Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007895.1 Hibiscus syriacus cultivar Beakdansim tig00110280_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 561701
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 3
Found at i:3222 original size:20 final size:22
Alignment explanation
Indices: 3188--3236 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
3178 TTTAATTTAA
3188 ATAATAATTT-TTT-TATATTTT
1 ATAA-AATTTATTTATATATTTT
*
3209 TTAAAATTTATTTATATATTTT
1 ATAAAATTTATTTATATATTTT
3231 ATAAAA
1 ATAAAA
3237 ATGTAATGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATAAAATTTATTTATATATTTT
Found at i:8102 original size:24 final size:24
Alignment explanation
Indices: 8074--8181 Score: 107
Period size: 24 Copynumber: 4.5 Consensus size: 24
8064 TTATTTTATT
* *
8074 TCTGATTTGAATTCTGTTATGATA
1 TCTGACTTGAATTCTGATATGATA
* *
8098 TCTGACATGGATTCTGATATGATA
1 TCTGACTTGAATTCTGATATGATA
*
8122 T-TGACATTG-ATTCTGATCTGATA
1 TCTGAC-TTGAATTCTGATATGATA
*
8145 -CATGACCTGAATTCTGATATGATA
1 TC-TGACTTGAATTCTGATATGATA
8169 -CTTGACTTGAATT
1 TC-TGACTTGAATT
8182 ATGTTTTGAT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
23 19 0.27
24 51 0.73
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.42
Consensus pattern (24 bp):
TCTGACTTGAATTCTGATATGATA
Found at i:8144 original size:47 final size:47
Alignment explanation
Indices: 8084--8178 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 47
8074 TCTGATTTGA
* *
8084 ATTCTGTTATGATATC-TGACATGGATTCTGATATGATA-TTGACATTG
1 ATTCTGATATGATA-CATGACATGAATTCTGATATGATACTTGAC-TTG
* *
8131 ATTCTGATCTGATACATGACCTGAATTCTGATATGATACTTGACTTG
1 ATTCTGATATGATACATGACATGAATTCTGATATGATACTTGACTTG
8178 A
1 A
8179 ATTATGTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
46 1 0.02
47 36 0.86
48 5 0.12
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (47 bp):
ATTCTGATATGATACATGACATGAATTCTGATATGATACTTGACTTG
Found at i:23861 original size:9 final size:9
Alignment explanation
Indices: 23819--23917 Score: 72
Period size: 10 Copynumber: 10.3 Consensus size: 9
23809 GCTGCTGGAA
23819 ACCGGTTTG
1 ACCGGTTTG
* *
23828 ACCGATTTTCA
1 ACCG-GTTT-G
23839 ACCGGTTCTG
1 ACCGGTT-TG
23849 ACCGGTTTG
1 ACCGGTTTG
*
23858 ACCGGTTTCA
1 ACCGGTTT-G
*
23868 ACCGGTTCG
1 ACCGGTTTG
23877 AACCGGTTTG
1 -ACCGGTTTG
*
23887 ACCGGTCTG
1 ACCGGTTTG
*
23896 AATCGGTTTG
1 -ACCGGTTTG
* *
23906 ACTGGTCTG
1 ACCGGTTTG
23915 ACC
1 ACC
23918 CGACCCGACC
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
9 30 0.43
10 34 0.49
11 5 0.07
ACGTcount: A:0.16, C:0.26, G:0.27, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:23863 original size:19 final size:19
Alignment explanation
Indices: 23820--23917 Score: 69
Period size: 19 Copynumber: 5.1 Consensus size: 19
23810 CTGCTGGAAA
* * *
23820 CCGGTTTGACCGATTTTCAA
1 CCGGTTTGACCGGTTCT-GA
23840 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
23859 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
23879 CCGGTTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
* *
23898 TCGGTTTGACTGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
23916 CC
1 CC
23918 CGACCCGACC
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.08
19 38 0.58
20 15 0.23
21 8 0.12
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.31
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:23875 original size:29 final size:29
Alignment explanation
Indices: 23818--23892 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
23808 GGCTGCTGGA
*
23818 AACCGGTTTGACCGATTTTCAACCGGTTCTG
1 AACCGGTTTGACCG-GTTTCAACCGGTTC-G
23849 -ACCGGTTTGACCGGTTTCAACCGGTTCG
1 AACCGGTTTGACCGGTTTCAACCGGTTCG
23877 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
23893 CTGAATCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (29 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCG
Found at i:23924 original size:5 final size:5
Alignment explanation
Indices: 23914--23971 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
23904 TGACTGGTCT
* *
23914 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
23963 GACCC GACC
1 GACCC GACC
23972 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:23942 original size:22 final size:22
Alignment explanation
Indices: 23914--23978 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
23904 TGACTGGTCT
23914 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
23936 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
23958 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
23979 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:24906 original size:31 final size:32
Alignment explanation
Indices: 24862--24934 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
24852 TGTGACTCTT
* *
24862 AGGTAGGCTCTGCGGCCCTGAGAT-TATTCTC
1 AGGTAGGCCCTGCGGCCCTAAGATGTATTCTC
* * *
24893 GGGTAGGCCCTGCGGCCCTAAGATGTGTTCTT
1 AGGTAGGCCCTGCGGCCCTAAGATGTATTCTC
24925 AGGTAGGCCC
1 AGGTAGGCCC
24935 CATGGCCCCG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.26
Consensus pattern (32 bp):
AGGTAGGCCCTGCGGCCCTAAGATGTATTCTC
Found at i:31180 original size:9 final size:9
Alignment explanation
Indices: 31166--31243 Score: 75
Period size: 9 Copynumber: 8.3 Consensus size: 9
31156 GCTGCTGGAA
31166 ACCGGTTTG
1 ACCGGTTTG
31175 ACCGGTTTG
1 ACCGGTTTG
*
31184 ACCGGTTTCA
1 ACCGGTTT-G
*
31194 ACCGGTTCG
1 ACCGGTTTG
*
31203 AATCGGTTTG
1 -ACCGGTTTG
*
31213 ACCGGTCTG
1 ACCGGTTTG
*
31222 AATCGGTTTG
1 -ACCGGTTTG
*
31232 ACCGGTCTG
1 ACCGGTTTG
31241 ACC
1 ACC
31244 CGACCCGACC
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
9 34 0.62
10 21 0.38
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:31238 original size:19 final size:19
Alignment explanation
Indices: 31168--31241 Score: 89
Period size: 19 Copynumber: 3.9 Consensus size: 19
31158 TGCTGGAAAC
* *
31168 CGGTTTGACCGGTTTG-AC
1 CGGTTTGACCGGTCTGAAT
*
31186 CGGTTTCAACCGGT-TCGAAT
1 CGGTTT-GACCGGTCT-GAAT
31206 CGGTTTGACCGGTCTGAAT
1 CGGTTTGACCGGTCTGAAT
31225 CGGTTTGACCGGTCTGA
1 CGGTTTGACCGGTCTGA
31242 CCCGACCCGA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
18 7 0.14
19 34 0.69
20 8 0.16
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (19 bp):
CGGTTTGACCGGTCTGAAT
Found at i:31250 original size:5 final size:5
Alignment explanation
Indices: 31240--31297 Score: 55
Period size: 5 Copynumber: 10.8 Consensus size: 5
31230 TGACCGGTCT
*
31240 GACCC GACCC GACCGTT GACCC GACCC GACCC GA-CC GTTAACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACCC G---ACCC GACCC
31289 GACCC GACC
1 GACCC GACC
31298 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
4 3 0.07
5 34 0.76
7 5 0.11
8 3 0.07
ACGTcount: A:0.21, C:0.52, G:0.21, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:31266 original size:22 final size:22
Alignment explanation
Indices: 31240--31304 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
31230 TGACCGGTCT
31240 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
31262 GACCCGACCCGACCGTTAACCC
1 GACCCGACCCGACCGTTGACCC
31284 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
31305 GTTGACCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.20, C:0.49, G:0.22, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:32269 original size:32 final size:31
Alignment explanation
Indices: 32185--32261 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
32175 CTAATGTGAC
* *
32185 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
** *
32216 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-TAT
32248 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
32262 CACGGCCCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
Found at i:32287 original size:63 final size:63
Alignment explanation
Indices: 32185--32308 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
32175 CTAATGTGAC
* ** * *
32185 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
32248 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGGCCCTAAGATGT
32309 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.94
64 2 0.04
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:33854 original size:2 final size:2
Alignment explanation
Indices: 33843--33878 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
33833 TTCTTACGAT
33843 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33879 TATTAGTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38142 original size:22 final size:23
Alignment explanation
Indices: 38099--38144 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
38089 ATAATCTTCT
* * *
38099 AAAATTCGATCTAATTTTAATAA
1 AAAAATCGATCTAAGTTAAATAA
38122 AAAAATCGATCT-AGTTAAATAA
1 AAAAATCGATCTAAGTTAAATAA
38144 A
1 A
38145 TATTAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.33
Consensus pattern (23 bp):
AAAAATCGATCTAAGTTAAATAA
Found at i:38462 original size:3 final size:3
Alignment explanation
Indices: 38433--38496 Score: 83
Period size: 3 Copynumber: 20.3 Consensus size: 3
38423 GTCCCGTTAA
*
38433 TAT TAT ATAT ATAT ATAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
38481 TAT TAT CAT TAT TAT T
1 TAT TAT TAT TAT TAT T
38497 TTTCTTACAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
3 45 0.80
4 11 0.20
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:41093 original size:25 final size:25
Alignment explanation
Indices: 41065--41115 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
41055 TAATTTAATG
*
41065 ATAAAAATATTATT-TTTTAAAAAAT
1 ATAAAAAGATT-TTCTTTTAAAAAAT
* *
41090 ATAACAAGATTTTCTTTTAAATAAT
1 ATAAAAAGATTTTCTTTTAAAAAAT
41115 A
1 A
41116 ATTGGGAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
ATAAAAAGATTTTCTTTTAAAAAAT
Found at i:44197 original size:37 final size:35
