Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002670.1 Hibiscus syriacus cultivar Beakdansim tig00005485_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: 180730
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:2961 original size:3 final size:3
Alignment explanation
Indices: 2948--3036 Score: 135
Period size: 3 Copynumber: 29.7 Consensus size: 3
2938 TTTTTACCCA
*
2948 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2995 TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAA TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
3037 AATACATATA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
2 2 0.03
3 73 0.94
4 3 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4463 original size:15 final size:14
Alignment explanation
Indices: 4442--4482 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
4432 ATATAATAAA
4442 TAATAATTTATTTT
1 TAATAATTTATTTT
4456 TAAATAA-TTA-TTT
1 T-AATAATTTATTTT
4469 TAAT-ATTTATTTT
1 TAATAATTTATTTT
4482 T
1 T
4483 TAACATCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 1 0.04
12 6 0.25
13 8 0.33
14 4 0.17
15 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TAATAATTTATTTT
Found at i:10065 original size:11 final size:11
Alignment explanation
Indices: 10049--10088 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
10039 AAAGAAAGAA
10049 GAAAAAAAAAG
1 GAAAAAAAAAG
10060 GAAAAAAAAAAG
1 G-AAAAAAAAAG
*
10072 GAAAAAAAAAA
1 GAAAAAAAAAG
10083 GAAAAA
1 GAAAAA
10089 GGAAAATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAG
Found at i:10076 original size:18 final size:18
Alignment explanation
Indices: 10061--10094 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10051 AAAAAAAAGG
10061 AAAAA-AAAAAGGAAAAA
1 AAAAAGAAAAAGGAAAAA
10078 AAAAAGAAAAAGGAAAA
1 AAAAAGAAAAAGGAAAA
10095 TTGAATCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGGAAAAA
Found at i:10094 original size:12 final size:12
Alignment explanation
Indices: 10050--10088 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
10040 AAGAAAGAAG
10050 AAAAAAAAAGGA
1 AAAAAAAAAGGA
10062 AAAAAAAAAGGA
1 AAAAAAAAAGGA
10074 AAAAAAAAA-GA
1 AAAAAAAAAGGA
10085 AAAA
1 AAAA
10089 GGAAAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.22
12 21 0.78
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGGA
Found at i:15062 original size:22 final size:22
Alignment explanation
Indices: 15032--15110 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
15022 ACATCTACAT
*
15032 TCTTCAAAGATGATAGATTCTC
1 TCTTTAAAGATGATAGATTCTC
*
15054 TCTTTAAAGATGATAGATTCCC
1 TCTTTAAAGATGATAGATTCTC
* * *
15076 TTTTTAAAGATGACAGATTATC
1 TCTTTAAAGATGATAGATTCTC
15098 T-TTTCAAAGATGA
1 TCTTT-AAAGATGA
15111 AAGTTTTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
21 3 0.06
22 47 0.94
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTTAAAGATGATAGATTCTC
Found at i:15667 original size:113 final size:113
Alignment explanation
Indices: 15547--16401 Score: 1138
Period size: 113 Copynumber: 7.5 Consensus size: 113
15537 ATACCAGTTC
* *
15547 AAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * *
15612 CAACCTTTTGCTCAAATCCATCATCTGATAGATCAGCTTTTCCAGAAA
66 CAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
*
15660 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * *
15725 CAACCTTTTGCTCAAATCCATCATCTGGTGGATCAGCTTTTCCAGAAA
66 CAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
* * **
15773 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGATCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * *
15838 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGATTTTCCAGAAA
66 CAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
*
15886 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * * *
15951 CAACCTTTTAC-CTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGA
66 CAACCTTTTGCTC-GAATTCATC-ATTTGATGGATCAGCTTTTCCAGAAA
*
16000 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * * *
16065 CAACCTTTTAC-CTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGA
66 CAACCTTTTGCTC-GAATTCATC-ATTTGATGGATCAGCTTTTCCAGAAA
*
16114 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * * * **
16179 CAATCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
66 CAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
* *
16227 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
* * * * * * * **
16292 GTTCAATCTTTTGTTTGAATTCATCATTTGATGTATCAACATTGCCAGGTA
63 GTTCAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
* * *
16343 GAGTTCATAATGAAAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAA
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
16402 CTTGTTCAAT
Statistics
Matches: 691, Mismatches: 45, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
112 1 0.00
113 327 0.47
114 214 0.31
115 1 0.00
116 148 0.21
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
Found at i:16742 original size:3 final size:3
Alignment explanation
Indices: 16727--16809 Score: 148
Period size: 3 Copynumber: 27.7 Consensus size: 3
16717 TTTTTACCCA
*
16727 TAT TAT AAT TAT TAT TAT TAT 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 TAT
*
16775 TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16810 AAATATATAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:17950 original size:15 final size:15
Alignment explanation
Indices: 17930--17971 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
17920 ATATATATAA
17930 AAATAATTTATTTTT
1 AAATAATTTATTTTT
*
17945 AAATAAATTA-TTTT
1 AAATAATTTATTTTT
17959 -AAT-ATTTATTTTT
1 AAATAATTTATTTTT
17972 TAACATCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 4 0.17
13 7 0.29
14 4 0.17
15 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AAATAATTTATTTTT
Found at i:20188 original size:22 final size:20
Alignment explanation
Indices: 20158--20197 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20148 GCATTTGTAT
20158 TTTGCATTTGTACATTTTTACG
1 TTTGCA-TT-TACATTTTTACG
*
20180 TTTGTATTTACATTTTTA
1 TTTGCATTTACATTTTTA
20198 AATTTACATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 2 0.12
22 5 0.29
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTGCATTTACATTTTTACG
Found at i:23568 original size:12 final size:11
Alignment explanation
Indices: 23548--23577 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23538 GCAAAGAAAG
23548 AAGAAAAAAAA
1 AAGAAAAAAAA
*
23559 AGGAAAAAAAA
1 AAGAAAAAAAA
23570 AAGAAAAA
1 AAGAAAAA
23578 GGAAAATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:28409 original size:22 final size:22
Alignment explanation
Indices: 28379--28457 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
28369 ACATCTACAT
*
28379 TCTTCAAAGATGATAGATTCTC
1 TCTTTAAAGATGATAGATTCTC
*
28401 TCTTTAAAGATGATAGATTCCC
1 TCTTTAAAGATGATAGATTCTC
* * *
28423 TTTTTAAAGATGACAGATTATC
1 TCTTTAAAGATGATAGATTCTC
28445 T-TTTCAAAGATGA
1 TCTTT-AAAGATGA
28458 AAGTTTTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
21 3 0.06
22 47 0.94
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTTAAAGATGATAGATTCTC
Found at i:29758 original size:116 final size:113
Alignment explanation
Indices: 28891--29757 Score: 1110
Period size: 113 Copynumber: 7.6 Consensus size: 113
28881 ATACCAGTTC
* *
28891 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
** * * * * *
28956 CAACCTTTTGCTCAAATCCATCATCTGATAGATCAGCTTTTCCAGAAA
66 CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACTTTTCCAGGAA
* *
29004 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
** * * * * * *
29069 CAACCTTTTGCTCAAATCCATCATCTGGTGGATCAGCTTTTCTAGAAA
66 CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACTTTTCCAGGAA
* * *
29117 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGATCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
** * *
29182 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGA-TTTTCCAGAAA
66 CAACCTTTTGCTTGAATTCATCATTTGATGGATCA-ACTTTTCCAGGAA
* *
29230 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *
29295 CAACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCA-GAGA
66 CAACCTTTTGCTTGAATTCATC-ATTTGATGGATCAACTTTTCCAGGA-A
* * *
29344 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATATTGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *
29409 CAACCTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCA-GAGA
66 CAACCTTTTGCTTGAATTCATC-ATTTGATGGATCAACTTTTCCAGGA-A
*
29458 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
29523 CAATCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
66 CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACTTTTCCAGGAA
*
29571 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
* * * * * *
29636 GTTCAATCTTTTGTTTGAATTCATCATTTGATGTATCAACATTGCCAGGTA
63 GTTCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACTTTTCCAGGAA
* * *
29687 GAGTTCATAATGAAAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTT
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
29752 GTTCAA
63 GTTCAA
29758 TAATTCTATC
Statistics
Matches: 696, Mismatches: 50, Indels: 13
0.92 0.07 0.02
Matches are distributed among these distances:
113 325 0.47
114 211 0.30
115 1 0.00
116 159 0.23
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTTGAATTCATCATTTGATGGATCAACTTTTCCAGGAA
Found at i:30090 original size:3 final size:3
Alignment explanation
Indices: 30074--30159 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
30064 TTTTTACCCA
* * *
30074 TAT TAT AAT AAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
30122 TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
30160 AATATATATT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:33855 original size:22 final size:20
Alignment explanation
Indices: 33825--33864 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33815 GCATTTGTAT
33825 TTTGCATTTGTACATTTTTACG
1 TTTGCA-TT-TACATTTTTACG
*
33847 TTTGTATTTACATTTTTA
1 TTTGCATTTACATTTTTA
33865 AATTTACATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 2 0.12
22 5 0.29
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTGCATTTACATTTTTACG
Found at i:37246 original size:17 final size:16
Alignment explanation
