Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009306.1 Hibiscus syriacus cultivar Beakdansim tig00113042_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: 82566
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Found at i:1945 original size:2 final size:2
Alignment explanation
Indices: 1934--1965 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1924 CCATTAATTT
1934 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1966 TATGTAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2777 original size:15 final size:15
Alignment explanation
Indices: 2753--2809 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
2743 GCATTATTAA
*
2753 ATTAATTTATAAATT
1 ATTAAATTATAAATT
2768 ATTAAATTATAAA-T
1 ATTAAATTATAAATT
*
2782 ACTAAATGTAT-AATT
1 ATTAAAT-TATAAATT
2797 A-TAAATTTATAAA
1 ATTAAA-TTATAAA
2810 AATCTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 16 0.44
15 20 0.56
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTAAATTATAAATT
Found at i:2780 original size:7 final size:7
Alignment explanation
Indices: 2759--2809 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
2749 TTAAATTAAT
2759 TTATAAA
1 TTATAAA
2766 TTATTAAA
1 TTA-TAAA
2774 TTATAAA
1 TTATAAA
2781 -TACTAAA
1 TTA-TAAA
2788 TGTAT-AA
1 T-TATAAA
2795 TTATAAA
1 TTATAAA
2802 TTTATAAA
1 -TTATAAA
2810 AATCTAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
6 5 0.13
7 16 0.42
8 15 0.39
9 2 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (7 bp):
TTATAAA
Found at i:3180 original size:29 final size:27
Alignment explanation
Indices: 3139--3204 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 27
3129 CAATTTAAGG
3139 CAAAATTTTTGGACTGAATTGAATTTA
1 CAAAATTTTTGGACTGAATTGAATTTA
*
3166 CAAAATGTATTTGGACTTAATTGAATTTA
1 CAAAAT-T-TTTGGACTGAATTGAATTTA
3195 TTCAAAATTT
1 --CAAAATTT
3205 ACAAAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 6 0.18
28 1 0.03
29 20 0.59
30 1 0.03
31 6 0.18
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (27 bp):
CAAAATTTTTGGACTGAATTGAATTTA
Found at i:3281 original size:19 final size:19
Alignment explanation
Indices: 3257--3317 Score: 95
Period size: 19 Copynumber: 3.2 Consensus size: 19
3247 AATGTTTTTA
*
3257 TGAATAGTAATTTACTATT
1 TGAATAGTAAATTACTATT
3276 TGAATAGTAAATTACTATT
1 TGAATAGTAAATTACTATT
* *
3295 TGAACAGTAAATCACTATT
1 TGAATAGTAAATTACTATT
3314 TGAA
1 TGAA
3318 CGTACCCCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (19 bp):
TGAATAGTAAATTACTATT
Found at i:3450 original size:21 final size:21
Alignment explanation
Indices: 3424--3463 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3414 ATTTGAATAT
*
3424 TATGAAGGGGTATCGATTCGC
1 TATGAAGGGGTACCGATTCGC
3445 TATGAAGGGGTACCGATTC
1 TATGAAGGGGTACCGATTC
3464 CCCCCATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCGC
Found at i:4671 original size:19 final size:20
Alignment explanation
Indices: 4647--4694 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4637 AAACGATTTC
*
4647 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
4666 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
4686 TTTTGAAAA
1 TTTTGAAAA
4695 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:5987 original size:31 final size:31
Alignment explanation
Indices: 5920--5979 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
5910 CAATTTAAGG
*
5920 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
