Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000904.1 Hibiscus syriacus cultivar Beakdansim tig00001786_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: 106787
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Found at i:7173 original size:15 final size:15
Alignment explanation
Indices: 7155--7185 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7145 AAATTCTAAA
7155 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
7170 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
7185 T
1 T
7186 TTATCTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:11464 original size:18 final size:18
Alignment explanation
Indices: 11441--11501 Score: 95
Period size: 18 Copynumber: 3.3 Consensus size: 18
11431 TAAAGTTCCA
11441 AAGCAAGCTAACGGGGAG
1 AAGCAAGCTAACGGGGAG
11459 AAGCAAGCTAACGGGGAG
1 AAGCAAGCTAACGGGGAG
* *
11477 AAGTAAGCTAACGGGAAG
1 AAGCAAGCTAACGGGGAG
11495 AATGCAA
1 AA-GCAA
11502 CAACTCTCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 36 0.92
19 3 0.08
ACGTcount: A:0.43, C:0.15, G:0.34, T:0.08
Consensus pattern (18 bp):
AAGCAAGCTAACGGGGAG
Found at i:30033 original size:635 final size:634
Alignment explanation
Indices: 28824--30093 Score: 2281
Period size: 635 Copynumber: 2.0 Consensus size: 634
28814 GTGCTGGACT
28824 TAGCCCCTATTCCACGTATAGGTCATTTCAGTCCTAAAGTAGATGAGATGGCAAAGTATCTTCAG
1 TAGCCCCTATTCCACGTATAGGTCATTTCAGTCCTAAAGTAGATGAGATGGCAAAGTATCTTCAG
*
28889 GGTATCCATGAGTAGGTGAAACAAACCATTCATGAGAGCAATACCAAGTACAAGACTCGGGTCGA
66 GGTATCCATGAGCAGGTGAAACAAACCATTCATGAGAGCAATACCAAGTACAAGACTCGGGTCGA
*
28954 CAATCATCGTCGTCAGGTACTTTTTGATGTTGGTGATTTTGTTTGGGCTGTATTAACTCGTGATC
131 CAATCATCGTCGTCAGGTACTTTTTGATGTTGGTGATTTTGTTTCGGCTGTATTAACTCGTGATC
29019 GTTTTCCTATTGGTGAGTATAATAAGCTTAAGGATCAGAAGATCAATAATAACGCTTACAGGTTG
196 GTTTTCCTATTGGTGAGTATAATAAGCTTAAGGATCAGAAGATCAATAATAACGCTTACAGGTTG
29084 CGCCTTCCCAGCCACTTGAAGACTTCTAATGTCTTTAATGTGAAGCACCTGAGTCATTGTTTTGT
261 CGCCTTCCCAGCCACTTGAAGACTTCTAATGTCTTTAATGTGAAGCACCTGAGTCATTGTTTTGT
*
29149 GGATTCTGATGACACTACTCTGAACTCAAGGACGAGCTCTTTCTAACCCGGGGTGACTAATGCAG
326 GGATTCTAATGACACTACTCTGAACTCAAGGACGAGCTCTTTCTAACCCGGGGTGACTAATGCAG
*
29214 GGGGATCCGAGACAGATGATGCTGAGTTGTCATATTGCACCTTGATGGCGCTGAGATACCATGAA
391 GGGGATCCGAGACAGATGATGCTGAGTTGTCAGATTGCACCTTGATGGCGCTGAGATACCATGAA
*
29279 TTGGTAGATCGGCGCAAAGGCGGGAATTGATTGTGACATGTTCCTCATTGGGGTCGTTTTGAGTA
456 TTGGCAGATCGGCGCAAAGGCGGGAATTGATTGTGACATGTTCCTCATTGGGGTCGTTTTGAGTA
* * * * *
29344 TGTTTTAGTCTTTTGGCCATAACTTTGGCTACAGGTGTCAGAATCGCGCATAAGACCCGAATTCG
