Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000498.1 Hibiscus syriacus cultivar Beakdansim tig00000950_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: 84737
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:3331 original size:20 final size:22
Alignment explanation
Indices: 3287--3331 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3277 CTCCAGTATA
**
3287 CCAATTATTCTGTATATTTTTC
1 CCAATTATTCTGTATATTTGCC
3309 CCAATTATTCT-T-TATTTGCC
1 CCAATTATTCTGTATATTTGCC
3329 CCA
1 CCA
3332 TGTACGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 11 0.52
ACGTcount: A:0.22, C:0.24, G:0.04, T:0.49
Consensus pattern (22 bp):
CCAATTATTCTGTATATTTGCC
Found at i:3961 original size:54 final size:54
Alignment explanation
Indices: 3903--4309 Score: 523
Period size: 54 Copynumber: 7.6 Consensus size: 54
3893 TAACCTTATT
** * ** *
3903 ATGAATTCCGTGGGTTGCTCAGATAGTGCCGAAACGATTGTTCATCAACATATG
1 ATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATG
* * *
3957 ATGAATTCTGTGAATTGCACACTTAGTGTCAAAACGGTTGTTCATCAACATATG
1 ATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATG
* *
4011 ATGAATTCCGTGAATTGCACACTTAGTGCCAAAATGGTTGTTCATCAACATATG
1 ATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATG
* * * * *
4065 ATGAATT-CGTGAATTGCACACTGAGTGCTGAAATGATTGTTCATCAACATATA
1 ATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATG
* * * *
4118 ATGAATTCCATGAATTGCACA-TTGAGTGTCGAGATGGTTGTTCATCAACATATG
1 ATGAATTCCGTGAATTGCACACTT-AGTGCCGAAACGGTTGTTCATCAACATATG
* * *
4172 ATGAATTCTGTGAATTGCACA-TGTAGTGCTGAAACGGTTGTTCATTAACATATG
1 ATGAATTCCGTGAATTGCACACT-TAGTGCCGAAACGGTTGTTCATCAACATATG
* *
4226 ATGAATTCCATGAATTGCACACTTAGTGCCGAAACGGTTGTTCATCGACATATG
1 ATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATG
* * *
4280 ATGGATTCCGTGAATTACACGCTTAGTGCC
1 ATGAATTCCGTGAATTGCACACTTAGTGCC
4310 TATTTGGAAA
Statistics
Matches: 309, Mismatches: 40, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
53 49 0.16
54 258 0.83
55 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (54 bp):
ATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTGTTCATCAACATATG
Found at i:7574 original size:2 final size:2
Alignment explanation
Indices: 7567--7612 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
7557 CCATAAAAGT
7567 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- 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
7608 TA TA T
1 TA TA T
7613 CTTTTTGACA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9875 original size:54 final size:54
Alignment explanation
Indices: 9770--10163 Score: 464
Period size: 54 Copynumber: 7.3 Consensus size: 54
9760 ATTTCGTGGG
* * * * *
9770 TTGCACACATAGTGCCGAAACAGTTGTTCACCAACGTATGATGAATTCCGTGAA
1 TTGCACACTTAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTCCGTGAA
** * * *
9824 TTATACACTTAGTACCAAAATGATTGTTCATCAACATATGATGAATTCCGTGAA
1 TTGCACACTTAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTCCGTGAA
* * * * * *
9878 TTACACACTTAGAGCCGAAACGGTTGTTCATCAATATATGATAAATTTCGTGAA
1 TTGCACACTTAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTCCGTGAA
* * * **
9932 TTGCACACTAAGTGTCGAAACGGTTGTTCATCAACATATGATGAATTATGTGAA
1 TTGCACACTTAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTCCGTGAA
* * * **
9986 TTGCACACTGAGTGCCGAAACAGTTGTTCATCAACATATGATGAATTCTATGAA
1 TTGCACACTTAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTCCGTGAA
* * * * *
10040 TTGTACACTTAATGTCAAAACGGTTGTTCATCAACATATGACGAATTCCGCGAA
1 TTGCACACTTAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTCCGTGAA
*** *
10094 TTGCACACTTAGTGTTGAAACGGTTGTTCATCAACATATGATGAATTCCATGAA
1 TTGCACACTTAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTCCGTGAA
*
10148 TTGAACACTTAGTGCC
1 TTGCACACTTAGTGCC
10164 TATTTGGAAA
Statistics
Matches: 288, Mismatches: 52, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 288 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (54 bp):
TTGCACACTTAGTGCCAAAACGGTTGTTCATCAACATATGATGAATTCCGTGAA
Found at i:10023 original size:162 final size:162
Alignment explanation
Indices: 9742--10163 Score: 512
Period size: 162 Copynumber: 2.6 Consensus size: 162
9732 AATACAAAAA
* * * ** * * * *
9742 TTCATAAACTTATTATAAATTTCGTGGGTTGCACAC-ATAGTGCCGAAACAGTTGTTCACCAACG
1 TTCATCAACATATGATAAATTTCGTGAATTGCACACTA-AGTGTCGAAACGGTTGTTCATCAACA
*
9806 TATGATGAATTCCGTGAATT-ATACACTTAGTACCAAAATGATTGTTCATCAACATATGATGAAT
65 TATGATGAATTCCGTGAATTGA-ACACTTAGTGCCAAAATGATTGTTCATCAACATATGATGAAT
* *
9870 TCCGTGAATTACACACTTAGA-GCCGAAACGGTTG
129 TCCATGAATTACACACTTA-ATGCCAAAACGGTTG
*
9904 TTCATCAATATATGATAAATTTCGTGAATTGCACACTAAGTGTCGAAACGGTTGTTCATCAACAT
1 TTCATCAACATATGATAAATTTCGTGAATTGCACACTAAGTGTCGAAACGGTTGTTCATCAACAT
** * *
9969 ATGATGAATTATGTGAATTGCACACTGAGTGCCGAAACA-G-TTGTTCATCAACATATGATGAAT
66 ATGATGAATTCCGTGAATTGAACACTTAGTGCC-AAA-ATGATTGTTCATCAACATATGATGAAT
* ** *
10032 TCTATGAATTGTACACTTAATGTCAAAACGGTTG
129 TCCATGAATTACACACTTAATGCCAAAACGGTTG
** * * * *
10066 TTCATCAACATATGACGAATTCCGCGAATTGCACACTTAGTGTTGAAACGGTTGTTCATCAACAT
1 TTCATCAACATATGATAAATTTCGTGAATTGCACACTAAGTGTCGAAACGGTTGTTCATCAACAT
*
10131 ATGATGAATTCCATGAATTGAACACTTAGTGCC
66 ATGATGAATTCCGTGAATTGAACACTTAGTGCC
10164 TATTTGGAAA
Statistics
Matches: 222, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
161 1 0.00
162 215 0.97
163 5 0.02
164 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (162 bp):
TTCATCAACATATGATAAATTTCGTGAATTGCACACTAAGTGTCGAAACGGTTGTTCATCAACAT
ATGATGAATTCCGTGAATTGAACACTTAGTGCCAAAATGATTGTTCATCAACATATGATGAATTC
CATGAATTACACACTTAATGCCAAAACGGTTG
Found at i:13148 original size:20 final size:20
Alignment explanation
Indices: 13107--13176 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
13097 GATGAACAGC
*
13107 ATCGATACTAGTTGAGAA-GT
1 ATCGATACT-GATGAGAAGGT
*
13127 ATCGATACTGATGTGAAGGT
1 ATCGATACTGATGAGAAGGT
* * * *
13147 ATCAATAC-CAAGGGTAAGGT
1 ATCGATACTGATGAG-AAGGT
13167 ATCGATACTG
1 ATCGATACTG
13177 TAAGTAAAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 9 0.23
20 30 0.77
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (20 bp):
ATCGATACTGATGAGAAGGT
Found at i:13911 original size:53 final size:53
Alignment explanation
Indices: 13822--14038 Score: 371
Period size: 53 Copynumber: 4.1 Consensus size: 53
13812 TTATGTGTAC
* *
13822 TTTCGACACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTAAATTACCA
1 TTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
* *
13875 TTTTGGCAATATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
1 TTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
*
13928 TTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAATTTGTGAATTACCA
1 TTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
* *
13981 TTTCGGTACTATGTGTGCATCCATGGTATTCATATTGAGTTTGTGAATTACCA
1 TTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
14034 TTTCG
1 TTTCG
14039 TTACCTTAGT
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 154 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (53 bp):
TTTCGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCA
Found at i:16327 original size:26 final size:26
Alignment explanation
Indices: 16291--16340 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
16281 AAATAAAATG
*
16291 GTTTAGTACAAATATTTCAGTTTTTA
1 GTTTAGTACAAATATTTCAATTTTTA
16317 GTTTAGTACAAATATTTCAATTTT
1 GTTTAGTACAAATATTTCAATTTT