5951 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
5980 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:6087 original size:18 final size:19
Alignment explanation
Indices: 6040--6104 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
6030 AATGTTTTTA
* *
6040 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
*
6059 TGAATAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
*
6078 T-AACAGTAAATCACTATT
1 TGAACAGTAAATTACTATT
6096 TGAACAGTA
1 TGAACAGTA
6105 CCCCGAGGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
18 16 0.38
19 26 0.62
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:6313 original size:21 final size:21
Alignment explanation
Indices: 6279--6318 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
6269 TTTTTGCAGA
*
6279 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
6301 AAAAT-ATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
6319 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 1 0.06
22 5 0.29
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:6984 original size:15 final size:15
Alignment explanation
Indices: 6964--6999 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6954 TAATTATTCG
6964 TTTAATACTTTATAA
1 TTTAATACTTTATAA
*
6979 TTTAATATTTTATAA
1 TTTAATACTTTATAA
*
6994 ATTAAT
1 TTTAAT
7000 TTAATGGTAC
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:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAATACTTTATAA
Found at i:7066 original size:2 final size:2
Alignment explanation
Indices: 7059--7089 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7049 TCGCATCATC
7059 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7090 TAGTAAACAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17575 original size:23 final size:23
Alignment explanation
Indices: 17542--17609 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
17532 ATTATTATAT
*
17542 GGCACTTCGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* * *
17565 GGTACTACGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
* *
17588 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCATTTCTACG
17610 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:23404 original size:4 final size:4
Alignment explanation
Indices: 23395--23438 Score: 61
Period size: 4 Copynumber: 10.5 Consensus size: 4
23385 TTCATCACCG
*
23395 TACA TACA TACA TTAACA TATA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA -T-ACA TACA TACA TACA TACA TACA TACA TA
23439 TGTGTATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 31 0.86
5 2 0.06
6 3 0.08
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (4 bp):
TACA
Found at i:24344 original size:27 final size:26
Alignment explanation
Indices: 24314--24375 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
24304 AGCATAATTT
* *
24314 TAAATTTTTAAATCAAGTTAAGTGAAA
1 TAAATTTTTAAAT-AAATTAAGTAAAA
* * *
24341 TAAAATTTAAAATAAATTGAGTAAAA
1 TAAATTTTTAAATAAATTAAGTAAAA
*
24367 TAATTTTTT
1 TAAATTTTT
24376 TCTAATTAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (26 bp):
TAAATTTTTAAATAAATTAAGTAAAA
Found at i:25288 original size:36 final size:36
Alignment explanation
Indices: 25238--25311 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
25228 TAAATATTGG
*
25238 TGCAAGTCTGAGTTAGCAATGAGTTGCTTCTGCAAA
1 TGCAAGTCTGAGTTAGCAATGAGTTACTTCTGCAAA
* *
25274 TGCAAGTCTTAGTTAGCTATGAGTTACTTCTGCAAA
1 TGCAAGTCTGAGTTAGCAATGAGTTACTTCTGCAAA
25310 TG
1 TG
