Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 119 of 295
Found at i:35753123 original size:14 final size:14
Alignment explanation
Indices: 35753104--35753138 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
35753094 CAAAAATTGA
35753104 GTTAGTAGAACCAG
1 GTTAGTAGAACCAG
* *
35753118 GTTAGTAGAATCGG
1 GTTAGTAGAACCAG
35753132 GTTAGTA
1 GTTAGTA
35753139 AATCAAACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (14 bp):
GTTAGTAGAACCAG
Found at i:35755350 original size:19 final size:19
Alignment explanation
Indices: 35755302--35755354 Score: 88
Period size: 20 Copynumber: 2.7 Consensus size: 19
35755292 TGGAAAGTTA
35755302 TAAAATTTGATGAAAAATTC
1 TAAAATTT-ATGAAAAATTC
35755322 TAAAATTTTATGAAAAATTC
1 TAAAA-TTTATGAAAAATTC
35755342 TAAAATTTATGAA
1 TAAAATTTATGAA
35755355 TATATGTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.25
20 21 0.66
21 3 0.09
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (19 bp):
TAAAATTTATGAAAAATTC
Found at i:35762969 original size:22 final size:22
Alignment explanation
Indices: 35762941--35762982 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
35762931 GTTAAAGAAG
*
35762941 GTTTAGCATAATCTTACATAAA
1 GTTTAGCATAATCATACATAAA
35762963 GTTTAGCATAATCATACATA
1 GTTTAGCATAATCATACATA
35762983 GTACGTGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (22 bp):
GTTTAGCATAATCATACATAAA
Found at i:35764515 original size:40 final size:40
Alignment explanation
Indices: 35764460--35764677 Score: 296
Period size: 40 Copynumber: 5.5 Consensus size: 40
35764450 CGGATGATAA
* ** * *
35764460 CCGGGATAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
35764500 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35764540 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35764580 CCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35764620 CCGGGCTAAGTCTCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35764660 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35764678 TACCTGGCTT
Statistics
Matches: 161, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 14 0.09
40 147 0.91
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35770813 original size:46 final size:48
Alignment explanation
Indices: 35770706--35770826 Score: 176
Period size: 46 Copynumber: 2.6 Consensus size: 48
35770696 AAGCTGGCGC
* * *
35770706 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGCATATATCGAGGCCGATG
*
35770754 CATGTCCCAGACATGTCTTACACTAGCTCT-CATA-AT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TGCATATATCGAGGCCGATG
35770800 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
35770827 ACACATATCA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
46 36 0.53
47 1 0.01
48 30 0.44
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGCATATATCGAGGCCGATG
Found at i:35781911 original size:38 final size:38
Alignment explanation
Indices: 35781777--35781915 Score: 134
Period size: 38 Copynumber: 3.5 Consensus size: 38
35781767 TTCCAACATG
* * *
35781777 TATTATCTTCAATTTAATTTCTCTTTAAAATAATCAAA
1 TATTATCTTCAATTTAATTTCTATTCAAAATAATAAAA
* * * *
35781815 TATAATCTTCAATTCAATTTCTGTCCAAAATAATCCCCAATAAA
1 TATTATCTTCAATTTAATTTCTATTCAAAATAAT-----A-AAA
* * *
35781859 TTTTATTTTCAATTTAATTACTATTCAAAATAATAAAA
1 TATTATCTTCAATTTAATTTCTATTCAAAATAATAAAA
35781897 TATTATCTTCAATTTAATT
1 TATTATCTTCAATTTAATT
35781916 CCTTTACGTC
Statistics
Matches: 80, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
38 49 0.61
39 1 0.01
44 30 0.38
ACGTcount: A:0.40, C:0.14, G:0.01, T:0.45
Consensus pattern (38 bp):
TATTATCTTCAATTTAATTTCTATTCAAAATAATAAAA
Found at i:35785099 original size:22 final size:21
Alignment explanation
Indices: 35785087--35785146 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
35785077 TAAAGAAAAT
*
35785087 AGAAAATATAAATACAAATAA
1 AGAAAATAAAAATACAAATAA
* *
35785108 AGAAAATAGAAAATATAAATAT
1 AGAAAATA-AAAATACAAATAA
*
35785130 A-AATA-AAAAATACAAAT
1 AGAAAATAAAAATACAAAT
35785147 TTAATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 10 0.30
20 1 0.03
21 11 0.33
22 11 0.33
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (21 bp):
AGAAAATAAAAATACAAATAA
Found at i:35785114 original size:28 final size:28
Alignment explanation
Indices: 35785074--35785136 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
35785064 ACATGCAAGA
35785074 AAATAAAGAAAATAGAAAATATAAATAC
1 AAATAAAGAAAATAGAAAATATAAATAC
*
35785102 AAATAAAGAAAATAGAAAATATAAATAT
1 AAATAAAGAAAATAGAAAATATAAATAC
35785130 AAATAAA
1 AAATAAA
35785137 AAATACAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (28 bp):
AAATAAAGAAAATAGAAAATATAAATAC
Found at i:35785139 original size:19 final size:18
Alignment explanation
Indices: 35785111--35785155 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
35785101 CAAATAAAGA
* *
35785111 AAATAGAAAATATAAATAT
1 AAATAAAAAATACAAAT-T
35785130 AAATAAAAAATACAAATT
1 AAATAAAAAATACAAATT
*
35785148 TAATAAAA
1 AAATAAAA
35785156 TTGGGTTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAATAAAAAATACAAATT
Found at i:35789740 original size:27 final size:29
Alignment explanation
Indices: 35789679--35789742 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 29
35789669 ATATTTTGGT
*
35789679 GATATTTTTAATTAATTAATTAATTAGTTA
1 GATATTTTTAATTAATTAATT-ATTACTTA
*
35789709 AATATTATTTAATTAA-T-ATT-TTACTTA
1 GATATT-TTTAATTAATTAATTATTACTTA
35789736 GATATTT
1 GATATTT
35789743 ATTATTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 1 0.03
27 11 0.37
29 3 0.10
30 6 0.20
31 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (29 bp):
GATATTTTTAATTAATTAATTATTACTTA
Found at i:35789746 original size:23 final size:24
Alignment explanation
Indices: 35789714--35789760 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
35789704 AGTTAAATAT
35789714 TATTTAATTAATATTTTACTTAGA
1 TATTTAATTAATATTTTACTTAGA
* *
35789738 TATTT-ATTATTATTTTATTTAGA
1 TATTTAATTAATATTTTACTTAGA
35789761 AAATAGTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
TATTTAATTAATATTTTACTTAGA
Found at i:35790467 original size:12 final size:12
Alignment explanation
Indices: 35790452--35790478 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
35790442 TAAATTAGAG
35790452 ATTGAATTAAAT
1 ATTGAATTAAAT
35790464 ATTGAATTAAAT
1 ATTGAATTAAAT
35790476 ATT
1 ATT
35790479 AATGAGTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (12 bp):
ATTGAATTAAAT
Found at i:35793220 original size:22 final size:21
Alignment explanation
Indices: 35793181--35793226 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
35793171 TAAAAACTAC
**
35793181 AAAAATTTATAATTTTTACAA
1 AAAAATTTATAAAATTTACAA
*
35793202 AAAAATTATATAAAATTTATAA
1 AAAAATT-TATAAAATTTACAA
35793224 AAA
1 AAA
35793227 TATAATAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATTTATAAAATTTACAA
Found at i:35793517 original size:7 final size:7
Alignment explanation
Indices: 35793505--35793530 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35793495 TTTTGTAATT
35793505 ATTTTAA
1 ATTTTAA
35793512 ATTTTAA
1 ATTTTAA
35793519 ATTTTAA
1 ATTTTAA
35793526 ATTTT
1 ATTTT
35793531 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTAA
Found at i:35793536 original size:14 final size:14
Alignment explanation
Indices: 35793503--35793537 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
35793493 ATTTTTGTAA
35793503 TTATTTTAAATTTT
1 TTATTTTAAATTTT
**
35793517 AAATTTTAAATTTT
1 TTATTTTAAATTTT
35793531 TTATTTT
1 TTATTTT
35793538 TAAAATAATT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTTAAATTTT
Found at i:35797696 original size:9 final size:9
Alignment explanation
Indices: 35797667--35797696 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
35797657 TGAATTTTAC
35797667 AATTCGAAT
1 AATTCGAAT
*
35797676 AACTCGAAT
1 AATTCGAAT
35797685 AATTCGAAT
1 AATTCGAAT
35797694 AAT
1 AAT
35797697 GGATTGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:35810279 original size:17 final size:18
Alignment explanation
Indices: 35810248--35810282 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
35810238 CACAACTCAG
35810248 TAAATATTCAATAACAAA
1 TAAATATTCAATAACAAA
*
35810266 TAAA-ATTCATTAACAAA
1 TAAATATTCAATAACAAA
35810283 CACAATGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAATATTCAATAACAAA
Found at i:35810466 original size:43 final size:43
Alignment explanation
Indices: 35810403--35810513 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
35810393 TTCAGGTGTC
* *
35810403 ACACGCCCGTGTGAACAGGTCATGTGCCTCACACAGCCACCAG
1 ACACGCCCATGTAAACAGGTCATGTGCCTCACACAGCCACCAG
* * *
35810446 ACACGCCCATGTAAATAGGTCGTGTGCCTCACACTGCCACCAG
1 ACACGCCCATGTAAACAGGTCATGTGCCTCACACAGCCACCAG
* * *
35810489 ACACGCCCGTGT-CACAGGTCGTGTG
1 ACACGCCCATGTAAACAGGTCATGTG
35810514 AAAATAGGGC
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 11 0.18
43 49 0.82
ACGTcount: A:0.23, C:0.35, G:0.24, T:0.17
Consensus pattern (43 bp):
ACACGCCCATGTAAACAGGTCATGTGCCTCACACAGCCACCAG
Found at i:35811771 original size:41 final size:40
Alignment explanation
Indices: 35811717--35811875 Score: 139
Period size: 41 Copynumber: 3.9 Consensus size: 40
35811707 AGTGCCAAAG
* *
35811717 CATAGCTGAAGCTAT-TACAATCTCTCACACTAAGTGCCTTT
1 CATAGCCGAAGCTATCT-CAAT-TCGCACACTAAGTGCCTTT
* *
35811758 CATAGCCGAAGCTATCTCAGTCTCGCACACTAAGTGCCATAT
1 CATAGCCGAAGCTATCTCAAT-TCGCACACTAAGTGCC-TTT
* *
35811800 -ATAGTCGAAGCTAT-TCCGAA-TCACACACTAAGTG-CTTT
1 CATAGCCGAAGCTATCT-C-AATTCGCACACTAAGTGCCTTT
* * *
35811838 ATATAGCCAAAGCTATCTCAATACGCACACTAAGTGCC
1 -CATAGCCGAAGCTATCTCAATTCGCACACTAAGTGCC
35811876 AAACTTAATC
Statistics
Matches: 97, Mismatches: 12, Indels: 18
0.76 0.09 0.14
Matches are distributed among these distances:
38 2 0.02
39 3 0.03
40 39 0.40
41 49 0.51
42 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (40 bp):
CATAGCCGAAGCTATCTCAATTCGCACACTAAGTGCCTTT
Found at i:35811841 original size:40 final size:40
Alignment explanation
