Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000849.1 Hibiscus syriacus cultivar Beakdansim tig00001638_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: 97836
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2034 original size:16 final size:16
Alignment explanation
Indices: 2013--2045 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2003 TAATAAATAA
2013 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
2029 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
2045 A
1 A
2046 ATTTTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:3321 original size:3 final size:3
Alignment explanation
Indices: 3313--3451 Score: 216
Period size: 3 Copynumber: 47.7 Consensus size: 3
3303 AAAATTTACT
3313 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
3361 TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* *
3406 TAA T-A TAA TAA TGA TAT TAA TAA TAA TAA -AA -AA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3450 TA
1 TA
3452 TTATTTAACG
Statistics
Matches: 127, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
2 10 0.08
3 114 0.90
4 3 0.02
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3821 original size:134 final size:134
Alignment explanation
Indices: 3581--5008 Score: 1455
Period size: 134 Copynumber: 10.7 Consensus size: 134
3571 GAAATATGAT
* * * * **
3581 GAGGGATCTGTTTCGTTTCTTCTTGAGGGAAAATCATATCTGGGGACGTTGATTAATTCCACTGT
1 GAGGGATATGTTCCCTTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATCCATTCCACTGT
**
3646 CACTCAGGGAAGATTCTATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGA
3711 AAGA
131 AAGA
* * *
3715 GAGGGATATGTTCCCTTTTTTATTGAGGGAAAATCAGATATGGGGGA-GTTGATCCATTCCACTG
1 GAGGGATATGTTCCCTTTCTTCTTGAGGGAAAATCAGATCT-GGGGACGTTGATCCATTCCACTG
* * * *
3779 TCACTCAGGGAAGATTGAATCGAGGAAGTCTTGTTTCACTGTTACTCAGAGAATATCAAATCTTG
65 TCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTG
*
3844 AAAAA
130 AAAGA
* ** * * * *
3849 GAGGGATATATTCTATTTCTTCTTGAGGGAAAATCAAATCTGGGGATGTTGATACATTTCACTGT
1 GAGGGATATGTTCCCTTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATCCATTCCACTGT
* * * * * ***
3914 CACTTAGGGAAGATTAAATCGAGGCAAACTTATTCCACTGTTACTAAAAAAATATCAAATCTTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGA
3979 AAGA
131 AAGA
* * * * * *
3983 GATGGATATGTTCCGC-TTCTTTTTGAGGGAAAATCAGATCTGTGGATGTTGATCTATTCTACTG
1 GAGGGATATGTTCC-CTTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATCCATTCCACTG
* * *
4047 TCACTCGGGGAAGATTGAATCGAGGCAGACTTATTCCATTGTTACTC-GGGAAATATCAAATCTT
65 TCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGG-AATATCAAATCTT
4111 GAAAGA
129 GAAAGA
* * * * * ** * * *
4117 GATGAATATGTTCCATTTCTTTTTTAGGGAAAATCAGATCTTTGGATGTTGATTCATTCTACTGT
1 GAGGGATATGTTCCCTTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATCCATTCCACTGT
* *
4182 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATATTGA
66 CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGA
4247 AAGA
131 AAGA
** *
4251 GAGATATATGTTCCAC-TTCTTCTTGAGGG-AAATCAGATATGGGGGA-GTTGATCCATTCCACT
1 GAGGGATATGTTCC-CTTTCTTCTTGAGGGAAAATCAGATCT-GGGGACGTTGATCCATTCCACT
*
4313 GTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACT-TTCACTCGGGGAATATCAAATCT
64 GTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTT-ACTCAGGGAATATCAAATCT
*
4377 CGAAAGA
128 TGAAAGA
* * ** * * *
4384 G-GGGTATCTGTTTCGGTTCTTCTTGAGGGAAAATTAGATCTGGGGGA-GTTGACCCATTCCAAT
1 GAGGG-ATATGTTCCCTTTCTTCTTGAGGGAAAATCAGATCT-GGGGACGTTGATCCATTCCACT
* * * *