25312 AAGGTTTCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (36 bp):
TGCAAGTCTGAGTTAGCAATGAGTTACTTCTGCAAA
Found at i:30269 original size:29 final size:29
Alignment explanation
Indices: 30226--30308 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
30216 CTCACCTAAC
30226 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
30256 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
30285 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
30309 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:35031 original size:29 final size:29
Alignment explanation
Indices: 34988--35070 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
34978 CTCACCTAAC
34988 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
35018 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
35047 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
35071 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:40533 original size:71 final size:72
Alignment explanation
Indices: 40398--40534 Score: 206
Period size: 72 Copynumber: 1.9 Consensus size: 72
40388 AATAAGCCCC
* * * * *
40398 ACTAAATTACTATATTTTTTAGTTTTTTAAATAAAAAATAATATTTAAAAATATTTTTTAATTAT
1 ACTAAATTACAATATTTTTAAATATTTAAAATAAAAAATAATATTTAAAAATATTTTTTAATTAT
40463 TGGGATT
66 TGGGATT
40470 ACTAAATTACAATATTTTTAAATATTTAAAATAAAAAA-AATATTTTAAAAATATTTTTT-ATTA
1 ACTAAATTACAATATTTTTAAATATTTAAAATAAAAAATAATA-TTTAAAAATATTTTTTAATTA
40533 TT
65 TT
40535 AAACTTAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
71 10 0.17
72 49 0.83
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (72 bp):
ACTAAATTACAATATTTTTAAATATTTAAAATAAAAAATAATATTTAAAAATATTTTTTAATTAT
TGGGATT
Found at i:43486 original size:278 final size:278
Alignment explanation
Indices: 42989--43547 Score: 1093
Period size: 278 Copynumber: 2.0 Consensus size: 278
42979 CTGATTCACT
*
42989 GGTACATTTTACCATTCATCTGATATAAATAAAATAAGGAAAGATGATAAAAAATGTAACTTTTT
1 GGTACATTTTACCATTCATATGATATAAATAAAATAAGGAAAGATGATAAAAAATGTAACTTTTT
43054 TAACTTCAAGATTTCTTCTTGTTGTAGATTGAATGTTTTGGTTGTAAATTGCAGAGTACCCATTT
66 TAACTTCAAGATTTCTTCTTGTTGTAGATTGAATGTTTTGGTTGTAAATTGCAGAGTACCCATTT
43119 CGCTCTTGTTTTTGAAGTACCCGGTGGCTGGAATAACAAGAAAGACTCTGTCACTTTGACTGTAA
131 CGCTCTTGTTTTTGAAGTACCCGGTGGCTGGAATAACAAGAAAGACTCTGTCACTTTGACTGTAA
43184 TGCAGGTGGCGGATTTTGAATTCTGCTTCATTTATTGTTTGACATACTATTGTGTCTTGTACATA
196 TGCAGGTGGCGGATTTTGAATTCTGCTTCATTTATTGTTTGACATACTATTGTGTCTTGTACATA
43249 CCGTAAGTTATATGAGAA
261 CCGTAAGTTATATGAGAA
43267 GGTACATTTTACCATTCATATGATATAAATAAAATAAGGAAAGATGAT-AAAAATGTAACTTTTT
1 GGTACATTTTACCATTCATATGATATAAATAAAATAAGGAAAGATGATAAAAAATGTAAC-TTTT
43331 TTAACTTCAAGATTTCTTCTTGTTGTAGATTGAATGTTTTGGTTGTAAATTGCAGAGTACCCATT
65 TTAACTTCAAGATTTCTTCTTGTTGTAGATTGAATGTTTTGGTTGTAAATTGCAGAGTACCCATT
43396 TCGCTCTTGTTTTTGAAGTACCCGGTGGCTGGAATAACAAGAAAGACTCTGTCACTTTGACTGTA
130 TCGCTCTTGTTTTTGAAGTACCCGGTGGCTGGAATAACAAGAAAGACTCTGTCACTTTGACTGTA
43461 ATGCAGGTGGCGGATTTTGAATTCTGCTTCATTTATTGTTTGACATACTATTGTGTCTTGTACAT
195 ATGCAGGTGGCGGATTTTGAATTCTGCTTCATTTATTGTTTGACATACTATTGTGTCTTGTACAT
43526 ACCGTAAGTTATATGAGAA
260 ACCGTAAGTTATATGAGAA
43545 GGT
1 GGT
43548 TTGGCATTGA
Statistics
Matches: 279, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
277 11 0.04
278 268 0.96
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (278 bp):
GGTACATTTTACCATTCATATGATATAAATAAAATAAGGAAAGATGATAAAAAATGTAACTTTTT
TAACTTCAAGATTTCTTCTTGTTGTAGATTGAATGTTTTGGTTGTAAATTGCAGAGTACCCATTT