Indices: 37222--37253 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
37212 AAGAAAGAAG
37222 AAAAAAAAAGGAAAAA
1 AAAAAAAAAGGAAAAA
37238 AAAAGAAAAAGGAAAA
1 AAAA-AAAAAGGAAAA
37254 TTGAATCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGGAAAAA
Found at i:42219 original size:22 final size:22
Alignment explanation
Indices: 42189--42267 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
42179 ACATCTACAT
*
42189 TCTTCAAAGATGATAGATTCTC
1 TCTTTAAAGATGATAGATTCTC
*
42211 TCTTTAAAGATGATAGATTCCC
1 TCTTTAAAGATGATAGATTCTC
* * *
42233 TTTTTAAAGATGACAGATTATC
1 TCTTTAAAGATGATAGATTCTC
42255 T-TTTCAAAGATGA
1 TCTTT-AAAGATGA
42268 AAGTTTTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
21 3 0.06
22 47 0.94
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTTAAAGATGATAGATTCTC
Found at i:42864 original size:113 final size:113
Alignment explanation
Indices: 42701--43567 Score: 1144
Period size: 113 Copynumber: 7.6 Consensus size: 113
42691 GTACCAGTTC
* * *
42701 AAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
42766 CAACCTTTTGCTCAAATCCATCATCTGATAGATCAGCTTTTCCAGAAA
66 CAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
* * *
42814 AAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
42879 CAACCTTTTGCTCAAATCCATCATCTGGTGGATCAGCTTTTCCAGAAA
66 CAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
* *
42927 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
42992 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGATTTTCCAGAAA
66 CAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
* *
43040 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *
43105 CAACCTTTTAC-CTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGA
66 CAACCTTTTGCTC-GAATTCATC-ATTTGATGGATCAGCTTTTCCAGAAA
* *
43154 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * * *
43219 TACCCTTTTAC-CTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGA
66 CAACCTTTTGCTC-GAATTCATC-ATTTGATGGATCAGCTTTTCCAGAAA
43268 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * **
43333 CAATCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTA
66 CAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
*
43381 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
* * * * * * * *
43446 GTTCAATCTTTTGTTTGAATTCATCATTTGATGTATCAACATTGCCAGATA
63 GTTCAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
* * *
43497 GAGTTCATAATGAAAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTT
1 AAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
43562 GTTCAA
63 GTTCAA
43568 TAATTCTATC
Statistics
Matches: 698, Mismatches: 50, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
112 1 0.00
113 327 0.47
114 210 0.30
115 1 0.00
116 159 0.23
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTCGAATTCATCATTTGATGGATCAGCTTTTCCAGAAA
Found at i:43898 original size:3 final size:3
Alignment explanation
Indices: 43883--43950 Score: 109
Period size: 3 Copynumber: 22.7 Consensus size: 3
43873 TTTTTACCCA
* * *
43883 TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
43931 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
43951 AATATATATT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:43962 original size:11 final size:10
Alignment explanation
Indices: 43946--43986 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
43936 TTATTATTAT
43946 TATTAAATATA
1 TATTAAATA-A
43957 TATTAAATACA
1 TATTAAATA-A
43968 TATATAAATAA
1 TAT-TAAATAA
43979 TATTAAAT
1 TATTAAAT
43987 TACAAAGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:52771 original size:20 final size:20
Alignment explanation
Indices: 52746--52786 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
52736 AGGGAGTTGG
52746 TAGGGTTAAGGTTAGGGATT
1 TAGGGTTAAGGTTAGGGATT
* **
52766 TAGGGTTGATTTTAGGGATT
1 TAGGGTTAAGGTTAGGGATT
52786 T
1 T
52787 TTTTGGTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (20 bp):
TAGGGTTAAGGTTAGGGATT
Found at i:54237 original size:18 final size:18
Alignment explanation
Indices: 54214--54249 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
54204 GAAAAAAACC
54214 CAGAATTAACAGAAGAAG
1 CAGAATTAACAGAAGAAG
54232 CAGAATTAACAGAAGAAG
1 CAGAATTAACAGAAGAAG
54250 ATAAGATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.22, T:0.11
Consensus pattern (18 bp):
CAGAATTAACAGAAGAAG
Found at i:54250 original size:21 final size:22
Alignment explanation
Indices: 54194--54250 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 22
54184 TCCAAGATCA
*
54194 AGAATTAACAGAA-AAAAACCC
1 AGAATTAACAGAAGAAGAACCC
54215 AGAATTAACAGAAGAAG----C
1 AGAATTAACAGAAGAAGAACCC
54233 AGAATTAACAGAAGAAGA
1 AGAATTAACAGAAGAAGA
54251 TAAGATTGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 18 0.55
21 13 0.39
22 2 0.06
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.11
Consensus pattern (22 bp):
AGAATTAACAGAAGAAGAACCC
Found at i:56246 original size:15 final size:15
Alignment explanation
Indices: 56194--56245 Score: 86
Period size: 15 Copynumber: 3.5 Consensus size: 15
56184 ATATTTAGTT
56194 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGTG
56209 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGTG
* *
56224 GGGCGGGTGGATGCG
1 GGGCGGGCGGATGTG
56239 GGGCGGG
1 GGGCGGG
56246 TAAGGTCTCA
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:0.06, C:0.13, G:0.69, T:0.12
Consensus pattern (15 bp):
GGGCGGGCGGATGTG
Found at i:58558 original size:6 final size:6
Alignment explanation
Indices: 58547--58574 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
58537 AGGGATTCGT
58547 CCTCAC CCTCAC CCTCAC CCTCAC CCTC
1 CCTCAC CCTCAC CCTCAC CCTCAC CCTC
58575 TTAACATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.68, G:0.00, T:0.18
Consensus pattern (6 bp):
CCTCAC
Found at i:60607 original size:23 final size:23
Alignment explanation
Indices: 60580--60641 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
60570 ATGGTCCAAT
60580 CAATAGTTAAAGTCAACGATGAC
1 CAATAGTTAAAGTCAACGATGAC
*
60603 CAATAGTTAAAGTCAACGATGAT
1 CAATAGTTAAAGTCAACGATGAC
*
60626 CAATAGTCAAAGTCAA
1 CAATAGTTAAAGTCAA
60642 GGGTCAACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (23 bp):
CAATAGTTAAAGTCAACGATGAC
Found at i:61625 original size:42 final size:43
Alignment explanation
Indices: 61579--61691 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 43
61569 TGAATATATC
*
61579 AATATTTTAAATAATTAAAATAATATATTTATAATTATTTA-T
1 AATATTTTAAATAATTAAAATAATATATTTATAATAATTTACT
61621 AATATTTTAAAGT-ATTAAAATAATATATTTTATAATAATTTACT
1 AATATTTTAAA-TAATTAAAATAATATA-TTTATAATAATTTACT
* *
61665 -ATATTTT-AATAA-AAAAATAACATATTT
1 AATATTTTAAATAATTAAAATAATATATTT
61692 TAACATTATA
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
40 3 0.05
41 11 0.17
42 28 0.44
43 21 0.33
44 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (43 bp):
AATATTTTAAATAATTAAAATAATATATTTATAATAATTTACT
Found at i:61629 original size:10 final size:11
Alignment explanation
Indices: 61598--61629 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
61588 AATAATTAAA
61598 ATAATATATTT
1 ATAATATATTT
61609 ATAAT-TATTT
1 ATAATATATTT
61619 ATAATAT-TTT
1 ATAATATATTT
61629 A
1 A
61630 AAGTATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 14 0.70
11 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATAATATATTT
Found at i:61636 original size:19 final size:21
Alignment explanation
Indices: 61598--61655 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
61588 AATAATTAAA
*
61598 ATAATATATTTATAATTATTT
1 ATAATATATTTATAAGTATTT
*
61619 ATAATAT-TTTA-AAGTATTAAA
1 ATAATATATTTATAAGTATT--T
61640 ATAATATATTTTATAA
1 ATAATATA-TTTATAA
61656 TAATTTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 6 0.20
20 4 0.13
21 14 0.47
23 4 0.13
24 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATAATATATTTATAAGTATTT
Found at i:80714 original size:18 final size:18
Alignment explanation
Indices: 80691--80730 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
80681 AATACAAAGT
*
80691 ACATAACTTTTAAAAAAA
1 ACATAAATTTTAAAAAAA
*
80709 ACATAAATTTTAATAAAA
1 ACATAAATTTTAAAAAAA
80727 ACAT
1 ACAT
80731 TTCTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (18 bp):
ACATAAATTTTAAAAAAA
Found at i:81783 original size:18 final size:17
Alignment explanation
Indices: 81754--81894 Score: 91
Period size: 18 Copynumber: 8.4 Consensus size: 17
81744 ATAATATAAA
81754 ATTATA-TATAAACTAT
1 ATTATATTATAAACTAT
81770 ATTTATATTATAAACTAT
1 A-TTATATTATAAACTAT
*
81788 ATAATTATTATAAAC--T
1 ATTA-TATTATAAACTAT
*
81804 A-TATA-TATAAATTAT
1 ATTATATTATAAACTAT
* *
81819 ATT-TA-TGTCAACTGTAT
1 ATTATATTATAAAC--TAT
* * *
81836 ATAAAATTATAAAATAT
1 ATTATATTATAAACTAT
81853 ATTTATATTATAAACTAT
1 A-TTATATTATAAACTAT
* *
81871 ATAATTATTATAAGCTAT
1 ATTA-TATTATAAACTAT
81889 A-TATAT
1 ATTATAT
81895 AAATTATGTT
Statistics
Matches: 96, Mismatches: 17, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
13 6 0.06
14 2 0.02
15 9 0.09
16 7 0.07
17 19 0.20
18 49 0.51
19 4 0.04
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTATATTATAAACTAT
Found at i:81814 original size:13 final size:13
Alignment explanation
Indices: 81741--81958 Score: 76
Period size: 13 Copynumber: 16.3 Consensus size: 13
81731 ATATAATATA
*
81741 TATATAATATAAAA
1 TATAT-ATATAAAC
81755 T-TATATATAAAC
1 TATATATATAAAC
* *
81767 TATAT-T-TATAT
1 TATATATATAAAC
*
81778 TATAAACTATATAA-
1 TATATA-TATA-AAC
81792 T-TAT-TATAAAC
1 TATATATATAAAC
*
81803 TATATATATAAAT
1 TATATATATAAAC
* *
81816 TATATTTATGTCAAC
1 TATA--TATATAAAC
* *
81831 TGTATATA-AAAT
1 TATATATATAAAC
* *
81843 TATA-AAATATA-
1 TATATATATAAAC
*
81854 TTTATATTATAAAC
1 TATATA-TATAAAC
81868 TATATAATTATTATAAGC
1 TATAT-A-TA-TA-AA-C
*
81886 TATATATATAAAT
1 TATATATATAAAC
* * *
81899 TATGTTTATGTGAAC
1 TA--TATATATAAAC
*
81914 TATACATATAAAC
1 TATATATATAAAC
*
81927 TATGTATATAAAC
1 TATATATATAAAC
81940 TATATATGTATAAAC
1 TATATA--TATAAAC
81955 TATA
1 TATA
81959 AAAAGTCTAT
Statistics
Matches: 149, Mismatches: 33, Indels: 43
0.66 0.15 0.19
Matches are distributed among these distances:
10 2 0.01
11 17 0.11
12 20 0.13
13 51 0.34
14 10 0.07
15 36 0.24
16 4 0.03
17 3 0.02
18 6 0.04