4447 ATCACTCAGGGAAAACTGAATCGAGGTAGACTTGTTCCACT-TTCACTCAGGGAATATCAAATCT
64 GTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTT-ACTCAGGGAATATCAAATCT
**
4511 CAAAAGA
128 TGAAAGA
* * * *
4518 GGGGGATATGTTCCAC-TTCTTCTTGAGGGAAAATCATATATGGGGGA-GTTGACCCATTCCACT
1 GAGGGATATGTTCC-CTTTCTTCTTGAGGGAAAATCAGATCT-GGGGACGTTGATCCATTCCACT
* * * * * * * *
4581 GTCACTCAGGAAAGACTAAATCGAGGCAAACATGTTCCACTGTCACTCAAGGAATATCAAATATT
64 GTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTT
4646 GAAAGA
129 GAAAGA
* ** * * * * * *
4652 GAGGGATCTGTTTTGC-TTCTACTTGAGGGAAAAATTAGATATAGGGACATTGATTCATTCCACT
1 GAGGGATATG-TTCCCTTTCTTCTTGAGGG-AAAATCAGATCTGGGGACGTTGATCCATTCCACT
* ** * * ** * * *
4716 ATTGCTCAAGGAAGATTGCATCGAGATAGATTTGTTCCACTGTTACTTAAGGAATATCAAATCTT
64 GTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTT
* *
4781 AAAATA
129 GAAAGA
* * * * * * *
4787 GAGGGATTTGTTCCAC-TTCTTCTAGAGGAAAAATCAAATCTGGAGACGTTGATTCATTCCACTA
1 GAGGGATATGTTCC-CTTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATCCATTCCACTG
* * ** * * *
4851 TCACTCAAGGAAGATTGAATCAAATCAGACTTGTTCTACTGTTACTTAGGGAATATCAAATCATG
65 TCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTG
4916 AAAGA
130 AAAGA
* * * * * * * * * * *
4921 GAGTGATTTGTTTCGC-TTCTTCTTAAGGGAAAATCATATCTAGAGAGGTTGATTCATTCTACTA
1 GAGGGATATG-TTCCCTTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATCCATTCCACTG
*
4985 TCACTTAGGGAAGATTGAATCGAG
65 TCACTCAGGGAAGATTGAATCGAG
5009 TTCAATTCGC
Statistics
Matches: 1091, Mismatches: 183, Indels: 40
0.83 0.14 0.03
Matches are distributed among these distances:
132 2 0.00
133 115 0.11
134 861 0.79
135 113 0.10
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (134 bp):
GAGGGATATGTTCCCTTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATCCATTCCACTGT
CACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGA
AAGA
Found at i:6736 original size:2 final size:2
Alignment explanation
Indices: 6731--6770 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6721 TGTGTGTGTG
6731 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
6771 ATTTCCTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18950 original size:2 final size:2
Alignment explanation
Indices: 18933--18994 Score: 74
Period size: 2 Copynumber: 31.5 Consensus size: 2
18923 AGAAAAATTA
* *
18933 AT AT AT CT AT AC 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
*
18975 A- AT GAT AT A- AG AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT A
18995 ATAAAAATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
1 2 0.04
2 48 0.92
3 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:18998 original size:14 final size:14
Alignment explanation
Indices: 18933--19017 Score: 70
Period size: 14 Copynumber: 6.1 Consensus size: 14
18923 AGAAAAATTA
* *
18933 ATATATCTATACAT
1 ATATATATATAAAT
18947 ATATATATAT--AT
1 ATATATATATAAAT
*
18959 ATATATATATATAT
1 ATATATATATAAAT
18973 ATA-ATGATATAAGAT
1 ATATAT-ATATAA-AT
*
18988 ATATATA-ATAAAA
1 ATATATATATAAAT
19001 ATAATATAATATAAAT
1 AT-ATAT-ATATAAAT
19017 A
1 A
19018 AAAAAAGGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
12 12 0.20
13 5 0.08
14 27 0.46
15 7 0.12
16 8 0.14
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (14 bp):
ATATATATATAAAT
Found at i:19007 original size:25 final size:27
Alignment explanation
Indices: 18959--19009 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
18949 ATATATATAT
* *
18959 ATATATATATATATATAATGATATAAG
1 ATATATATATATATAAAATAATATAAG