Alignment explanation
Indices: 44126--44205 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 35
44116 AATGTAATTT
**
44126 AAAATATT-TTTTTTTAATTTTTGTGGTTTAATAA
1 AAAATATTATTTTTTTAATTTTTGTAATTTAATAA
* *
44160 AAAATATTATTTTTTTATATTATTTTTAATTTTATAA
1 AAAATATTATTTTTTTA-ATT-TTTGTAATTTAATAA
44197 AAAATATTA
1 AAAATATTA
44206 AAAAATATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
34 8 0.21
35 8 0.21
36 3 0.08
37 20 0.51
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (35 bp):
AAAATATTATTTTTTTAATTTTTGTAATTTAATAA
Found at i:44446 original size:18 final size:18
Alignment explanation
Indices: 44411--44452 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
44401 ATAATCTATT
**
44411 AATTTATAATTTTTTATA
1 AATTTATAATTTGATATA
44429 AATTTATAATTTGATATA
1 AATTTATAATTTGATATA
44447 ATATTT
1 A-ATTT
44453 TACTTGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
AATTTATAATTTGATATA
Found at i:50926 original size:25 final size:24
Alignment explanation
Indices: 50879--50929 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
50869 GAGAAATTTG
*
50879 TTATATTTTTTTAATAACAAATAT
1 TTATAATTTTTTAATAACAAATAT
* *
50903 TTATAATTTTTTATATATCCAATAT
1 TTATAATTTTTTA-ATAACAAATAT
50928 TT
1 TT
50930 CACATTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATAATTTTTTAATAACAAATAT
Found at i:60530 original size:42 final size:42
Alignment explanation
Indices: 60480--60599 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 42
60470 GTAATTCTTA
*
60480 AGGGAAGTATCGATACCAGTTGAAG-TGGGTATCGATACT-AT
1 AGGGAAGTATCGATACCAGTAGAAGAT-GGTATCGATACTGAT
* *
60521 GAGGGAAGTATCGATACTAGTAGAGGATGGTATCGATACTGAT
1 -AGGGAAGTATCGATACCAGTAGAAGATGGTATCGATACTGAT
* * *
60564 AGGGTAGTATCGATACTAG--GAGGATGGTATCGATAC
1 AGGGAAGTATCGATACCAGTAGAAGATGGTATCGATAC
60600 ATTTTTAAGA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
40 17 0.24
42 52 0.72
43 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (42 bp):
AGGGAAGTATCGATACCAGTAGAAGATGGTATCGATACTGAT
Found at i:60533 original size:20 final size:21
Alignment explanation
Indices: 60508--60599 Score: 95
Period size: 20 Copynumber: 4.5 Consensus size: 21
60498 GTTGAAGTGG
60508 GTATCGATACTATGAGGGA-A
1 GTATCGATACTATGAGGGATA
*
60528 GTATCGATACTA-GTAGAGGATG
1 GTATCGATACTATG-AG-GGATA
60550 GTATCGATACTGAT-AGGG-TA
1 GTATCGATACT-ATGAGGGATA
* *
60570 GTATCGATACTAGGA-GGATG
1 GTATCGATACTATGAGGGATA
60590 GTATCGATAC
1 GTATCGATAC
60600 ATTTTTAAGA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 4 0.07
20 38 0.62
21 5 0.08
22 13 0.21
23 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (21 bp):
GTATCGATACTATGAGGGATA
Found at i:61306 original size:23 final size:24
Alignment explanation
Indices: 61226--61334 Score: 87
Period size: 21 Copynumber: 4.9 Consensus size: 24
61216 TCGAGGGTTT
61226 TATGTGGTC-CTTCGG-GACAAA--
1 TATGTGGTCACTTCGGTG-CAAACC
61247 TATGTGGT-ACTTCGGTGCAAACC
1 TATGTGGTCACTTCGGTGCAAACC
* *
61270 TATATGG-CACTTCGGTGCAAACT
1 TATGTGGTCACTTCGGTGCAAACC
* *
61293 TTTGTGGTCA-TTCGG-G-ACAA-T
1 TATGTGGTCACTTCGGTGCA-AACC
61314 TATGTGG-CACTTCGGTGCAAA
1 TATGTGGTCACTTCGGTGCAAA
61335 TTACAAGCTG
Statistics
Matches: 73, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
20 2 0.03
21 31 0.42
22 7 0.10
23 31 0.42
24 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (24 bp):
TATGTGGTCACTTCGGTGCAAACC
Found at i:72613 original size:34 final size:34
Alignment explanation
Indices: 72570--72645 Score: 152
Period size: 34 Copynumber: 2.2 Consensus size: 34
72560 AATTGAGTCT
72570 TTAAAAAATAAACGACAAGAACGGCCAATCATCA
1 TTAAAAAATAAACGACAAGAACGGCCAATCATCA
72604 TTAAAAAATAAACGACAAGAACGGCCAATCATCA
1 TTAAAAAATAAACGACAAGAACGGCCAATCATCA
72638 TTAAAAAA
1 TTAAAAAA
72646 GATTAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.55, C:0.18, G:0.11, T:0.16
Consensus pattern (34 bp):
TTAAAAAATAAACGACAAGAACGGCCAATCATCA
Found at i:77942 original size:21 final size:22
Alignment explanation
Indices: 77918--77959 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
77908 CAAATTTACA
77918 TAAAAT-ATAAATTTTATATTT
1 TAAAATAATAAATTTTATATTT
* *
77939 TAAAATAATACATTTTTTATT
1 TAAAATAATAAATTTTATATT
77960 AATCTCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAAATAATAAATTTTATATTT
Found at i:80067 original size:40 final size:40
Alignment explanation
Indices: 80018--80093 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
80008 ACTTAGTCCA
80018 TCCCCTTATGTCATGCATCTATGATCCTTCATCACATCCG
1 TCCCCTTATGTCATGCATCTATGATCCTTCATCACATCCG
80058 TCCCCTTATGTCATGCATCTATGATCCTTCATCACA
1 TCCCCTTATGTCATGCATCTATGATCCTTCATCACA
80094 CAGGTATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (40 bp):
TCCCCTTATGTCATGCATCTATGATCCTTCATCACATCCG
Found at i:81299 original size:131 final size:132
Alignment explanation
Indices: 81019--81324 Score: 445
Period size: 131 Copynumber: 2.3 Consensus size: 132
81009 TACTCCATAG
*
81019 TGCACTATTAGTCTTAGAATTCATCTATCTTTGCTTCAAATGCCTCTAAGCTATGATTTATGGCA
1 TGCACTATTAGTCTTAGAATTCATCTATCTTTGCTTCAAATGCCTCTAAGCTATGATTTAAGGCA
* ** * * *
81084 TTCAATATGTTTGCAGGCTTTCACTAGATTACTTATCCGGACAATAGTCCTTATGGTGCCTCCGT
66 TTCAATATATTCCCAGGCGTTCACTAGATTACTTATCCGGACAATAGCCCTTATAGTGCCTCCGT
81149 GA
131 GA
* * * *
81151 TGCACTACTAGTGTTAGAATTCATCCATCTTTGCTTCAAATGCCTCTATGCTATGATTTAAGGCA
1 TGCACTATTAGTCTTAGAATTCATCTATCTTTGCTTCAAATGCCTCTAAGCTATGATTTAAGGCA
* **
81216 TTCGATA-ATTCCCAGGCGTTCGTTAGATTACTTATCCAGG-CAATAGCCCTTATAGTGCCTCCG
66 TTCAATATATTCCCAGGCGTTCACTAGATTACTTATCC-GGACAATAGCCCTTATAGTGCCTCCG
*
81279 TTA
130 TGA
*
81282 TGCACTATTAGTCTTAGAATTCATCTATCATTGCTTCAAATGC
1 TGCACTATTAGTCTTAGAATTCATCTATCTTTGCTTCAAATGC
81325 TTCAAATGCT
Statistics
Matches: 154, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
131 86 0.56
132 68 0.44
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (132 bp):
TGCACTATTAGTCTTAGAATTCATCTATCTTTGCTTCAAATGCCTCTAAGCTATGATTTAAGGCA
TTCAATATATTCCCAGGCGTTCACTAGATTACTTATCCGGACAATAGCCCTTATAGTGCCTCCGT
GA
Found at i:87888 original size:35 final size:35
Alignment explanation
Indices: 87841--87926 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
87831 AAAACAGTCA
* * *
87841 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
87876 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
87911 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
87927 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:87920 original size:21 final size:21
Alignment explanation
Indices: 87895--87937 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
87885 TTCTAAACCC
87895 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
87916 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
87937 T
1 T
87938 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:88092 original size:16 final size:18
Alignment explanation
Indices: 88060--88093 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
88050 TATTAATATA
88060 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
88078 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
88094 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:88766 original size:130 final size:130
Alignment explanation
Indices: 88563--88810 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
88553 AATTTTCTTC
* * *
88563 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
88628 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
88693 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
88758 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
88811 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (130 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:89268 original size:35 final size:35
Alignment explanation
Indices: 89215--89282 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
89205 TTAATTTAAG
*
89215 TATTTTGGAATTTAGGGTTTAGAATAAAATTGAAT
1 TATTTTGGAAATTAGGGTTTAGAATAAAATTGAAT
* *
89250 TATTTTGGAAATTGGGGTTTAGAATGAAATTGA
1 TATTTTGGAAATTAGGGTTTAGAATAAAATTGA
89283 TGATTGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (35 bp):
TATTTTGGAAATTAGGGTTTAGAATAAAATTGAAT
Found at i:94151 original size:182 final size:182
Alignment explanation
Indices: 93945--94591 Score: 920
Period size: 182 Copynumber: 3.6 Consensus size: 182
93935 TACAAATGAA
* * * *
93945 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGATAAAACCGGTGTC-ATTATGATAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGA-AATGATAA
** * * *
94009 AACCGGTAAATCGCTACCGGATATATTAAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
65 AACCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTC
94074 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
130 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * *
94127 AAATGTATCGATCCATAGCAATATAACATGTAATAATATGACAAAATAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* * *
94192 ACCGGTAAAAAGATACCGAATATATTGAAAGTGTCGATACATTAGTATAAGTATCGACACTTTCG
66 ACCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
* *
94257 TAATTTAAAAGAGAAGAAGTAATAGCACCTAAAAAGTGTCGATACTTTATAC
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* *
94309 AAATGTATCGATCCATAGCAATATAATAGGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* * * *
94374 ATCGGTAAAAAGATACCAGATATATTTAAAGTGTCGATAAATTAATATAAGTATCGACAATTTCG
66 ACCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
* *
94439 TAATTTAAAAGAGAATAAATTATAGCGCCTAAAAAGTGTCGATACTTTATGA-
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT-AC
* ** * * * * *
94491 AAACGTATCGATCCATAAAAATATAATAGGTAAAAATATGACAAAACCGATATCGAAATGACAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
** * * *
94556 ACCGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCG
66 ACCGGTAAAAAGATACCGGATATATTGAAAGTGTCG
94592 GTACTTTAAT