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:81819 original size:11 final size:11
Alignment explanation
Indices: 81736--81820 Score: 57
Period size: 11 Copynumber: 7.4 Consensus size: 11
81726 AAAAAATATA
* *
81736 ATATATATATA
1 ATATATAAATT
81747 ATATA-AAATT
1 ATATATAAATT
*
81757 ATATATAAACT
1 ATATATAAATT
* *
81768 ATATTTATATT
1 ATATATAAATT
81779 ATAAACTATATAATT
1 AT--A-TATA-AATT
81794 AT-TATAAACTAT
1 ATATATAAA-T-T
81806 ATATATAAATT
1 ATATATAAATT
81817 ATAT
1 ATAT
81821 TTATGTCAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
10 10 0.17
11 29 0.50
12 4 0.07
13 7 0.12
14 3 0.05
15 5 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (11 bp):
ATATATAAATT
Found at i:81866 original size:83 final size:83
Alignment explanation
Indices: 81760--81914 Score: 274
Period size: 83 Copynumber: 1.9 Consensus size: 83
81750 TAAAATTATA
*
81760 TATAAACTATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTAT
1 TATAAAATATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTAT
81825 GTCAACTGTATATAAAAT
66 GTCAACTGTATATAAAAT
* *
81843 TATAAAATATATTTATATTATAAACTATATAATTATTATAAGCTATATATATAAATTATGTTTAT
1 TATAAAATATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTAT
*
81908 GTGAACT
66 GTCAACT
81915 ATACATATAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 68 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (83 bp):
TATAAAATATATTTATATTATAAACTATATAATTATTATAAACTATATATATAAATTATATTTAT
GTCAACTGTATATAAAAT
Found at i:81971 original size:18 final size:18
Alignment explanation
Indices: 81948--81987 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
81938 ACTATATATG
*
81948 TATAAACTATAAAAAGTC
1 TATAAACTATAAAAAGTA
81966 TATAAACTATAAAAAGTA
1 TATAAACTATAAAAAGTA
81984 TATA
1 TATA
81988 GTTTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (18 bp):
TATAAACTATAAAAAGTA
Found at i:82040 original size:15 final size:15
Alignment explanation
Indices: 82022--82057 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
82012 ATATAGTATG
82022 TATATATATAAAAAC
1 TATATATATAAAAAC
* *
82037 TATATATGTATAAAC
1 TATATATATAAAAAC
82052 TATATA
1 TATATA
82058 AAATATATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (15 bp):
TATATATATAAAAAC
Found at i:84449 original size:21 final size:21
Alignment explanation
Indices: 84423--84467 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
84413 GATTTCTGGG
* *
84423 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
84444 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
84465 CAA
1 CAA
84468 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:85818 original size:14 final size:14
Alignment explanation
Indices: 85799--85826 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
85789 GAAAAGAAGC
85799 TATGTGATACGTGA
1 TATGTGATACGTGA
85813 TATGTGATACGTGA
1 TATGTGATACGTGA
85827 ATTACAAGTT
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:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TATGTGATACGTGA
Found at i:86109 original size:149 final size:149
Alignment explanation
Indices: 85927--86241 Score: 587
Period size: 149 Copynumber: 2.1 Consensus size: 149
85917 GAGTCGAGGG
*
85927 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
85992 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
86057 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
86076 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
86141 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
*
86206 TATGGCACTATGGTGCAAT
131 TATGGCACTACGGTGCAAT
86225 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
86242 TGCAATTATA
Statistics
Matches: 162, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
148 1 0.01
149 161 0.99
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:86236 original size:23 final size:23
Alignment explanation
Indices: 86209--86253 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
86199 ATTATTATAT
*
86209 GGCACTAT-GGTGCAATTCTACGC
1 GGCACT-TCGGTGCAATTATACGC
86232 GGCACTTCGGTGCAATTATACG
1 GGCACTTCGGTGCAATTATACG
86254 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTATACGC
Found at i:89404 original size:21 final size:21
Alignment explanation
Indices: 89378--89422 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
89368 GATTTCTGGG
* *
89378 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
89399 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
89420 CAA
1 CAA
89423 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:90773 original size:14 final size:14
Alignment explanation
Indices: 90754--90781 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90744 GAAAAGAAAC
90754 TATGTGATACGTGA
1 TATGTGATACGTGA
90768 TATGTGATACGTGA
1 TATGTGATACGTGA
90782 ATTACAAGTT
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:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TATGTGATACGTGA
Found at i:91067 original size:147 final size:148
Alignment explanation
Indices: 90882--91193 Score: 583
Period size: 147 Copynumber: 2.1 Consensus size: 148
90872 GAGTCGAGGG
*
90882 TCTACGCGGTCCTTCGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACATA
1 TCTACGCGGTCCTTCGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACATA
90947 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
91012 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
*
91030 TCTACGCGGTCCTTCGG-GATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACATA
1 TCTACGCGGTCCTTCGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACATA
91094 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
91159 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
91177 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
91194 TGCAATTATA
Statistics
Matches: 161, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
146 1 0.01
147 143 0.89
148 17 0.11
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (148 bp):
TCTACGCGGTCCTTCGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
ATGGCACTACGGTGCAAT
Found at i:91194 original size:23 final size:23
Alignment explanation
Indices: 91161--91205 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
91151 ATTATTATAT
*
91161 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
91184 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
91206 AGCTGTGGTG
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:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:93293 original size:24 final size:24
Alignment explanation
Indices: 93262--93307 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
93252 AAACACAATA
*
93262 ATTTG-AAAATTAACATTTTTTTT
1 ATTTGAAAAATTAAAATTTTTTTT
93285 ATTTCGAAAAATTAAAATTTTTT
1 ATTT-GAAAAATTAAAATTTTTT
93308 GGAAAATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 1 0.05
25 15 0.75
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (24 bp):
ATTTGAAAAATTAAAATTTTTTTT
Found at i:93705 original size:21 final size:21
Alignment explanation
Indices: 93679--93718 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
93669 CAGAACCCCA
*
93679 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
93700 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
93719 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:93753 original size:20 final size:21
Alignment explanation
Indices: 93699--93761 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
93689 GATTCCCCTG
93699 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
93723 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
93743 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
93762 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:99879 original size:2 final size:2
Alignment explanation
Indices: 99866--99928 Score: 60
Period size: 2 Copynumber: 32.0 Consensus size: 2
99856 TGTTTTCAAC
* * *
99866 AT AT AGT AT AT AT AT GT AT AT AT A- AC AA AT AT A- AGT A- AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
99907 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
99929 TAAAGAAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
1 3 0.06
2 46 0.88
3 3 0.06
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:100331 original size:7 final size:7
Alignment explanation
Indices: 100321--100400 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 7
100311 TAGTTTATAA
100321 AAACTCT
1 AAACTCT
*
100328 AAACCCT
1 AAACTCT
100335 AAA-TCCT
1 AAACT-CT
*
100342 AAACTTT
1 AAACTCT
100349 AAA-TCTT
1 AAACTC-T
*
100356 AAACCCT
1 AAACTCT
*
100363 AAACCCT
1 AAACTCT
100370 AAAAC-CT
1 -AAACTCT
*
100377 -AACCCT
1 AAACTCT
100383 AAACTCT
1 AAACTCT
*
100390 AAACACT
1 AAACTCT
100397 AAAC
1 AAAC
100401 ATAAACAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
5 3 0.05
6 3 0.05
7 47 0.80
8 6 0.10
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (7 bp):
AAACTCT
Found at i:100345 original size:14 final size:14
Alignment explanation
Indices: 100321--100400 Score: 72
Period size: 14 Copynumber: 5.8 Consensus size: 14
100311 TAGTTTATAA
*
100321 AAACTCTAAACCCT
1 AAACCCTAAACCCT
* **
100335 AAATCCTAAACTTT
1 AAACCCTAAACCCT
* *
100349 AAATCTTAAACCCT
1 AAACCCTAAACCCT
*
100363 AAACCCTAAAACCT
1 AAACCCTAAACCCT
*
100377 -AACCCTAAACTCT
1 AAACCCTAAACCCT
*
100390 AAACACTAAAC
1 AAACCCTAAAC
100401 ATAAACAATA
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
13 11 0.21
14 41 0.79
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCCTAAACCCT
Found at i:100346 original size:21 final size:21
Alignment explanation
Indices: 100321--100400 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 21
100311 TAGTTTATAA
*
100321 AAACTCTAAACCCTAAATCCT
1 AAACTCTAAACCCTAAACCCT
* * *
100342 AAACTTTAAATCTTAAACCCT
1 AAACTCTAAACCCTAAACCCT
* *
100363 AAACCCTAAAACCT-AACCCT
1 AAACTCTAAACCCTAAACCCT
*
100383 AAACTCTAAACACTAAAC
1 AAACTCTAAACCCTAAAC
100401 ATAAACAATA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (21 bp):
AAACTCTAAACCCTAAACCCT
Found at i:100458 original size:24 final size:23
Alignment explanation
Indices: 100415--100459 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
100405 ACAATAGTTA
*
100415 ATATATATAATGTAACCTATAAT
1 ATATATATAATGTAAACTATAAT
*
100438 ATATGTATACATGTAAACTATA