18986 ATATATATA-ATA-AAAATAATATAA
1 ATATATATATATATAAAATAATATAA
19010 TATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
ATATATATATATATAAAATAATATAAG
Found at i:19018 original size:14 final size:15
Alignment explanation
Indices: 18945--19017 Score: 73
Period size: 14 Copynumber: 5.1 Consensus size: 15
18935 ATATCTATAC
*
18945 ATATAT-ATATATAT
1 ATATATAATATAAAT
*
18959 ATATAT-ATATATAT
1 ATATATAATATAAAT
*
18973 ATA-ATGATATAAGAT
1 ATATATAATATAA-AT
*
18988 ATATATAATAAAAAT
1 ATATATAATATAAAT
19003 A-ATATAATATAAAT
1 ATATATAATATAAAT
19017 A
1 A
19018 AAAAAAGGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
13 2 0.04
14 35 0.67
15 8 0.15
16 7 0.13
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
ATATATAATATAAAT
Found at i:19029 original size:23 final size:21
Alignment explanation
Indices: 18986--19044 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
18976 ATGATATAAG
* *
18986 ATATATATAATAAAAATAATAT
1 ATATAAATAA-AAAAAGAATAT
19008 AATATAAATAAAAAAAGGAATAT
1 -ATATAAATAAAAAAA-GAATAT
*
19031 A-GTAAATAAAAAAA
1 ATATAAATAAAAAAA
19045 TATAATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 12 0.38
22 6 0.19
23 14 0.44
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.25
Consensus pattern (21 bp):
ATATAAATAAAAAAAGAATAT
Found at i:19057 original size:20 final size:20
Alignment explanation
Indices: 18989--19058 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
18979 ATATAAGATA
18989 TATATAATAAAAATAATATAA-
1 TATA-AATAAAAA-AATATAAT
**
19010 TATAAATAAAAAAA-GGAAT
1 TATAAATAAAAAAATATAAT
19029 ATAGTAAATAAAAAAATATAAT
1 -TA-TAAATAAAAAAATATAAT
*
19051 TAAAAATA
1 TATAAATA
19059 TGTATATAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 15 0.38
21 18 0.45
22 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
TATAAATAAAAAAATATAAT
Found at i:20253 original size:78 final size:78
Alignment explanation
Indices: 20167--20325 Score: 318
Period size: 78 Copynumber: 2.0 Consensus size: 78
20157 ACCATTACAC
20167 GTTGAGGAGGGTGTGGATTGCAAGTAGATTTGGAATTTGTAGGTTCCTCAATGAGTTAAAATTTT
1 GTTGAGGAGGGTGTGGATTGCAAGTAGATTTGGAATTTGTAGGTTCCTCAATGAGTTAAAATTTT
20232 CTTTTGGATCGTG
66 CTTTTGGATCGTG
20245 GTTGAGGAGGGTGTGGATTGCAAGTAGATTTGGAATTTGTAGGTTCCTCAATGAGTTAAAATTTT
1 GTTGAGGAGGGTGTGGATTGCAAGTAGATTTGGAATTTGTAGGTTCCTCAATGAGTTAAAATTTT
20310 CTTTTGGATCGTG
66 CTTTTGGATCGTG
20323 GTT
1 GTT
20326 CATGGTAAAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.39
Consensus pattern (78 bp):
GTTGAGGAGGGTGTGGATTGCAAGTAGATTTGGAATTTGTAGGTTCCTCAATGAGTTAAAATTTT
CTTTTGGATCGTG
Found at i:21737 original size:18 final size:19
Alignment explanation
Indices: 21695--21734 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
21685 TTTGGTTCAC
21695 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAG-G
*
21715 GGAATGTAAGATTATCAGG
1 GGAATGTAAGATTACCAGG
21734 G
1 G
21735 AATAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.35, C:0.07, G:0.33, T:0.25
Consensus pattern (19 bp):
GGAATGTAAGATTACCAGG
Found at i:26522 original size:18 final size:19
Alignment explanation
Indices: 26499--26537 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
26489 GTAGAAAGGT
* *
26499 AATAAAAGCGATTAAA-TA
1 AATAAAAACAATTAAAGTA
26517 AATAAAAACAATTAAAGTA
1 AATAAAAACAATTAAAGTA
26536 AA
1 AA
26538 AATAAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (19 bp):
AATAAAAACAATTAAAGTA
Found at i:29888 original size:2 final size:2
Alignment explanation
Indices: 29883--30024 Score: 62
Period size: 2 Copynumber: 68.5 Consensus size: 2