16341 GAAGAATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (26 bp):
GTTTAGTACAAATATTTCAATTTTTA
Found at i:18791 original size:26 final size:27
Alignment explanation
Indices: 18757--18809 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
18747 TATTTCAAAA
18757 TTTACAAAATA-TATTATAATTATTTT
1 TTTACAAAATACTATTATAATTATTTT
* *
18783 TTTATAAAATATCTATTTTAATTATTT
1 TTTACAAAATA-CTATTATAATTATTT
18810 ATTATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
28 13 0.57
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTACAAAATACTATTATAATTATTTT
Found at i:18826 original size:13 final size:13
Alignment explanation
Indices: 18808--18858 Score: 66
Period size: 13 Copynumber: 3.7 Consensus size: 13
18798 TTTTAATTAT
18808 TTATTATATTTAA
1 TTATTATATTTAA
*
18821 TAATTAATATTTATTA
1 TTATT-ATATTTA--A
18837 TTATTATATTTAA
1 TTATTATATTTAA
18850 TTATTATAT
1 TTATTATAT
18859 AACATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 14 0.42
14 7 0.21
15 7 0.21
16 5 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTATATTTAA
Found at i:18850 original size:26 final size:24
Alignment explanation
Indices: 18802--18854 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
18792 TATCTATTTT
18802 AATTATTTATTATATTTAATAATT
1 AATTATTTATTATATTTAATAATT
*
18826 AA-TATTTATTAT-TATT-ATATTT
1 AATTATTTATTATAT-TTAATAATT
18848 AATTATT
1 AATTATT
18855 ATATAACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 8 0.31
23 16 0.62
24 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
AATTATTTATTATATTTAATAATT
Found at i:21961 original size:2 final size:2
Alignment explanation
Indices: 21954--21997 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
21944 TATAAAACAA
21954 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21996 AT
1 AT
21998 TTTAGGGTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22110 original size:2 final size:2
Alignment explanation
Indices: 22103--22146 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
22093 TTATTATCAA
22103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22145 AT
1 AT
22147 GACTAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23405 original size:3 final size:3
Alignment explanation
Indices: 23399--23449 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
23389 ATTTATTATT
* *
23399 TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAT TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23446 -AA TA
1 TAA TA
23450 GGGAAAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:24237 original size:202 final size:199
Alignment explanation
Indices: 23854--24266 Score: 537
Period size: 202 Copynumber: 2.0 Consensus size: 199
23844 TAAGTGGCCT
*
23854 GAAGGTCTTATCATCTTGCTCGGAAGACTTACAGATGACCCGGAGGATTTGCACATCAAGAAACC
1 GAAGGTCTTATCATCTTCCTCGGAAGACTTACAGATGACCCGGAGGATTTGCACATCAAGAAACC
** * *
23919 CTTGAAAATCAAGCTTAGTTTATTGGTTGTCAAGGAACCCCTTAAAAGGCTTAGCTTCCTTTAAC
66 CTTG--AA-CAAGCTTAGTTTATTAATTGTCAAGGAACCCCTTAAAAGGATTACCTTCCTTTAAC
* *
23984 AACTCTTTTGAGATAATTAAGAAACCCTTGAAAGGCTTAGTTTCCAAAATCTTATTTGAAAACAT
128 AACTCTTTTGAGATAATTAAGAAACCCTTAAAAGGCTTAGTTTCCAAAATCTCATTTGAAAACAT
24049 CCTGCCC
193 CCTGCCC
* * * *
24056 GGAGGTCTTATCATCTTCCTCGGAAGGCTTACGGATGACCTGGAGGATTTAAG-A-ATCAAGAAA
1 GAAGGTCTTATCATCTTCCTCGGAAGACTTACAGATGACCCGGAGGATTT--GCACATCAAGAAA
* ***
24119 CCCTTG-A-AAGCTTAGTTTTTTAATTGTCAAGGAACCCCTTTGTTAGGATTACCTTCCTTTAAC
64 CCCTTGAACAAGCTTAGTTTATTAATTGTCAAGGAACCCC-TTAAAAGGATTACCTTCCTTTAAC
* * * *
24182 AACTTTTTTGAGATAATTAGGAAACCCCTTAAAATTAGGCTTTGTTTCTAAAATCTCATTTGAAA
128 AACTCTTTTGAGATAATTAAGAAA-CCCTT-AAA--AGGCTTAGTTTCCAAAATCTCATTTGAAA
24247 ACATCCTGCCC
189 ACATCCTGCCC
24258 GAAGGTCTT
1 GAAGGTCTT