521 TGTTTCAATCTTTTGGCAATAACTTTGGCTACAGGTGTCAGAATCGCACATAAGACCCCAATTCG
* * * *
29409 GAAAGCTATTTTCGACGCACACGCTCTTC-ACATTGAGCTATGCTCTATA
586 GAAAGCTATTTTCAACGCACACGCT-TTCGAAATTAAGCTATGCTCCATA
*
29458 TAGCCCCTATTCCACGTATAGGTCATTTCAGTCCTAAAGTATATGAGATGGCAAAGTATCTTCAG
1 TAGCCCCTATTCCACGTATAGGTCATTTCAGTCCTAAAGTAGATGAGATGGCAAAGTATCTTCAG
29523 GGTATCCATGAGCAGGTGAAACAAACCATTCATGAGAGCAATACCAAGTACAAGACTCGGGTCGA
66 GGTATCCATGAGCAGGTGAAACAAACCATTCATGAGAGCAATACCAAGTACAAGACTCGGGTCGA
*
29588 CAATCATCGTCGTCAGGTACTTTTTGATGTTGGTGATTTTGTTTTCTGCTGTATTAACTCGTGAT
131 CAATCATCGTCGTCAGGTACTTTTTGATGTTGGTGATTTTG-TTTCGGCTGTATTAACTCGTGAT
* *
29653 CGTTTTCCTATTGGTGAGTATAATAAGCTTAAGGATTAGAAGATCAATGATAACGCTTACAGGTT
195 CGTTTTCCTATTGGTGAGTATAATAAGCTTAAGGATCAGAAGATCAATAATAACGCTTACAGGTT
*
29718 GCGCCTTCCCAGCCACTTGAAGACTTCTGATGTCTTTAATGTGAAGCACCTGAGTCATTGTTTTG
260 GCGCCTTCCCAGCCACTTGAAGACTTCTAATGTCTTTAATGTGAAGCACCTGAGTCATTGTTTTG
* * *
29783 TGGATTCTAATGACACTACTCTGAACTCGAGGACGAGTTCTTTCTAACCCGGGGTGACTGATGCA
325 TGGATTCTAATGACACTACTCTGAACTCAAGGACGAGCTCTTTCTAACCCGGGGTGACTAATGCA
*
29848 GGGGGATCCGAGACAGATGATGCTGAGTTGTCAGATTGCACCTTGATGGCTCTGAGATACCATGA
390 GGGGGATCCGAGACAGATGATGCTGAGTTGTCAGATTGCACCTTGATGGCGCTGAGATACCATGA
29913 ATTGGCAGATCGGCGCAAAGGCGGGAATTGATTGTGACATGTTCCTCATTGGGGTCGTTTTGAGT
455 ATTGGCAGATCGGCGCAAAGGCGGGAATTGATTGTGACATGTTCCTCATTGGGGTCGTTTTGAGT
29978 ATGTTTCAATCTTTTGGCAATAACTTTGGCTACAGGTGTCAGAATCGCACATAAGACCCCAATTC
520 ATGTTTCAATCTTTTGGCAATAACTTTGGCTACAGGTGTCAGAATCGCACATAAGACCCCAATTC
* * *
30043 GGAAAGCTCTTTTCAACTCGCACGCTTTCGAAATTAAGCTATGCTCCATA
585 GGAAAGCTATTTTCAACGCACACGCTTTCGAAATTAAGCTATGCTCCATA
30093 T
1 T
30094 GGCCTTTTTT
Statistics
Matches: 608, Mismatches: 26, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
634 172 0.28
635 436 0.72
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (634 bp):
TAGCCCCTATTCCACGTATAGGTCATTTCAGTCCTAAAGTAGATGAGATGGCAAAGTATCTTCAG
GGTATCCATGAGCAGGTGAAACAAACCATTCATGAGAGCAATACCAAGTACAAGACTCGGGTCGA
CAATCATCGTCGTCAGGTACTTTTTGATGTTGGTGATTTTGTTTCGGCTGTATTAACTCGTGATC
GTTTTCCTATTGGTGAGTATAATAAGCTTAAGGATCAGAAGATCAATAATAACGCTTACAGGTTG
CGCCTTCCCAGCCACTTGAAGACTTCTAATGTCTTTAATGTGAAGCACCTGAGTCATTGTTTTGT
GGATTCTAATGACACTACTCTGAACTCAAGGACGAGCTCTTTCTAACCCGGGGTGACTAATGCAG
GGGGATCCGAGACAGATGATGCTGAGTTGTCAGATTGCACCTTGATGGCGCTGAGATACCATGAA
TTGGCAGATCGGCGCAAAGGCGGGAATTGATTGTGACATGTTCCTCATTGGGGTCGTTTTGAGTA
TGTTTCAATCTTTTGGCAATAACTTTGGCTACAGGTGTCAGAATCGCACATAAGACCCCAATTCG
GAAAGCTATTTTCAACGCACACGCTTTCGAAATTAAGCTATGCTCCATA