29873 AACAATTAGA
29883 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
29922 AT GT AT GAT GA- AT GT -T AT GAT ACT CT AT AT AT A- AT TT AT AT
1 AT AT AT -AT -AT AT AT AT AT -AT A-T AT AT AT AT AT AT AT AT AT
* * * *
29963 ACT CAT AGT TT AT AT AGT TT AT AT AT AGT TT AT AT TT AT AT ACT
1 A-T -AT A-T AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT A-T
*
30007 AT AT AT AA ACT AT AT AT A
1 AT AT AT AT A-T AT AT AT A
30025 GTTTGTATAC
Statistics
Matches: 107, Mismatches: 17, Indels: 32
0.69 0.11 0.21
Matches are distributed among these distances:
1 6 0.06
2 85 0.79
3 15 0.14
4 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:30554 original size:103 final size:100
Alignment explanation
Indices: 30415--30695 Score: 250
Period size: 101 Copynumber: 2.8 Consensus size: 100
30405 AATTCAACTT
* * * * * *
30415 GTGTTCATCTTTATTAATCC-CTAAAATCCTCGTTTGATCTGTACAAACACCAAAACCAAAGATC
1 GTGTTCATCTGTGTTCATCCTC-AAAACCCTCATTTGATCT-TACAAACACCAAAACCAAAGACC
* *
30479 AAACCTAT-TTTTTTCGATCAAACACCCAAAACTC-AACCC
64 AAA--TATGTTTTTTCGATCAAA-ACCCAAAAC-CAAAACA
* * * *
30518 GTGTTCATCTTTTGTTCATCCTC-AAACCCTTATTTGATCATTACAAACACCCAAACCTAAGACC
1 GTGTTCATC-TGTGTTCATCCTCAAAACCCTCATTTGATC-TTACAAACACCAAAACCAAAGACC
* * *
30582 CAATATGTTTTTTGGATCAAAACCCAAGACCAAAACA
64 AAATATGTTTTTTCGATCAAAACCCAAAACCAAAACA
* * *
30619 TTGTTCATCTGTGTTCATCCTCAAAACCCTCATTTAATCCTTTCAAACACCCAAAACC-AAGACC
1 GTGTTCATCTGTGTTCATCCTCAAAACCCTCATTTGAT-CTTACAAACA-CCAAAACCAAAGACC
*
30683 -CATCATGTTTTTT
64 AAAT-ATGTTTTTT
30696 TATATCAAAC
Statistics
Matches: 149, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
100 15 0.10
101 58 0.39
102 21 0.14
103 44 0.30
104 10 0.07
105 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.31
Consensus pattern (100 bp):
GTGTTCATCTGTGTTCATCCTCAAAACCCTCATTTGATCTTACAAACACCAAAACCAAAGACCAA
ATATGTTTTTTCGATCAAAACCCAAAACCAAAACA
Found at i:30706 original size:101 final size:101
Alignment explanation
Indices: 30519--30704 Score: 252
Period size: 101 Copynumber: 1.8 Consensus size: 101
30509 ACTCAACCCG
* * *
30519 TGTTCATCTTTTGTTCATCCTCAAACCCTTATTTGATCATTACAAACACCCAAACCTAAGACCCA
1 TGTTCATCTTGTGTTCATCCTCAAACCCTCATTTAATCATTACAAACACCCAAACCTAAGACCCA
*
30584 ATATGTTTTTTGGATCAAAACCCAAGACCAAAACAT
66 ATATGTTTTTTAGATCAAAACCCAAGACCAAAACAT
* *
30620 TGTTCATC-TGTGTTCATCCTCAAAACCCTCATTTAATCCTTTCAAACACCCAAAACC-AAGACC
1 TGTTCATCTTGTGTTCATCCTC-AAACCCTCATTTAATCATTACAAACACCC-AAACCTAAGACC
*
30683 C-ATCATGTTTTTTTATATCAAA
64 CAAT-ATG-TTTTTTAGATCAAA
30705 CCTCATACCT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
100 14 0.19
101 43 0.58
102 17 0.23
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.32
Consensus pattern (101 bp):
TGTTCATCTTGTGTTCATCCTCAAACCCTCATTTAATCATTACAAACACCCAAACCTAAGACCCA
ATATGTTTTTTAGATCAAAACCCAAGACCAAAACAT
Found at i:30871 original size:46 final size:46
Alignment explanation
Indices: 30812--30912 Score: 150
Period size: 46 Copynumber: 2.2 Consensus size: 46
30802 TATCTTCTTA
* *
30812 TTCTCTAATCCTAAATCTAACCAAGACTCTTCTTATTCTGTTCATC
1 TTCTCTAACCCTAAATCTAACCAAGACTCCTCTTATTCTGTTCATC
* * *
30858 TTCTCTAACCCTAAATCTAACCGAGACTCCTCTTTTTCTGTTCGTC
1 TTCTCTAACCCTAAATCTAACCAAGACTCCTCTTATTCTGTTCATC
30904 TTC-CTAACC
1 TTCTCTAACC
30913 GAGATTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 6 0.12
46 44 0.88
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.40
Consensus pattern (46 bp):
TTCTCTAACCCTAAATCTAACCAAGACTCCTCTTATTCTGTTCATC