1 ATATATATA-ATGTAAACTATA
100460 TATGTAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (23 bp):
ATATATATAATGTAAACTATAAT
Found at i:100481 original size:37 final size:37
Alignment explanation
Indices: 100418--100488 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
100408 ATAGTTAATA
*
100418 TATATAATGTAACCTATAATATATGTATACATGTAAAC
1 TATATAATGTAACCTATAATACATGTAT-CATGTAAAC
* *
100456 TATAT-ATGTAACTTATAGTACATGTATCATGTA
1 TATATAATGTAACCTATAATACATGTATCATGTA
100489 TGTATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 6 0.20
37 19 0.63
38 5 0.17
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (37 bp):
TATATAATGTAACCTATAATACATGTATCATGTAAAC
Found at i:100524 original size:24 final size:22
Alignment explanation
Indices: 100484--100572 Score: 94
Period size: 24 Copynumber: 4.0 Consensus size: 22
100474 TACATGTATC
*
100484 ATGTATGTATA-AACTATATAT
1 ATGTATATATATAACTATATAT
100505 AGTGTATATATATAACCTATAGTAT
1 A-TGTATATATATAA-CTATA-TAT
* *
100530 ATGTATATATACAATCTATTTAT
1 ATGTATATATATAA-CTATATAT
100553 ATGT-TATATA-AACTATATAT
1 ATGTATATATATAACTATATAT
100573 GTAACCTATA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
20 7 0.12
21 3 0.05
22 15 0.25
23 9 0.15
24 21 0.36
25 4 0.07
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.44
Consensus pattern (22 bp):
ATGTATATATATAACTATATAT
Found at i:100667 original size:21 final size:21
Alignment explanation
Indices: 100615--100820 Score: 77
Period size: 21 Copynumber: 9.5 Consensus size: 21
100605 TAGTGTACTA
* *
100615 TATAGTTTATAATTTATAACC
1 TATAGTATATAATTTATAAAC
*
100636 TATGGTATATAATTTATAAAC
1 TATAGTATATAATTTATAAAC
* * * *
100657 TATAGTCTAT-ATTAATGTACC
1 TATAGTATATAATTTAT-AAAC
* *
100678 ATATAGTTTATATTAATGTTAATTATC
1 -TATAG--TATA-TAAT-TT-ATAAAC
100705 T-TA--ACTATAATTTATATTAA-
1 TATAGTA-TATAATTTATA--AAC
*
100725 TATAGTATATAGTTTATAAAC
1 TATAGTATATAATTTATAAAC
* * *
100746 TATATTATATTAA--TATTAAT
1 TATAGTATA-TAATTTATAAAC
* *
100766 TATATTAACTATAGTTTATAAAC
1 TATAGT-A-TATAATTTATAAAC
*
100789 TATACTATATAATTTAT-AAC
1 TATAGTATATAATTTATAAAC
*
100809 ATATAGTTTATA
1 -TATAGTATATA
100821 TTAATATTAA
Statistics
Matches: 139, Mismatches: 25, Indels: 42
0.67 0.12 0.20
Matches are distributed among these distances:
19 2 0.01
20 24 0.17
21 65 0.47
22 22 0.16
23 11 0.08
24 3 0.02
25 3 0.02
26 3 0.02
27 4 0.03
28 2 0.01
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (21 bp):
TATAGTATATAATTTATAAAC
Found at i:100719 original size:31 final size:31
Alignment explanation
Indices: 100679--100959 Score: 99
Period size: 31 Copynumber: 8.8 Consensus size: 31
100669 TAATGTACCA
* *
100679 TATAGTTTATATTAATGTTAATTATCTTAAC
1 TATAATTTATATTAATGTTAATTATATTAAC
*
100710 TATAATTTATATTAATATAGTATATAGTT-TATAAAC
1 TATAATTTATATT-A-AT-GT-TA-A-TTATATTAAC
*
100746 TAT-A-TTATATTAATATTAATTATATTAAC
1 TATAATTTATATTAATGTTAATTATATTAAC
* * *
100775 TATAGTTTATAAACTATACTATATAATT-TA-TAAC
1 TATAATTTAT--A-T-TAATGT-TAATTATATTAAC
* *
100809 ATATAGTTTATATTAATATTAATGT-TA-TATAC
1 -TATAATTTATATTAATGTTAAT-TATATTA-AC
* * *
100841 TATATTTTATATTATTATTAATTATAAATTATAAAC
1 TATAATTTATATTAATGTTAATTAT--A-T-T-AAC
*
100877 TAT-A-TTATATTAAT-ATAATTTAATATTAA-
1 TATAATTTATATTAATGTTAA-TT-ATATTAAC
* *
100906 TATTAA-TTATATTAATATTAATTATAAT-A-
1 TA-TAATTTATATTAATGTTAATTATATTAAC
*
100935 TATAA-TTAT-TATAATATTAATTATA
1 TATAATTTATAT-TAATGTTAATTATA
100960 AATAGTTAAT
Statistics
Matches: 205, Mismatches: 15, Indels: 63
0.72 0.05 0.22
Matches are distributed among these distances:
27 1 0.00
28 23 0.11
29 15 0.07
30 14 0.07
31 62 0.30
32 10 0.05
33 10 0.05
34 25 0.12
35 22 0.11
36 20 0.10
37 3 0.01
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.50
Consensus pattern (31 bp):
TATAATTTATATTAATGTTAATTATATTAAC
Found at i:100765 original size:65 final size:65
Alignment explanation
Indices: 100685--100939 Score: 251
Period size: 65 Copynumber: 3.9 Consensus size: 65
100675 ACCATATAGT
* * * *
100685 TTATATTAATGTTAATTATCTTAACTATAATTTATATTAATATAGTATATAGTTTATAAACTATA
1 TTATATTAATATTAATTATATTAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
* *
100750 TTATATTAATATTAATTATATTAACTATAGTTTATA--AACTATACTATATAATTTAT-AACATA
1 TTATATTAATATTAATTATATTAACTATAATTTATATTAA-TATAATATATAATTTATAAAC-TA
100812 TA
64 TA
* * *
100814 GTTTATATTAATATTAATGT-TA-TATACTATATTTTATATTATTATTAAT-TATAAATTATAAA
1 --TTATATTAATATTAAT-TATATTA-ACTATAATTTATATTAATA-TAATATATAATTTATAAA
100876 CTATA
61 CTATA
*
100881 TTATATTAATA-TAATTTAATATTAA-TATTAA-TTATATTAATATTAAT-TATAATATATAA
1 TTATATTAATATTAA-TT-ATATTAACTA-TAATTTATATTAATA-TAATATATAATTTATAA
100940 TTATTATAAT
Statistics
Matches: 162, Mismatches: 13, Indels: 30
0.79 0.06 0.15
Matches are distributed among these distances:
63 5 0.03
64 23 0.14
65 74 0.46
66 35 0.22
67 18 0.11
68 7 0.04
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (65 bp):
TTATATTAATATTAATTATATTAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
Found at i:100799 original size:14 final size:14
Alignment explanation
Indices: 100739--100800 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
100729 GTATATAGTT
100739 TATAAACTATATTA
1 TATAAACTATATTA
*
100753 TATTAA-TATTAATTA
1 TATAAACTA-T-ATTA
*
100768 TATTAACTATAGTT-
1 TATAAACTATA-TTA
*
100782 TATAAACTATACTA
1 TATAAACTATATTA
100796 TATAA
1 TATAA
100801 TTTATAACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 3 0.08
14 22 0.55
15 13 0.32
16 2 0.05
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (14 bp):
TATAAACTATATTA
Found at i:100812 original size:131 final size:132
Alignment explanation
Indices: 100643--100913 Score: 324
Period size: 131 Copynumber: 2.1 Consensus size: 132
100633 ACCTATGGTA
* * * *
100643 TATAATTTATAAACTATAGTCTATATTAATGTACCATATAGTTTATATTAATGTTAA--TTATCT
1 TATAATTTATAAACTATAG-CTATATTAATATAACATATAGTTTATATTAATATTAATGTTAT-A
* **
100706 TAACTATAATTTATATTAATA-TAGTATATAGTTTATAAACTATATTATATTAATATTAA-TT-A
64 T-ACTATAATTTATATTAATATTAAT-TATAAATTATAAACTATATTATATTAATA-TAATTTAA
100768 TATTAAC
126 TATTAAC
*
100775 TATAGTTTATAAACTATA-CTATA-TAATTTATAACATATAGTTTATATTAATATTAATGTTATA
1 TATAATTTATAAACTATAGCTATATTAA--TATAACATATAGTTTATATTAATATTAATGTTATA
* *
100838 TACTATATTTTATATTATTATTAATTATAAATTATAAACTATATTATATTAATATAATTTAATAT
64 TACTATAATTTATATTAATATTAATTATAAATTATAAACTATATTATATTAATATAATTTAATAT
100903 TAA-
129 TAAC
100906 TATTAATT
1 TA-TAATT
100914 ATATTAATAT
Statistics
Matches: 120, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
129 3 0.03
130 8 0.07
131 73 0.61
132 32 0.27
133 4 0.03
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (132 bp):
TATAATTTATAAACTATAGCTATATTAATATAACATATAGTTTATATTAATATTAATGTTATATA
CTATAATTTATATTAATATTAATTATAAATTATAAACTATATTATATTAATATAATTTAATATTA
AC
Found at i:100904 original size:21 final size:20
Alignment explanation
Indices: 100878--100959 Score: 69
Period size: 21 Copynumber: 3.9 Consensus size: 20
100868 ATTATAAACT
100878 ATATTATATTAA-TATAATTTA
1 ATATTATATTAATTAT-A-TTA
100899 ATATTAATATTAATTATATTA
1 ATATT-ATATTAATTATATTA
100920 ATATTA-ATTATAATATATAATTA
1 ATATTATA-T-TAAT-TAT-ATTA
* *
100943 TTATAATATTAATTATA
1 ATATTATATTAATTATA
100960 AATAGTTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
19 1 0.02
20 3 0.06
21 20 0.38
22 15 0.29
23 12 0.23
24 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTATATTAATTATATTA
Found at i:100914 original size:43 final size:42
Alignment explanation
Indices: 100851--100970 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
100841 TATATTTTAT
* * *
100851 ATTATTATTAATTATAAATTATAAACTA-T-ATTATATTAATATA
1 ATTAATATTAA-TATTAATTATAAA-TATTAATTATAAT-ATATA
100894 ATTTAATATTAATATTAATTATATTAATATTAATTATAATATATA
1 A-TTAATATTAATATTAATTATA--AATATTAATTATAATATATA
*
100939 ATTATTA-TAATATTAATTATAAATAGTTAATT
1 ATTAATATTAATATTAATTATAAATA-TTAATT
100971 TAAAAAATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
41 4 0.06
42 6 0.09
43 25 0.37
44 16 0.24
45 9 0.13
46 7 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (42 bp):
ATTAATATTAATATTAATTATAAATATTAATTATAATATATA
Found at i:100947 original size:16 final size:15
Alignment explanation
Indices: 100878--100970 Score: 78
Period size: 15 Copynumber: 6.6 Consensus size: 15
100868 ATTATAAACT
*
100878 ATATTATATTAATATA
1 ATATTA-ATTATTATA
100894 AT-TTAA-TA-T-TA
1 ATATTAATTATTATA
100905 ATATTAATTA-TATTA
1 ATATTAATTATTA-TA
*
100920 ATATTAATTATAAT-
1 ATATTAATTATTATA
100934 ATA-TAATTATTATA
1 ATATTAATTATTATA
100948 ATATTAATTA-TA-A
1 ATATTAATTATTATA
100961 ATAGTTAATT
1 ATA-TTAATT
100971 TAAAAAATTA
Statistics
Matches: 67, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
11 4 0.06
12 5 0.07
13 18 0.27
14 15 0.22
15 22 0.33
16 3 0.04
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
ATATTAATTATTATA
Found at i:100974 original size:13 final size:13
Alignment explanation
Indices: 100856--100974 Score: 88
Period size: 14 Copynumber: 9.0 Consensus size: 13
100846 TTTATATTAT
100856 TATTAATTATAAA
1 TATTAATTATAAA
* * *
100869 TTATAAACTATATTA
1 -TATTAATTATA-AA
100884 TATTAA-TAT-AA
1 TATTAATTATAAA
*
100895 T-TTAA-TATTAA
1 TATTAATTATAAA
100906 TATTAATTATATTAA
1 TATTAATTATA--AA
100921 TATTAATTAT-AA
1 TATTAATTATAAA
100933 TATATAATTATTATAA
1 TAT-TAATTA-TA-AA
100949 TATTAATTATAAA
1 TATTAATTATAAA
100962 TAGTTAATT-TAAA
1 TA-TTAATTATAAA
100975 AAATTATATA
Statistics
Matches: 88, Mismatches: 6, Indels: 23
0.75 0.05 0.20
Matches are distributed among these distances:
10 7 0.08
11 5 0.06
12 9 0.10
13 20 0.23
14 23 0.26
15 19 0.22
16 5 0.06
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (13 bp):
TATTAATTATAAA
Found at i:101687 original size:30 final size:30
Alignment explanation
Indices: 101653--101713 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
101643 CACCAACCCT
101653 AACTTAAACCCAAACCCTAAACCT-AACCTA
1 AACTTAAACCCAAACCC-AAACCTAAACCTA
*
101683 AACTTGAACCCAAACCCAAACCTAAACCTA
1 AACTTAAACCCAAACCCAAACCTAAACCTA
101713 A
1 A
101714 CCTATAGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.48, C:0.36, G:0.02, T:0.15
Consensus pattern (30 bp):
AACTTAAACCCAAACCCAAACCTAAACCTA
Found at i:101711 original size:6 final size:6
Alignment explanation