24267 TTGGATGGCC
Statistics
Matches: 184, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
197 28 0.15
198 41 0.22
199 6 0.03
200 2 0.01
202 105 0.57
203 1 0.01
204 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (199 bp):
GAAGGTCTTATCATCTTCCTCGGAAGACTTACAGATGACCCGGAGGATTTGCACATCAAGAAACC
CTTGAACAAGCTTAGTTTATTAATTGTCAAGGAACCCCTTAAAAGGATTACCTTCCTTTAACAAC
TCTTTTGAGATAATTAAGAAACCCTTAAAAGGCTTAGTTTCCAAAATCTCATTTGAAAACATCCT
GCCC
Found at i:24578 original size:264 final size:264
Alignment explanation
Indices: 24099--24580 Score: 858
Period size: 264 Copynumber: 1.8 Consensus size: 264
24089 GATGACCTGG
* * *
24099 AGGATTTAAGAATCAAGAAACCCTTGAAAGCTTAGTTTTTTAATTGTCAAGGAACCCCTTTGTTA
1 AGGACTTAAGAATCAAGAAACCCTCGAAAGCTTAGTTTCTTAATTGTCAAGGAACCCCTTTGTTA
*
24164 GGATTACCTTCCTTTAACAACTTTTTTGAGATAATTAGGAAACCCCTTAAAATTAGGCTTTGTTT
66 GGATTACCTTCCTTTAACAACTTTTTTGAGATAATTAGGAAACCCCTTAAAATTAGGCTTAGTTT
*
24229 CTAAAATCTCATTTGAAAACATCCTGCCCGAAGGTCTTTTGGATGGCCCAAAGGTCTTATCATCT
131 CTAAAATCTCATTTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCAAAGGTCTTATCATCT
*
24294 TGCTCGAAAGATTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACAAATGGC
196 TGCTCGAAAGACTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACAAATGGC
24359 CCGA
261 CCGA
*
24363 AGGACTTACGAATCAAGAAACCCTCGAAAGCTTAGTTTCTTAATTGTCAAGGAACCCCTTTGTTA
1 AGGACTTAAGAATCAAGAAACCCTCGAAAGCTTAGTTTCTTAATTGTCAAGGAACCCCTTTGTTA
* *
24428 GGCTTAGCTTCCTTTAACAA-TTCTTTTGAGATAATTAGGAAACCCCTTAAAATTAGGCTTAGTT
66 GGATTACCTTCCTTTAACAACTT-TTTTGAGATAATTAGGAAACCCCTTAAAATTAGGCTTAGTT
*
24492 TCTAAAATCTCATTTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGTCTTATCATC
130 TCTAAAATCTCATTTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCAAAGGTCTTATCATC
24557 TTGCTCGAAAGACTTACAGATGAC
195 TTGCTCGAAAGACTTACAGATGAC
24581 TCGAAGAATT
Statistics
Matches: 207, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
263 2 0.01
264 205 0.99
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (264 bp):
AGGACTTAAGAATCAAGAAACCCTCGAAAGCTTAGTTTCTTAATTGTCAAGGAACCCCTTTGTTA
GGATTACCTTCCTTTAACAACTTTTTTGAGATAATTAGGAAACCCCTTAAAATTAGGCTTAGTTT
CTAAAATCTCATTTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCAAAGGTCTTATCATCT
TGCTCGAAAGACTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACAAATGGC
CCGA
Found at i:25738 original size:54 final size:54
Alignment explanation
Indices: 25631--25738 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
25621 TATAATACTG
* * *
25631 GTTTGTAAAACATTTAACAACACATTCATCCTTTCATGTGGCTTCTGCACAGAT
1 GTTTATAAAACATATAACAACACATTCATCCTTTCATGTGGCTTCTACACAGAT
* * * *
25685 GTTTATAAAACATATGACAACATATTCATCCTTTCCTGTGGCTTCTACTCAGAT
1 GTTTATAAAACATATAACAACACATTCATCCTTTCATGTGGCTTCTACACAGAT
25739 TTCTCGTCAG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (54 bp):
GTTTATAAAACATATAACAACACATTCATCCTTTCATGTGGCTTCTACACAGAT
Found at i:27643 original size:5 final size:5
Alignment explanation
Indices: 27635--27703 Score: 60
Period size: 5 Copynumber: 14.6 Consensus size: 5
27625 CTTGATTTAA
**
27635 TTTCT TTTC- -TTCT TTT-T TTTCT TTTCT TTT-T CATCT CTTT-T TTT-T
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT -TTTCT TTTCT
27680 TTTCT TTTCT TTTCTT TTTCT TTT
1 TTTCT TTTCT TTTC-T TTTCT TTT
27704 TTTAATAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
3 3 0.06
4 13 0.25
5 31 0.58
6 6 0.11
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:27657 original size:17 final size:16
Alignment explanation
Indices: 27635--27704 Score: 77
Period size: 17 Copynumber: 4.2 Consensus size: 16
27625 CTTGATTTAA
27635 TTTCTTTTCTTCTTTTT
1 TTTCTTTTCTT-TTTTT
**
27652 TTTCTTTTCTTTTTCA
1 TTTCTTTTCTTTTTTT
