATT-TGAAAAATTAATTTTAAAATATTTA
*
14733731 ATATTTGAAAAATTA
1 AAATTTGAAAAATTA
14733746 TGAATGTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
26 5 0.14
27 7 0.20
28 16 0.46
29 6 0.17
30 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (30 bp):
AAATTTGAAAAATTAATTTTAAAATATTTA
Found at i:14734080 original size:2 final size:2
Alignment explanation
Indices: 14734073--14734105 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
14734063 CCCTTAATAA
*
14734073 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14734106 ACTATCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14734394 original size:22 final size:22
Alignment explanation
Indices: 14734358--14734422 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
14734348 TTTTTAGTCA
* *
14734358 AAATAAAAAATAAATTAAAATGT
1 AAATAAAATA-AAATTAAAATAT
*
14734381 AAATAAAATAAAATTTAACATAT
1 AAATAAAATAAAA-TTAAAATAT
*
14734404 ACA-AAAATAAAA-TAAAATA
1 AAATAAAATAAAATTAAAATA
14734423 AAAAAGCCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 6 0.17
22 12 0.33
23 18 0.50
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.25
Consensus pattern (22 bp):
AAATAAAATAAAATTAAAATAT
Found at i:14738291 original size:17 final size:16
Alignment explanation
Indices: 14738254--14738292 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
14738244 ATCTTCCTTG
14738254 AAAAAAAAATTTTCAA
1 AAAAAAAAATTTTCAA
*
14738270 AAAAAAAATTCTTTCAA
1 AAAAAAAAAT-TTTCAA
*
14738287 GAAAAA
1 AAAAAA
14738293 GTTGAAAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAAAAAATTTTCAA
Found at i:14738359 original size:59 final size:59
Alignment explanation
Indices: 14738270--14738503 Score: 179
Period size: 59 Copynumber: 3.9 Consensus size: 59
14738260 AAATTTTCAA
* * * * *
14738270 AAAAAAAATTCTTTCAAGAAAAAGTTGAAAGCATCAATTTTCTTTGAAAATAAAAAGTC
1 AAAAAATATTTTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAAAGTC
* * * ** * *
14738329 AAAAAATATTTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAGGT-AAAGGTT
1 AAAAAATATTTTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAAAGTC
** * * * *
14738387 TCAAAATTTTCTTTTTGAA-AAAAAATTGAAAGTATCAATTTTTCTTAAAAAATAAAAATTTC
1 AAAAAATATT-TTTTT-AAGAAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAAAA-GTC
* * * * * *
14738449 AAAAAGTA-TTTTTAAAGGAAGA-TTGAAAGTATAAATTTTCCTTTAAAAACAAAAA
1 AAAAAATATTTTTTTAAGAAAAAGTTGAAAGTATCAATTTT-CTTTAAAAATAAAAA
14738504 AAAAATATTT
Statistics
Matches: 135, Mismatches: 33, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
58 16 0.12
59 92 0.68
60 18 0.13
61 4 0.03
62 5 0.04
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (59 bp):
AAAAAATATTTTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAAAGTC
Found at i:14738520 original size:14 final size:15
Alignment explanation
Indices: 14738499--14738539 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
14738489 CTTTAAAAAC
14738499 AAAAAAAAAATATTT
1 AAAAAAAAAATATTT
*
14738514 CAAAAAAAAATATTT
1 AAAAAAAAAATATTT
*
14738529 AAAGAAAAAAT
1 AAAAAAAAAAT
14738540 TGAAAGTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAAAAAAAATATTT
Found at i:14738759 original size:77 final size:78
Alignment explanation
Indices: 14738575--14738766 Score: 228
Period size: 77 Copynumber: 2.5 Consensus size: 78
14738565 AAAAAGGAAC
*
14738575 TTTAAGGAAAAGTTGAAAATATCTA-TTTCCTTTAAAAAATAAAATTTTCAAAAAAAGATATATT
1 TTTAAGGAAAAGTTGAAAATATCTATTTTTC-TTAAAAAATAAAATTTTCAAAAAAAGATATATT
* * * *
14738639 TTATAAAAGAATGT
65 TAAAAAAAAAATCT
** * * * *
14738653 TTTCAAAAAAAAGTTGAAAGTATTTATTTTTCTTAGAAAATAAAATTTT-ACAAAAA-ATATATT
1 TTT-AAGGAAAAGTTGAAAATATCTATTTTTCTTAAAAAATAAAATTTTCAAAAAAAGATATATT