Found at i:31044 original size:46 final size:46
Alignment explanation
Indices: 30972--31072 Score: 148
Period size: 46 Copynumber: 2.2 Consensus size: 46
30962 CATCTTCTTC
* * * *
30972 TTCTCTAACCGTAAATCTAACTGAGACTCTTATTCTTATGTTTATA
1 TTCTCTAACCCTAAATCTAACCGAGACTCTTATTCTTATATTCATA
* *
31018 TTCTCTAACCCTAAATCTAACCGAGACTCTTATTCTTCTATTCATT
1 TTCTCTAACCCTAAATCTAACCGAGACTCTTATTCTTATATTCATA
31064 TTCTCTAAC
1 TTCTCTAAC
31073 TGAAACTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.43
Consensus pattern (46 bp):
TTCTCTAACCCTAAATCTAACCGAGACTCTTATTCTTATATTCATA
Found at i:34585 original size:19 final size:19
Alignment explanation
Indices: 34561--34597 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
34551 TTATAAACTT
34561 AAAATCTCACAACTTCATC
1 AAAATCTCACAACTTCATC
*
34580 AAAATCTCACAATTTCAT
1 AAAATCTCACAACTTCAT
34598 TAGTGATAAT
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:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATCTCACAACTTCATC
Found at i:34980 original size:48 final size:48
Alignment explanation
Indices: 34871--34984 Score: 122
Period size: 48 Copynumber: 2.4 Consensus size: 48
34861 TAGTTCAGAA
* * *
34871 TCGAATTGGTTTCGGATCACCACCGCTCAGTTCACAAACAATTTTGAC
1 TCGAATTGGTTTCAGATCACCACCACTCAGATCACAAACAATTTTGAC
* *** * * *
34919 TCAAATCAATTTCAGATCACCCCCATTCAGATCACAAACAGTTTTGAC
1 TCGAATTGGTTTCAGATCACCACCACTCAGATCACAAACAATTTTGAC
*
34967 TCGAGTTGGTTTCA-ATCA
1 TCGAATTGGTTTCAGATCA
34985 TGTTTACATG
Statistics
Matches: 51, Mismatches: 15, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
47 4 0.08
48 47 0.92
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (48 bp):
TCGAATTGGTTTCAGATCACCACCACTCAGATCACAAACAATTTTGAC
Found at i:35131 original size:15 final size:14
Alignment explanation
Indices: 35111--35141 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
35101 TAATCTACTT
35111 TTTAATTTTATAATA
1 TTTAATTTTAT-ATA
35126 TTTAATTTTATATA
1 TTTAATTTTATATA
35140 TT
1 TT
35142 ATATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTAATTTTATATA
Found at i:35919 original size:89 final size:90
Alignment explanation
Indices: 35810--35986 Score: 295
Period size: 91 Copynumber: 2.0 Consensus size: 90
35800 TTGCGTAAGT
35810 GAGGTACTATTACTTG-TATATATATCCTAAATAAATTTAGATGAGTGATTATAATATAAATGAA
1 GAGGTACTATTACTTGATATATATATCCTAAATAAATTTAGATGAGTGATTATAATATAAATGAA
*
35874 GTTAGGTAAAATTTGAAATTTAAAGC
66 GTTAGATAAAATTTG-AATTTAAAGC
*
35900 GAGG-ACTATTACTTGTATATATATATCCTAAATAAATTTAGATGAGTGATTATAATATAACTGA
1 GAGGTACTATTACTTG-ATATATATATCCTAAATAAATTTAGATGAGTGATTATAATATAAATGA
*
35964 AGTTAGATAAATTTTGAATTTAA
65 AGTTAGATAAAATTTGAATTTAA
35987 TATTTTAGAG
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
89 11 0.13
90 11 0.13
91 60 0.73
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (90 bp):
GAGGTACTATTACTTGATATATATATCCTAAATAAATTTAGATGAGTGATTATAATATAAATGAA
GTTAGATAAAATTTGAATTTAAAGC
Found at i:37465 original size:17 final size:17
Alignment explanation
Indices: 37443--37488 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
37433 TTATCGATAC
*
37443 TAGTATCGATACTTGCA
1 TAGTATCGATACTTGAA
37460 TAGTATCGATACTTGAA
1 TAGTATCGATACTTGAA
*
37477 TAATATCGATAC
1 TAGTATCGATAC
37489 CAATTTTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (17 bp):
TAGTATCGATACTTGAA
Found at i:43098 original size:28 final size:28
Alignment explanation
Indices: 43028--43087 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
43018 AACAATTACA
* *
43028 TAATTATATTATATAAAAAATAAATAAG