Indices: 101657--101739 Score: 55
Period size: 6 Copynumber: 14.0 Consensus size: 6
101647 AACCCTAACT
* * * * *
101657 TAAACC CAAACCC TAAACC T-AACC TAAACT TGAACC CAAACC CAAACC
1 TAAACC TAAA-CC TAAACC TAAACC TAAACC TAAACC TAAACC TAAACC
* **
101705 TAAACC T-AACC TATAGT TAAACCC T-AACC TAAACC
1 TAAACC TAAACC TAAACC TAAA-CC TAAACC TAAACC
101740 CAAAACCCAA
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
5 13 0.22
6 39 0.67
7 6 0.10
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.17
Consensus pattern (6 bp):
TAAACC
Found at i:101728 original size:35 final size:35
Alignment explanation
Indices: 101658--101739 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
101648 ACCCTAACTT
*
101658 AAACCCAAACCCTAAACCTAACCTAAACTTGAACCC
1 AAACCCAAA-CCTAAACCTAACCTAAACTTAAACCC
* *
101694 AAACCCAAACCTAAACCTAACCTATAGTTAAACCC
1 AAACCCAAACCTAAACCTAACCTAAACTTAAACCC
* *
101729 TAACCTAAACC
1 AAACCCAAACC
101740 CAAAACCCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 32 0.78
36 9 0.22
ACGTcount: A:0.45, C:0.37, G:0.02, T:0.16
Consensus pattern (35 bp):
AAACCCAAACCTAAACCTAACCTAAACTTAAACCC
Found at i:101737 original size:12 final size:12
Alignment explanation
Indices: 101647--101805 Score: 67
Period size: 12 Copynumber: 12.8 Consensus size: 12
101637 TTCTATCACC
*
101647 AACCCTAACTTA
1 AACCCTAACCTA
*
101659 AACCCAAACCCTA
1 AACCCTAA-CCTA
101672 AA-CCTAACCTA
1 AACCCTAACCTA
* *
101683 AA-CTTGAACCCA
1 AACCCT-AACCTA
*
101695 AACCCAAACCTA
1 AACCCTAACCTA
101707 AA-CCTAACCTATAGTTA
1 AACCCTAACC------TA
101724 AACCCTAACCTA
1 AACCCTAACCTA
* *
101736 AACCCAAAACCCA
1 AACCC-TAACCTA
* * *
101749 AACTCAAACC-C
1 AACCCTAACCTA
101760 AACCTCTAA-CTA
1 AACC-CTAACCTA
* *
101772 AACCCAAACCCA
1 AACCCTAACCTA
*
101784 AACCCTAACCCA
1 AACCCTAACCTA
*
101796 AACCCAAACC
1 AACCCTAACC
101806 CAACCCAAAT
Statistics
Matches: 113, Mismatches: 20, Indels: 28
0.70 0.12 0.17
Matches are distributed among these distances:
11 21 0.19
12 66 0.58
13 15 0.13
17 4 0.04
18 7 0.06
ACGTcount: A:0.45, C:0.40, G:0.01, T:0.13
Consensus pattern (12 bp):
AACCCTAACCTA
Found at i:101751 original size:6 final size:6
Alignment explanation
Indices: 101723--101814 Score: 91
Period size: 6 Copynumber: 15.5 Consensus size: 6
101713 ACCTATAGTT
* * * * *
101723 AAACCC TAACCT AAACCC AAAACCC AAACTC AAACCC -AACCTC TAA-CT
1 AAACCC AAACCC AAACCC -AAACCC AAACCC AAACCC AAACC-C AAACCC
*
101771 AAACCC AAACCC AAACCC TAACCC AAACCC AAACCC -AACCC AAA
1 AAACCC AAACCC AAACCC AAACCC AAACCC AAACCC AAACCC AAA
101815 TTCAAACCTG
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
5 11 0.16
6 51 0.73
7 8 0.11
ACGTcount: A:0.48, C:0.45, G:0.00, T:0.08
Consensus pattern (6 bp):
AAACCC
Found at i:101820 original size:23 final size:23
Alignment explanation
Indices: 101747--101822 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
101737 ACCCAAAACC
*
101747 CAAACTCAAACCCAACCTCTAACT
1 CAAACCCAAACCCAACC-CTAACT
*
101771 -AAACCCAAACCCAAACCCTAACC
1 CAAACCCAAACCC-AACCCTAACT
* *
101794 CAAACCCAAACCCAACCCAAATT
1 CAAACCCAAACCCAACCCTAACT
101817 CAAACC
1 CAAACC
101823 TGAATTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
23 29 0.64
24 16 0.36
ACGTcount: A:0.46, C:0.45, G:0.00, T:0.09
Consensus pattern (23 bp):
CAAACCCAAACCCAACCCTAACT
Found at i:101822 original size:29 final size:30
Alignment explanation
Indices: 101647--101808 Score: 87
Period size: 30 Copynumber: 5.2 Consensus size: 30
101637 TTCTATCACC
* * *
101647 AACCCTAACTTAAACCCAAACCCTAAA-CCT
1 AACCCAAACTCAAACCCAAACCC-AAACCCA
* ** *
101677 AACCTAAACTTGAACCCAAACCCAAACCTA
1 AACCCAAACTCAAACCCAAACCCAAACCCA
* * * * *
101707 AACCTAACCTATAGTTAAACCCTAACCTAAACCCAA
1 AA-C---CC-AAACTCAAACCCAAACCCAAACCC-A
* *
101743 AACCCAAACTCAAACCC-AACCTCTAA-CTA
1 AACCCAAACTCAAACCCAAACC-CAAACCCA
* *
101772 AACCCAAACCCAAACCCTAACCCAAACCCA
1 AACCCAAACTCAAACCCAAACCCAAACCCA
101802 AACCCAA
1 AACCCAA
101809 CCCAAATTCA
Statistics
Matches: 101, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
29 23 0.23
30 41 0.41
31 12 0.12
32 2 0.02
34 1 0.01
35 19 0.19
36 3 0.03
ACGTcount: A:0.46, C:0.40, G:0.01, T:0.13
Consensus pattern (30 bp):
AACCCAAACTCAAACCCAAACCCAAACCCA
Found at i:102254 original size:102 final size:102
Alignment explanation
Indices: 102078--102308 Score: 392
Period size: 102 Copynumber: 2.3 Consensus size: 102
102068 CTGAAAGAGG
102078 TAAATAAATTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGAATT
1 TAAATAAATTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGAATT
* *
102143 GCTTTTATAAGGTTGTTAGCTACCTTTATTTATAGTT
66 GCTTTTATAAGGGTGTTAGCTACCTTTATTTACAGTT
*
102180 TAAATAAATTGTTTAATTTGTAGCTATTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTC-AGAT
1 TAAATAAATTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGA-AT
*
102244 TGCTTTTATAAGGGTGTTAGCTGCCTTTATTTACAGTT
65 TGCTTTTATAAGGGTGTTAGCTACCTTTATTTACAGTT
* *
102282 TAAATAAACTGTTTAATTTGTTGCTAC
1 TAAATAAATTGTTTAATTTGTAGCTAC
102309 AATTGGTTGT
Statistics
Matches: 121, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
101 1 0.01
102 120 0.99
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.51
Consensus pattern (102 bp):
TAAATAAATTGTTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGAATT
GCTTTTATAAGGGTGTTAGCTACCTTTATTTACAGTT
Found at i:103872 original size:3 final size:3
Alignment explanation
Indices: 103864--103891 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
103854 CACCTTGTGT
103864 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
103892 GTCCCAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:105172 original size:12 final size:12
Alignment explanation
Indices: 105150--105182 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
105140 ACTCAAATGT
105150 TATTCAAATTTTA
1 TATT-AAATTTTA
105163 TATTAAATTTTA
1 TATTAAATTTTA
105175 T-TTAAATT
1 TATTAAATT
105183 GTCATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.35
12 9 0.45
13 4 0.20
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTAAATTTTA
Found at i:105179 original size:11 final size:11
Alignment explanation
Indices: 105144--105182 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
105134 GAATTGACTC
* *
105144 AAATGTTATTC
1 AAATTTTATTT
105155 AAATTTTATATT
1 AAATTTTAT-TT
105167 AAATTTTATTT
1 AAATTTTATTT
105178 AAATT
1 AAATT
105183 GTCATTATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (11 bp):
AAATTTTATTT
Found at i:105451 original size:14 final size:14
Alignment explanation
Indices: 105432--105478 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
105422 AATTTTTCTT
105432 TATATAAATTAAAC
1 TATATAAATTAAAC
105446 TATAT-AATT----
1 TATATAAATTAAAC
105455 TATATAAATTAAAC
1 TATATAAATTAAAC
*
105469 TATATTAATT
1 TATATAAATT
105479 TTCCTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:105456 original size:23 final size:24
Alignment explanation
Indices: 105430--105479 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
105420 TTAATTTTTC
105430 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
105453 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
105477 TTT
1 TTT
105480 TCCTTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:105753 original size:16 final size:16
Alignment explanation
Indices: 105734--105784 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
105724 CAGATCATTT
* *
105734 ACAGGTCAGTTTAAAA
1 ACAGGTCAGGTTGAAA
105750 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
105766 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
105782 ACA
1 ACA
105785 TGTCGGGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:107481 original size:26 final size:26
Alignment explanation
Indices: 107452--107505 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
107442 TCGGCTACCA
* *
107452 CCAATGTTGTGTAATTAATCGAAACT
1 CCAATGTCGTGTAATTAAACGAAACT
107478 CCAATGTCGTGTAATTAAACGAAACT
1 CCAATGTCGTGTAATTAAACGAAACT
107504 CC
1 CC
107506 TTGCTTATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (26 bp):
CCAATGTCGTGTAATTAAACGAAACT
Found at i:108346 original size:2 final size:2
Alignment explanation
Indices: 108341--108396 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
108331 TTTATTTATG
108341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108383 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
108397 CCAATTATAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:109432 original size:142 final size:142
Alignment explanation
Indices: 109251--109521 Score: 402
Period size: 142 Copynumber: 1.9 Consensus size: 142
109241 AGGAAGTCTG
* *
109251 ATGACACTGCTCCTTCGGGCTGAGGAGATCGGGTCAATTTGATGTTGAAGACGACACTGCTCATC
1 ATGACACAGCTCCTTCGGGCTGAGGAGATCAGGTCAATTTGATGTTGAAGACGACACTGCTCATC
* * *
109316 CGTATTGAAGAGATCGAGTCGTTTTTGATAAATCT-TGACGA-TGTTCCTTTGTGTTGAGAAAAT
66 CGTATTGAAGAGATCGAGTCATTTTCGATAAAT-TATGAC-ATTGTTCCTTCGTGTTGAGAAAAT
109379 CTGATTGTCTGAGA
129 CTGATTGTCTGAGA
* * *
109393 ATGACACAGCTCCTTCGTGTTGAGGAGATCAGGTTAATTTGATGTTGAAGACGACACTGCTCATC
1 ATGACACAGCTCCTTCGGGCTGAGGAGATCAGGTCAATTTGATGTTGAAGACGACACTGCTCATC
* * * *
109458 TGTGTTGAAGAGATCGGGTCATTTTCGATAAATTATGACATTGTTCCTTCGTGTTGAGGAAATC
66 CGTATTGAAGAGATCGAGTCATTTTCGATAAATTATGACATTGTTCCTTCGTGTTGAGAAAATC
109522 GGGTCAATTT
Statistics
Matches: 115, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
141 2 0.02
142 113 0.98
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (142 bp):
ATGACACAGCTCCTTCGGGCTGAGGAGATCAGGTCAATTTGATGTTGAAGACGACACTGCTCATC
CGTATTGAAGAGATCGAGTCATTTTCGATAAATTATGACATTGTTCCTTCGTGTTGAGAAAATCT
GATTGTCTGAGA
Found at i:109842 original size:187 final size:186
Alignment explanation
Indices: 109370--109900 Score: 810
Period size: 187 Copynumber: 2.8 Consensus size: 186
109360 TCCTTTGTGT
* * * * * *
109370 TGAGAAAATCTGATTGTCTGAGAATGACACAGCTCCTTCGTGTTGAGGAGATCAGGTTAATTTGA
1 TGAGGAAATCTGATTGTCTGAGGATGACACTGCTCATTCGTGTTGAGGAGATCGGGTCAATTTGA
* *
109435 TGTTGAAGACGACACTGCTCATCTGTGTTGAAGAGATCGGGTCATTTTCGATAAATTATGACATT
66 TGTTGAAGACGACACTGCTCATCTGTGTTGAAGAGATCGGGTCGTTTTTGATAAATTATGACATT
* *
109500 GTTCCTTCGTGTTGAGGAAATCGGGTCAATTTGAGGACAATACGGTTCTTTCCTGA