14738716 TAAAAAAAAACATCT
65 TAAAAAAAAA-ATCT
*
14738731 TTTAAGGAAAAGTTGAAAATATCAATTTTTCTTAAA
1 TTTAAGGAAAAGTTGAAAATATCTATTTTTCTTAAA
14738767 TAAAAATCTT
Statistics
Matches: 94, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
77 41 0.44
78 15 0.16
79 34 0.36
80 4 0.04
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (78 bp):
TTTAAGGAAAAGTTGAAAATATCTATTTTTCTTAAAAAATAAAATTTTCAAAAAAAGATATATTT
AAAAAAAAAATCT
Found at i:14743547 original size:10 final size:10
Alignment explanation
Indices: 14743534--14743579 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
14743524 AATCCTTAAA
14743534 AATAAATATT
1 AATAAATATT
14743544 AATAAAT-TT
1 AATAAATATT
* * *
14743553 ATTTAAGATT
1 AATAAATATT
14743563 AATAAATATT
1 AATAAATATT
14743573 AATAAAT
1 AATAAAT
14743580 TTATTTAAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
9 6 0.21
10 23 0.79
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
AATAAATATT
Found at i:14743566 original size:29 final size:29
Alignment explanation
Indices: 14743534--14743604 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
14743524 AATCCTTAAA
14743534 AATAAATATTAATAAATTTATTTAAGATT
1 AATAAATATTAATAAATTTATTTAAGATT
14743563 AATAAATATTAATAAATTTATTTAAGATT
1 AATAAATATTAATAAATTTATTTAAGATT
*
14743592 AATTAATTATTAA
1 AA-TAAATATTAA
14743605 CATTTTGCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 31 0.77
30 9 0.22
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (29 bp):
AATAAATATTAATAAATTTATTTAAGATT
Found at i:14747968 original size:20 final size:20
Alignment explanation
Indices: 14747939--14747996 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 20
14747929 ACTGGACTTT
*
14747939 TTATTATATTTTTTATATTA
1 TTATTTTATTTTTTATATTA
14747959 TTATTTTA-TTTTTA-ATTA
1 TTATTTTATTTTTTATATTA
*
14747977 --AGTTTAATTTTTTATATTA
1 TTA-TTTTATTTTTTATATTA
14747996 T
1 T
14747997 CTTAATGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 4 0.12
18 10 0.31
19 10 0.31
20 7 0.22
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATTTTATTTTTTATATTA
Found at i:14748166 original size:31 final size:31
Alignment explanation
Indices: 14748131--14748190 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
14748121 ACACTGTCAA
*
14748131 TAAATCAAATAATGACAATTTATTAATGAGG
1 TAAATCAAATAATAACAATTTATTAATGAGG
* * *
14748162 TAAATCAGATGATAACACTTTATTAATGA
1 TAAATCAAATAATAACAATTTATTAATGA
14748191 ATAAATTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (31 bp):
TAAATCAAATAATAACAATTTATTAATGAGG
Found at i:14759391 original size:25 final size:25
Alignment explanation
Indices: 14759363--14759411 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14759353 TTCAACTGTG
14759363 TTTAATACAAGTTTTGATTCTTTTC
1 TTTAATACAAGTTTTGATTCTTTTC
* * * *
14759388 TTTACTACCAGTTTTTATTTTTTT
1 TTTAATACAAGTTTTGATTCTTTT
14759412 TTCAAGCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.20, C:0.12, G:0.06, T:0.61
Consensus pattern (25 bp):
TTTAATACAAGTTTTGATTCTTTTC
Found at i:14762780 original size:7 final size:7
Alignment explanation
Indices: 14762768--14762797 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
14762758 AATAAAATGC
14762768 ATATCAT
1 ATATCAT
14762775 ATATCAT
1 ATATCAT
14762782 ATATCAT
1 ATATCAT
14762789 ATATCAT
1 ATATCAT
14762796 AT
1 AT
14762798 CACATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATCAT
Found at i:14764858 original size:19 final size:20
Alignment explanation
Indices: 14764836--14764881 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
14764826 TAAAATAAAA
14764836 ATAATCAAATAA-AAAATAT
1 ATAATCAAATAATAAAATAT
14764855 ATAA--ATAATAATAAAATAT
1 ATAATCA-AATAATAAAATAT