CGCTCTTGTTTTTGAAGTACCCGGTGGCTGGAATAACAAGAAAGACTCTGTCACTTTGACTGTAA
TGCAGGTGGCGGATTTTGAATTCTGCTTCATTTATTGTTTGACATACTATTGTGTCTTGTACATA
CCGTAAGTTATATGAGAA
Found at i:46927 original size:166 final size:164
Alignment explanation
Indices: 46616--46947 Score: 468
Period size: 166 Copynumber: 2.0 Consensus size: 164
46606 TCTTCCTGCA
*** * * *
46616 TTGTCTCTAACATTTATTATCTTTATTTTCTATTTTGATTTGGGGTACTCCTGTAATTTGGTTCC
1 TTGTCTCTAACATTTATTATCTTTATTTTCTATTTTGACAAGGGCTACTCCAGTAATTTGCTTCC
** * *
46681 ATTAATTTGTACAGGCACTGCTGGGGTATGACAAGCATAAAATGCATGGTGTTGTACTCCCTCGT
66 ATTAATTTGTACAGGCACTGCTGGGGTATGACAAGCATAAAATGCATGACGATGTACTCCCTCAT
* *
46746 TCCGTTCCGTCCCTCATAGAGAGCCTTTCACAGTTG
131 TCCATTCAGTCCCTCATAG-G-GCCTTTCACAGTTG
* *
46782 TTGTTTCTAACATTTATTATCTTTATTTTCTATTTTGACAAGTGGCT-CTTCAGTAATTTGCTTC
1 TTGTCTCTAACATTTATTATCTTTATTTTCTATTTTGACAAG-GGCTACTCCAGTAATTTGCTTC
* * *
46846 CATTAATTTGTGCAGGCATTGCTGGGGTATGACAAGCATAAAATGCATGACGATGTATTCCCTCA
65 CATTAATTTGTACAGGCACTGCTGGGGTATGACAAGCATAAAATGCATGACGATGTACTCCCTCA
*
46911 TTCCATTCATTCCCTCATAGGGCCTTTCACAGTTG
130 TTCCATTCAGTCCCTCATAGGGCCTTTCACAGTTG
46946 TT
1 TT
46948 TGTCCGGTAA
Statistics
Matches: 147, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
164 16 0.11
165 1 0.01
166 127 0.86
167 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (164 bp):
TTGTCTCTAACATTTATTATCTTTATTTTCTATTTTGACAAGGGCTACTCCAGTAATTTGCTTCC
ATTAATTTGTACAGGCACTGCTGGGGTATGACAAGCATAAAATGCATGACGATGTACTCCCTCAT
TCCATTCAGTCCCTCATAGGGCCTTTCACAGTTG
Found at i:48581 original size:164 final size:164
Alignment explanation
Indices: 48272--48601 Score: 480
Period size: 164 Copynumber: 2.0 Consensus size: 164
48262 TCTTCCTCCA
** * * **
48272 TTGTCTCTAACATTTATTATCTTTATTTTCTATTTTGACTTGGGGTTCTCCTGTAATTTGGTTCC
1 TTGTCTCTAACATTTATTATCTTTATTTTCTATTTTGACAAGGGGCTCTCCAGTAATTTCCTTCC
* * * * *
48337 ATTAATTTGTGCAGGCACTGCTGGAGTATGACAAGCATAAAATGCATTGTGTTGTAATGCCTCGT
66 ATTAATTTGTGCAGGCACTGATGGAGTATGACAAGCATAAAATGCATGGCGTTGTAATCCCTCAT
* * *
48402 TCTGTTCGATCCCTCATAGAGTCTTTCACAGTTG
131 TCCGTTCCATCCCTCATAGAGCCTTTCACAGTTG
* *
48436 TTGTTTCTAACATTTATTATCTTTATTTTCTATTTTGACAAGTGGCTCTCCAGTAATTTCCTTCC
1 TTGTCTCTAACATTTATTATCTTTATTTTCTATTTTGACAAGGGGCTCTCCAGTAATTTCCTTCC
* *
48501 ATTAATTTGTGCAGGCACTGATGGGGTATGACAAGCATAAAATGCATGGCGTTGTACTCCCTCAT
66 ATTAATTTGTGCAGGCACTGATGGAGTATGACAAGCATAAAATGCATGGCGTTGTAATCCCTCAT
* *
48566 TCCGTTCCTTCCCTCATAGGGCCTTTCACAGTTG
131 TCCGTTCCATCCCTCATAGAGCCTTTCACAGTTG
48600 TT
1 TT
48602 TGTCCGGTAA
Statistics
Matches: 146, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
164 146 1.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (164 bp):
TTGTCTCTAACATTTATTATCTTTATTTTCTATTTTGACAAGGGGCTCTCCAGTAATTTCCTTCC
ATTAATTTGTGCAGGCACTGATGGAGTATGACAAGCATAAAATGCATGGCGTTGTAATCCCTCAT
TCCGTTCCATCCCTCATAGAGCCTTTCACAGTTG
Found at i:52533 original size:13 final size:13
Alignment explanation
Indices: 52515--52541 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52505 ATGACGTTTT
52515 AAATTGTGAAAAA
1 AAATTGTGAAAAA
52528 AAATTGTGAAAAA
1 AAATTGTGAAAAA
52541 A
1 A
52542 TCTATCGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (13 bp):
AAATTGTGAAAAA
Found at i:53121 original size:164 final size:164
Alignment explanation
Indices: 52819--53135 Score: 422
Period size: 164 Copynumber: 1.9 Consensus size: 164
52809 TTGTCTCTAA
* * * * *
52819 CATTTAATATCTTTATTTTCTATTTTGACTTGGGGTTCTCCTGTAATTTGGTTCCATTAATTTGT