* *
27668 TCTCTTTTTTTTTTTCT
1 TTTCTTTTCTTTTTT-T
27685 TTTCTTTTCTTTTTCTT
1 TTTCTTTTCTTTTT-TT
27702 TTT
1 TTT
27705 TTAATAAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
16 15 0.35
17 27 0.63
18 1 0.02
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTTTCTTTTTTT
Found at i:27688 original size:33 final size:33
Alignment explanation
Indices: 27637--27699 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
27627 TGATTTAATT
27637 TCTTTTCTTCTTTTTTTTCTTTTCTTTTTCATC
1 TCTTTTCTTCTTTTTTTTCTTTTCTTTTTCATC
*
27670 TCTTTT-TTTTTTTCTTTTCTTTTCTTTTTC
1 TCTTTTCTTCTTTT-TTTTCTTTTCTTTTTC
27700 TTTTTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (33 bp):
TCTTTTCTTCTTTTTTTTCTTTTCTTTTTCATC
Found at i:27701 original size:28 final size:28
Alignment explanation
Indices: 27635--27706 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
27625 CTTGATTTAA
*
27635 TTTC-TTTTCTTCTTTTTTTTCTTTTCT
1 TTTCTTTTTCTTTTTTTTTTTCTTTTCT
* *
27662 TTT-TCATCTCTTTTTTTTTTTCTTTTCT
1 TTTCT-TTTTCTTTTTTTTTTTCTTTTCT
27690 TTTCTTTTTCTTTTTTT
1 TTTCTTTTTCTTTTTTT
27707 AATAAATGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 3 0.08
28 33 0.89
29 1 0.03
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (28 bp):
TTTCTTTTTCTTTTTTTTTTTCTTTTCT
Found at i:30172 original size:20 final size:20
Alignment explanation
Indices: 30147--30185 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30137 ACAAACGTAA
30147 AAATGCAAAGATGCGAATGC
1 AAATGCAAAGATGCGAATGC
*
30167 AAATGCAAAGATGTGAATG
1 AAATGCAAAGATGCGAATG
30186 TAACATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.26, T:0.18
Consensus pattern (20 bp):
AAATGCAAAGATGCGAATGC
Found at i:33269 original size:13 final size:12
Alignment explanation
Indices: 33231--33270 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
33221 TTTATATGAC
33231 TAAAATAATAA-
1 TAAAATAATAAT
33242 TAAAATAATAAT
1 TAAAATAATAAT
*
33254 TAAAGTAATAAAT
1 TAAAATAAT-AAT
33267 TAAA
1 TAAA
33271 CATATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 11 0.42
12 8 0.31
13 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
TAAAATAATAAT
Found at i:33390 original size:29 final size:29
Alignment explanation
Indices: 33324--33431 Score: 78
Period size: 29 Copynumber: 3.6 Consensus size: 29
33314 AATATTGACC
*
33324 AAAATAAAAAAAAACTAAAACTATAGGATT
1 AAAATAAAAAATAA-TAAAACTATAGGATT
* *
33354 AAATTAAAAAGTAATAAAACT-TATGG-TT
1 AAAATAAAAAATAATAAAACTATA-GGATT
* *
33382 AAAAATAAAAATTATTAAAA-TATCAGGGATT
1 -AAAATAAAAAATAATAAAACTAT-A-GGATT
**
33413 AAAATGTAAAATATATAAA
1 AAAATAAAAAATA-ATAAA
33432 TTAAAGGTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
28 5 0.08
29 26 0.43
30 24 0.39
31 6 0.10
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (29 bp):
AAAATAAAAAATAATAAAACTATAGGATT
Found at i:34732 original size:16 final size:16
Alignment explanation
Indices: 34708--34738 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34698 ACCGACTATA
34708 ATATAATGAATTATTT
1 ATATAATGAATTATTT
*
34724 ATATTATGAATTATT
1 ATATAATGAATTATT
34739 AGATTTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
ATATAATGAATTATTT
Found at i:35354 original size:125 final size:126
Alignment explanation
Indices: 35068--35365 Score: 333
Period size: 126 Copynumber: 2.3 Consensus size: 126
35058 CAAGGTAGTC
* * * *
35068 CCACTGTATCAATACCATCAATTTATATTGGATTATTGCAAAATTTATAGTGTACCGATACCTAG
1 CCAC-GTATCAATACCCTCATTTTATACTGGATTA-TGCAAAATTTATAGTGTAACGATACCTAG
*
35133 TGAGTATCGGTACTATCGATTGTTTCTTGGATTTCCAAGATAGTCCCACTGTATTGATATAAA
64 TGAGTATCGGTACTATCGATTGTTTCTTGAATTTCCAAGATAGTCCCACTGTATTGATATAAA
** ** *
35196 CCACGTATCAATACCCTCATTTTATACAAGATTATGACTCGAA-TTATAGTGTAATGATACC-AG