14764874 ATAATCAA
1 ATAATCAA
14764882 TTATTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.04
18 5 0.22
19 15 0.65
20 1 0.04
21 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAATCAAATAATAAAATAT
Found at i:14776193 original size:3 final size:3
Alignment explanation
Indices: 14776185--14776225 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14776175 ACATGTTAAG
14776185 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14776226 AAACAAAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14780888 original size:24 final size:24
Alignment explanation
Indices: 14780840--14780891 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
14780830 GAGATGTAGT
14780840 ACTGTGGAAAAACTAAGAAATAAA
1 ACTGTGGAAAAACTAAGAAATAAA
* *
14780864 ACTGTGTAGAAAACTAAGAGA-AAA
1 ACTGTGGA-AAAACTAAGAAATAAA
14780888 ACTG
1 ACTG
14780892 AATGTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.54, C:0.10, G:0.19, T:0.17
Consensus pattern (24 bp):
ACTGTGGAAAAACTAAGAAATAAA
Found at i:14781063 original size:22 final size:22
Alignment explanation
Indices: 14781035--14781078 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14781025 ATTTTTTGTC
*
14781035 CTTAATTTTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14781057 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14781079 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:14784983 original size:22 final size:22
Alignment explanation
Indices: 14784958--14785001 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14784948 ATTTTTTGTC
*
14784958 CTTAATTCTAGAGATATAAATA
1 CTTAATTCTAGAGATACAAATA
14784980 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14785002 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:14793991 original size:15 final size:15
Alignment explanation
Indices: 14793971--14794000 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14793961 TTTATATACG
*
14793971 AAATGCATTAAGCTT
1 AAATGCATGAAGCTT
14793986 AAATGCATGAAGCTT
1 AAATGCATGAAGCTT
14794001 TTATATGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
AAATGCATGAAGCTT
Found at i:14802619 original size:20 final size:20
Alignment explanation
Indices: 14802582--14802620 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14802572 AAAGTTCGAC
*
14802582 TTTTTTTTTTTTTAATTTTA
1 TTTTTTTTTTCTTAATTTTA
14802602 TTTTTTCTTTTCTT-ATTTT
1 TTTTTT-TTTTCTTAATTTT
14802621 GCTCCTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTTCTTAATTTTA
Found at i:14812195 original size:49 final size:49
Alignment explanation
Indices: 14812090--14813192 Score: 1394
Period size: 49 Copynumber: 22.7 Consensus size: 49
14812080 CAAATGAGAT
*
14812090 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAG-AA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
* * * *
14812138 TTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTTAAGAAAGAAT
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
*
14812187 TTTTAAAGTTGTGGAACCTCTGTTGAGAGGAGCTTTTTTCAAGAAAG-AA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGC-TTTTTCAAGAAAGAAA
*
14812236 TTTTAAAGTTGTGGAGCCTCTGTTGAGATGAGCTTTTTCAAGAAA-AAA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
* ** * * **
14812284 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAA-ATGAGATTT
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-AAGA-AA
*
14812334 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTTAAGAAAGAAA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
* * * * * **
14812383 TTTTAAAGTTGTTGAGCCTATGCTGAGAGGAGCTTTTCCAA-ATGAGATT
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-AAGAAA
*