Statistics
Matches: 416, Mismatches: 47, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
182 414 1.00
183 2 0.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (182 bp):
AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
ACCGGTAAAAAGATACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCG
TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
Found at i:96795 original size:15 final size:15
Alignment explanation
Indices: 96772--96801 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96762 TTGGAGGGGT
96772 GGATGACGGTCAGGG
1 GGATGACGGTCAGGG
*
96787 GGATTACGGTCAGGG
1 GGATGACGGTCAGGG
96802 AAAACAGAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.13, G:0.50, T:0.17
Consensus pattern (15 bp):
GGATGACGGTCAGGG
Found at i:97180 original size:18 final size:18
Alignment explanation
Indices: 97157--97195 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
97147 GAGAAAATTT
97157 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
97175 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
97193 GAA
1 GAA
97196 ATGAAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:98690 original size:19 final size:19
Alignment explanation
Indices: 98666--98715 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
98656 AAATGTAGGG
98666 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
98685 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
98704 ATAATTTTGTAT
1 TTAATTTTGTAT
98716 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:99004 original size:21 final size:21
Alignment explanation
Indices: 98979--99027 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
98969 GATTCCAACA
98979 TTTTGTCCAAGTATCGACACT
1 TTTTGTCCAAGTATCGACACT
*****
99000 TTTTGAATTTGTATCGACACT
1 TTTTGTCCAAGTATCGACACT
99021 TTTTGTC
1 TTTTGTC
99028 TAGAATGTAA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.47
Consensus pattern (21 bp):
TTTTGTCCAAGTATCGACACT
Found at i:99539 original size:15 final size:15
Alignment explanation
Indices: 99519--99570 Score: 86
Period size: 15 Copynumber: 3.5 Consensus size: 15
99509 AGAATCGGGG
*
99519 CTCTTCTCAACCCAT
1 CTCTTCTCAACCCAC
99534 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
*
99549 CTCTTCTCAACCCAG
1 CTCTTCTCAACCCAC
99564 CTCTTCT
1 CTCTTCT
99571 GAGGAAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.17, C:0.48, G:0.02, T:0.33
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:100727 original size:3 final size:3
Alignment explanation
Indices: 100721--100756 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
100711 AGATGACGAC
100721 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
100757 CCAAACAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:102589 original size:200 final size:198
Alignment explanation
Indices: 102011--102596 Score: 714
Period size: 201 Copynumber: 2.9 Consensus size: 198
102001 TATTTTCCAA
*
102011 CCAAAGCAAGTTCAC-AAATAAGTGTCGATACATTTATATCAAATGTCGATCCTAAAAACATCGA
1 CCAAACCAAGTTCACGAAA-AAGTGTCGATACATTTATA-CAAATGTCGATCCTAAAAACATCGA
* * *
102075 AACTCGTAACTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGATTTTCTG
64 AACACGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTCTG
* * *
102140 AGAAAATAGGTCTACA-ATATATATCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAA
129 AGAAAATAGGTCTACATA-ATGTATCGACACTTTATACATTTGTGTCGATAC-TTTTGTCCAGAA
**
102204 TGTATTT
192 TAAATTT
* *
102211 CCAAACCAAGTGCACGAACAAAGTGTCGATACATTTATACCAAGTGTCGATCCTAAAAACATCGA
1 CCAAACCAAGTTCACGAA-AAAGTGTCGATACATTTATA-CAAATGTCGATCCTAAAAACATCGA
* * * * * * *
102276 AACACATAATTATAATATAAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGGTTATT-
64 AACACGTAATTATAATGT-AATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTT-TTC
** * * * * * * * *
102340 AAAAAAAAAAGGTATACATAATGTATCGATAATTTATACATTCGTGTCGACACTTTATGTCCATA
127 TGAGAAAATAGGTCTACATAATGTATCGACACTTTATACATTTGTGTCGATACTTT-TGTCCAGA
102405 ATAAATTTT
191 ATAAA-TTT
* * * *
102414 CCAAA-CAAGTTCACGAAAAGGTGTCGATACATTTAGAAAAATTGTCGATCCTAAAAGCATCGAA
1 CCAAACCAAGTTCACGAAAAAGTGTCGATACATTTATACAAA-TGTCGATCCTAAAAACATCGAA
* *
102478 ACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCAGTTTAAATTTACCGGTTTTCTGA
65 ACACGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTCTGA
*
102543 GAAAATAGGTCTACATAATGTATCGACACGTTT-TAAATTTGTGTCGATACTTTT
130 GAAAATAGGTCTACATAATGTATCGACAC-TTTATACATTTGTGTCGATACTTTT
102597 TAAAATTACG
Statistics
Matches: 322, Mismatches: 54, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
199 3 0.01
200 93 0.29
201 117 0.36
202 98 0.30
203 11 0.03
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (198 bp):
CCAAACCAAGTTCACGAAAAAGTGTCGATACATTTATACAAATGTCGATCCTAAAAACATCGAAA
CACGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTCTGAG
AAAATAGGTCTACATAATGTATCGACACTTTATACATTTGTGTCGATACTTTTGTCCAGAATAAA
TTT
Found at i:106267 original size:198 final size:196
Alignment explanation
Indices: 105757--106280 Score: 610
Period size: 198 Copynumber: 2.6 Consensus size: 196
105747 ATTAGATTTT
** *
105757 GTGTCGATACATTTATAACAAGTATCGATCCC-AAAATCAAAGAGACCGATAATTATAATGTAAT
1 GTGTCGATACATTTA-AA-AAGTATCGATCCCGAAAA-CATCGAAACCGATAATTATAATGTAAT
* *
105821 AGGTAAATTTACAATGTAACCGG-TAGAAATATACCGGGTTCATGAGAGAATAGGTCAACATAAA
63 AGGTAAATTTACAATGTAACCGGTTA-AAATATACC-GGTTAATGAGAAAATAGGTCAACATAAA
* * * * * *
105885 GTATCGACATTTTTTTAATTTGTGTCGATACATTTTTTCAAAATAAATGGCAAACGAGGTGTACG
126 GTATCGACACTCTTTAAATATGTGTCGATACATTTTTTCAAAATAAATGACAAACGAGGTGCACG
105950 CATAAA
191 CATAAA
* * * *
105956 GTGTCGATACATTTGTAAAAAGTATCGATCCTCG-AAACATCAAAATCGATAATTATTATGTAAC
1 GTGTCGATACA-TT-TAAAAAGTATCGATCC-CGAAAACATCGAAACCGATAATTATAATGTAAT
* * * *
106020 AGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATTAGAAAATAGGTCTACATTATGT
63 AGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAAAATAGGTCAACATAAAGT
*
106085 ATCGACACTCTTTAAATATGTGTCGATAC-TTTTTTCCAAAATAAA-GCACAAACGAGTTGCACG
128 ATCGACACTCTTTAAATATGTGTCGATACATTTTTT-CAAAATAAATG-ACAAACGAGGTGCACG
106148 CATAAA
191 CATAAA
* *
106154 GTGTCGATACATTTAAAATTGTATCGATCCCGAAAACATCGAAACCGAT-ATACATAATGTAATA
1 GTGTCGATACATTTAAAA-AGTATCGATCCCGAAAACATCGAAACCGATAAT-TATAATGTAATA
* * * * * * * * *
106218 GGTCAATTTATAATGTAACTGGTTTAAATTTACCGATTTTATGAGAAAATATGTCAATATAAA
64 GGTAAATTTACAATGTAACCGGTTAAAATATACCG-GTTAATGAGAAAATAGGTCAACATAAA
106281 CGCTATCTAT
Statistics
Matches: 275, Mismatches: 39, Indels: 23
0.82 0.12 0.07
Matches are distributed among these distances:
196 9 0.03
197 72 0.26
198 107 0.39
199 75 0.27
200 10 0.04
201 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (196 bp):
GTGTCGATACATTTAAAAAGTATCGATCCCGAAAACATCGAAACCGATAATTATAATGTAATAGG
TAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAAAATAGGTCAACATAAAGTATC
GACACTCTTTAAATATGTGTCGATACATTTTTTCAAAATAAATGACAAACGAGGTGCACGCATAA
A
Found at i:106408 original size:23 final size:23
Alignment explanation
Indices: 106358--106402 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
106348 TGCCTATTTT
* *
106358 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
106381 ATTATATAAACGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
106403 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:106433 original size:87 final size:87
Alignment explanation
Indices: 106274--106436 Score: 254
Period size: 87 Copynumber: 1.9 Consensus size: 87
106264 AAATATGTCA
* *
106274 ATATAAACGCTATCTATTACATTATATAAACGCTACCTAATTTGTTATTGTACTTGATAATATAT
1 ATATAAACGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATAT
**
106339 ATGGTTAAATGCCTATTTTATT
66 ACAGTTAAATGCCTATTTTATT
* * *
106361 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAACGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATAT
*
106426 CCAGTTAAATG
66 ACAGTTAAATG
106437 ATATAACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (87 bp):
ATATAAACGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATAT
ACAGTTAAATGCCTATTTTATT
Found at i:108609 original size:33 final size:33
Alignment explanation
Indices: 108544--108609 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
108534 CACGTAAATC
* * *
108544 AAAATCTAAACACTATATATCTACTCCCAAAGT
1 AAAATCTAAACACTACATACCTACTCCAAAAGT
*
108577 AAAATTTAAACACTACATACCTAC-CACAAAAGT
1 AAAATCTAAACACTACATACCTACTC-CAAAAGT
108610 TAGTATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.24
Consensus pattern (33 bp):
AAAATCTAAACACTACATACCTACTCCAAAAGT
Found at i:108772 original size:21 final size:21
Alignment explanation
Indices: 108735--108802 Score: 95
Period size: 20 Copynumber: 3.3 Consensus size: 21
108725 AGATAAAAGA
*
108735 TCTGCAGTC-TGCGGACCACG
1 TCTGCAGTCTTACGGACCACG
108755 TCTGCAGTCTTACGGACCACG
1 TCTGCAGTCTTACGGACCACG
* *
108776 TCTGTAGT-TTACGGACCACA
1 TCTGCAGTCTTACGGACCACG
108796 TCTGCAG
1 TCTGCAG
108803 GCATCTGCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 26 0.60
21 17 0.40
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.25
Consensus pattern (21 bp):
TCTGCAGTCTTACGGACCACG
Found at i:108949 original size:31 final size:31
Alignment explanation
Indices: 108913--108971 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
108903 AACTTAAAAG
* * *
108913 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTAAAATTTAAATAATTTT
108944 AGTTTTACAATACTAAAATTTAAATAAT
1 AGTTTTACAATACTAAAATTTAAATAAT
108972 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTAAAATTTAAATAATTTT
Found at i:109021 original size:22 final size:22
Alignment explanation
Indices: 108996--109038 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
108986 TAATAAATTA
108996 TTTAAAATAAACCAATCTATAT
1 TTTAAAATAAACCAATCTATAT
*
109018 TTTAAAATAAATCAATCTATA
1 TTTAAAATAAACCAATCTATA