Indices: 35811742--35811874 Score: 128
Period size: 40 Copynumber: 3.3 Consensus size: 40
35811732 TACAATCTCT
* * **
35811742 CACACTAAGTGCCTTT-CATAGCCGAAGCTATCTCAGTCTCG
1 CACACTAAGTG-CTTTATATAGCCGAAGCTAT-TCCGAATCG
** * *
35811783 CACACTAAGTGCCATATATAGTCGAAGCTATTCCGAATCA
1 CACACTAAGTGCTTTATATAGCCGAAGCTATTCCGAATCG
*
35811823 CACACTAAGTGCTTTATATAGCCAAAGCTA-TCTC-AATACG
1 CACACTAAGTGCTTTATATAGCCGAAGCTATTC-CGAAT-CG
35811863 CACACTAAGTGC
1 CACACTAAGTGC
35811875 CAAACTTAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
39 5 0.07
40 47 0.62
41 24 0.32
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCTTTATATAGCCGAAGCTATTCCGAATCG
Found at i:35821133 original size:46 final size:46
Alignment explanation
Indices: 35821066--35821241 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 46
35821056 TATTTGGGCA
35821066 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
35821112 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* * *
35821157 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
35821205 CCCGAGA-TCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
35821242 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 60 0.56
47 28 0.26
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:35821221 original size:93 final size:93
Alignment explanation
Indices: 35821062--35821233 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
35821052 AGGATATTTG
* * *
35821062 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAG
35821127 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
35821155 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGA-TCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGA-ACTCATTGA
35821219 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
35821234 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:35823171 original size:15 final size:15
Alignment explanation
Indices: 35823151--35823219 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
35823141 GTATCTTGGG
35823151 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
35823166 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
35823181 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
35823196 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
35823211 TTTCTTTAT
1 TTTCTTTAT
35823220 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:35823220 original size:30 final size:30
Alignment explanation
Indices: 35823142--35823229 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
35823132 CATAGTATCG
* * * *
35823142 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
35823172 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
35823202 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
35823230 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:35825683 original size:46 final size:46
Alignment explanation
Indices: 35825616--35825791 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
35825606 TATTTGGGCA
*
35825616 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
35825662 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
35825707 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35825755 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35825792 GCAGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 5 0.05
43 5 0.05
45 2 0.02
46 60 0.55
47 26 0.24
48 2 0.02
50 3 0.03
51 6 0.06
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35825771 original size:93 final size:93
Alignment explanation
Indices: 35825612--35825782 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
35825602 AGGATATTTG
* * *
35825612 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAACGCCCGAACTCGTTGAG
35825677 TTGAGTCCGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTTGTGAGATGTAACTA
* * *
35825705 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCTTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAACGCCCGAACTCGTTGAG
35825770 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
35825783 CACTTATGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTTGTGAGATGTAACTA
Found at i:35828765 original size:15 final size:15
Alignment explanation
Indices: 35828745--35828813 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
35828735 GTATCTTGGG
35828745 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
35828760 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
35828775 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
35828790 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
35828805 TTTCTTTAT
1 TTTCTTTAT
35828814 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:35828814 original size:30 final size:30
Alignment explanation
Indices: 35828736--35828823 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
35828726 CATTGTATCG
* * * *
35828736 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
35828766 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
35828796 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
35828824 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:35831277 original size:46 final size:46
Alignment explanation
Indices: 35831210--35831385 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
35831200 TATTTGGGCA
*
35831210 TCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
35831256 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* * *
35831301 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
35831349 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
35831386 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 62 0.57
47 28 0.26
48 1 0.01
50 3 0.03
51 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:35831365 original size:93 final size:93
Alignment explanation
Indices: 35831206--35831377 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
35831196 AGGATATTTG
* *
35831206 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
35831271 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
35831299 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGTTGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
35831364 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
35831378 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:35853816 original size:14 final size:14
Alignment explanation
Indices: 35853797--35853823 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35853787 TTTTAATAAC
35853797 TAAGTAAAGATACA
1 TAAGTAAAGATACA
35853811 TAAGTAAAGATAC
1 TAAGTAAAGATAC
35853824 CACACATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (14 bp):
TAAGTAAAGATACA
Found at i:35869398 original size:29 final size:30
Alignment explanation
Indices: 35869318--35869408 Score: 94
Period size: 31 Copynumber: 3.0 Consensus size: 30
35869308 TGCATGATTA
* * *
35869318 AAACAAAATTAAAGTTTCAAGTGTACATTT
1 AAACCAAATTAAAGTTTCATGTGTACAATT
* *
35869348 AAACCACAATTAGAGTTTCATGCGTACAATT
1 AAACCA-AATTAAAGTTTCATGTGTACAATT
** *
35869379 GCACCAAATTAAAG-TTCATGTATACAATT
1 AAACCAAATTAAAGTTTCATGTGTACAATT
35869408 A
1 A
35869409 CACATTAAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 13 0.27
30 12 0.24
31 24 0.49
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (30 bp):
AAACCAAATTAAAGTTTCATGTGTACAATT
Found at i:35871242 original size:20 final size:21
Alignment explanation
Indices: 35871182--35871253 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 21
35871172 TACTTCGGTA
*
35871182 CCCTAAATGCACATTT-TTGC
1 CCCTAAATGCACATTTGATGC
*** *
35871202 CCCTGTTTGTAC-TTTGATGC
1 CCCTAAATGCACATTTGATGC
*
35871222 CCTTAAATGCACATTTG-TGC
1 CCCTAAATGCACATTTGATGC
*
35871242 CCCTAATTGCAC
1 CCCTAAATGCAC
35871254 TTCGGTGCCC
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
19 3 0.08
20 31 0.82
21 4 0.11
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (21 bp):
CCCTAAATGCACATTTGATGC
Found at i:35871256 original size:79 final size:78
Alignment explanation
Indices: 35871000--35871276 Score: 331
Period size: 79 Copynumber: 3.5 Consensus size: 78
35870990 AAATAAAGAA
* * *
35871000 GTGCCCTTGTTTGTACTTCGGTACCGCTGAATGCACATTTGTGCCACTGTTTGTACTTCGGTACC
1 GTGCCCCTATTTGTACTTCGGTACC-CTGAATGCACATTTGTGCCCCTGTTTGTACTTCGGTA-C
*
35871065 CCTGAATGCACATTT
64 CCTAAATGCACATTT
* * *
35871080 GTGCCCCTATTTGTACTTCGATACCCTTGAATGCACATTTGTGCCCATGTTTGTGCTTCGGTACC
1 GTGCCCCTATTTGTACTTCGGTACCC-TGAATGCACATTTGTGCCCCTGTTTGTACTTCGGTACC
*
35871145 CTAAATGCACATCT
65 CTAAATGCACATTT
* * * * * * *
35871159 GTGCCCCTGTTTTTACTTCGGTACCCTAAATGCACATTTTTGCCCCTGTTTGTACTTTGATGCCC
1 GTGCCCCTATTTGTACTTCGGTACCCTGAATGCACATTTGTGCCCCTGTTTGTACTTCGGTACCC
35871224 TTAAATGCACATTT
66 -TAAATGCACATTT
* * *
35871238 GTGCCCCTAATTGCACTTCGGTGCCCCTG-ATCGCACATT
1 GTGCCCCTATTTGTACTTCGGT-ACCCTGAAT-GCACATT
35871277 CATGCTTCTG
Statistics
Matches: 168, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
78 32 0.19
79 70 0.42
80 66 0.39
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.36
Consensus pattern (78 bp):
GTGCCCCTATTTGTACTTCGGTACCCTGAATGCACATTTGTGCCCCTGTTTGTACTTCGGTACCC
TAAATGCACATTT
Found at i:35871263 original size:40 final size:39
Alignment explanation
Indices: 35871000--35871259 Score: 322
Period size: 40 Copynumber: 6.6 Consensus size: 39
35870990 AAATAAAGAA
* *
35871000 GTGCCCTTGTTTGTACTTCGGTACCGCTGAATGCACATTT
1 GTGCCCCTGTTTGTACTTCGGTACC-CTAAATGCACATTT
* *
35871040 GTGCCACTGTTTGTACTTCGGTACCCCTGAATGCACATTT
1 GTGCCCCTGTTTGTACTTCGGTA-CCCTAAATGCACATTT
* * *
35871080 GTGCCCCTATTTGTACTTCGATACCCTTGAATGCACATTT
1 GTGCCCCTGTTTGTACTTCGGTACCC-TAAATGCACATTT
* * *
35871120 GTGCCCATGTTTGTGCTTCGGTACCCTAAATGCACATCT
1 GTGCCCCTGTTTGTACTTCGGTACCCTAAATGCACATTT
*
35871159 GTGCCCCTGTTTTTACTTCGGTACCCTAAATGCACATTT
1 GTGCCCCTGTTTGTACTTCGGTACCCTAAATGCACATTT
* * * *
35871198 TTGCCCCTGTTTGTACTTTGATGCCCTTAAATGCACATTT
1 GTGCCCCTGTTTGTACTTCGGTACCC-TAAATGCACATTT
** *
35871238 GTGCCCCTAATTGCACTTCGGT
1 GTGCCCCTGTTTGTACTTCGGT
35871260 GCCCCTGATC
Statistics