1 CCACGTATCAATACCCTCATTTTATACTGGATTATG-C-AAAATTTATAGTGTAACGATACCTAG
* * *
35259 TGAGTATCGGTAC-AGTC-AGTTGTTTTTTGAATTTTCAAGGTAGTCCCA-TCGT-TTGATACAT
64 TGAGTATCGGTACTA-TCGA-TTGTTTCTTGAATTTCCAAGATAGTCCCACT-GTATTGAT--AT
35320 AAA
124 AAA
35323 -C-CGTATCAATACCCTCATTTTATACTGGATTATTGCAAAATTT
1 CCACGTATCAATACCCTCATTTTATACTGGATTA-TGCAAAATTT
35366 TATTGCTTGA
Statistics
Matches: 144, Mismatches: 17, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
124 2 0.01
125 40 0.28
126 49 0.34
127 47 0.33
128 6 0.04
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (126 bp):
CCACGTATCAATACCCTCATTTTATACTGGATTATGCAAAATTTATAGTGTAACGATACCTAGTG
AGTATCGGTACTATCGATTGTTTCTTGAATTTCCAAGATAGTCCCACTGTATTGATATAAA
Found at i:40602 original size:6 final size:6
Alignment explanation
Indices: 40591--40639 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
40581 TAACAGAACT
40591 AACTAG AACTAG AACTAG AACTAG AACTAG AACTAG AACTAG AACTAG
1 AACTAG AACTAG AACTAG AACTAG AACTAG AACTAG AACTAG AACTAG
40639 A
1 A
40640 TTAATAGCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACTAG
Found at i:58640 original size:13 final size:14
Alignment explanation
Indices: 58618--58672 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 14
58608 ATTTTTCTTG
58618 AAGAAAAAAAGTAA
1 AAGAAAAAAAGTAA
58632 AAGAAAAAAAGAATTAAA
1 AAGAAAAAAAG---T-AA
58650 AAGAAAAAAAGT-A
1 AAGAAAAAAAGTAA
58663 AAGAAAAAAA
1 AAGAAAAAAA
58673 TAATATATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 11 0.30
14 11 0.30
15 1 0.03
17 1 0.03
18 13 0.35
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (14 bp):
AAGAAAAAAAGTAA
Found at i:59924 original size:23 final size:23
Alignment explanation
Indices: 59898--60022 Score: 135
Period size: 23 Copynumber: 5.4 Consensus size: 23
59888 CACGGAAGTG
* *
59898 CCACGTAGAAATATCCCGAAGGA
1 CCACGTAGAAATGTCCTGAAGGA
* *
59921 CCACATA-AATATGTCCCGAAGGA
1 CCACGTAGAA-ATGTCCTGAAGGA
* * *
59944 CCACATAGATATATCCTGAAGGA
1 CCACGTAGAAATGTCCTGAAGGA
*
59967 CTACGTAGAAATGTCCTGAAGGA
1 CCACGTAGAAATGTCCTGAAGGA
*
59990 CCACGTAGAATTGTCCTGAAGGA
1 CCACGTAGAAATGTCCTGAAGGA
**
60013 TTACGTAGAA
1 CCACGTAGAA
60023 CCCTCGACTC
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
22 2 0.02
23 84 0.97
24 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (23 bp):
CCACGTAGAAATGTCCTGAAGGA
Found at i:60220 original size:45 final size:44
Alignment explanation
Indices: 60137--60229 Score: 114
Period size: 45 Copynumber: 2.1 Consensus size: 44
60127 TGTCATATAA
*** * * *
60137 CTTATTCACATTTTCATATAATCATTTAGTTTATTATCACATAG
1 CTTATTCACATTTTCATATAATCACAAAGGTCAATATCACATAG
*
60181 CTTATATCACATTTTCATATAATCACAAAGGTCAATATCATATAG
1 CTTAT-TCACATTTTCATATAATCACAAAGGTCAATATCACATAG
60226 CTTA
1 CTTA
60230 ACTTATAAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 5 0.12
45 36 0.88
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.42
Consensus pattern (44 bp):
CTTATTCACATTTTCATATAATCACAAAGGTCAATATCACATAG
Found at i:60702 original size:20 final size:20
Alignment explanation
Indices: 60677--60726 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
60667 TCTAAAATGG
60677 GTACCGATACTTGTCCATTA
1 GTACCGATACTTGTCCATTA
60697 GTACCGATACTTGTCCATTA
1 GTACCGATACTTGTCCATTA
60717 GTACCGATAC
1 GTACCGATAC
60727 CCTTGGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (20 bp):
GTACCGATACTTGTCCATTA
Found at i:66194 original size:23 final size:23
Alignment explanation
Indices: 66168--66281 Score: 122
Period size: 23 Copynumber: 5.0 Consensus size: 23
66158 CCATATATAA
66168 ATGTCCCGAAGGACCACATAGAT
1 ATGTCCCGAAGGACCACATAGAT
*
66191 ATGTCCCAAAGGACCACATAGAT
1 ATGTCCCGAAGGACCACATAGAT
* *