109039 CAAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAACCAATCTATAT
Found at i:109056 original size:32 final size:32
Alignment explanation
Indices: 109018--109098 Score: 137
Period size: 32 Copynumber: 2.5 Consensus size: 32
109008 CAATCTATAT
109018 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
*
109050 TTTAAAATAAATCAAAT-TATACTAATAAATTA
1 TTTAAAATAAATC-AATCTATACAAATAAATTA
109082 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
109099 CATATTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
31 3 0.07
32 40 0.87
33 3 0.07
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCTATACAAATAAATTA
Found at i:109057 original size:14 final size:14
Alignment explanation
Indices: 109040--109093 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
109030 CAATCTATAC
109040 AAATAAATTATTTA
1 AAATAAATTATTTA
*
109054 AAATAAATCAAATTATA
1 AAATAAAT--TATT-TA
*
109071 CTAATAAATTATTTA
1 -AAATAAATTATTTA
109086 AAATAAAT
1 AAATAAAT
109094 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 2 0.06
16 6 0.19
17 2 0.06
18 7 0.22
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:109089 original size:86 final size:86
Alignment explanation
Indices: 108986--109354 Score: 331
Period size: 86 Copynumber: 4.4 Consensus size: 86
108976 ACAACTAAAA
*
108986 TAATAAATTATTTAAAATAAACCAATCTATATTTTAAAATAAATC-AATCTATACAAATAAATTA
1 TAATAAATTATTTAAAATAAACCAATCCATATTTTAAAATAAATCAAAT-TATACAAATAAATTA
109050 TTTAAAATAAATCAAATTATAC
65 TTTAAAATAAATCAAATTATAC
* *
109072 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAATTATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAACCAATCCATATTTTAAAATAAATCAAATTATACAAATAAATTAT
109137 TTAAAATAAATC--A--AT-C
66 TTAAAATAAATCAAATTATAC
* * * * * * * * **
109153 T-AT--A-T-TTTAAAATAAATCAATCCATA-CTAATAAATTATTTAAAATAAATC-AATCCA-T
1 TAATAAATTATTTAAAATAAACCAATCCATATTTTA-AAATAAATCAAATTATA-CAAATAAATT
*
109210 ATTTTAAAATAAATC-AATCCATAC
64 A-TTTAAAATAAATCAAAT-TATAC
* * * ** *
109234 TAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAATAAATC-AATCCATACAAATAA
1 TAATAAATTATTTAAAATAAACCAATCCAT---ATTTTAA-AATAAATCAAAT-TATACAAATAA
109298 ATTATTTAAAATAAATC-AATATATAC
61 ATTATTTAAAATAAATCAAAT-TATAC
*
109324 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAACCAATCCATA
109355 CTAATAAATT
Statistics
Matches: 234, Mismatches: 27, Indels: 43
0.77 0.09 0.14
Matches are distributed among these distances:
75 4 0.02
76 50 0.21
77 3 0.01
78 1 0.00
80 4 0.02
81 4 0.02
82 4 0.02
84 2 0.01
85 1 0.00
86 89 0.38
87 4 0.02
89 5 0.02
90 61 0.26
91 2 0.01
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (86 bp):
TAATAAATTATTTAAAATAAACCAATCCATATTTTAAAATAAATCAAATTATACAAATAAATTAT
TTAAAATAAATCAAATTATAC
Found at i:109108 original size:54 final size:54
Alignment explanation
Indices: 109050--109612 Score: 671
Period size: 54 Copynumber: 9.9 Consensus size: 54
109040 AAATAAATTA
*
109050 TTTAAAATAAATCAAAT-TATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATC-AATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
109104 TTTAAAATAAATCAAAT-TATACTAATAAATTATTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATC-AATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
109158 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
109212 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATACAAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---AT
** * *
109269 TACAATAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATATATACTAATAAATT
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATC---A-AT-C-CAT--A-T
*
109333 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAAC
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---AT
** * *
109391 TACAATAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATATATACTAATAAATT
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATC---A-AT-C-CAT--A-T
109455 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
** *
109510 TTTAAAATAAATCAATTTATACAAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
109564 TTTAAAGTAAATCAATCCATACTAATAGATTATTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
109613 AATACAACTA
Statistics
Matches: 451, Mismatches: 35, Indels: 46
0.85 0.07 0.09
Matches are distributed among these distances:
53 3 0.01
54 247 0.55
55 1 0.00
56 1 0.00
57 7 0.02
58 82 0.18
59 4 0.01
60 4 0.01
61 4 0.01
62 4 0.01
63 6 0.01
64 82 0.18
65 6 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:109142 original size:32 final size:32
Alignment explanation
Indices: 109104--109508 Score: 448
Period size: 32 Copynumber: 13.7 Consensus size: 32
109094 CAATCCATAT
*
109104 TTTAAAATAAATCAAAT-TATACTAATAAATTA
1 TTTAAAATAAATC-AATCCATACTAATAAATTA
109136 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
109158 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
109190 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
109212 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
109244 TTTAAAATAAATCAATCTATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
*
109274 --T--AATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
**
109302 TTTAAAATAAATCAATATATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
109334 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
109366 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
*
109396 --T--AATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
**
109424 TTTAAAATAAATCAATATATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
109456 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
109488 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
109509 TTTTAAAATA
Statistics
Matches: 321, Mismatches: 16, Indels: 72
0.78 0.04 0.18
Matches are distributed among these distances:
22 29 0.09
23 4 0.01
24 2 0.01
26 46 0.14
27 8 0.02
28 11 0.03
30 7 0.02
31 7 0.02
32 207 0.64
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:109187 original size:22 final size:22
Alignment explanation
Indices: 109138--109186 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
109128 ATAAATTATT
* **
109138 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
109160 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
109183 TAAA
1 TAAA
109187 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:109216 original size:22 final size:22
Alignment explanation
Indices: 109190--109232 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
109180 TAATAAATTA
109190 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
109212 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
109233 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:109241 original size:22 final size:22
Alignment explanation
Indices: 109192--109240 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
109182 ATAAATTATT
**
109192 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
109214 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
109237 TAAA
1 TAAA
109241 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:109254 original size:122 final size:118
Alignment explanation
Indices: 109055--109642 Score: 619
Period size: 122 Copynumber: 5.1 Consensus size: 118
109045 AATTATTTAA
* * *
109055 AATAAATCAAAT-TATACTAATAAATTATTTAAAATAAATC-A-AT-C-CAT-A-T-TTTAAAAT
1 AATAAATC-AATCCATACAAATAAATTATTTAAAATAAATCAATATACTAATAATTATTTAAAAT
* * * **
109112 AAATCAAAT-TATACTAATAAATTATTTAAAATAAATCAATCTAT---ATTTTAA-
65 AAATC-AATCCATACTAATAAATTATTTAAAATAAAT-AATATATACAACTACAAT
* *
109163 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATC-A-AT-C-CAT-A-T-TTTAAAATA
1 AATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATATACTAATAATTATTTAAAATA
*
109221 AATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAAT
66 AATCAATCCATACTAATAAATTATTTAAAATAAAT-AATATATACAACTACAAT
109275 AATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATATATACTAATAAATTATTTAAA
1 AATAAATCAATCCATACAAATAAATTATTTAAAATAAATC-A-ATATACTAAT-AATTATTTAAA
**
109340 ATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
63 ATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-AATATATACAACTACAAT
109397 AATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATATATACTAATAAATTATTTAAA
1 AATAAATCAATCCATACAAATAAATTATTTAAAATAAATC-A-ATATACTAAT-AATTATTTAAA
* * * **
109462 ATAAATCAATCCATACTAATAAATTATTTAAAATAAAT--CA-ATCCATATTTTAA-
63 ATAAATCAATCCATACTAATAAATTATTTAAAATAAATAATATATACA-ACTACAAT
** * *
109515 AATAAATCAATTTATACAAATAAATTATTTAAAATAAATC-A-AT-C-CAT-A-T-TTTAAAGTA
1 AATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATATACTAATAATTATTTAAAATA
*
109573 AATCAATCCATACTAATAGATTATTTAAAATAAATCAATCA-ATACAACTACAAT
66 AATCAATCCATACTAATAAATTATTTAAAATAAAT-AAT-ATATACAACTACAAT
109627 AATAAATCAATCCATA
1 AATAAATCAATCCATA
109643 TTTTAAAATA
Statistics
Matches: 432, Mismatches: 26, Indels: 40
0.87 0.05 0.08
Matches are distributed among these distances:
107 6 0.01
108 133 0.31
109 1 0.00
110 1 0.00
111 8 0.02
112 60 0.14
113 1 0.00
114 2 0.00
115 2 0.00
116 2 0.00
117 1 0.00
118 44 0.10
119 4 0.01
120 1 0.00
121 1 0.00
122 165 0.38
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (118 bp):
AATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATATACTAATAATTATTTAAAATA
AATCAATCCATACTAATAAATTATTTAAAATAAATAATATATACAACTACAAT
Found at i:109311 original size:90 final size:86
Alignment explanation
Indices: 109158--109687 Score: 364
Period size: 90 Copynumber: 6.1 Consensus size: 86
109148 CAATCTATAT
* * * * * *
109158 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CCAT-AT-TTTAAAAT
1 TTTAAAATAAATCAATCTATAC-AATAAAATA-AT-AAATCAATCCATACAATAATATTTAAAAT
109220 AAATCAATCCATACTAATAAATTA
63 AAATCAATCCATACTAATAAATTA
*
109244 TTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATACAAATAAATTATTTAAAA
1 TTTAAAATAAATCAATCTATACAA-TAAAATAATAAATCAATCCATAC-AAT-AA-TATTTAAAA
**
109309 TAAATCAATATATACTAATAAATTA
62 TAAATCAATCCATACTAATAAATTA
*
109334 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACA-A--
1 TTTAAAATAAATCAATCTATAC-AATAAA--A--T--AATAAATCAATCCATACAA-TA-ATATT
*
109396 T--AATAAATCAATCCATACAAATAAATTA
57 TAAAATAAATCAATCCATACTAATAAATTA
*
109424 TTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCTATAC-AATAAA--A--T--AATAAATCAATCCATAC-AAT-AA-TAT
* *
109489 TTAAAATAAATCAATCCATATTTTAAAATAAATCAA
56 TTAAAATAAATCAATCCATA--CT--AATAAAT-TA
* * * * *
109525 TTT-ATACAAATAAAT-TAT----T-TAA-AATAAATCAATCCAT---AT----TTTAAAGTAAA
1 TTTAAAATAAATCAATCTATACAATAAAATAATAAATCAATCCATACAATAATATTTAAAATAAA
*
109575 TCAATCCATACTAATAGATTA
66 TCAATCCATACTAATAAATTA
* *
109596 TTTAAAATAAATCAATCAATACAACTACAATAATAAATCAAT-C---C-AT-AT-TTTAAAATAA
1 TTTAAAATAAATCAATCTATACAA-TAAAATAATAAATCAATCCATACAATAATATTTAAAATAA
109654 ATCAATCCATACTAATAAATTA
65 ATCAATCCATACTAATAAATTA
109676 TTTAAAATAAAT
1 TTTAAAATAAAT
109688 TATTTTAAAA
Statistics
Matches: 369, Mismatches: 34, Indels: 88
0.75 0.07 0.18
Matches are distributed among these distances:
71 4 0.01
72 15 0.04
73 2 0.01
74 1 0.00
76 20 0.05
78 3 0.01
79 3 0.01
80 53 0.14
82 2 0.01
84 10 0.03
85 4 0.01
86 43 0.12
88 1 0.00
89 1 0.00
90 132 0.36
91 6 0.02
92 3 0.01
93 1 0.00
94 4 0.01
95 3 0.01
96 35 0.09
99 3 0.01
100 16 0.04
101 4 0.01
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (86 bp):
TTTAAAATAAATCAATCTATACAATAAAATAATAAATCAATCCATACAATAATATTTAAAATAAA
TCAATCCATACTAATAAATTA
Found at i:109568 original size:22 final size:22
Alignment explanation
Indices: 109542--109584 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
109532 AAATAAATTA
109542 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
109564 TTTAAAGTAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
109585 CTAATAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:109673 original size:22 final size:22
Alignment explanation
Indices: 109601--109673 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
109591 GATTATTTAA
* *
109601 AATAAATCAATCAATACA-ACT
1 AATAAATAAATCAATCCATACT
109622 ACA-ATAATAAATCAATCCATA-T
1 A-ATA-AATAAATCAATCCATACT
**
109644 TTTAAAATAAATCAATCCATACT
1 AAT-AAATAAATCAATCCATACT
109667 AATAAAT
1 AATAAAT
109674 TATTTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
21 2 0.05
22 34 0.85
23 4 0.10
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAAATAAATCAATCCATACT
Found at i:109704 original size:47 final size:47
Alignment explanation
Indices: 109641--109822 Score: 182
Period size: 45 Copynumber: 3.9 Consensus size: 47
109631 AATCAATCCA
*
109641 TATTTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAAT
1 TATTTTAAAATAAATCAATCTATA-TAATAAATTATTTTAAAATAAAT
*
109688 TATTTTAAAATAAATCAATCTATATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATC--TA---TATAATAAATTATTTTAAAATAAAT
* * * * *
109740 TATTTTATAATAAAT-TAT-TTTAAAATAAATTATTTTATAATAAAT
1 TATTTTAAAATAAATCAATCTATATAATAAATTATTTTAAAATAAAT
*
109785 TATTTTAAAATAAAT-AA-CT-T-TATTAAATTA-TTTAAAAT
1 TATTTTAAAATAAATCAATCTATATAATAAATTATTTTAAAAT
109823 TATTTTAATA
Statistics
Matches: 115, Mismatches: 13, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
42 7 0.06
43 8 0.07
44 1 0.01
45 38 0.33
47 20 0.17
48 1 0.01
49 1 0.01
51 11 0.10
52 28 0.24
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (47 bp):
TATTTTAAAATAAATCAATCTATATAATAAATTATTTTAAAATAAAT
Found at i:109746 original size:30 final size:30
Alignment explanation
Indices: 109710--109822 Score: 178
Period size: 30 Copynumber: 3.9 Consensus size: 30
109700 AATCAATCTA
*
109710 TATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
109740 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
109770 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
* *
109800 AACTTTAT--TAAATTA-TTTAAAAT
1 TATTTTATAATAAATTATTTTAAAAT
109823 TATTTTAATA
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
27 8 0.10
28 7 0.09
30 65 0.81
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAAAATAAAT
Found at i:109768 original size:230 final size:229
Alignment explanation
Indices: 109212--109784 Score: 570
Period size: 230 Copynumber: 2.4 Consensus size: 229
109202 CAATCCATAT
* * **
109212 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATAATTTAAAATAAATAAATCTAT-----TTTAA-AA
** *
109277 TAAATCAATCCATACAAATAAATTA-TTTAAAATAAATCAATATATACTAATAAATTATTTAAAA
60 TAAATCAATTTATACAAATAAATTATTTTAAAATAAATC---A-AT-C-CAT--A-T-TTTAAAA
*
109341 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCA
115 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCAATACAACTACAATAATAAATCA
* * ** * *
109406 ATCCATACAAATAAATTATTTAAAATAAATCAATATATACTAATAAATTA
180 ATCCATAAAAATAAATAATCCAAAATAAATAAATATATACAAATAAATTA
* *
109456 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATAATTTAAAATAAATAAAT-C-TATTTTAAAATAAA
*
109521 TCAATTTATACAAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCCATA
64 TCAATTTATACAAATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
109585 CTAATAGATTATTTAAAATAAATCAATCAATACAACTACAATAATAAATCAATCCATATTTTAAA
129 CTAATAAATTATTTAAAATAAATCAATCAATACAACTACAATAATAAATCAATCCATA----AAA
* * *
109650 ATAAATCAATCCATACT-AATAAATTATTTA-AAATAAATTA
190 ATAAAT-AATCCAAAATAAATAAA-TATATACAAATAAATTA
* ** *** *
109690 TTTTAAAATAAATCAATCTATA-TTTTATAATAATTTATTTTAAAATAAAT-TATTTTATAATAA
1 -TTTAAAATAAATCAATCCATACTAATA-AATAATTTAAAAT-AAATAAATCTATTTTAAAATAA
* *
109753 AT-TATTT-TA-AAATAAATTATTTTATAATAAAT
63 ATCAATTTATACAAATAAATTATTTTAAAATAAAT
109785 TATTTTAAAA
Statistics
Matches: 289, Mismatches: 28, Indels: 37
0.82 0.08 0.10
Matches are distributed among these distances:
230 86 0.30
231 14 0.05
232 5 0.02
233 14 0.05
234 27 0.09
235 40 0.14
236 9 0.03
237 1 0.00
240 38 0.13
241 3 0.01
244 48 0.17
245 1 0.00
246 3 0.01
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (229 bp):
TTTAAAATAAATCAATCCATACTAATAAATAATTTAAAATAAATAAATCTATTTTAAAATAAATC
AATTTATACAAATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
AATAAATTATTTAAAATAAATCAATCAATACAACTACAATAATAAATCAATCCATAAAAATAAAT
AATCCAAAATAAATAAATATATACAAATAAATTA
Found at i:109806 original size:15 final size:15
Alignment explanation
Indices: 109667--109799 Score: 160
Period size: 15 Copynumber: 8.5 Consensus size: 15
109657 AATCCATACT
109667 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
109681 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
109696 AATAAATCAATCTATATTTTAT
1 AAT--A--AA--T-TATTTTAA
*
109718 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
109733 AATAAATTATTTTAT
1 AATAAATTATTTTAA
109748 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
109763 AATAAATTATTTTAT
1 AATAAATTATTTTAA
109778 AATAAATTATTTTAA
1 AATAAATTATTTTAA
109793 AATAAAT
1 AATAAAT
109800 AACTTTATTA
Statistics
Matches: 103, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.09
15 77 0.75
16 1 0.01
17 1 0.01
18 1 0.01
19 2 0.02
20 1 0.01
21 1 0.01
22 10 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:114465 original size:6 final size:6
Alignment explanation
Indices: 114454--114485 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
114444 TGATAAGAGT
114454 GGAAGC GGAAGC GGAAGC GGAAGC GGAAGC GG
1 GGAAGC GGAAGC GGAAGC GGAAGC GGAAGC GG
114486 GTAGTACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.53, T:0.00
Consensus pattern (6 bp):
GGAAGC
Found at i:115731 original size:199 final size:200
Alignment explanation
Indices: 115282--116070 Score: 705
Period size: 199 Copynumber: 3.9 Consensus size: 200
115272 TTTTTTTATC
* * * **
115282 ATTTGCATATACGATAATGCTAATAGTTCTTCGGTTTAATTGTGCAACCAGTCCTTATTTTCTTA
1 ATTTGC-TATAGGGTAATGCTAATAGTTC-T-GGTTTAATTGTGCAACCAGTCCTTCTACTCTTA
* * * * *
115347 ACATA-TTTAATCTTTAGTCC------TA--GT-AATGTTGTCAATATGTCCGAGTGGTTAAGGA
63 ACAGAGTTT-ATATTTAGTCCTTGTATTACCTTCAATGCTGTCGATATGTCCGAGTGGTTAAGGA
* * * * * * *
115402 GTCAGACTCG-ATTCTGAAT-GGCTACGCTTGCGCAGGATCGAATCCAGCTGTTGACGGT-TATA
127 GTCAGACTCGAAATCTG-ATGGGCTATGCCTGCGCAGGTTCGAATCCTGCTGTCGAC-GTCTCTA
115464 TGTTTTATCTTATTT
190 ---TTTAT-TTATTT
* *
115479 ATTTGCTTATAGGGTAATGCTAATACTTCTTTGGTTTAATTGTGCAACCAGTCCTTCTACTTTTA
1 ATTTGC-TATAGGGTAATGCTAATAGTTC--TGGTTTAATTGTGCAACCAGTCCTTCTACTCTTA
* * *
115544 ACAGAGTTTATATTTAGCCCTTGTATTACCATCAGTGCTGTCGATATGTCCGAGTGGTTAAGGAG
63 ACAGAGTTTATATTTAGTCCTTGTATTACCTTCAATGCTGTCGATATGTCCGAGTGGTTAAGGAG
115609 TCAGACTCGAAATCTGATGGGCTATGCCTGCGCAGGTTCGAATCCTGCTGTCGACGTCTCTATTT
128 TCAGACTCGAAATCTGATGGGCTATGCCTGCGCAGGTTCGAATCCTGCTGTCGACGTCTCTATTT
115674 ATTTATTT
193 ATTTATTT
115682 ATTTGCTATAGGGTAATGCTAATAGTTC-GGTTTAATTGTGCAACCAGTCCTTCTACTCTTAACA
1 ATTTGCTATAGGGTAATGCTAATAGTTCTGGTTTAATTGTGCAACCAGTCCTTCTACTCTTAACA
* * *
115746 GAGTTTATATTTAGTCCTTGTA-TAGCCTTCAATGTTGTCGATATGTCCAAGTGGTTAAGGAGCC
66 GAGTTTATATTTAGTCCTTGTATTA-CCTTCAATGCTGTCGATATGTCCGAGTGGTTAAGGAGTC
* ** * * * *
115810 AGACTTGAAATCTGATGGGCTATTTCTGCGCAGATTC-ATATCCTACTGTCGACCTTTC-ATGCT
130 AGACTCGAAATCTGATGGGCTATGCCTGCGCAGGTTCGA-ATCCTGCTGTCGACGTCTCTAT--T
115873 T-TTTATTT
192 TATTTATTT
* * * * *
115881 ATTTCCTA-ATGCTGAATTGCTAATAGTTCTTCGGTTTAAGTTTAATTGTGAAACCAGTCCTTAT
1 ATTTGCTATAGGGT-AA-TGCTAATAGTTC-T--G-----GTTTAATTGTGCAACCAGTCCTTCT
* * * *
115945 ACTCTTAAC--AG---ATGTTTAGTCCTTG-ATCTGTCCTTCACA-GC-GTCGATGTGTCCTAGT
56 ACTCTTAACAGAGTTTATATTTAGTCCTTGTAT-T-ACCTTCA-ATGCTGTCGATATGTCCGAGT
* * * * *
116002 GGTTAAGGAGACAGACTCGAAATCTGTTGGGCTTTGCCTGCGCAGGTTTGAATCCTGCTGTCGAT
118 GGTTAAGGAGTCAGACTCGAAATCTGATGGGCTATGCCTGCGCAGGTTCGAATCCTGCTGTCGAC
116067 GTCT
183 GTCT
116071 TTGTTCTATA
Statistics
Matches: 499, Mismatches: 59, Indels: 61