14812432 TTTTAAAGTTGTGGAGCCTTTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
* * * * * **
14812481 TTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTCCAA-ATGAGATT
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-AAGAAA
* *
14812530 TTTTAAAGTTGTGGAGCTTCTGTTGAGATGAGCTTTTTCAAGAAAGAAA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
14812579 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAG-AA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
* * * * *
14812627 TTTTTAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTCCAA-AATGAAA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
* * *
14812674 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCCTTTCCAA-AATGAAA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
* * * * *
14812722 TTTTAAAGTTGTGGAACCTCTGCTGAAAGGAGCTTTTCCAA-AATGAAA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
14812770 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAA-AAA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
* * * * **
14812818 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAA-ATGAGATTT
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-AAGA-AA
14812868 TTTTAAAGTTGTGGAGCCTCTGTTGA-AGGAGCTTTTTCAAGAAAGAAA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
* * * * * **
14812916 TTTTAAAGTTGTTGAGCCTCTGCTGGGAGGAGCTTTTCCAA-ATGAGATT
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-AAGAAA
*
14812965 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAAAAA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
* * *
14813014 TTTTAAAGTTGTTGAGCCTTTGTTGAGAGGAGCTTTTTCAAGAAAGAAT
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
*
14813063 TTTTAAAGTTGTGGAACCTCTGTTGAGAGGAGCTTTTTCAAGAAAG-AA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
*
14813111 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAG-AAGAAA
1 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
* * * *
14813159 TTTGAAAGTTGATTGAGCCTCTGCTAAGAGGAGC
1 TTTTAAAGTTG-TGGAGCCTCTGTTGAGAGGAGC
14813193 CCTTTTTTGT
Statistics
Matches: 915, Mismatches: 117, Indels: 45
0.85 0.11 0.04
Matches are distributed among these distances:
46 3 0.00
47 43 0.05
48 343 0.37
49 446 0.49
50 79 0.09
51 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (49 bp):
TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAAA
Found at i:14813406 original size:6 final size:5
Alignment explanation
Indices: 14813359--14813409 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
14813349 AATAATATTT
* * *
14813359 AACAA AACAA AACAA AAAAA GAAAAA AATAA AACAGA AA-AA AACAA AACAA
1 AACAA AACAA AACAA AACAA -AACAA AACAA AACA-A AACAA AACAA AACAA
14813410 GTAAACAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 3 0.08
5 29 0.73
6 8 0.20
ACGTcount: A:0.82, C:0.12, G:0.04, T:0.02
Consensus pattern (5 bp):
AACAA
Found at i:14813415 original size:23 final size:22
Alignment explanation
Indices: 14813362--14813429 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 22
14813352 AATATTTAAC
* *
14813362 AAAACAAAAC-AAAAAAAGAAA
1 AAAATAAAACAAAAAAAAAAAA
14813383 AAAATAAAACAGAAAAAAACAAAA
1 AAAATAAAACA-AAAAAAA-AAAA
* * *
14813407 CAAGT-AAACAAACAAAAAAAA
1 AAAATAAAACAAAAAAAAAAAA
14813428 AA
1 AA
14813430 GAAAGAAGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 14 0.37
22 6 0.16
23 12 0.32
24 6 0.16
ACGTcount: A:0.82, C:0.10, G:0.04, T:0.03
Consensus pattern (22 bp):
AAAATAAAACAAAAAAAAAAAA
Found at i:14813433 original size:36 final size:36
Alignment explanation
Indices: 14813362--14813433 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
14813352 AATATTTAAC
* *
14813362 AAAACAAAACAAAAAAAGAAAAAAATAAAACAGAAA