131 GTTCCTTCGTGTTGAGGAAATCGGGTCAATTTGAGGACAATACGGTTCCTTCATGA
* *
109556 TGAGGAAATCTGATTGTCTGAGGATGACACTACTTATTCGTGTTGAGGAGATCGGGTCAATTTGA
1 TGAGGAAATCTGATTGTCTGAGGATGACACTGCTCATTCGTGTTGAGGAGATCGGGTCAATTTGA
* *
109621 TGTTGAAGACGACACTGCTCATCTGTGCTGAAGAGATCGGGTCGTTTTTGATAAATTATGACGTT
66 TGTTGAAGACGACACTGCTCATCTGTGTTGAAGAGATCGGGTCGTTTTTGATAAATTATGACATT
* *
109686 GTTCCTTCGTGTTGAGAAAATCGGGTCAATTTTGGGGACAATACGGTTCCTTCATGA
131 GTTCCTTCGTGTTGAGGAAATCGGGTCAA-TTTGAGGACAATACGGTTCCTTCATGA
* * * * *
109743 TGAGGAAGTCTGATTTTCTAAGGATGACACTGCTCATTCGTGTTGATGAAATCGGGTCAATTTGA
1 TGAGGAAATCTGATTGTCTGAGGATGACACTGCTCATTCGTGTTGAGGAGATCGGGTCAATTTGA
* ** *
109808 TGTTGAAGACGACACTGCTCATCCGTGTTGAAGAGATCAAGTCGTTTTTGATAAATTATGACACT
66 TGTTGAAGACGACACTGCTCATCTGTGTTGAAGAGATCGGGTCGTTTTTGATAAATTATGACATT
* *
109873 GTTCCTTCGCGTTGAGGAAATCGAGTCA
131 GTTCCTTCGTGTTGAGGAAATCGGGTCA
109901 TTCTGGAGAT
Statistics
Matches: 312, Mismatches: 32, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
186 146 0.47
187 166 0.53
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (186 bp):
TGAGGAAATCTGATTGTCTGAGGATGACACTGCTCATTCGTGTTGAGGAGATCGGGTCAATTTGA
TGTTGAAGACGACACTGCTCATCTGTGTTGAAGAGATCGGGTCGTTTTTGATAAATTATGACATT
GTTCCTTCGTGTTGAGGAAATCGGGTCAATTTGAGGACAATACGGTTCCTTCATGA
Found at i:121486 original size:31 final size:31
Alignment explanation
Indices: 121448--121696 Score: 437
Period size: 31 Copynumber: 8.0 Consensus size: 31
121438 AGGGTCGAGG
121448 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
121479 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
121510 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
121541 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
121572 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
121603 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
121634 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
121665 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
121696 G
1 G
121697 GTCCTTCGGG
Statistics
Matches: 212, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
31 211 1.00
32 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:126300 original size:31 final size:31
Alignment explanation
Indices: 126259--126383 Score: 189
Period size: 31 Copynumber: 4.0 Consensus size: 31
126249 AGGGTCGAGG
*
126259 GTTTATCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
126290 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
126321 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
126352 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
126383 G
1 G
126384 GTCCTTCGGG
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 86 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:127650 original size:24 final size:24
Alignment explanation
Indices: 127623--127670 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
127613 ACTTCTCTTT
127623 GGTAGCTACTTTCCAACTCTCCCA
1 GGTAGCTACTTTCCAACTCTCCCA
127647 GGTAGCTACTTTCCAACTCTCCCA
1 GGTAGCTACTTTCCAACTCTCCCA
127671 AATCTCTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.38, G:0.12, T:0.29
Consensus pattern (24 bp):
GGTAGCTACTTTCCAACTCTCCCA
Found at i:131082 original size:23 final size:23
Alignment explanation
Indices: 131048--131101 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
131038 GTCTGGATCG
*
131048 TTCATGCAGGTCCATATCAACCT
1 TTCATGCCGGTCCATATCAACCT
131071 TTCATGCCGGTCCATATCAACCT
1 TTCATGCCGGTCCATATCAACCT
131094 TTCATGCC
1 TTCATGCC
131102 ATTTTCATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.31
Consensus pattern (23 bp):
TTCATGCCGGTCCATATCAACCT
Found at i:134049 original size:22 final size:22
Alignment explanation
Indices: 134023--134069 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
134013 AAAAACTCGG
134023 ATAATTTTAATTTTAATAATTA
1 ATAATTTTAATTTTAATAATTA
134045 ATAATTTTAATTTTAATAATTA
1 ATAATTTTAATTTTAATAATTA
134067 ATA
1 ATA
134070 GATTAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATAATTTTAATTTTAATAATTA
Found at i:140297 original size:3 final size:3
Alignment explanation
Indices: 140289--140344 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
140279 GAATCAGCGG
140289 TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
140335 TAT TAT TAT T
1 TAT TAT TAT T
140345 TAGATATGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:141030 original size:19 final size:19
Alignment explanation
Indices: 141006--141042 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
140996 TATTTAAATA
141006 TATTAAAAAAACAATTTTG
1 TATTAAAAAAACAATTTTG
*
141025 TATTAAAATAACAATTTT
1 TATTAAAAAAACAATTTT
141043 TTGAATGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (19 bp):
TATTAAAAAAACAATTTTG
Found at i:143003 original size:3 final size:3
Alignment explanation
Indices: 142997--143038 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
142987 GTAAAAAAAC
*
142997 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAG TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA
143039 TATGTATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:143110 original size:22 final size:21
Alignment explanation
Indices: 143063--143117 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
143053 AACTATATAA
*
143063 TATATATTATATTTCAAAGAC
1 TATATAATATATTTCAAAGAC
* * *
143084 AATATAATATGTTCTCAAAGAT
1 TATATAATATATT-TCAAAGAC
*
143106 TATATATTATAT
1 TATATAATATAT
143118 ACGTTTTCAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (21 bp):
TATATAATATATTTCAAAGAC
Found at i:143245 original size:24 final size:22
Alignment explanation
Indices: 143164--143244 Score: 80
Period size: 24 Copynumber: 3.7 Consensus size: 22
143154 ATTTAAAATA
*
143164 ATATATTTTCAAAAATTATATT
1 ATATATTTTAAAAAATTATATT
*
143186 ATATATGTTTTCAAAAATTA-ATT
1 ATATA--TTTTAAAAAATTATATT
143209 -T-T-TTTTAAAAAACTATATATT
1 ATATATTTTAAAAAA-T-TATATT
143230 ATATATTTTAAAAAA
1 ATATATTTTAAAAAA
143245 CATGCTTTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
18 9 0.18
19 1 0.02
20 2 0.04
21 4 0.08
22 7 0.14
23 4 0.08
24 23 0.46
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (22 bp):
ATATATTTTAAAAAATTATATT
Found at i:143291 original size:2 final size:2
Alignment explanation
Indices: 143286--143334 Score: 89
Period size: 2 Copynumber: 24.0 Consensus size: 2
143276 TTTTTGAAAT
143286 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
143329 TA TA TA
1 TA TA TA
143335 CTAAATAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 44 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:149567 original size:3 final size:3
Alignment explanation
Indices: 149559--149657 Score: 150
Period size: 3 Copynumber: 33.7 Consensus size: 3
149549 ATTTATTTTG
149559 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
149607 T-A TAA TAA TAA TAA T-A TAA TAA TAA TATA TAA TAA TTG TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
149650 TAA TAA TA
1 TAA TAA TA
149658 TATAGTCTCG
Statistics
Matches: 88, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
2 6 0.07
3 79 0.90
4 3 0.03
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:149869 original size:36 final size:36
Alignment explanation
Indices: 149828--150288 Score: 656
Period size: 36 Copynumber: 12.8 Consensus size: 36
149818 ATGATTTGGT
* * * *
149828 TTTGCTTCACTACTTTTCCATGAAGGCTATGATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
*
149864 TTTGCTTCACTACTCTTCTGTGGAGGCTAAGATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* *
149900 TTTGCTTCACTACTCTTCCGTGAAGGCTAAGATGAC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* *
149936 TTTGCTTCACTACTCTTCCATGGAGGCTAAGATGAC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* *
149972 TTTGTTTCACTACTCTTCCGTGGAGGCTAAGATGTC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* **
150008 TTTGCTTCACTACTCTTCCGTGAAGGCTAAGATATC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
*
150044 TTTGCTTCACTACTCTTCTGTGGAGGCTAAGATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
*
150080 TTTGTTTCACTACTCTTCCGTGGAGGCTAAGATGGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
*
150116 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGAC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* ** *
150152 TTTGCTTCACT-CTTATTCTATGGAGGCTAAGATGAC
1 TTTGCTTCACTAC-TCTTCCGTGGAGGCTAAGATGGC
* * *
150188 TTTGCTTCACTACTCTTCTGTGGAGGCTAATATTG-
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
* *
150223 TTTGCTTCACTACTCTTCCGTGGAGGCTAACATTGC
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
*
150259 TTTGCTTTACTACTCTTCCGTGGAGGCTAA
1 TTTGCTTCACTACTCTTCCGTGGAGGCTAA
150289 ATTTGAAATA
Statistics
Matches: 387, Mismatches: 35, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
35 34 0.09
36 352 0.91
37 1 0.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (36 bp):
TTTGCTTCACTACTCTTCCGTGGAGGCTAAGATGGC
Found at i:150537 original size:62 final size:62
Alignment explanation
Indices: 150466--151517 Score: 1243
Period size: 62 Copynumber: 16.9 Consensus size: 62
150456 ATTAGTTCTT
* * * * *
150466 CTGGGGAGTCAGAAATAATAAAAGTTGACTTATCTTCACGAGGAAGTCAA-AATCTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGAT-TGACTCTA
** * * * * * *
150528 CTGGGGAGTCAGGAATAACAAATGTTGAATTCTTTTTACGAGGGAGTCAAAGATTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* *
150590 CTGAGGAGTCAAAAATAACAAATGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* * *
150652 CTGAGGAGTCAAAAATAATAAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* * * * * *
150714 CTGAGGATTCAAAAATAATAAAGGTTGACTTCTCTTCATGAGGAAGTCAAAGATTAACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* * * * * *
150776 CTAGGGAGTCACAAATAATAAATGTTGACTTTTCTTCACGAGGAAATCAAGGATTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* * * *
150838 CTGGGGAGTCAGAAATAACAAGGGTTGACTTCTCTTCACGAGGAAGTCAATGAGTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* * * *
150900 ATGGGGAGTCATAAATAACAAAGGTTGACTTCTCTTCATGAGGAAGTCAATGATTGA-T-TA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* ** ** * * *
150960 -T-AGGACACAAGATTAAGTTTCCTAAAAAGTTGACTTATCTTCACGAGGAAGTCAA-AATCTGA
1 CTGGGGAGTCAA-A--AA--TAAC--AAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGAT-TGA