Matches: 191, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
39 70 0.37
40 119 0.62
41 2 0.01
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.37
Consensus pattern (39 bp):
GTGCCCCTGTTTGTACTTCGGTACCCTAAATGCACATTT
Found at i:35871836 original size:20 final size:19
Alignment explanation
Indices: 35871811--35871882 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
35871801 AGAAACATTT
35871811 GTGCCCTTGATTACACTTCG
1 GTGCCCTT-ATTACACTTCG
*
35871831 GTGCCCCTTATCACACGTTC-
1 GTG-CCCTTATTACAC-TTCG
* * *
35871851 GTGCTCTTGATTGCACTTTG
1 GTGCCCTT-ATTACACTTCG
35871871 GTGCCCTTATTA
1 GTGCCCTTATTA
35871883 TGCATCTATG
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.22
20 24 0.59
21 8 0.20
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (19 bp):
GTGCCCTTATTACACTTCG
Found at i:35875575 original size:40 final size:40
Alignment explanation
Indices: 35875500--35875763 Score: 374
Period size: 40 Copynumber: 6.6 Consensus size: 40
35875490 AACCCAAGTA
*
35875500 CCTTCGGGATTTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-T-AGCACAAATG
*
35875539 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
35875579 CCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
35875619 CCTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
35875659 CCTTCGAGACTTAGCCCGGATATAGTCAATA-CATCCAGGATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCA--CA-AATG
* *
35875701 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
35875741 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
35875764 CATTCGAATA
Statistics
Matches: 202, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 15 0.07
40 147 0.73
41 7 0.03
42 31 0.15
43 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:35875742 original size:122 final size:120
Alignment explanation
Indices: 35875500--35875763 Score: 392
Period size: 122 Copynumber: 2.2 Consensus size: 120
35875490 AACCCAAGTA
* * *
35875500 CCTTCGGGATTTAG-CCGGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCACACAAATGCCTTCGAGACTTAGCCCGGATATAG
* *
35875564 TCAATAGCACAAATGCCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATG
66 TCAATAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
*
35875619 CCTTCGGGACTTAGCCCAGATATAGTCAA-T-AGCACAAATGCCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCA-CACAAATGCCTTCGAGACTTAGCCCGGATAT
*
35875682 AGTCAATA-CATCCAGGATGCCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
64 AGTCAATAGCA--CA-AATGCCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
35875741 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
35875764 CATTCGAATA
Statistics
Matches: 131, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
119 16 0.12
120 47 0.36
121 5 0.04
122 63 0.48
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCACACAAATGCCTTCGAGACTTAGCCCGGATATAG
TCAATAGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
Found at i:35877675 original size:29 final size:29
Alignment explanation
Indices: 35877643--35877700 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
35877633 GAAATACGAA
35877643 AAAAATTATTTTAAAAATTTTTATATACT
1 AAAAATTATTTTAAAAATTTTTATATACT
*
35877672 AAAAATTATTTTAAAATTTTTTATATACT
1 AAAAATTATTTTAAAAATTTTTATATACT
35877701 TTCAAAGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (29 bp):
AAAAATTATTTTAAAAATTTTTATATACT
Found at i:35888545 original size:21 final size:21
Alignment explanation
Indices: 35888521--35888587 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
35888511 TAGCTATCAT
35888521 ATTTTGGTAAGTTCGTATTAC
1 ATTTTGGTAAGTTCGTATTAC
* ** * *
35888542 A-TTTGTTACA-TTATTTATCAT
1 ATTTTGGTA-AGTT-CGTATTAC
35888563 ATTTTGGTAAGTTCGTATTAC
1 ATTTTGGTAAGTTCGTATTAC
35888584 ATTT
1 ATTT
35888588 GTTACATTAT
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
20 8 0.25
21 16 0.50
22 8 0.25
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.52
Consensus pattern (21 bp):
ATTTTGGTAAGTTCGTATTAC
Found at i:35888562 original size:42 final size:42
Alignment explanation
Indices: 35888515--35888601 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
35888505 TGTTGTTAGC
35888515 TATCATATTTTGGTAAGTTCGTATTACATTTGTTACATTATT
1 TATCATATTTTGGTAAGTTCGTATTACATTTGTTACATTATT
35888557 TATCATATTTTGGTAAGTTCGTATTACATTTGTTACATTATT
1 TATCATATTTTGGTAAGTTCGTATTACATTTGTTACATTATT
35888599 TAT
1 TAT
35888602 GTTTAACTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.53
Consensus pattern (42 bp):
TATCATATTTTGGTAAGTTCGTATTACATTTGTTACATTATT
Found at i:35888779 original size:16 final size:16
Alignment explanation
Indices: 35888758--35888789 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35888748 CATTAGGGTG
35888758 TAGCAGGATTTGTGTC
1 TAGCAGGATTTGTGTC
35888774 TAGCAGGATTTGTGTC
1 TAGCAGGATTTGTGTC
35888790 AATGTATATT
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:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (16 bp):
TAGCAGGATTTGTGTC
Found at i:35890037 original size:30 final size:30
Alignment explanation
Indices: 35890003--35890059 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
35889993 GCCATATGGT
*
35890003 CGTGTGCCCCACACGGTCATGTGACACAGC
1 CGTGTGCCCCACACAGTCATGTGACACAGC
35890033 CGTGTGCCCCACACAGTCATGTGACAC
1 CGTGTGCCCCACACAGTCATGTGACAC
35890060 GACCGTATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.18
Consensus pattern (30 bp):
CGTGTGCCCCACACAGTCATGTGACACAGC
Found at i:35892555 original size:20 final size:20
Alignment explanation
Indices: 35892525--35892577 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
35892515 GGTAGTTTAC
35892525 TTCTATCTTGATTTTCATGAG
1 TTCT-TCTTGATTTTCATGAG
35892546 TTCTTCTTGATTTTCATGAG
1 TTCTTCTTGATTTTCATGAG
35892566 TTCTTCTTGATT
1 TTCTTCTTGATT
35892578 CTACCTTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 28 0.88
21 4 0.12
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.57
Consensus pattern (20 bp):
TTCTTCTTGATTTTCATGAG
Found at i:35895094 original size:45 final size:43
Alignment explanation
Indices: 35894993--35895110 Score: 148
Period size: 45 Copynumber: 2.7 Consensus size: 43
35894983 CGGGCTTCGG
*
35894993 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
** * * *
35895036 GTTTAGTAAGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
35895081 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
35895111 AATGTTATGT
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.02
43 25 0.42
44 3 0.05
45 30 0.50
46 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:35895441 original size:38 final size:38
Alignment explanation
Indices: 35895407--35895577 Score: 211
Period size: 38 Copynumber: 4.5 Consensus size: 38
35895397 GTAGGCTATA
*
35895407 TGCTGGAATTATATCCGAGTTAAATCCCGCAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
35895445 TGCTAGTAA-TATATCTGGGTTAAATCCCGCAGGCTTCG
1 TGCT-GGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
35895483 TGCTGGTAA-TATATCCGGGTTAATTCCCACAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
35895521 TGCTAGTATTATATCCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
35895559 TGCTGGTATTATATTCGGG
1 TGCTGGAATTATATCCGGG
35895578 CCTTTGAGCC
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
37 2 0.02
38 110 0.96
39 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:35895516 original size:76 final size:76
Alignment explanation
Indices: 35895407--35895577 Score: 245
Period size: 76 Copynumber: 2.2 Consensus size: 76
35895397 GTAGGCTATA
* * *
35895407 TGCTGG-AATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATCTGGGTTAAATC
1 TGCTGGTAA-TATATCCGGGTTAAATCCCACAGGCTTCGTGCTAGTAATATATCCGGGTTAAATC
* *
35895471 CCGCAGGCTTCG
65 CCGCAGGCCTAG
* *
35895483 TGCTGGTAATATATCCGGGTTAATTCCCACAGGCTTCGTGCTAGTATTATATCCGGGTTAAATCC
1 TGCTGGTAATATATCCGGGTTAAATCCCACAGGCTTCGTGCTAGTAATATATCCGGGTTAAATCC
35895548 CGCAGGCCTAG
66 CGCAGGCCTAG
* *
35895559 TGCTGGTATTATATTCGGG
1 TGCTGGTAATATATCCGGG
35895578 CCTTTGAGCC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
76 83 0.98
77 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (76 bp):
TGCTGGTAATATATCCGGGTTAAATCCCACAGGCTTCGTGCTAGTAATATATCCGGGTTAAATCC
CGCAGGCCTAG
Found at i:35895620 original size:45 final size:45
Alignment explanation
Indices: 35895570--35895699 Score: 199
Period size: 45 Copynumber: 2.9 Consensus size: 45
35895560 GCTGGTATTA
*
35895570 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGATGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
* * *
35895615 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
*
35895660 TATTTGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGATGA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGATGA
35895700 AATGATAATC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 4 0.05
45 73 0.95
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
Found at i:35907520 original size:56 final size:57
Alignment explanation
Indices: 35907453--35907568 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 57
35907443 AAATTGTAAT
* *
35907453 TTACCATAATAATAGTGAATATAATTTCTACTTATGATGTTTACAACTTATTTTA-A
1 TTACCATAATAATAGTGAATATAATTTCTAATTATGATGTTTACAACTCATTTTATA
35907509 TTACCATAATAATAGTGAATATAATTTCTAATTATGATGTTTACAACTCATTTTATA
1 TTACCATAATAATAGTGAATATAATTTCTAATTATGATGTTTACAACTCATTTTATA
35907566 TTA
1 TTA
35907569 AACCTTATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 53 0.93
57 4 0.07
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (57 bp):
TTACCATAATAATAGTGAATATAATTTCTAATTATGATGTTTACAACTCATTTTATA
Found at i:35907980 original size:20 final size:21
Alignment explanation
Indices: 35907928--35907981 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
35907918 TAACCTTATT
* * *
35907928 TTTCTATTTAATTTTTTTCTA
1 TTTCTATTTTATATCTTTCTA
*
35907949 TTT-TACTTTATATCTTT-TA
1 TTTCTATTTTATATCTTTCTA
35907968 TTTCTATTTTATAT
1 TTTCTATTTTATAT
35907982 AATTTATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.19
20 19 0.70
21 3 0.11