0.81 0.10 0.10
Matches are distributed among these distances:
197 67 0.13
198 13 0.03
199 155 0.31
200 14 0.03
202 21 0.04
203 15 0.03
204 88 0.18
205 10 0.02
206 43 0.09
207 41 0.08
209 32 0.06
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (200 bp):
ATTTGCTATAGGGTAATGCTAATAGTTCTGGTTTAATTGTGCAACCAGTCCTTCTACTCTTAACA
GAGTTTATATTTAGTCCTTGTATTACCTTCAATGCTGTCGATATGTCCGAGTGGTTAAGGAGTCA
GACTCGAAATCTGATGGGCTATGCCTGCGCAGGTTCGAATCCTGCTGTCGACGTCTCTATTTATT
TATTT
Found at i:128718 original size:21 final size:21
Alignment explanation
Indices: 128689--128728 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
128679 TTATTTAATA
128689 AATCCACTAATTACTAAAATT
1 AATCCACTAATTACTAAAATT
*
128710 AATCGACTAATTACTAAAA
1 AATCCACTAATTACTAAAA
128729 CTTTCGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (21 bp):
AATCCACTAATTACTAAAATT
Found at i:135665 original size:14 final size:15
Alignment explanation
Indices: 135640--135671 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
135630 TTAGTTAAAA
135640 ATTTAAAGATAAATT
1 ATTTAAAGATAAATT
135655 ATTTAAA-ATAAATT
1 ATTTAAAGATAAATT
135669 ATT
1 ATT
135672 AATTACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
ATTTAAAGATAAATT
Found at i:135929 original size:14 final size:14
Alignment explanation
Indices: 135912--135940 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
135902 AATTTTATCC
135912 TAATTTTAATTTAA
1 TAATTTTAATTTAA
135926 TAATTTTAATTTAA
1 TAATTTTAATTTAA
135940 T
1 T
135941 TTATTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTTTAATTTAA
Found at i:135940 original size:19 final size:19
Alignment explanation
Indices: 135916--135954 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
135906 TTATCCTAAT
*
135916 TTTAATTTAATAATTTTAA
1 TTTAATTTAATAAATTTAA
*
135935 TTTAATTTATTAAATTTAA
1 TTTAATTTAATAAATTTAA
135954 T
1 T
135955 CCTATAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTAATTTAATAAATTTAA
Found at i:136359 original size:23 final size:23
Alignment explanation
Indices: 136316--136360 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
136306 TATTATTTTA
**
136316 TTTTAAATAATTTATTTTTATAT
1 TTTTAAATAATTTATAATTATAT
*
136339 TTTTAATTAATTTATAATTATA
1 TTTTAAATAATTTATAATTATA
136361 CTTTGAGTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTAAATAATTTATAATTATAT
Found at i:136975 original size:14 final size:13
Alignment explanation
Indices: 136940--136980 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
136930 TAAAACATAT
*
136940 TAAATATTAAATAA
1 TAAATA-TAATTAA
136954 TAAATATAATTATA
1 TAAATATAATTA-A
136968 TAAATATAATTAA
1 TAAATATAATTAA
136981 AAAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 19 0.76
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAATATAATTAA
Found at i:143188 original size:19 final size:19
Alignment explanation
Indices: 143164--143203 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
143154 ATTTATCCAG
143164 CAAAATCATATATGCAATA
1 CAAAATCATATATGCAATA
143183 CAAAATCATATATGCAATA
1 CAAAATCATATATGCAATA
143202 CA
1 CA
143204 GATCGGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.17, G:0.05, T:0.25
Consensus pattern (19 bp):
CAAAATCATATATGCAATA
Found at i:143455 original size:29 final size:31
Alignment explanation
Indices: 143401--143473 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
143391 ATTACCCACT
*
143401 TTTTATATAATAAAATAATAAAAAT-ATA-A
1 TTTTATATAATTAAATAATAAAAATAATATA
*
143430 TTTTATATAATTAAAT-TTAAACAATAATATA
1 TTTTATATAATTAAATAATAAA-AATAATATA
* *
143461 TTTTTTAAAATTA
1 TTTTATATAATTA
143474 TTTGAGTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.11
29 18 0.49
30 3 0.08
31 12 0.32
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (31 bp):
TTTTATATAATTAAATAATAAAAATAATATA
Found at i:145423 original size:21 final size:21
Alignment explanation
Indices: 145393--145445 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
145383 CTTATATAGA
*
145393 AGTATTGATACCTCAAATAAG
1 AGTATCGATACCTCAAATAAG
145414 AGTATCGATACCTCAAATAAG
1 AGTATCGATACCTCAAATAAG
145435 AGTATCGATAC
1 AGTATCGATAC
145446 TGATTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (21 bp):
AGTATCGATACCTCAAATAAG
Found at i:145934 original size:21 final size:21
Alignment explanation
Indices: 145875--145945 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
145865 AATATTTTTG
*
145875 ATTTTTAAAATTATAAATATT
1 ATTTTTAAAATTTTAAATATT
* * *
145896 AATATT-AAATGTTCAAATGATT
1 ATTTTTAAAAT-TTTAAAT-ATT
*
145918 -TTTTTAAAATTTTAAATATG
1 ATTTTTAAAATTTTAAATATT
*
145938 GTTTTTAA
1 ATTTTTAA
145946 TAAAAACAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 6 0.16
21 25 0.66
22 7 0.18
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (21 bp):
ATTTTTAAAATTTTAAATATT
Found at i:150739 original size:21 final size:21
Alignment explanation
Indices: 150708--150780 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
150698 TTAAATGAAT
150708 ATAATA-A-AAATAATTAATA
1 ATAATATATAAATAATTAATA
* *
150727 ATAATATTTAAATATATAAAT-
1 ATAATATATAAATA-ATTAATA
*
150748 ATAATATATAAATATAATAATTA
1 ATAATATATAAATA-ATTAA-TA
*
150771 AAAATATATA
1 ATAATATATA
150781 TTTTATAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.14
21 22 0.51
22 6 0.14
23 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
ATAATATATAAATAATTAATA
Found at i:150772 original size:13 final size:13
Alignment explanation
Indices: 150737--150766 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
150727 ATAATATTTA
150737 AATATATAAATAT
1 AATATATAAATAT
150750 AATATATAAATAT
1 AATATATAAATAT
150763 AATA
1 AATA
150767 ATTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATATAAATAT
Found at i:153020 original size:20 final size:18
Alignment explanation
Indices: 152982--153020 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
152972 TATTGATTGA
152982 TTAATAAATTAATAAATT
1 TTAATAAATTAATAAATT
*
153000 TTAATTAAATCTAATATATT
1 TTAA-TAAAT-TAATAAATT
153020 T
1 T
153021 ATTTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 9 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATAAATTAATAAATT
Found at i:155125 original size:28 final size:28
Alignment explanation
Indices: 155093--155163 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
155083 CTAAATTCAT
155093 AGCACCTCTGTGCTTGAATTAAAGATGG
1 AGCACCTCTGTGCTTGAATTAAAGATGG
*
155121 AGCACCTTTGTGCTTGAATTAAAGATGG
1 AGCACCTCTGTGCTTGAATTAAAGATGG
155149 AGCACAC-CTGTGCTT
1 AGCAC-CTCTGTGCTT
155164 CGATCGACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (28 bp):
AGCACCTCTGTGCTTGAATTAAAGATGG
Found at i:155305 original size:57 final size:58
Alignment explanation
Indices: 155223--155346 Score: 151
Period size: 57 Copynumber: 2.2 Consensus size: 58
155213 GTGCTTTGGG
* * * * * *
155223 ATGATTGAACACCTCTTTGCTTCAATCTATGATCTGGCACCTCTGTGCA-TAAAAGAA
1 ATGATTGAACACATCTGTGCATCAATCTATGAACTGACACCTCTGTGCATTAAAAAAA
* * *
155280 ATGATTGAGCACATCTGTGCATCAATCTTTGAACTGACACCTTTGTGCATTAAAAAAA
1 ATGATTGAACACATCTGTGCATCAATCTATGAACTGACACCTCTGTGCATTAAAAAAA
*
155338 ACGATTGAA
1 ATGATTGAA
155347 TTAATCACTG
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
57 41 0.75
58 14 0.25
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (58 bp):
ATGATTGAACACATCTGTGCATCAATCTATGAACTGACACCTCTGTGCATTAAAAAAA
Found at i:157392 original size:18 final size:18
Alignment explanation
Indices: 157366--157400 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
157356 AAATATTACC
*
157366 ATGTGCAGGATTGTAAGA
1 ATGTACAGGATTGTAAGA
157384 ATGTACAGGATTGTAAG
1 ATGTACAGGATTGTAAG
157401 CAGGTATCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.31, T:0.29
Consensus pattern (18 bp):
ATGTACAGGATTGTAAGA
Found at i:163970 original size:20 final size:20
Alignment explanation
Indices: 163947--163985 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
163937 AATTAAAAAT
*
163947 AATAATTTATAATTAATTTA
1 AATAATATATAATTAATTTA
*
163967 AATAATATCTAATTAATTT
1 AATAATATATAATTAATTT
163986 GATTCAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
AATAATATATAATTAATTTA
Found at i:164110 original size:9 final size:9
Alignment explanation
Indices: 164096--164121 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
164086 TATATTTAAA
164096 GGTTAATTC
1 GGTTAATTC
164105 GGTTAATTC
1 GGTTAATTC
164114 GGTTAATT
1 GGTTAATT
164122 AACTGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (9 bp):
GGTTAATTC
Found at i:164606 original size:26 final size:29
Alignment explanation
Indices: 164572--164636 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
164562 TACTCATTAA
*
164572 GCTCGTTAAAA-TT-TTACTTGACTCG-T
1 GCTCGTTAAAATTTATTACTTAACTCGTT
*
164598 GCTCTTTAAAAATTTATTACTTAACTCGTT
1 GCTCGTT-AAAATTTATTACTTAACTCGTT
164628 GCTCGTTAA
1 GCTCGTTAA
164637 GTTCGTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.19
27 4 0.12
28 2 0.06
29 13 0.41
30 7 0.22
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.43
Consensus pattern (29 bp):
GCTCGTTAAAATTTATTACTTAACTCGTT
Found at i:164652 original size:16 final size:16
Alignment explanation
Indices: 164623--164675 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
164613 ATTACTTAAC
* *
164623 TCGTTGCTCGTTAAGT
1 TCGTTTCTCATTAAGT
164639 TCGTTTCTCATTAAGT
1 TCGTTTCTCATTAAGT
* *
164655 TCATTTCTCATTAAGC
1 TCGTTTCTCATTAAGT
164671 TCGTT
1 TCGTT
164676 ACATGCTTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.47
Consensus pattern (16 bp):
TCGTTTCTCATTAAGT
Found at i:165078 original size:32 final size:31
Alignment explanation
Indices: 165042--165139 Score: 81
Period size: 32 Copynumber: 3.1 Consensus size: 31
165032 GTCGGGTGAC
165042 TATCAAATCGTTTGATTTTTGGGTTGAGTTAA
1 TATCAAATCGTTTGATTTTTGGGTTG-GTTAA
* * * * *