1 TAATAATATAATATAAAAAATAAATAAG
*
43056 TAATAATATAATATAAAAATTAAATAA-
1 TAATAATATAATATAAAAAATAAATAAG
43083 TAATA
1 TAATA
43088 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (28 bp):
TAATAATATAATATAAAAAATAAATAAG
Found at i:46114 original size:2 final size:2
Alignment explanation
Indices: 46060--46099 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
46050 AGTACTCAAA
46060 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
46100 TTATGGTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54685 original size:29 final size:30
Alignment explanation
Indices: 54653--54711 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
54643 AGGGCCTTTA
54653 ATTTTAATATTT-TATATTTTAATC-CTATT
1 ATTTTAAT-TTTATATATTTTAATCACTATT
* *
54682 ATTTTAATTTTATTTATTTTAGTCACTATT
1 ATTTTAATTTTATATATTTTAATCACTATT
54712 TAATTCCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.63
Consensus pattern (30 bp):
ATTTTAATTTTATATATTTTAATCACTATT
Found at i:54695 original size:14 final size:14
Alignment explanation
Indices: 54661--54702 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
54651 TAATTTTAAT
54661 ATTTTA-TATTTTA
1 ATTTTATTATTTTA
**
54674 ATCCTATTATTTTA
1 ATTTTATTATTTTA
54688 ATTTTATTTATTTTA
1 ATTTTA-TTATTTTA
54703 GTCACTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 4 0.17
14 11 0.48
15 8 0.35
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTATTATTTTA
Found at i:54700 original size:15 final size:15
Alignment explanation
Indices: 54653--54702 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
54643 AGGGCCTTTA
*
54653 ATTTTAATATTT-TAT
1 ATTTTAAT-TTTATTT
**
54668 ATTTTAATCCTA-TT
1 ATTTTAATTTTATTT
54682 ATTTTAATTTTATTT
1 ATTTTAATTTTATTT
54697 ATTTTA
1 ATTTTA
54703 GTCACTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTTAATTTTATTT
Found at i:54759 original size:15 final size:13
Alignment explanation
Indices: 54740--54773 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
54730 ATTATTATCT
54740 TTTTAATTTCAATA
1 TTTTAATTT-AATA
54754 TGTTTAATTTAATA
1 T-TTTAATTTAATA
54768 TTTTAA
1 TTTTAA
54774 ATATTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 6 0.32
15 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (13 bp):
TTTTAATTTAATA
Found at i:54794 original size:2 final size:2
Alignment explanation
Indices: 54787--54822 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
54777 TTATTTATTC
54787 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
54823 GATTAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55008 original size:2 final size:2
Alignment explanation
Indices: 55001--55050 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
54991 AGTCATATTA
55001 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
55043 AT AT AT AT
1 AT AT AT AT
55051 GAAAGATTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55018 original size:40 final size:41
Alignment explanation
Indices: 54925--55018 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 41
54915 AATATCTTAG
* * * * *
54925 TATACATATATAATTATTTTAGTTCTATTCAAATTATTATA
1 TATATATATATATTTATTTTAATTCTAGTCAAATTAATATA
* * *
54966 T-TATATTTTATATTTA-TTTAATTTTAGTCATATTAATATA
1 TATATA-TATATATTTATTTTAATTCTAGTCAAATTAATATA
55006 TATATATATATAT
1 TATATATATATAT
55019 ATATATATAT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
40 29 0.69
41 13 0.31
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (41 bp):
TATATATATATATTTATTTTAATTCTAGTCAAATTAATATA
Found at i:55207 original size:2 final size:2