1 CATTTAATATCTTTATTTTCTATTTTGACATGGAGCTCTCCAGTAATTTGCTTCCATTAATTTGT
* * * * * **
52884 GCAGGCATAGCTGGGTAATGACAAGCGTAAAATGCATGGTGTTGTACTCCGTTGTTCCGTTCATT
66 GCAGGCATAGCTGGGTAATAACAAGCATAAAATGCATGGCGCTGTACTCCCTCATTCCGTTCATT
* * *
52949 CTCTCATAGAGCCTTTCGCAGTTGTTGTTTATAT
131 CCCTCATAGAGACTTTCACAGTTGTTGTTTATAT
* *
52983 CATTTATTATCTTTATTTTCTATTTTGACATGTAGCTCTCCAGTAATTTGCTTCCATTAATTTGT
1 CATTTAATATCTTTATTTTCTATTTTGACATGGAGCTCTCCAGTAATTTGCTTCCATTAATTTGT
* * *
53048 GCAGGCACT-GCTGGGGT-ATAACAAGCATAAAATGCATGGCGCTGTAGTCCCTCATTCTGTTCC
66 GCAGGCA-TAGCT-GGGTAATAACAAGCATAAAATGCATGGCGCTGTACTCCCTCATTCCGTTCA
53111 TTCCCTCATAGAGACTTTCACAGTT
129 TTCCCTCATAGAGACTTTCACAGTT
53136 ATTTGTCCGC
Statistics
Matches: 131, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
164 126 0.96
165 5 0.04
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (164 bp):
CATTTAATATCTTTATTTTCTATTTTGACATGGAGCTCTCCAGTAATTTGCTTCCATTAATTTGT
GCAGGCATAGCTGGGTAATAACAAGCATAAAATGCATGGCGCTGTACTCCCTCATTCCGTTCATT
CCCTCATAGAGACTTTCACAGTTGTTGTTTATAT
Found at i:59625 original size:163 final size:164
Alignment explanation
Indices: 59348--59669 Score: 502
Period size: 163 Copynumber: 2.0 Consensus size: 164
59338 CCATTGTCTT
* ** * * * *
59348 TAACATTTATTATCTTTATTTTCTTTTTTGACTTGGGGTTATTCTGTAATTTGGTTCCATTAATT
1 TAACATTTATTATCTTTATTTTCTATTTTGACAAGGGGCTATCCAGTAATTTGCTTCCATTAATT
* * *
59413 TGTGCAGGCACTGCTGGGGTATGACAAGCATAAAATGCATGGTGATGTACTCCCTCGTTCCATTC
66 CGTGCAGGCACTGCTGGGGTATGACAAGCATAAAATGCATGGCGATGTACTCCCTCATTCCATTC
*
59478 CTTCCCT-ATAGAGCTTTTCACAGTTGTTGTTTC
131 CTTCCCTCATAGAGCCTTTCACAGTTGTTGTTTC
* *
59511 TAACATTTATTATCTTTATTTTCTATTTTGACAAGTGGCTCTCCAGTAATTTGCTTCCATTAATT
1 TAACATTTATTATCTTTATTTTCTATTTTGACAAGGGGCTATCCAGTAATTTGCTTCCATTAATT
*
59576 CGTGCAGGCACTGCTGGGGTATGACAAGCATAAAATGCATGGCGATGTACTCCCTCATTCCCTTC
66 CGTGCAGGCACTGCTGGGGTATGACAAGCATAAAATGCATGGCGATGTACTCCCTCATTCCATTC
*
59641 CTTCCCTCATAGGGCCTTTCACAGTTGTT
131 CTTCCCTCATAGAGCCTTTCACAGTTGTT
59670 TGTCAGGTAA
Statistics
Matches: 143, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
163 124 0.87
164 19 0.13
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (164 bp):
TAACATTTATTATCTTTATTTTCTATTTTGACAAGGGGCTATCCAGTAATTTGCTTCCATTAATT
CGTGCAGGCACTGCTGGGGTATGACAAGCATAAAATGCATGGCGATGTACTCCCTCATTCCATTC
CTTCCCTCATAGAGCCTTTCACAGTTGTTGTTTC
Found at i:61871 original size:650 final size:656
Alignment explanation
Indices: 60647--61928 Score: 1855
Period size: 650 Copynumber: 1.9 Consensus size: 656
60637 TACTGAAGGC
* * * * * *
60647 CTGAACTTTTTTTCCTGTTACAACTGCTTGTTCAATTGTTGATGAATGGTTATTTCGTATGATAT
1 CTGAACTTTTTCTCCTATTACAACTGCTTGTTCAATTGTCGATGAATGATTATTTCATATGACAT
*
60712 TTTAAATTGTGGAAAAATCTATCGAGTTAAAATTTTTATATTTGCTAACTCGGTTTCTTGTTTTT
66 TTTAAATTGTGGAAAAATCTATCGAGTTAAAATTTTTATATTTGCTAACTCGGTTTCTTGTTTTC
* * *
60777 ATGAACATAATTTATTAATGAAGCACCCTCATGTCCCTCTACCACAATTATGGCTAACCTTCTAT
131 ATGAACAGAATTTATTAATGAAGCACCCTCATGTCCCTATACCACAATTATAGCT-ACCTTCTAT
* *
60842 TTACATATTTATTTGCTCATGGGACCAGTACTACTGTGTCTTGTACGTTCCATAAGTTTTATGAG
195 TTACATATTTATTTGCGCATGGGACCAGTACTACTGTGTCTTGTACATTCCATAAGTTTTATGAG
* * * * * *
60907 AAGGTTTGGCTCTAACTATAGATTTTCATTGATTACAGTAACACAGACGTACTCCACGAATTAAT
260 AAGGTTTGGCTCTAACCATAGATTTCCATAGATTACAGTAACACAGACGAACTCCACAAATTAAG
*
60972 CCCTGCTGTAATTTGGCTCTTACTCCGTTTTCTCCAACATTTTTATCTTTATTTCCTATTTTGAC
325 CCCT-CTG----TT-GCTCTTACTCCGTTGTCTCCAACATTTTTATCTTTATTTCCTATTTTGAC