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTCTATTTTATATCTTTCTA
Found at i:35907991 original size:25 final size:24
Alignment explanation
Indices: 35907933--35907992 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
35907923 TTATTTTTCT
*
35907933 ATTTAATTTTTTTCTATTTTACTTT
1 ATTT-ATTTTTTTCTATTTTACTTA
* *
35907958 ATATCTTTTATTTCTATTTTA-TATA
1 ATTTATTTT-TTTCTATTTTACT-TA
35907983 ATTTATTTTT
1 ATTTATTTTT
35907993 ACATAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (24 bp):
ATTTATTTTTTTCTATTTTACTTA
Found at i:35907998 original size:15 final size:15
Alignment explanation
Indices: 35907974--35908004 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35907964 TTTATTTCTA
*
35907974 TTTTATATAATTTAT
1 TTTTACATAATTTAT
35907989 TTTTACATAATTTAT
1 TTTTACATAATTTAT
35908004 T
1 T
35908005 CTCAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTACATAATTTAT
Found at i:35909020 original size:27 final size:27
Alignment explanation
Indices: 35908990--35909044 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
35908980 TGGGTGAGAT
35908990 TGAATTCAGAAAGATTCAAGGAAGGCA
1 TGAATTCAGAAAGATTCAAGGAAGGCA
35909017 TGAATTCAGAAAGATTCAAGGAAGGCA
1 TGAATTCAGAAAGATTCAAGGAAGGCA
35909044 T
1 T
35909045 TTCCTGATCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.20
Consensus pattern (27 bp):
TGAATTCAGAAAGATTCAAGGAAGGCA
Found at i:35932787 original size:31 final size:31
Alignment explanation
Indices: 35932744--35932817 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
35932734 TTAAAGAGTT
*
35932744 ACACGCCAGTGTAAATGGGCCGTGTGTACTC
1 ACACGCCCGTGTAAATGGGCCGTGTGTACTC
35932775 ACACGCCCGTGTAAATGGGCCGTGTGTACTC
1 ACACGCCCGTGTAAATGGGCCGTGTGTACTC
35932806 ACACGCCCGTGT
1 ACACGCCCGTGT
35932818 GACTTGGGAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.20, C:0.30, G:0.28, T:0.22
Consensus pattern (31 bp):
ACACGCCCGTGTAAATGGGCCGTGTGTACTC
Found at i:35942609 original size:33 final size:33
Alignment explanation
Indices: 35942567--35942632 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
35942557 AAGCATTTAC
35942567 ATGCTTAGTAAGCTCGAATAACCGAAAAGTAAA
1 ATGCTTAGTAAGCTCGAATAACCGAAAAGTAAA
35942600 ATGCTTAGTAAGCTCGAATAACCGAAAAGTAAA
1 ATGCTTAGTAAGCTCGAATAACCGAAAAGTAAA
35942633 CTTACCGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (33 bp):
ATGCTTAGTAAGCTCGAATAACCGAAAAGTAAA
Found at i:35945288 original size:56 final size:56
Alignment explanation
Indices: 35945202--35945321 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
35945192 ACAAGGGATG
35945202 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
35945258 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
35945314 ATGGGCAA
1 ATGGGCAA
35945322 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:35946547 original size:40 final size:41
Alignment explanation
Indices: 35946451--35946555 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 41
35946441 CGAATGATGT
* *
35946451 CCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
35946491 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
35946531 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35946556 AACGAGTAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.02
40 45 0.83
41 8 0.15
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:35959385 original size:47 final size:47
Alignment explanation
Indices: 35959324--35959812 Score: 798
Period size: 47 Copynumber: 10.4 Consensus size: 47
35959314 CAGCCAAGAC
*
35959324 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
35959371 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
35959418 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
** *
35959465 AGTGTATATGCGTGATAAGGCCTAATTGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
35959512 AGTGTATATATGTGGTAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
35959559 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
35959606 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
35959653 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
35959700 AGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
35959747 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
35959794 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
35959813 TCCCGAAGGG
Statistics
Matches: 411, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 411 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:35959987 original size:37 final size:37
Alignment explanation
Indices: 35959931--35960009 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
35959921 CCGAGCTCTA
* *
35959931 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
35959968 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
35960005 AAGAC
1 AAGAC
35960010 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:35965602 original size:12 final size:12
Alignment explanation
Indices: 35965576--35965610 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
35965566 AGCAAGAGTC
35965576 AAAAGGAGC-AA
1 AAAAGGAGCAAA
35965587 AAAAGGAGCAAA
1 AAAAGGAGCAAA
35965599 AAAAGGA-CAAA
1 AAAAGGAGCAAA
35965610 A
1 A
35965611 TGGACCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.69, C:0.09, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAAGGAGCAAA
Found at i:35965610 original size:21 final size:23
Alignment explanation
Indices: 35965576--35965619 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
35965566 AGCAAGAGTC
*
35965576 AAAAGGAGCAAAAAAGGAGCAAA
1 AAAAGGAGCAAAAAAGGACCAAA
*
35965599 AAAAGGA-C-AAAATGGACCAAA
1 AAAAGGAGCAAAAAAGGACCAAA
35965620 TCGAGAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.64, C:0.11, G:0.23, T:0.02
Consensus pattern (23 bp):
AAAAGGAGCAAAAAAGGACCAAA
Found at i:35970817 original size:40 final size:40
Alignment explanation
Indices: 35970780--35970965 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
35970770 GCTACTCGTT
* *
35970780 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
35970820 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
35970860 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
35970900 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
35970941 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
35970966 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35975199 original size:5 final size:5
Alignment explanation
Indices: 35975189--35975254 Score: 82
Period size: 5 Copynumber: 12.8 Consensus size: 5
35975179 ATTCTTAATT
35975189 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTTTA TTTTCA TTTTCA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA --TTTTA TTTT-A TTTT-A
35975238 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
35975255 GAAAGACATA
Statistics
Matches: 56, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.05
5 37 0.66
6 11 0.20
7 5 0.09
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:35975224 original size:32 final size:34
Alignment explanation
Indices: 35975175--35975254 Score: 114
Period size: 32 Copynumber: 2.4 Consensus size: 34
35975165 CCTCCTAACT
35975175 TTTTATTCTTAATTTTTTATTTT-ATTTT-ATTTTA
1 TTTTATT-TT-ATTTTTTATTTTCATTTTCATTTTA
35975209 TTTTATTTTATTTTTTATTTTCATTTTCATTTTA
1 TTTTATTTTATTTTTTATTTTCATTTTCATTTTA
35975243 --TTATTTTATTTT
1 TTTTATTTTATTTT
35975255 GAAAGACATA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
32 24 0.55
33 7 0.16
34 13 0.30
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (34 bp):
TTTTATTTTATTTTTTATTTTCATTTTCATTTTA
Found at i:35975229 original size:39 final size:37
Alignment explanation
Indices: 35975176--35975254 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 37
35975166 CTCCTAACTT
*
35975176 TTTATTCTTAATTTTTTATTTT-ATTTTATTTTATTTTAT
1 TTTATTCTTAA-TTTTCATTTTCATTTTA--TTATTTTAT
* *
35975215 TTTATTTTTTATTTTCATTTTCATTTTATTATTTTAT
1 TTTATTCTTAATTTTCATTTTCATTTTATTATTTTAT
35975252 TTT
1 TTT
35975255 GAAAGACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 12 0.33
38 9 0.25
39 15 0.42
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (37 bp):
TTTATTCTTAATTTTCATTTTCATTTTATTATTTTAT
Found at i:35986638 original size:46 final size:46
Alignment explanation
Indices: 35986588--35986737 Score: 142
Period size: 46 Copynumber: 3.2 Consensus size: 46
35986578 CGTGTCACAC
* *
35986588 GTCTTACTCTAGCTCTCATAATGTGGCTGATGCATGTCCCAGACAT
1 GTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
* * * * * *
35986634 GTCTTACACTAGCCCTCGT-CTG-GATGCCGATTCCATGCCCCTGACAT
1 GTCTTACACTAGCTCTCATAATGTG--GCCGA-TGCATGTCCCAGACAT
* * * *
35986681 GGTCTTACACTGGCTCTAATAATGTGGCCGAAGCATGTCCCAAACAT
1 -GTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
35986728 GTCTTACACT
1 GTCTTACACT
35986738 GGCGCACAAA
Statistics
Matches: 80, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.03
46 30 0.38
47 24 0.30
48 20 0.25
49 2 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
Found at i:35990160 original size:49 final size:48
Alignment explanation
Indices: 35990086--35990255 Score: 161
Period size: 49 Copynumber: 3.6 Consensus size: 48
35990076 TTACAGCCAA
* * *
35990086 TGTAAGACCTCTCTAGGACACGGCATCGGCCTCAAGATATGCAAGCTAG
1 TGTAAGACCTATCTAGGACATGGCATCGGCCTCAAGATATG-AAGTTAG
* * * ** *
35990135 TGTAAGACCTATCTAGGAGATGGCATCAG-CT--TGAGGTG-TGTTAG
1 TGTAAGACCTATCTAGGACATGGCATCGGCCTCAAGATATGAAGTTAG
* * *
35990179 TATAAGACCTATCTGGGACATGGTATCGGCCTCAA-AGTATGTAAGTTAG
1 TGTAAGACCTATCTAGGACATGGCATCGGCCTCAAGA-TATG-AAGTTAG
*
35990228 TGTAAGACCTGTCTAGGACATGGCATCG
1 TGTAAGACCTATCTAGGACATGGCATCG
35990256 ACTTAGATGT
Statistics
Matches: 93, Mismatches: 22, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
44 28 0.30
45 2 0.02
46 5 0.05
47 2 0.02
48 2 0.02
49 54 0.58
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
TGTAAGACCTATCTAGGACATGGCATCGGCCTCAAGATATGAAGTTAG
Found at i:35991574 original size:21 final size:22
Alignment explanation
Indices: 35991534--35991575 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