Alignment explanation
Indices: 55195--55251 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
55185 ATATCATGCT
* *
55195 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55237 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
55252 TTACTTCATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:74220 original size:65 final size:65
Alignment explanation
Indices: 74116--74258 Score: 209
Period size: 65 Copynumber: 2.2 Consensus size: 65
74106 TCTTAGAACC
* * *
74116 ACTCAATTTTCCCGAAATAAAATAATAATGTTACCTTTAGCATG-AGTTG-GTTCTTTACTGAGT
1 ACTCAATTTTCCCGAAACAAAATAATAATGTTACCTTTAGCA-GCAG-CGAGTTCTCTACTGAGT
74179 CA
64 CA
* *
74181 ACTCAATTTTCCCGAAACAAAATAATAATGTTGCCTTTAGCAGCAGCGAGTTCTCTAGTGAGTCA
1 ACTCAATTTTCCCGAAACAAAATAATAATGTTACCTTTAGCAGCAGCGAGTTCTCTACTGAGTCA
74246 ACTCAATTTTCCC
1 ACTCAATTTTCCC
74259 ATTCTAGTGA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
64 2 0.03
65 69 0.97
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (65 bp):
ACTCAATTTTCCCGAAACAAAATAATAATGTTACCTTTAGCAGCAGCGAGTTCTCTACTGAGTCA
Found at i:75871 original size:19 final size:18
Alignment explanation
Indices: 75843--75879 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
75833 TTTCGAGGAA
75843 GAATTAGGGAAGAAGAGG
1 GAATTAGGGAAGAAGAGG
75861 GAATATAGGGAAGAAGAGG
1 GAAT-TAGGGAAGAAGAGG
75880 TTCAAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.43, T:0.11
Consensus pattern (18 bp):
GAATTAGGGAAGAAGAGG
Found at i:83206 original size:24 final size:24
Alignment explanation
Indices: 83179--83227 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
83169 TATATCAAAA
*
83179 ATCAAAACATAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
* *
83203 ATCATATCAGAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
83227 A
1 A
83228 ACATATTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAAATCAGGTCAAGT
Found at i:83232 original size:24 final size:24
Alignment explanation
Indices: 83193--83311 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 24
83183 AAACATAAAT
83193 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCATATCAG-AATC
* *
83217 CAGGTCAAGTAACATATTAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* *
83241 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
*
83265 CATGTC-AGATATCATATCAGAATC
1 CAGGTCAAG-TATCATATCAGAATC
* *
83289 CATGTCAAGTATCAGATCAGAAT
1 CAGGTCAAGTATCATATCAGAAT
83312 TCAAATCGAA
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
23 5 0.06
24 76 0.92
25 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAGAATC
Found at i:87958 original size:24 final size:24
Alignment explanation
Indices: 87931--87982 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
87921 AACGGATATA
*
87931 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
87955 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
87979 TCAA
1 TCAA
87983 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:87983 original size:24 final size:24
Alignment explanation
Indices: 87951--88069 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
87941 AAACATAAAT
*
87951 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCAGATCAG-AATC
*
87975 CAGGTCAAGTAACAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
87999 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
88023 CATGTC-AGATATCAGATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
*
88047 CATGTCAAGTATCAGATCAGAAT
1 CAGGTCAAGTATCAGATCAGAAT
88070 TCAAATCGAA
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