*
61037 TTGTGGTTCTCCTGTAATTTGGTTCCATTAATTTGTGCATGCACTGCTGGGGTATGACAAGCATA
384 TTGTGGTTCTCCTGTAATTTGGTTCCATTAATTTGTGCAGGCACTGCTGGGGTATGACAAGCATA
* * * *
61102 AAATGCATGGCGTTGTACTCCTTCATTTCGTTCTTTCCCTCATTAAGCCTTTCACAGTTGTTAGT
449 AAATGCATGGCGTTGTACTCCGTCATTTCGTTCCTTCCCTCATTAAGCCTTTCACAGTTGGTAAT
*
61167 CCGGTAAAATCCAATAATTATAATGCTTTCCGATCCTCTTGGCATAGCATATTTTTCTTTCATA-
514 CCGGTAAAATCCAATAATTATAATGCTTTCCGATCCTCTTGGCATAGCATATTTTGCTTTCATAG
* *
61231 GTGTTTACCTC-TTGCACGATGATGAAATTTGATTTTGACATCTGCTTGTTCTGAACTTTTCTCA
579 GTGTTTACCTCTTTGCACAATGATGAAATGTGATTTTGACATCTGCTTGTTCTGAACTTTTCTCA
61295 AGTAAGCCTTTTT
644 AGTAAGCCTTTTT
*
61308 CTGAAC-TTTTCTCCTATTACAACTGCTTGTTCAATTGTCGGTGAATGATTATTTCATATGACAT
1 CTGAACTTTTTCTCCTATTACAACTGCTTGTTCAATTGTCGATGAATGATTATTTCATATGACAT
*
61372 TTTAAATTGTGGAAAAATCTATCGAGTTAAAATTTTTATATTTGCTTACTCGGTTTCTTGTTTTC
66 TTTAAATTGTGGAAAAATCTATCGAGTTAAAATTTTTATATTTGCTAACTCGGTTTCTTGTTTTC
* * * * *
61437 ATGAATAGAATTTGTTAATGAAGCACCCTCATGTCCTTATACCATAATTATAGCT-CCTTTTATT
131 ATGAACAGAATTTATTAATGAAGCACCCTCATGTCCCTATACCACAATTATAGCTACCTTCTATT
* * *** * *
61501 TACTTATTTCTTTGCGCATGGGATGTGTGCTACTGTGTCTTGTACATTCCGTAAGTTTTATGAGA
196 TACATATTTATTTGCGCATGGGACCAGTACTACTGTGTCTTGTACATTCCATAAGTTTTATGAGA
* * *
61566 AGGTTTGGCTCTAACCATAGATTTCCATAGATTATAGTAACACAGACGAACTCTATAAATTAAGC
261 AGGTTTGGCTCTAACCATAGATTTCCATAGATTACAGTAACACAGACGAACTCCACAAATTAAGC
* * *
61631 CCT-TG-T-CTCTT-CGTCCGTTGTCTCTAATATTTATTATCTTTATTTTCTATTTTGACTTGTG
326 CCTCTGTTGCTCTTAC-TCCGTTGTCTCCAACATTT-TTATCTTTATTTCCTATTTTGACTTGTG
* * *
61692 GTTCTCCTGTAATTTGGTTCCATTAATTTGTGTAGGCACTGTTGGGGTATGATAAGCATAAAATG
389 GTTCTCCTGTAATTTGGTTCCATTAATTTGTGCAGGCACTGCTGGGGTATGACAAGCATAAAATG
* * *
61757 CATGGTGTTGTACTCCGTCATTTCGTTCCTTCCGTCA-TAGAGGCTTTCACAGTTGGTAATCCGG
454 CATGGCGTTGTACTCCGTCATTTCGTTCCTTCCCTCATTA-AGCCTTTCACAGTTGGTAATCCGG
**
61821 TAAAATCCAATAATTATAATGCTTTCCGAT-CTGCTTGGCATATTATATTTTGCTTTCATATGGT
518 TAAAATCCAATAATTATAATGCTTTCCGATCCT-CTTGGCATAGCATATTTTGCTTTCATA-GGT
* * *
61885 GTTTACCTCTTTTGTACAATGATGAAGTGTGATTTTGACTTCTG
581 GTTTACCTC-TTTGCACAATGATGAAATGTGATTTTGACATCTG
61929 TATGCGAAAA
Statistics
Matches: 555, Mismatches: 58, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
648 1 0.00
649 25 0.05
650 196 0.35
651 1 0.00
652 11 0.02
654 28 0.05
656 2 0.00
658 123 0.22
660 162 0.29
661 6 0.01
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (656 bp):
CTGAACTTTTTCTCCTATTACAACTGCTTGTTCAATTGTCGATGAATGATTATTTCATATGACAT
TTTAAATTGTGGAAAAATCTATCGAGTTAAAATTTTTATATTTGCTAACTCGGTTTCTTGTTTTC
ATGAACAGAATTTATTAATGAAGCACCCTCATGTCCCTATACCACAATTATAGCTACCTTCTATT
TACATATTTATTTGCGCATGGGACCAGTACTACTGTGTCTTGTACATTCCATAAGTTTTATGAGA
AGGTTTGGCTCTAACCATAGATTTCCATAGATTACAGTAACACAGACGAACTCCACAAATTAAGC
CCTCTGTTGCTCTTACTCCGTTGTCTCCAACATTTTTATCTTTATTTCCTATTTTGACTTGTGGT
TCTCCTGTAATTTGGTTCCATTAATTTGTGCAGGCACTGCTGGGGTATGACAAGCATAAAATGCA
TGGCGTTGTACTCCGTCATTTCGTTCCTTCCCTCATTAAGCCTTTCACAGTTGGTAATCCGGTAA
AATCCAATAATTATAATGCTTTCCGATCCTCTTGGCATAGCATATTTTGCTTTCATAGGTGTTTA
CCTCTTTGCACAATGATGAAATGTGATTTTGACATCTGCTTGTTCTGAACTTTTCTCAAGTAAGC
CTTTTT
Found at i:67482 original size:30 final size:29
Alignment explanation
Indices: 67447--67504 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
67437 AATTTAAGGA
67447 AAAATGGT-TTTGGACTTGAATTGAATTTAC
1 AAAAT-GTATTTGGACTT-AATTGAATTTAC
67477 AAAATGTATTTGGACTTAATTGAATTTA
1 AAAATGTATTTGGACTTAATTGAATTTA