151022 CTCTA
58 CTCTA
** * * * * * * *
151027 CTGGGGAGTCAGGAATAAAAAATGTTGAATTCTTTTTACGAGGGAGTCAAAGATTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* * *
151089 CTGAGGAGTCAAAAATAACAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
** *
151151 CTAAGGAGTCAAAAATAACAAATGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* * *
151213 CTGAGGAGTCAAAAATAATAAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* * * * *
151275 CTGAGGATTCAAAAATAATAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTAACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* * * * *
151337 CTAGGGAGTCACAAATAATAAATGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* * * *
151399 CTGGGGAGTCAGAAATAACAAGGGTTGACTTCTCTTCACGAGGAAGTCAATGAGTGACTCTA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* * * *
151461 ATGGGGAGTCATAAATAACAAAGGTTGACTTCTCTTCATGAGGAAGTCAATGATTGA
1 CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGA
151518 TTATAGGACA
Statistics
Matches: 865, Mismatches: 111, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
58 5 0.01
59 2 0.00
60 2 0.00
61 3 0.00
62 802 0.93
63 6 0.01
64 3 0.00
65 31 0.04
66 3 0.00
67 2 0.00
68 1 0.00
69 5 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (62 bp):
CTGGGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
Found at i:150764 original size:186 final size:185
Alignment explanation
Indices: 150466--151517 Score: 1378
Period size: 186 Copynumber: 5.6 Consensus size: 185
150456 ATTAGTTCTT
* *
150466 CTGGGGAGTCAGAAATAATAAAAGTTGACTTATCTTCACGAGGAAGTCAA-AATCTGACTCTACT
1 CTGGGGAGTCAGAAATAATAAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGAT-TGACTCTACT
* ** * * * * *
150530 GGGGAGTCAGGAATAACAAATGTTGAATTCTTTTTACGAGGGAGTCAAAGATTGACTCTACTGAG
65 GAGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACT-AG
150595 GAGTCAAAAATAACAAATGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
129 GAGTCAAAAATAACAAATGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* *
150652 CTGAGGAGTCAAAAATAATAAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTG
1 CTGGGGAGTCAGAAATAATAAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTG
* * * *
150717 AGGATTCAAAAATAATAAAGGTTGACTTCTCTTCATGAGGAAGTCAAAGATTAACTCTACTAGGG
66 AGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTA-GG
* * * *
150782 AGTCACAAATAATAAATGTTGACTTTTCTTCACGAGGAAATCAAGGATTGACTCTA
130 AGTCAAAAATAACAAATGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* ** * * *
150838 CTGGGGAGTCAGAAATAACAAGGGTTGACTTCTCTTCACGAGGAAGTCAATGAGTGACTCTAATG
1 CTGGGGAGTCAGAAATAATAAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTG
* * * *
150903 GGGAGTCATAAATAACAAAGGTTGACTTCTCTTCATGAGGAAGTCAATGATTGA-T-TA-TAGGA
66 AGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTAGGA
** ** * * *
150965 CACAAGATTAAGTTTCCTAAAAAGTTGACTTATCTTCACGAGGAAGTCAA-AATCTGACTCTA
131 GTCAA-A--AA--TAAC--AAATGTTGACTTCTCTTCACGAGGAAGTCAAGGAT-TGACTCTA
* * * * * *
151027 CTGGGGAGTCAGGAATAA-AAAATGTTGAATTCTTTTTACGAGGGAGTCAAAGATTGACTCTACT
1 CTGGGGAGTCAGAAATAATAAAA-GTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACT
*
151091 GAGGAGTCAAAAATAACAAATGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTAAG
65 GAGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACT-AG
151156 GAGTCAAAAATAACAAATGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
129 GAGTCAAAAATAACAAATGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* *
151213 CTGAGGAGTCAAAAATAATAAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTG
1 CTGGGGAGTCAGAAATAATAAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTG
* * *
151278 AGGATTCAAAAATAATAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTAACTCTACTAGGG
66 AGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTA-GG
* * *
151343 AGTCACAAATAATAAATGTTGACTTCTCTTCACGAGGAAATCAAGGATTGACTCTA
130 AGTCAAAAATAACAAATGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
* ** * * *
151399 CTGGGGAGTCAGAAATAACAAGGGTTGACTTCTCTTCACGAGGAAGTCAATGAGTGACTCTAATG
1 CTGGGGAGTCAGAAATAATAAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTG
* * * *
151464 GGGAGTCATAAATAACAAAGGTTGACTTCTCTTCATGAGGAAGTCAATGATTGA
66 AGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGA
151518 TTATAGGACA
Statistics
Matches: 752, Mismatches: 96, Indels: 36
0.85 0.11 0.04
Matches are distributed among these distances:
182 5 0.01
183 3 0.00
184 2 0.00
185 5 0.01
186 571 0.76
187 9 0.01
188 6 0.01
189 137 0.18
190 3 0.00
191 2 0.00
192 2 0.00
193 7 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (185 bp):
CTGGGGAGTCAGAAATAATAAAAGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTACTG
AGGAGTCAAAAATAACAAAGGTTGACTTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTAGGA
GTCAAAAATAACAAATGTTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCTA
Found at i:156031 original size:7 final size:7
Alignment explanation
Indices: 156004--156033 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
155994 CATATGCATA
*
156004 TGCAAGA
1 TGCAAGG
156011 TGCAAGG
1 TGCAAGG
156018 TGCAAGG
1 TGCAAGG
156025 TGCAAGG
1 TGCAAGG
156032 TG
1 TG
156034 TTAATATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.40, T:0.17
Consensus pattern (7 bp):
TGCAAGG
Found at i:158659 original size:3 final size:3
Alignment explanation
Indices: 158651--158734 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
158641 ATTTATTTTG
158651 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
158698 TAA TAA TAA TAA TAA TAA TTG TAA T-A TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
158735 TATAGTCTCA
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 4 0.05
3 71 0.95
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:166826 original size:38 final size:38
Alignment explanation
Indices: 166783--166861 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
166773 TAAAATAGAT
* * *
166783 TTTATCTCGCTTGATATAGTTTTACTCGAAACAGAAGA
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGA
* *
166821 TTTATCTCGTTTGAGATAGTTTCGCTCGAAACAAAAGA
1 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGA
166859 TTT
1 TTT
166862 TAAGAAACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (38 bp):
TTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGA
Found at i:167024 original size:20 final size:19
Alignment explanation
Indices: 166999--167115 Score: 54
Period size: 20 Copynumber: 5.7 Consensus size: 19
166989 TCTTGATGAG
166999 TAAGTCCTTCGGGCCATCAA
1 TAAGTCCTTCGGGCCATC-A
* * **
167019 TAAGTCTTTTGAGCGTGATGCA
1 TAAGTCCTTCG-G-GCCAT-CA
167041 TAAGTCCTTCGGGCCATCCA
1 TAAGTCCTTCGGGCCAT-CA
* * * *
167061 TAAGACATTCGGGCAAGATGA
1 TAAGTCCTTCGGGC--CATCA
* *
167082 TAAGTCATTTGGGCCATCCA
1 TAAGTCCTTCGGGCCAT-CA
* *
167102 TAAGACCCTCGGGC
1 TAAGTCCTTCGGGC
167116 AAGATGTTTT
Statistics
Matches: 70, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
19 2 0.03
20 37 0.53
21 15 0.21
22 15 0.21
23 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (19 bp):
TAAGTCCTTCGGGCCATCA
Found at i:167097 original size:41 final size:42
Alignment explanation
Indices: 167035--167121 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 42
167025 TTTTGAGCGT
* *
167035 GATGCATAAGTCCTTCGGGCCATCCATAAGACATTCGGGCAA
1 GATGCATAAGTCATTCGGGCCATCCATAAGACACTCGGGCAA
* *
167077 GATG-ATAAGTCATTTGGGCCATCCATAAGACCCTCGGGCAA
1 GATGCATAAGTCATTCGGGCCATCCATAAGACACTCGGGCAA
167118 GATG
1 GATG
167122 TTTTCAAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 37 0.90
42 4 0.10
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (42 bp):
GATGCATAAGTCATTCGGGCCATCCATAAGACACTCGGGCAA
Found at i:167333 original size:42 final size:41
Alignment explanation
Indices: 167269--167382 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 41
167259 AAGGGTTTCT
*
167269 TGATGAGTAAGTCCTTCAGGCCATCAATAAGTCTTTCGAGCA
1 TGATG-GTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
* *
167311 TGATGCGTAAATCCTTCGGGCCATCTATAAGTCTTTCGAGCA
1 TGATG-GTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
* * * *
167353 AGATGATAAGTTCTTCGGGCCATCCATAAG
1 TGATGGTAAGTCCTTCGGGCCATCAATAAG
167383 ACCTTCAGGT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
41 21 0.33
42 42 0.67
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (41 bp):
TGATGGTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
Found at i:167883 original size:36 final size:36
Alignment explanation
Indices: 167836--167987 Score: 149
Period size: 36 Copynumber: 4.4 Consensus size: 36
167826 GTTGAATATA
* *
167836 TTTCCCTTGAAACAAAATTTGTCTCCCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTGTCTCTCTTGAGACAG
* *
167872 TTTCCCTTGAAACAAAGTTTGTCTCTCTTAAGACAG
1 TTTCCCTTGAAACAAAATTTGTCTCTCTTGAGACAG
* *
167908 TTTCCCCTTGAAACAAAA------TCT-TTGA-ATATA
1 TTT-CCCTTGAAACAAAATTTGTCTCTCTTGAGACA-G
***
167938 TTTCCCTTGAAACATGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTGTCTCTCTTGAGACAG
167974 TTTCCCTTGAAACA
1 TTTCCCTTGAAACA
167988 CCAATCGTTG
Statistics
Matches: 93, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
29 13 0.14
30 6 0.06
31 3 0.03
35 3 0.03
36 53 0.57
37 15 0.16
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (36 bp):
TTTCCCTTGAAACAAAATTTGTCTCTCTTGAGACAG
Found at i:167935 original size:102 final size:101
Alignment explanation
Indices: 167671--167987 Score: 332
Period size: 102 Copynumber: 3.1 Consensus size: 101
167661 GTCTGTTCTT
* * ** * **
167671 TTGAAACAAATTTTGTCTCCCTTGAGACAGTTTATCTTGAAACACAAAATCTTTGAACAGGTTTC
1 TTGAAACAAAGTTTGTCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATATATTTC
* **
167736 CCTTGCAAA-AAAATTTATCTCACTTGAGATTA-TTTTTC
64 CCTTG-AAACAAAATTTGTCTCACTTGAGA-TAGTTTCCC
** * * * * *
167774 TAAAAAAAAAGAGTTTTATTTCTCTTGAGACAATTTCCCTTGAAACAAAATCGTTGAATATATTT
1 T-TGAAACAA-AG-TTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATATTT
*
167839 CCCTTGAAACAAAATTTGTCTCCCTTGAGATAGTTTCCC
63 CCCTTGAAACAAAATTTGTCTCACTTGAGATAGTTTCCC
*
167878 TTGAAACAAAGTTTGTCTCTCTTAAGACAGTTTCCCCTTGAAACAAAATCTTTGAATATATTTCC
1 TTGAAACAAAGTTTGTCTCTCTTGAGACAGTTT-CCCTTGAAACAAAATCTTTGAATATATTTCC
*** * *
167943 CTTGAAACATGTTTTGTCTCTCTTGAGACAGTTTCCC