23 5 0.06
24 80 0.92
25 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:88085 original size:48 final size:48
Alignment explanation
Indices: 87987--88087 Score: 141
Period size: 48 Copynumber: 2.1 Consensus size: 48
87977 GGTCAAGTAA
** *
87987 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCATGTCAGATAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAAT
* *
88035 CAGATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATC-GAAAAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAG-AAAT
88083 CAGAT
1 CAGAT
88088 AAAATATTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.02
48 46 0.98
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.23
Consensus pattern (48 bp):
CAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAAAT
Found at i:90556 original size:17 final size:18
Alignment explanation
Indices: 90534--90570 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
90524 TCAAAGTTTT
*
90534 GGTCAACAA-TGGTCAAC
1 GGTCAACAACGGGTCAAC
90551 GGTCAACAACGGGTCAAC
1 GGTCAACAACGGGTCAAC
90569 GG
1 GG
90571 GTCGGGTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.32, C:0.24, G:0.30, T:0.14
Consensus pattern (18 bp):
GGTCAACAACGGGTCAAC
Found at i:90584 original size:18 final size:18
Alignment explanation
Indices: 90563--90597 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
90553 TCAACAACGG
90563 GTCAACGGGTCGGGTCGA
1 GTCAACGGGTCGGGTCGA
*
90581 GTCAATGGGTCGGGTCG
1 GTCAACGGGTCGGGTCG
90598 GGTCGGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.20, G:0.46, T:0.20
Consensus pattern (18 bp):
GTCAACGGGTCGGGTCGA
Found at i:92183 original size:64 final size:65
Alignment explanation
Indices: 92040--92202 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 65
92030 AATTGTTTAG
* * * *
92040 TGTGTATTGATGCACAGGAAGTGCATCGATGCACCCCTTAAAAAATGGAAACATCGAATGCAATT
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCTTAAAAAATGAAAACATCGAAGGCAATT
* * * * * *
92105 GGTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCTT-TAAGATGAAAACATCGAAGGTAAT
1 TGTGTATCGATGCAT-AGGAAGTGCATCGATGCACCCCTTAAAAAATGAAAACATCGAAGGCAAT
92168 T
65 T
* *
92169 TGTGTATCGATGCATGGGTAGTGCATCGATGCAC
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCAC
92203 ATGTTAAAGA
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
63 2 0.02
64 47 0.57
65 30 0.37
66 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (65 bp):
TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCTTAAAAAATGAAAACATCGAAGGCAATT
Found at i:93746 original size:23 final size:23
Alignment explanation
Indices: 93685--93738 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
93675 ATATGGAACA
*
93685 TCGGTGCAATTCTACGCGGTACT
1 TCGGTGCAATTCTACGCGGCACT
* *
93708 TCGATGCAATTCTACGTGGCACT
1 TCGGTGCAATTCTACGCGGCACT
93731 TCGGTGCA
1 TCGGTGCA
93739 TTTATACGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.30
Consensus pattern (23 bp):
TCGGTGCAATTCTACGCGGCACT
Found at i:97297 original size:20 final size:23
Alignment explanation
Indices: 97252--97306 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
97242 GCATGGGTAG
97252 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACATGTT-AAGAA
97276 TGCATCGATGCAC-TG-T-AGAA
1 TGCATCGATGCACATGTTAAGAA
97296 TGCATTCGATG
1 TGCA-TCGATG
97307 AACTTCAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.27
21 6 0.20
22 1 0.03
23 2 0.07
24 13 0.43
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (23 bp):
TGCATCGATGCACATGTTAAGAA
Done.