35991524 GTCAAGAAAG
*
35991534 CCACACGGGCGTGTTGCCCCTC
1 CCACACGAGCGTGTTGCCCCTC
*
35991556 CCACACGAGTGTG-TGCCCCT
1 CCACACGAGCGTGTTGCCCCT
35991576 ATTTCAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.43, G:0.26, T:0.19
Consensus pattern (22 bp):
CCACACGAGCGTGTTGCCCCTC
Found at i:35998460 original size:10 final size:12
Alignment explanation
Indices: 35998434--35998463 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
35998424 GCCACACAAC
35998434 GTGTGCTAGGTT
1 GTGTGCTAGGTT
35998446 GTGTGCTAGGTT
1 GTGTGCTAGGTT
35998458 GTGTGC
1 GTGTGC
35998464 CAGACTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.10, G:0.43, T:0.40
Consensus pattern (12 bp):
GTGTGCTAGGTT
Found at i:35999504 original size:26 final size:27
Alignment explanation
Indices: 35999451--35999504 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
35999441 TTAATAATTC
* *
35999451 TGGACTTTTGATTTTTAGGTAAATTTT
1 TGGACTTTTGATATTTAGGTAAAGTTT
* *
35999478 TGGA-TTTTGATATTTAGTTTAAGTTT
1 TGGACTTTTGATATTTAGGTAAAGTTT
35999504 T
1 T
35999505 CTGCATGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.22, C:0.02, G:0.19, T:0.57
Consensus pattern (27 bp):
TGGACTTTTGATATTTAGGTAAAGTTT
Found at i:36006610 original size:40 final size:40
Alignment explanation
Indices: 36006338--36006603 Score: 308
Period size: 40 Copynumber: 6.7 Consensus size: 40
36006328 TTGAATGATG
* * * * *
36006338 TCCGGGCTAAGTCCCGAAGGC-TTTCTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
36006378 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36006418 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
36006458 TCCGGACAAAGAT-TCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
36006498 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36006538 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36006579 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36006604 AACGAGTAGC
Statistics
Matches: 202, Mismatches: 20, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.00
40 193 0.96
41 8 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36014573 original size:40 final size:40
Alignment explanation
Indices: 36014384--36014608 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
36014374 TTGAATGATG
* * * *
36014384 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
36014424 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36014464 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36014504 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36014544 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36014585 -CC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36014609 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 21 0.13
40 136 0.81
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36014639 original size:39 final size:39
Alignment explanation
Indices: 36014391--36014641 Score: 247
Period size: 40 Copynumber: 6.3 Consensus size: 39
36014381 ATGTCCGGGC
* * * * * *
36014391 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTTCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG-T
* *
36014431 TAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGAC
1 TAAGTTCCGAAGGCATTTGTGCGAGTTACTAAATCCGG-T
* *
36014471 TAAGATCCGAAGGCATTTGTACGAGTTACTAAATCCGGGT
1 TAAGTTCCGAAGGCATTTGTGCGAGTTACTAAATCC-GGT
*
36014511 TAAGTTCCGAAGGCATTTGTGCGAGTTACTAAATCTGGGT
1 TAAGTTCCGAAGGCATTTGTGCGAGTTACTAAATC-CGGT
* *
36014551 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGC
1 TAAGTTCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGT
* * ** *
36014590 TATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGT
1 TAAGTTCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGT
*
36014629 TAAATTCCGAAGG
1 TAAGTTCCGAAGG
36014642 TACGTGATTT
Statistics
Matches: 183, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
38 3 0.02
39 41 0.22
40 128 0.70
41 11 0.06
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (39 bp):
TAAGTTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGT
Found at i:36026626 original size:40 final size:40
Alignment explanation
Indices: 36026567--36026778 Score: 232
Period size: 40 Copynumber: 5.3 Consensus size: 40
36026557 CATTTGAATG
* *
36026567 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* ** *
36026607 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGGGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
36026647 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * *
36026687 TTATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGATT
* * *
36026727 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
36026767 ATATCC-GGCTAA
1 ATATCCGGGCTAA
36026779 ATTCCGAAGA
Statistics
Matches: 138, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
39 9 0.07
40 126 0.91
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:36026707 original size:80 final size:79
Alignment explanation
Indices: 36026571--36026787 Score: 292
Period size: 80 Copynumber: 2.7 Consensus size: 79
36026561 TGAATGATAT
* *
36026571 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGATCCGAAGGCATTTG
* * *
36026636 TGCGGGTTGCTATAC
65 TGCGAGTTACTAAAC
*
36026651 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGG-CTAAGATCCGAAGGCATTTG
* *
36026716 TGTGAGTTACTAAAT
65 TGCGAGTTACTAAAC
* * * *
36026731 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCCGGCTAA-ATTCCGAAG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGA-TCCGAAG
36026788 AAACTTGGGT
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 13 0.11
80 108 0.89
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGATCCGAAGGCATTTGT
GCGAGTTACTAAAC
Found at i:36030796 original size:49 final size:50
Alignment explanation
Indices: 36030686--36030864 Score: 165
Period size: 49 Copynumber: 3.7 Consensus size: 50
36030676 TAGGGTATAA
* *** *
36030686 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATC-C--ATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACCAACT-ATCACAAAT-GAG
*
36030735 T--CGATGCCATGTCCCAGATATGGTCTTACACCAACTATCA-AAATCGAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACCAACTATCACAAAT-GAG
* * * * *
36030783 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACCAACTATCACAAATGAG
* *
36030832 TGCTGATGCCATGTTCCAGACATGGTCTTACAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACAC
36030865 TGACACATCT
Statistics
Matches: 109, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
46 3 0.03
47 30 0.28
48 5 0.05
49 38 0.35
50 33 0.30
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACCAACTATCACAAATGAG
Found at i:36030883 original size:96 final size:95
Alignment explanation
Indices: 36030687--36031007 Score: 315
Period size: 96 Copynumber: 3.4 Consensus size: 95
36030677 AGGGTATAAT
*
36030687 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATC-CATCA--AGT-CGATGCCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACAT-ATTAGTGCGATGCCATGTC
* ** **
36030748 CCAGATATGGTCTTACACCAACTATCAAAATCGAG
64 CCAGACATGGTCTTACACTGAC-A-C-ATCTCGAG
* *
36030783 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTAGTGCTGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATTAGTGC-GATGCCATGTCC
36030848 CAGACATGGTCTTACACTGACACATCTCGTA-
65 CAGACATGGTCTTACACTGACACATCTCG-AG
*
36030879 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATCTCTAG-GCCGATG-CATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATAT-TAGTG-CGATGCCATGTC
* * * * * *
36030938 CCAAACAT-GTCTTACACTAGCTCTCGTCTCAAT
64 CCAGACATGGTCTTACACT-G-ACACATCTCGAG
*
36030971 GCCGATACCATGTCCCAGACATGGTCTTACACTGGCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
36031008 ATCGTAATGT
Statistics
Matches: 195, Mismatches: 17, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
90 10 0.05
91 14 0.07
92 22 0.11
93 19 0.10
94 27 0.14
95 17 0.09
96 50 0.26
97 5 0.03
98 2 0.01
99 29 0.15
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATTAGTGCGATGCCATGTCCC
AGACATGGTCTTACACTGACACATCTCGAG
Found at i:36030929 original size:46 final size:47
Alignment explanation
Indices: 36030687--36031049 Score: 250
Period size: 46 Copynumber: 7.7 Consensus size: 47
36030677 AGGGTATAAT
* *
36030687 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGC-T-CATC-CATCAA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-T-AG
* * *** ** *
36030734 GTCGATGCCATGTCCCAGATATGGTCTTACACCAAC-TATCAAAATCGAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATCTCTAG
* *
36030783 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT-TAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCTCTAG
* * *
36030832 TGCTGATGCCATGTTCCAGACATGGTCTTACACTGAC--ACATCTCGTA-
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-TAG
36030879 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCTAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCTAG
* * * * *
36030925 GCCGATGCATGTCCCAAACAT-GTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCTAG
* * * *
36030971 GCCGATACCATGTCCCAGACATGGTCTTACACTGGC-TATCGTAATGT-G
1 GCCGAT-GCATGTCCCAGACATGGTCTTACACTGGCTTA-CAT-CTCTAG
* *
36031019 GCTGATGCATGTCCCAAACAT-GTCTTACACT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT
36031050 AGCACGCAAA
Statistics
Matches: 258, Mismatches: 39, Indels: 39
0.77 0.12 0.12
Matches are distributed among these distances:
44 12 0.05
45 15 0.06
46 74 0.29
47 58 0.22
48 22 0.09
49 37 0.14
50 36 0.14
51 3 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCTAG
Found at i:36030998 original size:94 final size:95
Alignment explanation
Indices: 36030684--36031052 Score: 323
Period size: 94 Copynumber: 3.9 Consensus size: 95
36030674 CATAGGGTAT
* * *
36030684 AATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT-CATCCATC-AAGTCGATGCCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACAT--ATCTAGGCCGATGCCATGT
* * * * * **
36030747 CCCAGATATGGTCTTACACCAACTATCAAAATC
64 CCCAAACATGGTCTTACACTAGCTCTC-ATCTC