66214 ATGTCCCGAAGGACCGCATAGAA
1 ATGTCCCGAAGGACCACATAGAT
** * *
66237 ATGTCTTGAACGACCACGTAGA-
1 ATGTCCCGAAGGACCACATAGAT
* * *
66259 ATTGTCCCAAAGGATCGCATAGA
1 A-TGTCCCGAAGGACCACATAGA
66282 ACCCTCGACT
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
22 1 0.01
23 73 0.99
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (23 bp):
ATGTCCCGAAGGACCACATAGAT
Found at i:66448 original size:45 final size:45
Alignment explanation
Indices: 66371--66490 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 45
66361 ACATATACAA
** * * * * *
66371 ATAATCACATATATC-ATGTCACATAACTTATATTACATTTTCAT
1 ATAATCACATAGGTCAATATCATATAGCTTATATCAAATTTTCAT
*
66415 ATAATCA-ATTAGTTCAATATCATATAGCTTATATCAAATTTTCAT
1 ATAATCACA-TAGGTCAATATCATATAGCTTATATCAAATTTTCAT
*
66460 ATAATCACATAGGTCAATTTCATATAGCTTA
1 ATAATCACATAGGTCAATATCATATAGCTTA
66491 ACTTATAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 11 0.17
45 51 0.80
46 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (45 bp):
ATAATCACATAGGTCAATATCATATAGCTTATATCAAATTTTCAT
Found at i:67060 original size:29 final size:29
Alignment explanation
Indices: 67018--67074 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
67008 AAGGATTCAT
*
67018 ACTATTTTACCTTATGGTATCGATACTGA
1 ACTATTTTACCTTATGGTATCAATACTGA
67047 ACTATTTTACCTTATGGTATCAATACTG
1 ACTATTTTACCTTATGGTATCAATACTG
67075 TTCTTCCAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (29 bp):
ACTATTTTACCTTATGGTATCAATACTGA
Found at i:68081 original size:135 final size:135
Alignment explanation
Indices: 67837--68209 Score: 486
Period size: 135 Copynumber: 2.8 Consensus size: 135
67827 ATGTTACATG
* *
67837 ATCTCCCCTAAAAAGTAGCGGAGTAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAAC
1 ATCTCCCCTAAAGAGTAGCGGAGAAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAG-AA-
* * * *
67902 G-AAGCAAATCAAGTT-TGATTCCATCTTCCCTGAAGAGCAGCGAAGTGGATCAAGATTTTTCTC
64 GAAAGCAAATCAAGTTCTGATTCAATCTTCCCTGAAGAGCAACGAAGTGGATCAAAATGTTTCTC
67965 GAGTATA
129 GAGTATA
* * * *
67972 ATCTCCCCTAAAGAGTAGCGGAGCAGATTCTTTTTCTTTCATATTTGCTCTTCCTGAAGAGAAGA
1 ATCTCCCCTAAAGAGTAGCGGAGAAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGAAG-
* *
68037 AAAGAAAATCAAGTTCT-ATTCAATCTTCCCT-AATGAGCAACGAAGTTGATCAAAATGTTTCTC
65 AAAGCAAATCAAGTTCTGATTCAATCTTCCCTGAA-GAGCAACGAAGTGGATCAAAATGTTTCTC
* *
68100 GAGTCTG
129 GAGTATA
* * * *
68107 ATCTCCCATAAAGAGTAGAGGAGAAAATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGT
1 ATCTCCCCTAAAGAGTAGCGGAGAAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGAAG-
* *
68172 AAAGCAAATCAA-TTCTGATTCAGTTTTCCCTGAAGAGC
65 AAAGCAAATCAAGTTCTGATTCAATCTTCCCTGAAGAGC
68210 TATTGACTAA
Statistics
Matches: 207, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
133 1 0.00
134 8 0.04
135 195 0.94
136 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (135 bp):
ATCTCCCCTAAAGAGTAGCGGAGAAGATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGAAGA
AAGCAAATCAAGTTCTGATTCAATCTTCCCTGAAGAGCAACGAAGTGGATCAAAATGTTTCTCGA
GTATA
Found at i:68421 original size:14 final size:15
Alignment explanation
Indices: 68397--68432 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
68387 TTCATCCCGA
68397 AATTATTATTATTAT
1 AATTATTATTATTAT
68412 AATT-TTATTATTAT
1 AATTATTATTATTAT
68426 AATTATT
1 AATTATT
68433 TACAGCTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:68433 original size:17 final size:17
Alignment explanation
Indices: 68399--68433 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
68389 CATCCCGAAA
*
68399 TTATTATTATTATAATT
1 TTATTATTATAATAATT
*
68416 TTATTATTATAATTATT
1 TTATTATTATAATAATT
68433 T
1 T
68434 ACAGCTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTATTATAATAATT
Found at i:70343 original size:13 final size:13
Alignment explanation
Indices: 70322--70368 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 13
70312 GTAGATCATT
*
70322 TTATCTTTTAAAA
1 TTATTTTTTAAAA
70335 TTATTTTTTTAAAA
1 TTA-TTTTTTAAAA
*
70349 TTA-TTTTGAAAA
1 TTATTTTTTAAAA
*
70361 GTATTTTT
1 TTATTTTT
70369 AGGTATTCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 10 0.34
13 7 0.24
14 12 0.41
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (13 bp):
TTATTTTTTAAAA
Found at i:70346 original size:14 final size:14
Alignment explanation
Indices: 70327--70355 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
70317 TCATTTTATC
70327 TTTTAAAATTATTT
1 TTTTAAAATTATTT
70341 TTTTAAAATTATTT
1 TTTTAAAATTATTT
70355 T
1 T
70356 GAAAAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTAAAATTATTT
Found at i:72104 original size:6 final size:6
Alignment explanation
Indices: 72093--72687 Score: 1167
Period size: 6 Copynumber: 99.5 Consensus size: 6
72083 ACGTACTGTT
72093 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
*
72141 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTCTA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
72189 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
72237 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
72285 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
72333 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
72381 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
72429 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
72477 TGTATA TGTATA TG--TA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
72523 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
72571 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
72619 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
72667 TGTATA TGTATA TGTATA TGT
1 TGTATA TGTATA TGTATA TGT
72688 GTATTATCAT
Statistics
Matches: 585, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.01
6 581 0.99
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TGTATA
Found at i:74171 original size:46 final size:45
Alignment explanation
Indices: 74104--74190 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
74094 AATATTTCCA
* *
74104 ATATTAACATTTTCGGTAGAAAAAATAACATTTTAGGTAGCGTCTG
1 ATATTAACATTTTCAGTAG-AAAAATAACATTTTAGGAAGCGTCTG
*
74150 ATATTAATATTTTCAGTAGAAAAATAACATTTTAGGAAGCG
1 ATATTAACATTTTCAGTAGAAAAATAACATTTTAGGAAGCG
74191 CTCTACCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
45 21 0.55
46 17 0.45
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.34
Consensus pattern (45 bp):
ATATTAACATTTTCAGTAGAAAAATAACATTTTAGGAAGCGTCTG
Found at i:75086 original size:67 final size:68
Alignment explanation
Indices: 74978--75106 Score: 242
Period size: 67 Copynumber: 1.9 Consensus size: 68
74968 AAAAATAAAA
*
74978 AATAAAAAAATTTATAAATAAACTTTGAAATATCTAAACATG-TTTTTTTACATTTATACTTCAG
1 AATAAAAAAATTTATAAATAAACTTTGAAATATCTAAACATGTTTTTTTTACATTTAGACTTCAG
75042 CTT
66 CTT
75045 AATAAAAAAATTTATAAATAAACTTTGAAATATCTAAACATGTTTTTTTTACATTTAGACTT
1 AATAAAAAAATTTATAAATAAACTTTGAAATATCTAAACATGTTTTTTTTACATTTAGACTT
75107 TGGGTTGTTG
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
67 42 0.70
68 18 0.30
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (68 bp):
AATAAAAAAATTTATAAATAAACTTTGAAATATCTAAACATGTTTTTTTTACATTTAGACTTCAG
CTT
Found at i:77271 original size:2 final size:2
Alignment explanation
Indices: 77264--77294 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
77254 TTATTACATA
77264 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
77295 CACTTCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.