1 AAAACAAAACAAAAAAACAAAAAAATAAAAAAGAAA
**
14813398 AAAACAAAACAAGTAAACAAACAAAA-AAAAAAGAAA
1 AAAACAAAACAAAAAAACAAA-AAAATAAAAAAGAAA
14813434 GAAGTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 27 0.87
37 4 0.13
ACGTcount: A:0.82, C:0.10, G:0.06, T:0.03
Consensus pattern (36 bp):
AAAACAAAACAAAAAAACAAAAAAATAAAAAAGAAA
Found at i:14814451 original size:27 final size:25
Alignment explanation
Indices: 14814410--14814462 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
14814400 AACCGGTACT
14814410 GAACCGCCGAACCAACCAGACCGAACC
1 GAACCGCCGAACCAACC-G-CCGAACC
* *
14814437 GAACCGTCGATCCAACCGCCGAACC
1 GAACCGCCGAACCAACCGCCGAACC
14814462 G
1 G
14814463 GTCAGACCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 1 0.04
27 15 0.62
ACGTcount: A:0.32, C:0.43, G:0.21, T:0.04
Consensus pattern (25 bp):
GAACCGCCGAACCAACCGCCGAACC
Found at i:14815016 original size:16 final size:16
Alignment explanation
Indices: 14814959--14815016 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
14814949 AAACTCTTAA
14814959 AAATCCAAAATCCATT-
1 AAATCCAAAATCC-TTG
* *
14814975 AAATCCAAAACCGCTCG
1 AAATCCAAAATC-CTTG
14814992 AAATCCAAAATCCTTG
1 AAATCCAAAATCCTTG
*
14815008 AAGTCCAAA
1 AAATCCAAA
14815017 GTCTGAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 23 0.66
17 12 0.34
ACGTcount: A:0.47, C:0.28, G:0.07, T:0.19
Consensus pattern (16 bp):
AAATCCAAAATCCTTG
Found at i:14815399 original size:141 final size:141
Alignment explanation
Indices: 14815145--14815426 Score: 519
Period size: 141 Copynumber: 2.0 Consensus size: 141
14815135 TCATAATTCA
*
14815145 TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTGGGATTTTAAATATAAACAGTCAC
1 TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTGAGATTTTAAATATAAACAGTCAC
*
14815210 ACCTAAGCTTTGCCTAGATGTTGGAGAGTCGGGATGGTCTCATTATATTTAAGAATCCAACTCTT
66 ACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGATGGTCTCATTATATTTAAGAATCCAACTCTT
*
14815275 AAATTGTATTT
131 AAATTGCATTT
*
14815286 TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTGAGATTTTAAATATAAACAGTCGC
1 TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTGAGATTTTAAATATAAACAGTCAC
*
14815351 ACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCTT
66 ACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGATGGTCTCATTATATTTAAGAATCCAACTCTT
14815416 AAATTGCATTT
131 AAATTGCATTT
14815427 CATTTTACAT
Statistics
Matches: 136, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 136 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (141 bp):
TATTAATAATAAGATTAATAAATAAAAAGTATAATAAAATTGAGATTTTAAATATAAACAGTCAC
ACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGATGGTCTCATTATATTTAAGAATCCAACTCTT
AAATTGCATTT
Found at i:14818724 original size:25 final size:25
Alignment explanation
Indices: 14818696--14818746 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
14818686 TTTTTAAGTT
*
14818696 TAATGTTGTG-ATAGTAATATTTTTA
1 TAATGTTATGAATA-TAATATTTTTA
* *
14818721 TAATTTTATGAATATATTATTTTTA
1 TAATGTTATGAATATAATATTTTTA
14818746 T
1 T
14818747 TATATATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (25 bp):
TAATGTTATGAATATAATATTTTTA
Found at i:14818763 original size:2 final size:2
Alignment explanation
Indices: 14818758--14818808 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
14818748 ATATATTGTT
* * *
14818758 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA TA CA 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
14818800 TA TA TA TA T
1 TA TA TA TA T
14818809 TTGAGGAGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:14825776 original size:13 final size:14
Alignment explanation