* * * *
36030780 GAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT-TAGTGCTGATGCCAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCT-ACATATCTAG-GCCGATGCCAT
* * * *
36030844 GTTCCAGACATGGTCTTACACT-G-ACACATCTC
62 GTCCCAAACATGGTCTTACACTAGCTCTCATCTC
* *
36030876 -GTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCTAGGCCGATG-CATGT
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATATCTAGGCCGATGCCATGT
*
36030937 CCCAAACAT-GTCTTACACTAGCTCTCGTCTC
64 CCCAAACATGGTCTTACACTAGCTCTCATCTC
* * * *
36030968 AATGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGT-GGCTGATG-CATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-CAT-ATCTAGGCCGATGCCATGT
36031031 CCCAAACAT-GTCTTACACTAGC
64 CCCAAACATGGTCTTACACTAGC
36031053 ACGCAAATAA
Statistics
Matches: 225, Mismatches: 32, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
90 10 0.04
91 13 0.06
92 24 0.11
93 22 0.10
94 59 0.26
95 16 0.07
96 43 0.19
97 2 0.01
98 5 0.02
99 28 0.12
100 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (95 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATATCTAGGCCGATGCCATGTCC
CAAACATGGTCTTACACTAGCTCTCATCTC
Found at i:36031030 original size:140 final size:140
Alignment explanation
Indices: 36030684--36031050 Score: 370
Period size: 140 Copynumber: 2.6 Consensus size: 140
36030674 CATAGGGTAT
*
36030684 AATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAAGT-CGATGCCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-AT-C-T-AAGTGCGATG-CATGTC
* * *
36030748 CCAGATATGGTCTTACACCAACTATCAAAATCGAGGCCGATGCCATGTCCCAGACATGGTCTTAC
61 CCAGACAT-GTCTTACACTAACTATCAAAATCGAGGCCGATGCCATGTCCCAAACATGGTCTTAC
*
36030813 ACTAGCTCTCACATATT
125 ACTAGCTCT-ACATATC
* * * * * *
36030830 AGTGCTGATGCCATGTTCCAGACATGGTCTTACACTGACACATCT-CGTAGCCGATGCATGTCCC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TATCTAAGT-G-CGATGCATGTCCC
** ** *
36030894 AGACATGTCTTACACTGGCT-T-ACATCTCTAGGCCGATG-CATGTCCCAAACAT-GTCTTACAC
63 AGACATGTCTTACACTAACTATCA-AAATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACAC
* *
36030955 TAGCTCT-CGTCTC
127 TAGCTCTACATATC
*
36030968 AATGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGTGGCTGATGCATGTCC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-TAA-GT-GC-GATGCATGTCC
*
36031033 CAAACATGTCTTACACTA
62 CAGACATGTCTTACACTA
36031051 GCACGCAAAT
Statistics
Matches: 184, Mismatches: 28, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
137 3 0.02
138 38 0.21
139 1 0.01
140 46 0.25
141 14 0.08
142 15 0.08
143 11 0.06
144 14 0.08
145 6 0.03
146 36 0.20
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (140 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTAAGTGCGATGCATGTCCCAGA
CATGTCTTACACTAACTATCAAAATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC
TCTACATATC
Found at i:36033455 original size:20 final size:20
Alignment explanation
Indices: 36033430--36033469 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
36033420 AAATACTAAC
36033430 GTGTCTAAACTGAAAATCGA
1 GTGTCTAAACTGAAAATCGA
* * *
36033450 GTGTCTGAATTGAAGATCGA
1 GTGTCTAAACTGAAAATCGA
36033470 ATATGTTCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (20 bp):
GTGTCTAAACTGAAAATCGA
Found at i:36038832 original size:138 final size:138
Alignment explanation
Indices: 36038551--36038832 Score: 447
Period size: 138 Copynumber: 2.0 Consensus size: 138
36038541 TGTGACACAC
* *
36038551 GGCCTGCCCCATGGGCATGTGGTTTGGCCGTGTGTCCCCTGCACCTAAATTTTGAGAAATAGAAT
1 GGCCTGCCCCATGGGCATGTGGTTTGGCCGTGTGTCCCCTACACCTAAATTTTGAGAAACAGAAT
* * * *
36038616 GCTCAGAGTTGAGCAGAATGGCAGAGACACGGGAGTATGTCTCAGCTGTGTGCAGGACATGGCCT
66 GCTCAAAGTTCAGCACAATGGCAGAGACACGGGAGTATGTCTCAACTGTGTGCAGGACATGGCCT
36038681 CAGGCACG
131 CAGGCACG
* * *
36038689 AGCCTGGCCCATGGGCATGTGGTTTGGTCGTGTGTCCCCTACACCTAAATTTTGAGAAACAGAAT
1 GGCCTGCCCCATGGGCATGTGGTTTGGCCGTGTGTCCCCTACACCTAAATTTTGAGAAACAGAAT
* *
36038754 GCTCAAAGTTCAGCACAATGGCAGAGACACGGGAGTATGTCTCAACTGTGTGGAGGTCATGGCCT
66 GCTCAAAGTTCAGCACAATGGCAGAGACACGGGAGTATGTCTCAACTGTGTGCAGGACATGGCCT
* *
36038819 TAGGCATG
131 CAGGCACG
36038827 GGCCTG
1 GGCCTG
36038833 TGTCCTGGGT
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 130 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (138 bp):
GGCCTGCCCCATGGGCATGTGGTTTGGCCGTGTGTCCCCTACACCTAAATTTTGAGAAACAGAAT
GCTCAAAGTTCAGCACAATGGCAGAGACACGGGAGTATGTCTCAACTGTGTGCAGGACATGGCCT
CAGGCACG
Found at i:36040834 original size:29 final size:29
Alignment explanation
Indices: 36040792--36040872 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
36040782 TAAATGGGCA
36040792 CCTTTGT-GATGATCTCTATTATAA-GGAAG
1 CCTTTGTGGA-GATCTCTATTA-AATGGAAG
* *
36040821 CCTTTGTGGAGATCTTTGTTAAATGGAAG
1 CCTTTGTGGAGATCTCTATTAAATGGAAG
* *
36040850 CCTATGTAGGA-ATCTCTGTTAAA
1 CCTTTGT-GGAGATCTCTATTAAA
36040873 ATGACGCCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 2 0.04
29 38 0.84
30 5 0.11
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (29 bp):
CCTTTGTGGAGATCTCTATTAAATGGAAG
Found at i:36044668 original size:40 final size:40
Alignment explanation
Indices: 36044631--36044763 Score: 223
Period size: 40 Copynumber: 3.3 Consensus size: 40
36044621 GCTACTCGTT
*
36044631 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
36044671 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
36044711 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
36044751 CAAACGCCTTCGG
1 CAAATGCCTTCGG
36044764 ATCTTAGTCC
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 87 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:36044776 original size:80 final size:81
Alignment explanation
Indices: 36044631--36044814 Score: 223
Period size: 80 Copynumber: 2.3 Consensus size: 81
36044621 GCTACTCGTT
* *
36044631 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAACGCCTTCGGGACATAACCCGG
* *
36044696 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* * **
36044711 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAACGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAACGCCTTCGGGA-CATAACCC
* *
36044774 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
*
36044792 CAAA-GCATTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
36044815 ACATCATTCA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.03
80 76 0.85
81 10 0.11
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAACGCCTTCGGGACATAACCCGG
ATATAGTAACTTAGCA
Found at i:36044810 original size:40 final size:40
Alignment explanation
Indices: 36044631--36044814 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 40
36044621 GCTACTCGTT
* * * *
36044631 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * * *
36044671 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
36044711 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
36044751 CAAACGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAACGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
*
36044792 CAAA-GCATTCGGGACTTAGCCCG
1 CAAACGCCTTCGGGACTTAGCCCG
36044815 ACATCATTCA
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 114 0.89
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAACGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:36052744 original size:40 final size:40
Alignment explanation
Indices: 36052672--36052857 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
36052662 GCTACTCGTT
* *
36052672 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
36052712 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
36052752 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
36052792 CAAACGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
36052833 CAAA-GCCTGCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36052858 CATCATTCAA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:36057806 original size:18 final size:18
Alignment explanation
Indices: 36057775--36057809 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36057765 AGATTATTAA
36057775 TAAACAATTACAAAAACG
1 TAAACAATTACAAAAACG
36057793 TAAA-AATTATCAAAAAC
1 TAAACAATTA-CAAAAAC
36057810 AGATCAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.14, G:0.03, T:0.20
Consensus pattern (18 bp):
TAAACAATTACAAAAACG
Found at i:36061049 original size:18 final size:19
Alignment explanation
Indices: 36061026--36061064 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
36061016 TTGTTGATCG
*
36061026 ATGAATGTGTGG-TAAAGT
1 ATGAATGTGGGGCTAAAGT
36061044 ATGAATGTGGGGCTAAAGT
1 ATGAATGTGGGGCTAAAGT
36061063 AT
1 AT
36061065 AAGAGATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.31
Consensus pattern (19 bp):
ATGAATGTGGGGCTAAAGT
Found at i:36080644 original size:43 final size:43
Alignment explanation
Indices: 36080597--36080728 Score: 228
Period size: 43 Copynumber: 3.1 Consensus size: 43
36080587 GTTAATCCAA
36080597 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
1 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
* * *
36080640 AGCCAAGTAGCTATATTGAAAAACCTAGAAAACAAAATGGGTC
1 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
*
36080683 AGCCAAGTAGCTACATTGGAAAACCTAGAAAACCAAATGGGGC
1 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
36080726 AGC
1 AGC
36080729 TGGCAACTGA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (43 bp):
AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
Found at i:36088284 original size:55 final size:55
Alignment explanation
Indices: 36088224--36088366 Score: 173
Period size: 55 Copynumber: 2.6 Consensus size: 55
36088214 TATAAGGTCT
** *
36088224 ACGCCCGTGTTAATTTAACAGGTTCGACCATGGGTAC-TAGATACGGGCGTGTTGC
1 ACGCCCGTGTTGTTTTAACAGGTTCGACCATGGAT-CTTAGATACGGGCGTGTTGC
* **
36088279 ACGCCCGTGCTGTTTTAACAGGTTC-ACCCATGGATCTTCTATACGGGCGTGTTGC
1 ACGCCCGTGTTGTTTTAACAGGTTCGA-CCATGGATCTTAGATACGGGCGTGTTGC
* **
36088334 GCGCCCGTGTTGTTTTGGCAGGTTCGACCATGG
1 ACGCCCGTGTTGTTTTAACAGGTTCGACCATGG
36088367 CCATGTCGCA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