165074 TATCAGATCGGTTAGA-TTTTAGGTCGGTCAA
1 TATCAAATC-GTTTGATTTTTGGGTTGGTTAA
* * **
165105 TATCGAATCGATTGATTTTTGAATTGGGTTAA
1 TATCAAATCGTTTGATTTTTGGGTT-GGTTAA
165137 TAT
1 TAT
165140 TTGTTCAGTT
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
30 4 0.08
31 16 0.33
32 24 0.49
33 5 0.10
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (31 bp):
TATCAAATCGTTTGATTTTTGGGTTGGTTAA
Found at i:166179 original size:13 final size:13
Alignment explanation
Indices: 166161--166185 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
166151 CTCCCCTTAC
166161 CCCATTACATATA
1 CCCATTACATATA
166174 CCCATTACATAT
1 CCCATTACATAT
166186 TACATATGGG
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:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (13 bp):
CCCATTACATATA
Found at i:167677 original size:6 final size:6
Alignment explanation
Indices: 167666--167696 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
167656 GGTGAATGTC
167666 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
167697 GGACTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:175512 original size:14 final size:14
Alignment explanation
Indices: 175493--175520 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
175483 ATTCCTAGGA
175493 CCATTCATTAAGGT
1 CCATTCATTAAGGT
175507 CCATTCATTAAGGT
1 CCATTCATTAAGGT
175521 GAACTTACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
CCATTCATTAAGGT
Found at i:176262 original size:35 final size:35
Alignment explanation
Indices: 176214--176291 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
176204 TGGTGGCATT
* *
176214 AAAATCCTCCAATTATTAAACAAGATATTCGTTAC
1 AAAATCATCCAATTATCAAACAAGATATTCGTTAC
* *
176249 AAAATCATTCAATTATCAAACAAGATATTTGTTAC
1 AAAATCATCCAATTATCAAACAAGATATTCGTTAC
176284 AAAATCAT
1 AAAATCAT
176292 ACCAGGCTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (35 bp):
AAAATCATCCAATTATCAAACAAGATATTCGTTAC
Found at i:178939 original size:18 final size:17
Alignment explanation
Indices: 178916--178963 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
178906 TGTTTATGAG
178916 GGAATTGGAATCTGTAAA
1 GGAATTGGAATCTGT-AA
* * *
178934 GGAATTAGAATATGTCA
1 GGAATTGGAATCTGTAA
178951 GGAATTGGAATCT
1 GGAATTGGAATCT
178964 AATTACATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:182558 original size:21 final size:21
Alignment explanation
Indices: 182532--182584 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
182522 GTTTCCAGAT
182532 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
182553 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTCGACTA
*
182574 TCGCAATGCGA
1 TCGCAACGCGA
182585 TTTACATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:182623 original size:21 final size:21
Alignment explanation
Indices: 182593--182799 Score: 169
Period size: 21 Copynumber: 10.0 Consensus size: 21
182583 GATTTACATA
*
182593 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
182614 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
182635 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
182656 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
182675 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
182698 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
182717 TTCGTGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
182740 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
182759 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
182782 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
182800 AATCGTAACG
Statistics
Matches: 146, Mismatches: 28, Indels: 26
0.73 0.14 0.13
Matches are distributed among these distances:
19 38 0.26
21 84 0.58
23 24 0.16
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:182645 original size:42 final size:41
Alignment explanation
Indices: 182618--182796 Score: 315
Period size: 42 Copynumber: 4.3 Consensus size: 41
182608 TCCAAGTTCG
182618 CGTTGCGATAGTCGAAGTTCGCGTTGCGATT-TTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
182658 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
*
182700 CGTTGCGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
182742 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
182784 CGTTGCGATAGTC
1 CGTTGCGATAGTC
182797 CAAAATCGTA
Statistics
Matches: 135, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
40 29 0.21
41 2 0.01
42 104 0.77
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.36
Consensus pattern (41 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
Found at i:183459 original size:21 final size:21
Alignment explanation
Indices: 183433--183628 Score: 135
Period size: 21 Copynumber: 9.4 Consensus size: 21
183423 ATTTTGGACT
*
183433 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
183454 ATCGCAACGCGAACTT-CAACT--
1 ATCGCAA--CGAACTTGGAA-TAA
*
183475 ATCGCAACAAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
183496 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
183517 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
183538 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
183559 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
183580 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
183601 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAACTTGGAATAA
183620 ATCGCAACG
1 ATCGCAACG
183629 CGAACTTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 38
0.70 0.10 0.19
Matches are distributed among these distances:
19 42 0.31
20 2 0.01
21 56 0.41
22 2 0.01
23 35 0.26
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:183491 original size:42 final size:42
Alignment explanation
Indices: 183429--183649 Score: 392
Period size: 42 Copynumber: 5.3 Consensus size: 42
183419 TGCGATTTTG
183429 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
183471 AACTATCGCAACAAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
183513 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
183555 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
183597 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
183637 GACTATCGCAACG
1 GACTATCGCAACG
183650 CGAACTTCGA
Statistics
Matches: 171, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
40 32 0.19
41 1 0.01
42 138 0.81
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:183644 original size:21 final size:21
Alignment explanation
Indices: 183454--183674 Score: 188
Period size: 21 Copynumber: 10.6 Consensus size: 21
183444 TTTGGAATAA
*
183454 ATCGCAACGCGAACTTCAACT
1 ATCGCAACGCGAACTTCGACT
* * *
183475 ATCGCAA--CAAACTTGGAAT
1 ATCGCAACGCGAACTTCGACT
183494 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * *
183517 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
*
183536 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTCGACT
* * *
183559 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
183578 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * **
183601 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
183620 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
183641 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
183662 ATCGCAATGCGAA
1 ATCGCAACGCGAA
183675 TATGTAAATC
Statistics
Matches: 160, Mismatches: 26, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
19 42 0.26
21 90 0.56
23 28 0.17
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:185503 original size:2 final size:2
Alignment explanation
Indices: 185494--185525 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
185484 TATTTAATTT
185494 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
185526 CATAACAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:191342 original size:21 final size:21
Alignment explanation
Indices: 191313--191365 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
191303 AATATGTAAA
191313 TCGCATTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCGAAT
*
191334 TCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCGAAT
*
191355 TCGCAATGCGA
1 TCGCATTGCGA
191366 ATCTGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCGAAT
Found at i:191380 original size:20 final size:20
Alignment explanation
Indices: 191355--191421 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
191345 TTTTCCGAAT
*
191355 TCGCAATGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
*
191375 TCGCAACGCGAATCTGTAAG
1 TCGCAACGCGAATCTGTAAA
* *
191395 TCGCAACGCGAATTTGTAAT
1 TCGCAACGCGAATCTGTAAA
191415 TCGCAAC
1 TCGCAAC
191422 ACATAAGTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:192014 original size:20 final size:20
Alignment explanation
Indices: 191991--192029 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
191981 AAACTTAAAT
191991 TCGCAACACGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
*
192011 TCGCAACGCGAAAATGAAA
1 TCGCAACACGAAAATGAAA
192030 TCGTGTTGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.21, G:0.18, T:0.10
Consensus pattern (20 bp):
TCGCAACACGAAAATGAAAA
Found at i:193741 original size:21 final size:21
Alignment explanation
Indices: 193717--193812 Score: 63
Period size: 21 Copynumber: 4.6 Consensus size: 21
193707 TGGTGCATGG
193717 CGTGATGAGGTACGATCTTTA
1 CGTGATGAGGTACGATCTTTA
* *
193738 CGTGGTGAGGTA-GAGGCTTTA
1 CGTGATGAGGTACGA-TCTTTA
* ** * *
193759 CGCGATGA-CAATGGTGCTTTA
1 CGTGATGAGGTACGAT-CTTTA
* *
193780 CGTGGTGAGGTATCTA-CTTTA
1 CGTGATGAGGTA-CGATCTTTA
193801 CGTGATGAGGTA
1 CGTGATGAGGTA
193813 GCCGCTCTAC
Statistics
Matches: 54, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
20 3 0.06
21 50 0.93
22 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.31
Consensus pattern (21 bp):
CGTGATGAGGTACGATCTTTA
Found at i:193758 original size:63 final size:63
Alignment explanation