Indices: 14825758--14825793 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
14825748 GAAAAACGTT
14825758 AAAAAATATG-TGA
1 AAAAAATATGTTGA
*
14825771 AAAAAATAAGTTGA
1 AAAAAATATGTTGA
14825785 AAAAAATAT
1 AAAAAATAT
14825794 TATTTTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
AAAAAATATGTTGA
Found at i:14825885 original size:52 final size:53
Alignment explanation
Indices: 14825818--14825920 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 53
14825808 ATGAAACTAT
14825818 AATAATAATAAAATATATTTTAGAAAAAAT-TTA-T-AAACAAAAAAAAAATTAC
1 AATAATAATAAAATATATTTTA-AAAAAATGTTACTGAAA-AAAAAAAAAATTAC
* * *
14825870 AATAGTAATACAATATATTTTAAAAAAATGTTACTGAAAAAATAAAAAATT
1 AATAATAATAAAATATATTTTAAAAAAATGTTACTGAAAAAAAAAAAAATT
14825921 GATGTATAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 7 0.16
52 23 0.51
53 12 0.27
54 3 0.07
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (53 bp):
AATAATAATAAAATATATTTTAAAAAAATGTTACTGAAAAAAAAAAAAATTAC
Found at i:14826371 original size:21 final size:20
Alignment explanation
Indices: 14826331--14826380 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
14826321 ATAATTTTTT
* *
14826331 AAATAAGATTATTTGGTAAA
1 AAATAAAATTATTTAGTAAA
* *
14826351 CAACTAAAATTATTTATTAAA
1 -AAATAAAATTATTTAGTAAA
14826372 AAATAAAAT
1 AAATAAAAT
14826381 CCATATTTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (20 bp):
AAATAAAATTATTTAGTAAA
Found at i:14826597 original size:2 final size:2
Alignment explanation
Indices: 14826586--14826627 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
14826576 CTTATTTGTG
14826586 TA TA -A 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
14826627 T
1 T
14826628 TAGATTAGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14828932 original size:18 final size:20
Alignment explanation
Indices: 14828891--14828933 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
14828881 TTTTTAAGTG
*
14828891 TTTATTTGATAAAAAATTAA
1 TTTATTTAATAAAAAATTAA
14828911 -TTATTTAAT-AAAAA-TAA
1 TTTATTTAATAAAAAATTAA
14828928 TTTATT
1 TTTATT
14828934 AGTCAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 10 0.48
19 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTATTTAATAAAAAATTAA
Found at i:14829286 original size:166 final size:165
Alignment explanation
Indices: 14829076--14829381 Score: 461
Period size: 166 Copynumber: 1.8 Consensus size: 165
14829066 AATATTATAT
* * * * *
14829076 ATAATTTTTTAAACTCAAATTTAATTTGATTTGATTTAAAATATTATTATATTAAT-AATAATAT
1 ATAATATTTTAAACTCAAATTTAATTTAATTCGACTTAAAATATTATTATATTAATAAAAAATA-
* * *
14829140 TTTTATTTAATTTTACTTAAAAAATTAAAATATTAATATTAAAAGTCTTTTAATATTTTAATTTT
65 TTTTATTTAATTTTAATT-AAAAATTAAAATATTAACATTAAAAGTCTTTTAATAATTTAATTTT
14829205 AAATACTTTTATAGTTATCTTAAGTAAGACTTTAAAC
129 AAATACTTTTATAGTTATCTTAAGTAAGACTTTAAAC
* *
14829242 ATAATATTTTAAGCTCAAATTTGATTTAATTCGACTTAAAATATTATTATATTAATAAAAAATAT
1 ATAATATTTTAAACTCAAATTTAATTTAATTCGACTTAAAATATTATTATATTAATAAAAAATAT
* * *
14829307 TTTATTTAATTTTAATTAAAAATTAAAATATTAGCATTGAAAGTCTTTTGATAATTTAATTTTAA
66 TTTATTTAATTTTAATTAAAAATTAAAATATTAACATTAAAAGTCTTTTAATAATTTAATTTTAA
*
14829372 ATATTTTTAT
131 ATACTTTTAT
14829382 TTTGTATATT
Statistics
Matches: 125, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
165 52 0.42
166 67 0.54
167 6 0.05
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (165 bp):
ATAATATTTTAAACTCAAATTTAATTTAATTCGACTTAAAATATTATTATATTAATAAAAAATAT
TTTATTTAATTTTAATTAAAAATTAAAATATTAACATTAAAAGTCTTTTAATAATTTAATTTTAA
ATACTTTTATAGTTATCTTAAGTAAGACTTTAAAC
Found at i:14829442 original size:26 final size:24
Alignment explanation
Indices: 14829399--14829455 Score: 87