54 2 0.03
55 72 0.96
56 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.29
Consensus pattern (55 bp):
ACGCCCGTGTTGTTTTAACAGGTTCGACCATGGATCTTAGATACGGGCGTGTTGC
Found at i:36103486 original size:21 final size:21
Alignment explanation
Indices: 36103462--36103503 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
36103452 TTTTGCTCTC
36103462 TGTTTGGTACCTATGATTTCA
1 TGTTTGGTACCTATGATTTCA
36103483 TGTTTGGTACCTATGATTTCA
1 TGTTTGGTACCTATGATTTCA
36103504 CGTCATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (21 bp):
TGTTTGGTACCTATGATTTCA
Found at i:36105862 original size:19 final size:19
Alignment explanation
Indices: 36105840--36106000 Score: 84
Period size: 20 Copynumber: 8.3 Consensus size: 19
36105830 ATTTTATTTG
36105840 TTTTTATAATTTTTAATAA
1 TTTTTATAATTTTTAATAA
*
36105859 TTTTTATATAATTTATAA-AA
1 -TTTT-TATAATTTTTAATAA
**
36105879 AATTTA-AAGTTTTT-ATAA
1 TTTTTATAA-TTTTTAATAA
*
36105897 TTATTTCAT-ATTTTTCATAA
1 TT-TTT-ATAATTTTTAATAA
*
36105917 TATTTTATAA--GTTAATTAA
1 T-TTTTATAATTTTTAA-TAA
* * * *
36105936 ATTTTATAGTTTTTCTATCA
1 TTTTTATAATTTTT-AATAA
*
36105956 TTTTTATAATTTTTAA-AT
1 TTTTTATAATTTTTAATAA
*
36105974 TTTATTATAATATATTAATAA
1 TTT-TTATAAT-TTTTAATAA
36105995 TTTTTA
1 TTTTTA
36106001 GATTTAAATA
Statistics
Matches: 105, Mismatches: 20, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
17 3 0.03
18 21 0.20
19 23 0.22
20 41 0.39
21 17 0.16
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTTATAATTTTTAATAA
Found at i:36105974 original size:8 final size:9
Alignment explanation
Indices: 36105840--36106000 Score: 71
Period size: 9 Copynumber: 16.7 Consensus size: 9
36105830 ATTTTATTTG
36105840 TTTTTATAA
1 TTTTTATAA
36105849 TTTTTAATAA
1 TTTTT-ATAA
36105859 TTTTTATATAA
1 -TTTT-TATAA
* *
36105870 TTTATAAAA
1 TTTTTATAA
**
36105879 AATTTA-AA
1 TTTTTATAA
36105887 GTTTTTATAA
1 -TTTTTATAA
36105897 TTATTTCAT-A
1 TT-TTT-ATAA
36105907 TTTTTCATAA
1 TTTTT-ATAA
36105917 TATTTTATAA
1 T-TTTTATAA
*
36105927 GTTAATTA-AA
1 -TT-TTTATAA
*
36105937 -TTTTATAGT
1 TTTTTATA-A
*
36105946 TTTTCTATCA
1 TTTT-TATAA
36105956 TTTTTATAA
1 TTTTTATAA
36105965 TTTTTA-AA
1 TTTTTATAA
36105973 TTTTATTATAA
1 -TTT-TTATAA
*
36105984 TATATTAATAA
1 T-T-TTTATAA
36105995 TTTTTA
1 TTTTTA
36106001 GATTTAAATA
Statistics
Matches: 117, Mismatches: 15, Indels: 40
0.68 0.09 0.23
Matches are distributed among these distances:
7 3 0.03
8 6 0.05
9 40 0.34
10 36 0.31
11 30 0.26
12 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:36108322 original size:22 final size:22
Alignment explanation
Indices: 36108297--36108366 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
36108287 TTTTAGTGCT
* *
36108297 TACTGTTCTACATTTCGATGCC
1 TACTGTTCTACACTACGATGCC
* * *
36108319 TACTGTTTTGCACTACGGTGCC
1 TACTGTTCTACACTACGATGCC
36108341 TACTGTTCTACACTAC-AGTGCC
1 TACTGTTCTACACTACGA-TGCC
36108363 TACT
1 TACT
36108367 AATTACTACG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.37
Consensus pattern (22 bp):
TACTGTTCTACACTACGATGCC
Found at i:36108363 original size:44 final size:41
Alignment explanation
Indices: 36108292--36108386 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 41
36108282 CTGCATTTTA
* * * **
36108292 GTGCTTACTGTTCTACATTTCGATGCCTACTGTTTTGCACTACG
1 GTGCCTACTGTTCTACACTACGATGCCTACT-AATT--ACTACG
36108336 GTGCCTACTGTTCTACACTAC-AGTGCCTACTAATTACTACG
1 GTGCCTACTGTTCTACACTACGA-TGCCTACTAATTACTACG
36108377 GTGCCTACTG
1 GTGCCTACTG
36108387 ATACGCACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 16 0.36
43 3 0.07
44 26 0.58
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (41 bp):
GTGCCTACTGTTCTACACTACGATGCCTACTAATTACTACG
Found at i:36108403 original size:41 final size:41
Alignment explanation
Indices: 36108330--36108408 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
36108320 ACTGTTTTGC
*
36108330 ACTACGGTGCCTACTGTTCTACACTACAGTGCCTACTAATT
1 ACTACGGTGCCTACTGTACTACACTACAGTGCCTACTAATT
* * *
36108371 ACTACGGTGCCTACTGATAC-GCACTTCGGTGCCTACTA
1 ACTACGGTGCCTACTG-TACTACACTACAGTGCCTACTA
36108409 GTGTGGTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 31 0.94
42 2 0.06
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (41 bp):
ACTACGGTGCCTACTGTACTACACTACAGTGCCTACTAATT
Found at i:36113012 original size:108 final size:108
Alignment explanation
Indices: 36112755--36113013 Score: 389
Period size: 108 Copynumber: 2.4 Consensus size: 108
36112745 ATAATTAATA
*
36112755 TTGTTAATTACTCTGTTAAATTTTTTGACGTGTTTTTTT-AA-AATGATATCTTAAGTTAGAATA
1 TTGTTAATTACTCTGATAAATTTTTTGACGTGTTTTTTTAAACAATGATATCTTAAGTTAGAATA
36112818 AGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
66 AGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
* * **** * *
36112861 TTGTTAATTACTTTGATAAATTTTTTGA-TTAGTTTAACAAAACAATGATATGTTAAGTTGGAAT
1 TTGTTAATTACTCTGATAAATTTTTTGACGT-GTTTTTTTAAACAATGATATCTTAAGTTAGAAT
*
36112925 AAGTTTTAAATAATAAAATTTTTAACAAAATTGTATTAAAATTT
65 AAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
*
36112969 TTGTTAATTACTCTGATAAAATTTTTGACGTGTTTTTTTAAACAA
1 TTGTTAATTACTCTGATAAATTTTTTGACGTGTTTTTTTAAACAA
36113014 AATATTAGTT
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
105 1 0.01
106 30 0.23
107 2 0.02
108 98 0.74
109 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (108 bp):
TTGTTAATTACTCTGATAAATTTTTTGACGTGTTTTTTTAAACAATGATATCTTAAGTTAGAATA
AGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
Found at i:36113359 original size:27 final size:27
Alignment explanation
Indices: 36113319--36113370 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
36113309 TGTGCAGGGT
* *
36113319 GTTGTGCCTGCCTGTCAGGCACGACTA
1 GTTGTGCCTACCTGACAGGCACGACTA
*
36113346 GTTGTGCCTACCTGACAGGCTCGAC
1 GTTGTGCCTACCTGACAGGCACGAC
36113371 CCGTTTCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.31, G:0.29, T:0.25
Consensus pattern (27 bp):
GTTGTGCCTACCTGACAGGCACGACTA
Found at i:36116863 original size:11 final size:11
Alignment explanation
Indices: 36116845--36116882 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
36116835 TGCTCTCAAC
36116845 TCTCTCTTAAT
1 TCTCTCTTAAT
36116856 TCTCTCTTAAT
1 TCTCTCTTAAT
*
36116867 TCT-TACTCAAT
1 TCTCT-CTTAAT
36116878 TCTCT
1 TCTCT
36116883 TAGTTCACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (11 bp):
TCTCTCTTAAT
Found at i:36117195 original size:15 final size:15
Alignment explanation
Indices: 36117177--36117208 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
36117167 TCTATAATCT
36117177 TTAATCGAACCATAC
1 TTAATCGAACCATAC
36117192 TTAATCGAACCATAC
1 TTAATCGAACCATAC
36117207 TT
1 TT
36117209 GAGTGATGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (15 bp):
TTAATCGAACCATAC
Found at i:36121118 original size:23 final size:24
Alignment explanation
Indices: 36121091--36121144 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
36121081 AATATTTACG
*
36121091 AAGTTAAGTG-AGTG-ATTAATTTA
1 AAGTTAA-TGAAGTGAATTAACTTA
36121114 AAGTTTAATGAAGTGAATTAACTTA
1 AAG-TTAATGAAGTGAATTAACTTA
36121139 AA-TTAA
1 AAGTTAA
36121145 AGATAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 9 0.33
24 8 0.30
25 10 0.37
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (24 bp):
AAGTTAATGAAGTGAATTAACTTA
Found at i:36121555 original size:22 final size:21
Alignment explanation
Indices: 36121522--36121562 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
36121512 AAATGAAATA
*
36121522 AAAGAAATGAAAAAGAGAAAC
1 AAAGAAACGAAAAAGAGAAAC
*
36121543 AAAGAAAACGAAACAGAGAA
1 AAAG-AAACGAAAAAGAGAA
36121563 GAACAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.71, C:0.07, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAGAAACGAAAAAGAGAAAC
Found at i:36122225 original size:3 final size:3
Alignment explanation
Indices: 36122217--36122252 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
36122207 GAATGGTAAG
*
36122217 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
36122253 AGTATTGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:36122257 original size:8 final size:9
Alignment explanation
Indices: 36122220--36122258 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
36122210 TGGTAAGTAT
*
36122220 TATTATTAT
1 TATTATTAG
*
36122229 TATTATTAT
1 TATTATTAG
36122238 TATTATTAG
1 TATTATTAG
36122247 TATTA-TAG
1 TATTATTAG
36122255 TATT
1 TATT
36122259 GAATTGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (9 bp):
TATTATTAG
Found at i:36122609 original size:51 final size:54
Alignment explanation
Indices: 36122554--36122671 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 54
36122544 ATGTGTTGAC
* *
36122554 TACTGTGACTGTTCCGGATTTGTTCCAAAGAGGTAC-TT-TGTACC-TGACTGT
1 TACTGTTACTGTTCCGGATTTGTTCCAAAGAGGTACTTTGTGTACCGTCACTGT
* * * *
36122605 TACTGTTACTGTTTCGGATTTGTTTCGATGAGGTACTTTGTGTACCGTCACTGT
1 TACTGTTACTGTTCCGGATTTGTTCCAAAGAGGTACTTTGTGTACCGTCACTGT
36122659 TACTGTTACTGTT
1 TACTGTTACTGTT
36122672 ACTGATACGG
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
51 31 0.53
52 2 0.03
53 6 0.10
54 19 0.33
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (54 bp):
TACTGTTACTGTTCCGGATTTGTTCCAAAGAGGTACTTTGTGTACCGTCACTGT
Found at i:36128641 original size:3 final size:3
Alignment explanation
Indices: 36128635--36128663 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
36128625 GACGTCCTCC
36128635 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
36128664 AGTTATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:36135259 original size:14 final size:14
Alignment explanation
Indices: 36135242--36135293 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
36135232 CAAAATTTGG
36135242 AACCCTAAATCTTA
1 AACCCTAAATCTTA
* * *
36135256 AA-CCAAAAACCTA
1 AACCCTAAATCTTA
36135269 AACCCTAAAT-TATA
1 AACCCTAAATCT-TA
36135283 AACCCTAAATC
1 AACCCTAAATC
36135294 CCGAACTATG
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 10 0.34
14 19 0.66
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCTAAATCTTA
Found at i:36139411 original size:37 final size:37
Alignment explanation
Indices: 36139361--36139440 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
36139351 TTATTACGAA
* * *
36139361 GTCTTACCCGGACATAA-TCTCCACACGA-AGTTATCGG
1 GTCTTTCCCGGACAAAATTC-CCACAC-ATAGTCATCGG
36139398 GTCTTTCCCGGACAAAATTCCCACACATAGTCATCGG
1 GTCTTTCCCGGACAAAATTCCCACACATAGTCATCGG
36139435 GTCTTT
1 GTCTTT
36139441 AGAGCTCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 1 0.03
37 35 0.92
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (37 bp):
GTCTTTCCCGGACAAAATTCCCACACATAGTCATCGG
Found at i:36139636 original size:47 final size:47
Alignment explanation
Indices: 36139558--36139999 Score: 731
Period size: 47 Copynumber: 9.4 Consensus size: 47
36139548 CCCTTCGGGA
* * * * * * *
36139558 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36139605 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36139652 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36139699 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36139746 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36139793 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36139840 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
36139887 CTTATCATGCATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36139934 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36139981 CTTATCACATATATACACT
1 CTTATCACATATATACACT
36140000 GTCTTGGCTG
Statistics
Matches: 370, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 370 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36146327 original size:18 final size:20
Alignment explanation
Indices: 36146291--36146337 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
36146281 AGTTGTAAGT
36146291 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
36146311 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
36146330 ATGATATA
1 AT-ATATA
36146338 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:36146756 original size:27 final size:27
Alignment explanation
Indices: 36146721--36146780 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
36146711 GGTACTACGT
* *
36146721 GTACCAGATTGATAGGTCGCATGTGTA
1 GTACTAGATGGATAGGTCGCATGTGTA
36146748 GTACTAGATGGATAGGTCGCATGTGTA
1 GTACTAGATGGATAGGTCGCATGTGTA
36146775 GTACTA
1 GTACTA
36146781 ACTACAGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (27 bp):
GTACTAGATGGATAGGTCGCATGTGTA
Found at i:36147771 original size:180 final size:179
Alignment explanation
Indices: 36147448--36147803 Score: 475
Period size: 180 Copynumber: 2.0 Consensus size: 179
36147438 TCCGAGAGTT
* *
36147448 GTACCATGAGAAAAATAATTTTTAGTGAAGAGAGTCAGAACTGTTAGACAGTGAAATAGGGGTAT
1 GTACCATGAGAAAAATAATTTTTAGTGAAGAGAGTCAGAACTGTCAAACAGTGAAATAGGGGTAT
* * * *
36147513 CTTTAATGAATAAACTGTACTAATTGGCTAAACAAAATATTCTGAAAATTTTATGATAAGAATAC
66 ATTTAATGAATAAAATGTACTAATTGGATAAACAAAATATTATGAAAATTTTATGATAAGAATAC
* * * *
36147578 ATGTAAGTCTAGTTTTTAGA-AAAATTAGCAGTTCTCAATTTGGAGTCTA
131 ATATAAGTCTAG-TTTCAGAGAAAATTAACAGATCTCAATTTGGAGTCTA
* * **
36147627 GTACCATGAGATAAATAATTTTTAGTTAAGAGAGGTTGGAACTGTCAAACAGTGAAATAGGGGTA
1 GTACCATGAGAAAAATAATTTTTAGTGAAGAGA-GTCAGAACTGTCAAACAGTGAAATAGGGGTA
* * *
36147692 TATTTAATGAATAAAATGTACTTATTGGATAGACCAAAA-ATTATGAAAATTTTATGGTAAGAAT
65 TATTTAATGAATAAAATGTACTAATTGGATA-AACAAAATATTATGAAAATTTTATGATAAGAAT
* * *
36147756 ATATATGAA-TCTAGTTTCAGAGAAAATTAATAGATCTTAATTTGGAGT
129 ACATAT-AAGTCTAGTTTCAGAGAAAATTAACAGATCTCAATTTGGAGT
36147804 TTCGTAGCTC
Statistics
Matches: 153, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
179 37 0.24
180 108 0.71
181 8 0.05
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (179 bp):
GTACCATGAGAAAAATAATTTTTAGTGAAGAGAGTCAGAACTGTCAAACAGTGAAATAGGGGTAT
ATTTAATGAATAAAATGTACTAATTGGATAAACAAAATATTATGAAAATTTTATGATAAGAATAC
ATATAAGTCTAGTTTCAGAGAAAATTAACAGATCTCAATTTGGAGTCTA
Found at i:36150036 original size:47 final size:48
Alignment explanation
Indices: 36149927--36150288 Score: 253
Period size: 47 Copynumber: 7.7 Consensus size: 48
36149917 TGATTTGTGC
* **
36149927 GCCAGTGTAAGA-CATGTC-GGGACATGCTTCGGC--CACA-TTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATC-CAGAGAT-AGA
36149972 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAT-G-
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCCAGA-GATAGA
* * * *
36150020 GCTAGTGTAAGA-CATGTCTGGGACATGCAT---CAACCATATTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCCAGA-GAT-AGA
* *
36150066 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA--CAGAGATGAGT
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCCAGAGAT-AGA
* * * *
36150114 GCTAGAGTAAGA-CATGTCTGGGACATGCATCGGCTTTGACAGAGAT--A
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGC-AT-CCAGAGATAGA
* * * * *
36150161 GCCAGTGTAAGA-CGTGTCTGGGACACGCATCGGC-T-AAGAG-TTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCCAGAGATAGA
* ** * *
36150205 GCTAGTGTAAGACCATGTCTGGGACATGCATTAGCA-CGCATATATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATC-CAGAGAT-AGA
36150254 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGG
36150289 TAATATATCC
Statistics
Matches: 253, Mismatches: 36, Indels: 51
0.74 0.11 0.15
Matches are distributed among these distances:
42 1 0.00
43 12 0.05
44 11 0.04
45 32 0.13
46 28 0.11
47 81 0.32
48 38 0.15
49 33 0.13
50 13 0.05
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCCAGAGATAGA
Found at i:36150090 original size:94 final size:93
Alignment explanation
Indices: 36149930--36150288 Score: 414
Period size: 94 Copynumber: 3.8 Consensus size: 93
36149920 TTTGTGCGCC
* ** *
36149930 AGTGTAAGACATGTC-GGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
36149994 GACATGGCATCGGCATCCAGACGATG-GCT
66 GACATGGCATCGGCAT-CAGA-GATGTGCT
36150023 AGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
*
36150088 GACATGGCATCGACA-CAGAGATGAGTGCT
66 GACATGGCATCGGCATCAGAGAT--GTGCT
* ** * *
36150117 AGAGTAAGACATGTCTGGGACATGCATC-GGC-T-TTGACAGAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAACCATATT-A-TGAG--AGCCAGTGTAAGACCATGT
* * *
36150178 CTGGGACA-CGCATCGGC-TAAGAGTTGTGCT
62 CTGGGACATGGCATCGGCATCAGAGATGTGCT
*
36150208 AGTGTAAGACCATGTCTGGGACATGCATTAGCACGCATA-TATGAGAGCCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACATGCATCA--AC-CATATTATGAGAGCCAGTGTAAGACCATGT
36150272 CTGGGACATGGCATCGG
62 CTGGGACATGGCATCGG
36150289 TAATATATCC
Statistics
Matches: 227, Mismatches: 21, Indels: 34
0.80 0.07 0.12
Matches are distributed among these distances:
91 18 0.08
92 24 0.11
93 45 0.20
94 113 0.50
95 23 0.10
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCAGAGATGTGCT
Found at i:36150179 original size:141 final size:139
Alignment explanation
Indices: 36149927--36150288 Score: 351
Period size: 141 Copynumber: 2.6 Consensus size: 139
36149917 TGATTTGTGC
* * ** *
36149927 GCCAGTGTAAGACATGTCGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
1 GCCAGTGTAAGACATGTCGGGACATGCATCGGACACAAGATGAGAGCCAGAGTAAGACCATGTCT
* * * *
36149992 GGGACATGGCATCGGCATCCAGACGATGGCTAGTGTAAGACATGTCTGGGACATGCATCAACCAT
66 GGGACATGGCATCGGCATACAGACGATAGCCAGTGTAAGACATGTCTGGGACACGCATCAACCAT
36150057 ATTATGAGA
131 ATTATGAGA
* *
36150066 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACACAGAGATGAGTGCTAGAGTAAGA-CAT
1 GCCAGTGTAAGA-CATGTC-GGGACAT-GCATCGGACACA-AGATGAGAGCCAGAGTAAGACCAT
* *
36150129 GTCTGGGACAT-GCATCGGCTTTGACAGA-GATAGCCAGTGTAAGACGTGTCTGGGACACGCATC
62 GTCTGGGACATGGCATCGGC-AT-ACAGACGATAGCCAGTGTAAGACATGTCTGGGACACGCATC
** ** * *
36150192 -GGC-TAAGA-GTTGT
125 AACCATATTATG-AGA
* * * * * *
36150205 GCTAGTGTAAGACCATGTCTGGGACATGCATTAGCACGCATATATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGA-CATGTC-GGGACATGCA-TCGGACACA-AGATGAGAGCCAGAGTAAGACCAT
36150270 GTCTGGGACATGGCATCGG
62 GTCTGGGACATGGCATCGG
36150289 TAATATATCC
Statistics
Matches: 184, Mismatches: 28, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
138 4 0.02
139 43 0.23
140 35 0.19
141 72 0.39
142 30 0.16
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (139 bp):
GCCAGTGTAAGACATGTCGGGACATGCATCGGACACAAGATGAGAGCCAGAGTAAGACCATGTCT
GGGACATGGCATCGGCATACAGACGATAGCCAGTGTAAGACATGTCTGGGACACGCATCAACCAT
ATTATGAGA
Found at i:36178014 original size:11 final size:11
Alignment explanation
Indices: 36177998--36178028 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
36177988 GAGATAGAGT
36177998 TTGGTATTGAA
1 TTGGTATTGAA
36178009 TTGGTATTGAA
1 TTGGTATTGAA
36178020 TTGGTATTG
1 TTGGTATTG
36178029 CTCCATACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (11 bp):
TTGGTATTGAA
Found at i:36183064 original size:13 final size:13
Alignment explanation
Indices: 36183046--36183070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36183036 AGGCCATGTA
36183046 AAGGACACAGGCC
1 AAGGACACAGGCC
36183059 AAGGACACAGGC
1 AAGGACACAGGC
36183071 TTGTTCTTGG
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:0.40, C:0.28, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGGACACAGGCC
Found at i:36185404 original size:26 final size:25
Alignment explanation
Indices: 36185375--36185436 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
36185365 GCTCTTCGAA
*
36185375 AGCTTCCCGATTAAAGGCTCTTTGTG
1 AGCTTCCCGATTAAAGGCTCTCTG-G
** *
36185401 AGCTTCCTAATTAATGGCTCTCTGG
1 AGCTTCCCGATTAAAGGCTCTCTGG
36185426 AGCTTCCCGAT
1 AGCTTCCCGAT
36185437 ATGGCTCGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (25 bp):
AGCTTCCCGATTAAAGGCTCTCTGG
Found at i:36185458 original size:23 final size:23
Alignment explanation
Indices: 36185414--36185461 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
36185404 TTCCTAATTA
* *
36185414 ATGGCTCTCTGGAGCTTCCCGAT
1 ATGGCTCGCTGGAACTTCCCGAT
* *
36185437 ATGGCTCGCTTGAACTTTCCGAT
1 ATGGCTCGCTGGAACTTCCCGAT
36185460 AT
1 AT
36185462 ATGGCTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (23 bp):
ATGGCTCGCTGGAACTTCCCGAT
Done.