65 CTTGAAACAAAATTTGTCTCACTTGAGATAGTTTCCC
167980 TTGAAACA
1 TTGAAACA
167988 CCAATCGTTG
Statistics
Matches: 177, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
101 18 0.10
102 72 0.41
103 11 0.06
104 51 0.29
105 3 0.02
106 22 0.12
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (101 bp):
TTGAAACAAAGTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATATTTCCC
TTGAAACAAAATTTGTCTCACTTGAGATAGTTTCCC
Found at i:167978 original size:66 final size:68
Alignment explanation
Indices: 167872--168053 Score: 209
Period size: 66 Copynumber: 2.8 Consensus size: 68
167862 CTTGAGATAG
* * *
167872 TTTCCCTTGAAACAAAG-TTTGTCTCTCTTAAGACAGTTTCCCCTTGAAACAAAATCTTTGA-AT
1 TTTCCCTTGAAACAATGTTTTGTCTCTCTTGAGACAGTTT-CCCTTGAAACAAAATCGTTGAGAT
167935 -ATA
65 CATA
*
167938 TTTCCCTTGAAAC-ATGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACACCAATCGTTGAGAT
1 TTTCCCTTGAAACAATGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATCGTTGAGAT
*
168002 CGTA
65 CATA
* * * *
168006 --TCCCTT-AAACGAT-TTTTCTCTCTCTTGAGATAGTTTTCCTTGAAACAA
1 TTTCCCTTGAAACAATGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
168054 GAAATTTTAT
Statistics
Matches: 102, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
65 48 0.47
66 50 0.49
67 2 0.02
68 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (68 bp):
TTTCCCTTGAAACAATGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCGTTGAGATC
ATA
Found at i:168150 original size:75 final size:74
Alignment explanation
Indices: 168030--168316 Score: 333
Period size: 75 Copynumber: 3.8 Consensus size: 74
168020 TTTCTCTCTC
* * * * * **
168030 TTGAGATAGTTTTCCTTGAAACAAGAAATTTTATCTTACTTGAGATAGTTTTTCTTAAAATCAGT
1 TTGAGACAG-TTTCCTTGAAATAAGAAATTTTATCTCACTCGAGATAGTTTTTCTTAAAACCAAC
168095 TTCGTCTC-A
65 TTCGTCTCGA
* *
168104 TTGGAGACAGTTTCCTTTAAAATAAGAAATTTTATCTCACTCGAGATTGTTTTTCTTAAAACCAA
1 TT-GAGACAGTTTCC-TTGAAATAAGAAATTTTATCTCACTCGAGATAGTTTTTCTTAAAACCAA
168169 CTTCGTCTCGA
64 CTTCGTCTCGA
* * * * *
168180 TTGAGACAATTTGCCTTGAAACAAGAAATTTTATCTTACTTGAGATGGTTTTTCTTAAAACCAAC
1 TTGAGACAGTTT-CCTTGAAATAAGAAATTTTATCTCACTCGAGATAGTTTTTCTTAAAACCAAC
*
168245 TTCGTCTCGC
65 TTCGTCTCGA
* * * * *
168255 TTGAGACAGTTTTCCCTCGAAATAAGAAATTGTATCTCACTCGAGAGAGCTTCTCTTAAAAC
1 TTGAGACAG-TTT-CCTTGAAATAAGAAATTTTATCTCACTCGAGATAGTTTTTCTTAAAAC
168317 ATGTTTCTTA
Statistics
Matches: 181, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
74 7 0.04
75 127 0.70
76 47 0.26
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (74 bp):
TTGAGACAGTTTCCTTGAAATAAGAAATTTTATCTCACTCGAGATAGTTTTTCTTAAAACCAACT
TCGTCTCGA
Found at i:168267 original size:36 final size:36
Alignment explanation
Indices: 168152--168267 Score: 88
Period size: 36 Copynumber: 3.1 Consensus size: 36
168142 ACTCGAGATT
*
168152 GTTTTTCTTAAAACCAACTTCGTCTCGATTGAGACA
1 GTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACA
* ** ** * ** ** **
168188 ATTTGCCTTGAAACAAGAAATTTTATCTTACTTGAGATG
1 GTTTTTCTT--AA-AACCAACTTCGTCTCGCTTGAGACA
168227 GTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACA
1 GTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACA
168263 GTTTT
1 GTTTT
168268 CCCTCGAAAT
Statistics
Matches: 52, Mismatches: 25, Indels: 6
0.63 0.30 0.07
Matches are distributed among these distances:
36 27 0.52
37 2 0.04
38 2 0.04
39 21 0.40
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (36 bp):
GTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACA
Found at i:168349 original size:150 final size:149
Alignment explanation
Indices: 168044--168316 Score: 368
Period size: 150 Copynumber: 1.8 Consensus size: 149
168034 GATAGTTTTC
* **
168044 CTTGAAACAAGAAATTTTATCTTACTTGAGATAGTTTTTCTTAAAATCAGTTTCGTCTCATTGGA
1 CTTGAAACAAGAAATTTTATCTTACTTGAGATAGTTTTTCTTAAAACCAACTTCGTCTCATTGGA
* * * ** * *
168109 GACAGTTTCCTTTAAAATAAGAAATTTTATCTCACTCGAGATTGTTTTTCTTAAAACCAACTTCG
66 GACAGTTTCCCTCAAAATAAGAAATTGTATCTCACTCGAGAGAGCTTCTCTTAAAACCAACTTCG
* **
168174 TCTCGATTGAGACAATTTG
131 TCTCGATTGACACAAGGTG
* *
168193 CCTTGAAACAAGAAATTTTATCTTACTTGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTT-
1 -CTTGAAACAAGAAATTTTATCTTACTTGAGATAGTTTTTCTTAAAACCAACTTCGTCTC-ATTG
*
168257 GAGACAGTTTTCCCTCGAAATAAGAAATTGTATCTCACTCGAGAGAGCTTCTCTTAAAAC
64 GAGACAG-TTTCCCTCAAAATAAGAAATTGTATCTCACTCGAGAGAGCTTCTCTTAAAAC
168317 ATGTTTCTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
150 62 0.57
151 46 0.43
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (149 bp):
CTTGAAACAAGAAATTTTATCTTACTTGAGATAGTTTTTCTTAAAACCAACTTCGTCTCATTGGA
GACAGTTTCCCTCAAAATAAGAAATTGTATCTCACTCGAGAGAGCTTCTCTTAAAACCAACTTCG
TCTCGATTGACACAAGGTG
Found at i:168365 original size:13 final size:13
Alignment explanation
Indices: 168347--168389 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
168337 TCCAGGTGTT
*
168347 GAATATTTGACAA
1 GAATATTTGACAG
168360 GAATATTTGACAG
1 GAATATTTGACAG
168373 GAATATTTGACAG
1 GAATATTTGACAG
168386 GAAT
1 GAAT
168390 TATAAAGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (13 bp):
GAATATTTGACAG
Found at i:168757 original size:91 final size:91
Alignment explanation
Indices: 168602--169607 Score: 1644
Period size: 91 Copynumber: 11.1 Consensus size: 91
168592 ACTAATTGAC
* *
168602 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATTATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
*
168667 AAGAGCTTGTTCAACCTTGGTTCAAG
66 AAGAACTTGTTCAACCTTGGTTCAAG
* * *
168693 ATTTCCAGTGGAGAGCTCACAATAAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
168758 AAGAACTTGTTCAACCTTGGTTCAAG
66 AAGAACTTGTTCAACCTTGGTTCAAG
*
168784 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTTATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
* * *
168849 AAGAACTTGTTCAACCTTAGCT-GAG
66 AAGAACTTGTTCAACCTTGGTTCAAG
* **
168874 AATTTCCAGTGGAGAGTTCATAATGAGAATAACAAATCCAACGAGGGAGAAGAAGTTCATAATGA
1 -ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGA
* *
168939 GAAAAACTTGTTCAACCTTGGTTTAAG
65 GAAGAACTTGTTCAACCTTGGTTCAAG
*
168966 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGA-GG-G-AGAAGTTCATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
* * *
169028 AAGAACTTGTTCAACCTTAGCTCAAT
66 AAGAACTTGTTCAACCTTGGTTCAAG
169054 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
*
169119 AAGAACTTATTCAACCTTGGTTCAAG
66 AAGAACTTGTTCAACCTTGGTTCAAG
* * *
169145 ATTTCCAGTGGAAAGTTCATAATGATAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATTAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
169210 AAGAACTTGTTCAACCTTGGTTCAAG
66 AAGAACTTGTTCAACCTTGGTTCAAG
* *
169236 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACAAGGGAGAAGAAGTTCATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
169301 AAGAACTTGTTCAACCTTGGTTCAAG
66 AAGAACTTGTTCAACCTTGGTTCAAG
* * *
169327 ATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCGTCCAACGAGGGAGAAGAAGTTTATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
* * * *
169392 AAGAACTTGTTCAACATTAGCT-GAG
66 AAGAACTTGTTCAACCTTGGTTCAAG
*
169417 AATTTCCAGTGGAGAGTTCATAATGAGAAGAACACATCCAACGAGGGAGAAGAAGTTCATAATGA
1 -ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGA
169482 GAAGAACTTGTTCAACCTTGGTTCAAG
65 GAAGAACTTGTTCAACCTTGGTTCAAG
169509 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
* *
169574 AAGAACTTGTTCAACCTTGGATCAAC
66 AAGAACTTGTTCAACCTTGGTTCAAG
169600 ATTTCCAG
1 ATTTCCAG
169608 AAGAGCCCAT
Statistics
Matches: 844, Mismatches: 64, Indels: 14
0.92 0.07 0.02
Matches are distributed among these distances:
88 79 0.09
89 3 0.00
90 7 0.01
91 751 0.89
92 4 0.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.24
Consensus pattern (91 bp):
ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTGGTTCAAG
Found at i:171121 original size:17 final size:17
Alignment explanation
Indices: 171099--171132 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
171089 TTTGTATTTG
171099 ATGTTCTAGCCTTTTAA
1 ATGTTCTAGCCTTTTAA
171116 ATGTTCTAGCCTTTTAA
1 ATGTTCTAGCCTTTTAA
171133 TTTCTTACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
ATGTTCTAGCCTTTTAA
Found at i:175822 original size:93 final size:94
Alignment explanation
Indices: 175663--175848 Score: 250
Period size: 93 Copynumber: 2.0 Consensus size: 94
175653 TTAATTAGGT
* * * * * *
175663 TAGTAATATGATAATGATTGTTTGGTATTTTAGTACAAAAATATGTGGGTTAATTAAACCCACGT
1 TAGTAATATGACAATAATTATTTAGTATTTTAGTACAAAAATATGTGGGTAAATCAAACCCACGT
* *
175728 GGG-AGCCATTTCATCTAGGTATGGGGTG
66 GGGTAGCCATTCCATCTAGGAATGGGGTG
* *
175756 TAGTAATATGACAATAATTATTTAGTATTTTAGTGCTAAAAT-TGGTGGGTAAATCAAACCCACG
1 TAGTAATATGACAATAATTATTTAGTATTTTAGTACAAAAATAT-GTGGGTAAATCAAACCCACG
*
175820 TGGGTGGCCATTCCATCTAGGAATGGGGT
65 TGGGTAGCCATTCCATCTAGGAATGGGGT
175849 ATTGTGTTTC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
92 1 0.01
93 58 0.73
94 21 0.26
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (94 bp):
TAGTAATATGACAATAATTATTTAGTATTTTAGTACAAAAATATGTGGGTAAATCAAACCCACGT
GGGTAGCCATTCCATCTAGGAATGGGGTG
Found at i:178615 original size:55 final size:55
Alignment explanation
Indices: 178554--178694 Score: 221
Period size: 55 Copynumber: 2.6 Consensus size: 55
178544 GCATTCAAGT
* * *
178554 GATTCATGAAGAAGGACGTCCGATGAATGAAGAAATTTGAACCTGATTGAAGAAC
1 GATTCATGAAGAAGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAAC
* *
178609 GATTCATGAAGATGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGATC
1 GATTCATGAAGAAGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAAC
*
178664 GATCCATGAAGAAGG-CATCCGATGAATGAAG
1 GATTCATGAAGAAGGACATCCGATGAATGAAG
178695 TTTGAATTTG
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 16 0.20
55 63 0.80
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (55 bp):
GATTCATGAAGAAGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAAC
Found at i:179373 original size:17 final size:18
Alignment explanation
Indices: 179340--179375 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
179330 TGCCTGACGA
179340 AGAGTATAAAGAGATAAG
1 AGAGTATAAAGAGATAAG
*
179358 AGAGTTTAAA-AGATAAG
1 AGAGTATAAAGAGATAAG
179375 A
1 A
179376 TGTCCAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (18 bp):
AGAGTATAAAGAGATAAG
Done.