Period size: 26 Copynumber: 2.3 Consensus size: 24
14829389 ATTATTAAAC
14829399 ATAAATATTTTTAATATTTCAATA
1 ATAAATATTTTTAATATTTCAATA
*
14829423 ATAAATAGTATTTTATTATTTCAATA
1 ATAAATA-T-TTTTAATATTTCAATA
14829449 ATAAATA
1 ATAAATA
14829456 ATAAATGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 7 0.23
25 1 0.03
26 22 0.73
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
ATAAATATTTTTAATATTTCAATA
Found at i:14829467 original size:30 final size:32
Alignment explanation
Indices: 14829419--14829480 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
14829409 TTAATATTTC
14829419 AATAATAAATAGTATTTTATTA-TTTCAATAATA
1 AATAATAAATAG-ATTTTATTAGTTT-AATAATA
14829452 AATAATAAAT-G-TTTTATTAGTTTAATAAT
1 AATAATAAATAGATTTTATTAGTTTAATAAT
14829481 TAATGTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 14 0.50
31 3 0.11
32 1 0.04
33 10 0.36
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (32 bp):
AATAATAAATAGATTTTATTAGTTTAATAATA
Found at i:14829704 original size:15 final size:16
Alignment explanation
Indices: 14829668--14829707 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
14829658 AATATAAATT
14829668 TAAATATTTTAATAGTA
1 TAAATATTTTAATAG-A
14829685 TAAATATTTTAATA-A
1 TAAATATTTTAATAGA
14829700 TAAATATT
1 TAAATATT
14829708 ACTATTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 9 0.39
17 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TAAATATTTTAATAGA
Found at i:14829719 original size:38 final size:38
Alignment explanation
Indices: 14829646--14829719 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 38
14829636 TGATTTAATA
*
14829646 ATAAATACTTTCAATATAAATTTAAATATTTTAATAGT
1 ATAAATACTTTCAATATAAATTTAAATATTGTAATAGT
* *
14829684 ATAAATA-TTTTAATAATAAATATT-ACTATTGTAATA
1 ATAAATACTTTCAAT-ATAAAT-TTAAATATTGTAATA
14829720 TTAATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 6 0.19
38 23 0.74
39 2 0.06
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (38 bp):
ATAAATACTTTCAATATAAATTTAAATATTGTAATAGT
Found at i:14830626 original size:18 final size:18
Alignment explanation
Indices: 14830603--14830637 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14830593 CAATTTAAAA
*
14830603 ATAAAAAATTTTATTTTT
1 ATAAAAAATATTATTTTT
14830621 ATAAAAAATATTATTTT
1 ATAAAAAATATTATTTT
14830638 ACTCATAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAAAAATATTATTTTT
Found at i:14830907 original size:31 final size:32
Alignment explanation
Indices: 14830838--14830947 Score: 84
Period size: 31 Copynumber: 3.5 Consensus size: 32
14830828 TAATAAATCT
*
14830838 ATTTTTT-AAATGATATGGAAGTTTTTACATC
1 ATTTTTTAAAATGATATGGAAGTTTTTACATA
* * **
14830869 ATATTTTAAAATGATAT-GTAGTTTTTATTTA
1 ATTTTTTAAAATGATATGGAAGTTTTTACATA
** * *
14830900 ATTTTTT-AACCGATATAGAAATTTTTATC-TA
1 ATTTTTTAAAATGATATGGAAGTTTTTA-CATA
* *
14830931 ATTTTTCAAAATAATAT
1 ATTTTTTAAAATGATAT
14830948 TTAATTTTAA
Statistics
Matches: 60, Mismatches: 15, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
30 7 0.12
31 38 0.63
32 15 0.25
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.50
Consensus pattern (32 bp):
ATTTTTTAAAATGATATGGAAGTTTTTACATA
Found at i:14831039 original size:18 final size:18
Alignment explanation
Indices: 14830999--14831044 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
14830989 AATTTTTTAA
*
14830999 AATATATATT-TTCTATT
1 AATAAATATTATTCTATT
*
14831016 AA-AAATATTATTTTATT
1 AATAAATATTATTCTATT
*
14831033 AATAAATCTTAT
1 AATAAATATTAT
14831045 CATAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 6 0.25
17 10 0.42
18 8 0.33
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (18 bp):
AATAAATATTATTCTATT
Done.