67505 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.41
Consensus pattern (29 bp):
AAAATGTATTTGGACTTAATTGAATTTAC
Found at i:67596 original size:19 final size:19
Alignment explanation
Indices: 67569--67618 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
67559 AATGTTTTTA
* *
67569 TGAATAATAATTTACTATT
1 TGAACAATAAATTACTATT
67588 TGAACAATAAATTACTATT
1 TGAACAATAAATTACTATT
*
67607 TGAACAGTAAAT
1 TGAACAATAAAT
67619 CATTGTTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (19 bp):
TGAACAATAAATTACTATT
Found at i:67627 original size:19 final size:19
Alignment explanation
Indices: 67582--67634 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
67572 ATAATAATTT
* *
67582 ACTATTTGAACAATAAATT
1 ACTATTTGAACAGTAAATC
67601 ACTATTTGAACAGTAAATC
1 ACTATTTGAACAGTAAATC
* *
67620 ATTGTTTGAACAGTA
1 ACTATTTGAACAGTA
67635 CCCCGAGGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (19 bp):
ACTATTTGAACAGTAAATC
Found at i:67764 original size:21 final size:21
Alignment explanation
Indices: 67740--67779 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
67730 TATTTGAATA
*
67740 TTATGAAGGGGTATCGATTAT
1 TTATGAAGGGGTACCGATTAT
67761 TTATGAAGGGGTACCGATT
1 TTATGAAGGGGTACCGATT
67780 TTCCCCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (21 bp):
TTATGAAGGGGTACCGATTAT
Found at i:74134 original size:18 final size:16
Alignment explanation
Indices: 74094--74136 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
74084 TAAATTTGAA
*
74094 TTTCT-TTTTATTAGT
1 TTTCTATTTTATTAAT
74109 TTTCTATTTTATTAAT
1 TTTCTATTTTATTAAT
74125 TGTATCTATTTT
1 T-T-TCTATTTT
74137 TGAAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 5 0.21
16 10 0.42
17 1 0.04
18 8 0.33
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (16 bp):
TTTCTATTTTATTAAT
Found at i:76573 original size:24 final size:24
Alignment explanation
Indices: 76546--76922 Score: 223
Period size: 24 Copynumber: 15.7 Consensus size: 24
76536 GTTGGTATCG
* *
76546 TTGCCATTACCGTTGCCGTTTCCA
1 TTGCCATTGCCGTTGCCGTTGCCA
* * *
76570 TTGCCATTTCCGTTGCCGTTACCG
1 TTGCCATTGCCGTTGCCGTTGCCA
** * * *
76594 TTGCGGTTGCCGTTTCCATTGCCG
1 TTGCCATTGCCGTTGCCGTTGCCA
* ** * *
76618 TTACTGTTACCGTTACCGTTGCCA
1 TTGCCATTGCCGTTGCCGTTGCCA
* * * * *
76642 TTGCCATTTCCATTACCATTGCCG
1 TTGCCATTGCCGTTGCCGTTGCCA
* * * * *
76666 TTGCCATTACCATTTCCGTTTCCG
1 TTGCCATTGCCGTTGCCGTTGCCA
* * *
76690 TTGCCATTGCCGTTTCCATTTCCA
1 TTGCCATTGCCGTTGCCGTTGCCA
* * * * * *
76714 TTACCATTGCCATTTCCATTACCG
1 TTGCCATTGCCGTTGCCGTTGCCA
* * * **
76738 TTGCCATTTCCGTTTCCATTTTCA
1 TTGCCATTGCCGTTGCCGTTGCCA
* * *
76762 TTACCGTTGCCGTTGCCGTTTCCA
1 TTGCCATTGCCGTTGCCGTTGCCA
* * * *
76786 TTACCATTGCCATTTCCGTTTCCA
1 TTGCCATTGCCGTTGCCGTTGCCA
* *
76810 TTTCCGTTGCCGTTGCCGTTGCCA
1 TTGCCATTGCCGTTGCCGTTGCCA
* *
76834 TTACCATTGCCGTTGCCGTTGCCG
1 TTGCCATTGCCGTTGCCGTTGCCA
* * * *
76858 TTGCCATTTCCGTTCCCGTTCCCG
1 TTGCCATTGCCGTTGCCGTTGCCA
* *
76882 TTGCCATTTCCATTGCCGTTGCCA
1 TTGCCATTGCCGTTGCCGTTGCCA
* * *
76906 TTTCCGTTTCCGTTGCC
1 TTGCCATTGCCGTTGCC
76923 ACCCTTATTA
Statistics
Matches: 285, Mismatches: 68, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 285 1.00
ACGTcount: A:0.11, C:0.33, G:0.17, T:0.39
Consensus pattern (24 bp):
TTGCCATTGCCGTTGCCGTTGCCA
Found at i:76588 original size:6 final size:6
Alignment explanation
Indices: 76544--76922 Score: 164
Period size: 6 Copynumber: 63.2 Consensus size: 6
76534 TGGTTGGTAT