Indices: 193691--193813 Score: 158
Period size: 63 Copynumber: 2.0 Consensus size: 63
193681 GAGGTCGGTA
* * *
193691 CTTTACGTGACGACAATGGTGCATGGCGTGATGAGGTA-CGATCTTTACGTGGTGAGGTAGAGG
1 CTTTACGCGACGACAATGGTGCATGACGTGATGAGGTATCGA-CTTTACGTGATGAGGTAGAGG
* * * * *
193754 CTTTACGCGATGACAATGGTGCTTTACGTGGTGAGGTATCTACTTTACGTGATGAGGTAG
1 CTTTACGCGACGACAATGGTGCATGACGTGATGAGGTATCGACTTTACGTGATGAGGTAG
193814 CCGCTCTACG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 49 0.96
64 2 0.04
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.30
Consensus pattern (63 bp):
CTTTACGCGACGACAATGGTGCATGACGTGATGAGGTATCGACTTTACGTGATGAGGTAGAGG
Found at i:194134 original size:21 final size:21
Alignment explanation
Indices: 194104--194186 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 21
194094 AATTCACATG
*
194104 TCATCGTTCAAGAGGCCCCTA
1 TCATCCTTCAAGAGGCCCCTA
* *
194125 TCATCCTTCAAGAGACCCCTC
1 TCATCCTTCAAGAGGCCCCTA
* *
194146 CCA-CCATTCAAGAGGCCCCTG
1 TCATCC-TTCAAGAGGCCCCTA
* *
194167 TCATCGTTCAAGAGGTCCCT
1 TCATCCTTCAAGAGGCCCCT
194187 CCTACCGTTC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
20 2 0.04
21 48 0.94
22 1 0.02
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (21 bp):
TCATCCTTCAAGAGGCCCCTA
Found at i:194171 original size:42 final size:42
Alignment explanation
Indices: 194110--194201 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
194100 CATGTCATCG
194110 TTCAAGAGGCCCCTATCATCCTTCAAGAGACCCCTCCCACCA
1 TTCAAGAGGCCCCTATCATCCTTCAAGAGACCCCTCCCACCA
* * ** * *
194152 TTCAAGAGGCCCCTGTCATCGTTCAAGAGGTCCCTCCTACCG
1 TTCAAGAGGCCCCTATCATCCTTCAAGAGACCCCTCCCACCA
194194 TTCAAGAG
1 TTCAAGAG
194202 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (42 bp):
TTCAAGAGGCCCCTATCATCCTTCAAGAGACCCCTCCCACCA
Found at i:194195 original size:21 final size:21
Alignment explanation
Indices: 194108--194201 Score: 77
Period size: 21 Copynumber: 4.5 Consensus size: 21
194098 CACATGTCAT
*
194108 CGTTCAAGAGGCCCCT-ATCATC
1 CGTTCAAGAGGCCCCTCCT-A-C
* *
194130 C-TTCAAGAGACCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCTAC
* * *
194150 CATTCAAGAGGCCCCT-GTCAT
1 CGTTCAAGAGGCCCCTCCT-AC
*
194171 CGTTCAAGAGGTCCCTCCTAC
1 CGTTCAAGAGGCCCCTCCTAC
194192 CGTTCAAGAG
1 CGTTCAAGAG
194202 CCCGATTCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.04
21 53 0.93
22 2 0.04
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.21
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCTAC
Found at i:196053 original size:18 final size:18
Alignment explanation
Indices: 196030--196065 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
196020 AAGCTGGTTG
196030 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
196048 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
196066 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:198137 original size:3 final size:3
Alignment explanation
Indices: 198129--198155 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
198119 CGGTGACTTT
198129 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
198156 AGGGTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:198373 original size:24 final size:23
Alignment explanation
Indices: 198332--198377 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
198322 GAAACATCAT
198332 TAAAATCCGAGTACTGACCAAGA
1 TAAAATCCGAGTACTGACCAAGA
* *
198355 TAAAAGTCCGGGTATTGACCAAG
1 TAAAA-TCCGAGTACTGACCAAG
198378 TTCAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (23 bp):
TAAAATCCGAGTACTGACCAAGA
Found at i:199341 original size:20 final size:19
Alignment explanation
Indices: 199294--199341 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
199284 CAAAATATTT
199294 GTGTTGCGAAACTAAAATC
1 GTGTTGCGAAACTAAAATC
*
199313 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAACTAAAA-TC
*
199332 GTGTTACGAA
1 GTGTTGCGAA
199342 TTCAAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 15 0.60
19 2 0.08
20 8 0.32
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (19 bp):
GTGTTGCGAAACTAAAATC
Found at i:199357 original size:20 final size:20
Alignment explanation
Indices: 199334--199410 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
199324 TAAAATTCGT
*
199334 GTTACGAATTCAAAAATCAA
1 GTTACAAATTCAAAAATCAA
**
199354 GTTACAAAAAC-AAAATCAA
1 GTTACAAATTCAAAAATCAA
*
199373 TGTTGCAAATTCAAAAATCGAA
1 -GTTACAAATTCAAAAATC-AA
* *
199395 -TTACGAATTCACAAAT
1 GTTACAAATTCAAAAAT
199411 TTGAAAACTG
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 8 0.18
20 29 0.64
21 6 0.13
22 2 0.04
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.25
Consensus pattern (20 bp):
GTTACAAATTCAAAAATCAA
Found at i:211677 original size:125 final size:125
Alignment explanation
Indices: 211432--211683 Score: 342
Period size: 125 Copynumber: 2.0 Consensus size: 125
211422 AAACTCGCTA
* * * *
211432 TGCATAGGAGAATGATCAAGTGGTTCGAGATCGATGTCAATTCTATTGTGTTTTTTGGACTTACC
1 TGCATAGGAGAATGATCAAGTGGTTCGAGATCGATGCCAATTCTATTATATTTTTTGGACCTACC
* * ** *
211497 CACAATACATTAATGTTGTGAAATACTGCAAATAGGTAGTTCAAATTGTTGGTACATTCT
66 CACAATACATTAATGCTGTGAAATACTGCAAATAGGTAGTCCAAATTAATAGTACATTCT
**
211557 TGCATAGGAGAATGATTGAGTGGTTCGAGATCGATGCCAATTCTATTATATTTTTTGGACCTACC
1 TGCATAGGAGAATGATCAAGTGGTTCGAGATCGATGCCAATTCTATTATATTTTTTGGACCTACC
* * ** * * *
211622 CACAGTGCATTAATGCTGTGAAATGTTGCAAATTGGTGGTCCCAATTAATAGTACATTCT
66 CACAATACATTAATGCTGTGAAATACTGCAAATAGGTAGTCCAAATTAATAGTACATTCT
211682 TG
1 TG
211684 TATGAAAATA
Statistics
Matches: 109, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
125 109 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (125 bp):
TGCATAGGAGAATGATCAAGTGGTTCGAGATCGATGCCAATTCTATTATATTTTTTGGACCTACC
CACAATACATTAATGCTGTGAAATACTGCAAATAGGTAGTCCAAATTAATAGTACATTCT
Found at i:212433 original size:26 final size:26
Alignment explanation
Indices: 212397--212458 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
212387 TAATATGAGT
* *
212397 TTGAACCAAGGGATAGTCTTTTCAAC
1 TTGAGCCAAGGGAGAGTCTTTTCAAC
212423 TTGAGCCAAGGGAGAGTCTTTTCAAC
1 TTGAGCCAAGGGAGAGTCTTTTCAAC
212449 TTGAGCCAAG
1 TTGAGCCAAG
212459 TGACAAGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (26 bp):
TTGAGCCAAGGGAGAGTCTTTTCAAC
Found at i:213013 original size:21 final size:21
Alignment explanation
Indices: 212987--213037 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
212977 GTGGGTCACG
212987 TTCCATCTACTTCCACTTCGA
1 TTCCATCTACTTCCACTTCGA
213008 TTCCATCTACTTCCACTTCGA
1 TTCCATCTACTTCCACTTCGA
213029 TTCCATCTA
1 TTCCATCTA
213038 TTTATATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.37, G:0.04, T:0.39
Consensus pattern (21 bp):
TTCCATCTACTTCCACTTCGA
Found at i:216344 original size:22 final size:22
Alignment explanation
Indices: 216319--216394 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
216309 TCCGTCCCAT
216319 CGACGAAATCAATCCCCATCTC
1 CGACGAAATCAATCCCCATCTC
*
216341 CGACGAAATCAGT-CCCATCTC
1 CGACGAAATCAATCCCCATCTC
* *
216362 CGACGATATCAATCTCCATCTC
1 CGACGAAATCAATCCCCATCTC
*
216384 CGGCGAAATCA
1 CGACGAAATCA
216395 TTCACGGTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.40
22 28 0.60
ACGTcount: A:0.30, C:0.37, G:0.13, T:0.20
Consensus pattern (22 bp):
CGACGAAATCAATCCCCATCTC
Found at i:216819 original size:39 final size:39
Alignment explanation
Indices: 216773--216897 Score: 120
Period size: 39 Copynumber: 3.3 Consensus size: 39
216763 GATAGTCAAA
216773 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCAT
1 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCAT
* * ** *
216812 TTCGCGTTGCGAT--TC---TT-GCGTTGTGATAGTCAAA
1 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTC-AT
*
216846 TTCGTGTTGCGATAGTCATTTTCGTGTTGCGA-TTTCATT
1 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCA-T
*
216885 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
216898 TTTAAGTTTC
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
33 10 0.15
34 15 0.22
36 2 0.03
37 2 0.03
38 1 0.01
39 30 0.45
40 7 0.10
ACGTcount: A:0.14, C:0.17, G:0.25, T:0.45
Consensus pattern (39 bp):
TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCAT
Found at i:216820 original size:19 final size:20
Alignment explanation
Indices: 216756--216898 Score: 104
Period size: 20 Copynumber: 7.5 Consensus size: 20
216746 TTGTGATTCT
* **
216756 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATTGTCATTTTC
*
216776 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATTGTCATTTTC
* *
216796 GTGTTGCGATTTTCA-TTTC
1 GCGTTGCGATTGTCATTTTC
216815 GCGTTGCGA-T-TC---TT-
1 GCGTTGCGATTGTCATTTTC
* * **
216829 GCGTTGTGATAGTCAAATTC
1 GCGTTGCGATTGTCATTTTC
* *
216849 GTGTTGCGATAGTCATTTTC
1 GCGTTGCGATTGTCATTTTC
*
216869 GTGTTGCGATT-TCATTTTC
1 GCGTTGCGATTGTCATTTTC
*
216888 GTGTTGCGATT
1 GCGTTGCGATT
216899 TTAAGTTTCA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.08
15 2 0.02
16 2 0.02
17 2 0.02
18 1 0.01
19 33 0.32
20 56 0.54
ACGTcount: A:0.15, C:0.17, G:0.25, T:0.43
Consensus pattern (20 bp):
GCGTTGCGATTGTCATTTTC
Found at i:216833 original size:53 final size:54
Alignment explanation
Indices: 216776--216879 Score: 147
Period size: 53 Copynumber: 1.9 Consensus size: 54
216766 AGTCAAATTC
** **
216776 GCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCA-TTTCGCGTTGCGATTCTT
1 GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGCGTTGCGATTCTT
* *
216829 GCGTTGTGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGTGTTGCGATT
1 GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGCGTTGCGATT
216880 TCATTTTCGT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 30 0.68
54 14 0.32
ACGTcount: A:0.14, C:0.16, G:0.26, T:0.43
Consensus pattern (54 bp):
GCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGCGTTGCGATTCTT
Done.