* * * * * * *
76544 CGTTGC CATTAC CGTTGC CGTTTC CATTGC CATTTC CGTTGC CGTTAC
1 CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC
* * * * * * *
76592 CGTTGC GGTTGC CGTTTC CATTGC CGTTAC TGTTAC CGTTAC CGTTGC
1 CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC
* * * * * * * * * * *
76640 CATTGC CATTTC CATTAC CATTGC CGTTGC CATTAC CATTTC CGTTTC
1 CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC
* * * * * * * * * * *
76688 CGTTGC CATTGC CGTTTC CATTTC CATTAC CATTGC CATTTC CATTAC
1 CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC
* * * * ** * * *
76736 CGTTGC CATTTC CGTTTC CATTTT CATTAC CGTTGC CGTTGC CGTTTC
1 CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC
* * * * * * * *
76784 CATTAC CATTGC CATTTC CGTTTC CATTTC CGTTGC CGTTGC CGTTGC
1 CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC
* * * * * * *
76832 CATTAC CATTGC CGTTGC CGTTGC CGTTGC CATTTC CGTTCC CGTTCC
1 CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC
* * * * * *
76880 CGTTGC CATTTC CATTGC CGTTGC CATTTC CGTTTC CGTTGC C
1 CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC CGTTGC C
76923 ACCCTTATTA
Statistics
Matches: 296, Mismatches: 77, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 296 1.00
ACGTcount: A:0.11, C:0.33, G:0.17, T:0.39
Consensus pattern (6 bp):
CGTTGC
Found at i:76595 original size:30 final size:30
Alignment explanation
Indices: 76546--76923 Score: 189
Period size: 30 Copynumber: 12.6 Consensus size: 30
76536 GTTGGTATCG
* * *
76546 TTGCCATTACCGTTGCCGTTTCCATTGCCA
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
* * * * * * *
76576 TTTCCGTTGCCGTTACCGTTGCGGTTGCCG
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
* * ** * * *
76606 TTTCCATTGCCGTTACTGTTACCGTTACCG
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
* * * * *
76636 TTGCCATTGCCATTTCCATTACCATTGCCG
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
* * * *
76666 TTGCCATTACCATTTCCGTTTCCGTTGCCA
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
* * * * * *
76696 TTGCCGTTTCCATTTCCATTACCATTGCCA
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
* * *
76726 TTTCCATTACCGTTGCCATTTCCGTTTCCA
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
** * * * *
76756 TTTTCATTACCGTTGCCGTTGCCGTTTCCA
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
* * * * * * *
76786 TTACCATTGCCATTTCCGTTTCCATTTCCG
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
* * * *
76816 TTGCCGTTGCCGTTGCCATTACCATTGCCG
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
* * *
76846 TTGCCGTTGCCGTTGCCATTTCCGTTCCCG
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
* * * * *
76876 TTCCCGTTGCCATTTCCATTGCCGTTGCCA
1 TTGCCATTGCCGTTGCCATTTCCGTTGCCA
* * *
76906 TTTCCGTTTCCGTTGCCA
1 TTGCCATTGCCGTTGCCA
76924 CCCTTATTAT
Statistics
Matches: 279, Mismatches: 69, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 279 1.00
ACGTcount: A:0.11, C:0.33, G:0.17, T:0.39
Consensus pattern (30 bp):
TTGCCATTGCCGTTGCCATTTCCGTTGCCA
Found at i:78345 original size:22 final size:22
Alignment explanation
Indices: 78298--78349 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
78288 TTAAGTTTTA
* *
78298 ATTTTAAAATAATTTCAAAACG
1 ATTTTAAAAAAATTTCAAAACC
*
78320 ATTTTAAAAAATATTTC-GAACC
1 ATTTTAAAAAA-ATTTCAAAACC
78342 ATTTTAAA
1 ATTTTAAA
78350 GCCAAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (22 bp):
ATTTTAAAAAAATTTCAAAACC
Done.