Found at i:62061 original size:3 final size:3
Alignment explanation
Indices: 62053--62120 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
62043 TCATTTAAAT
** ** * *
62053 TTA TTA TTA TTA TTA AAA TTA AAA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
62101 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
62121 AATATTACAA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:62126 original size:24 final size:24
Alignment explanation
Indices: 62047--62127 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 24
62037 ATTTTTTCAT
*
62047 TTAAAT-TTATTAT-TATTATTAAAA
1 TTAAATATTATTATATATTATT--TA
62071 TTAAA-ATTATTAGTATTATTA-TTA
1 TTAAATATTATTA-TA-TATTATTTA
*
62095 -TAATTATTATTATATATTATTTA
1 TTAAATATTATTATATATTATTTA
62118 TTAAATATTA
1 TTAAATATTA
62128 CAAAGCCCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
22 5 0.11
23 8 0.17
24 27 0.57
25 1 0.02
26 1 0.02
27 5 0.11
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (24 bp):
TTAAATATTATTATATATTATTTA
Found at i:63961 original size:111 final size:111
Alignment explanation
Indices: 63747--63961 Score: 263
Period size: 111 Copynumber: 1.9 Consensus size: 111
63737 TTTAATATCG
* * *
63747 AAAGAGCTGTCTTAAGGCACCTAAAAGCCATTTTCTGATATTTTTGAATAAATAAATATCTTACT
1 AAAGAGCTGTCTTAAAGCACCTAAAAGCCATTTTCTGATATTTCTAAATAAATAAATATCTTACT
* * * *
63812 ATATTAAAATAAAATGTTTTTGATATTTATTTTTAAATATCAAAGA
66 ATATTAAAATAAAATATTTTTGAAAATTATTTTGAAATATCAAAGA
* * *
63858 AAAGAGCTGTCTTAAAGCACCTAGAAGCCCTTTTCTGATATTTCTAAATAAGTAAATATCTTA-T
1 AAAGAGCTGTCTTAAAGCACCTAAAAGCCATTTTCTGATATTTCTAAATAAATAAATATCTTACT
* * * * *
63922 TTATGTATATTAATATATTTTCTTAAAATTA-TTTGAAATA
66 ATAT-TAAAATAAAATATTTT-TGAAAATTATTTTGAAATA
63962 GTAGAATTAT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
110 4 0.05
111 77 0.89
112 6 0.07
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (111 bp):
AAAGAGCTGTCTTAAAGCACCTAAAAGCCATTTTCTGATATTTCTAAATAAATAAATATCTTACT
ATATTAAAATAAAATATTTTTGAAAATTATTTTGAAATATCAAAGA
Found at i:68854 original size:2 final size:2
Alignment explanation
Indices: 68847--68876 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
68837 TTATCCTTTA
68847 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
68877 CATTTGTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74116 original size:22 final size:22
Alignment explanation
Indices: 74090--74169 Score: 124
Period size: 22 Copynumber: 3.6 Consensus size: 22
74080 TACATCTACA
74090 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
74112 CTCTTCAAAGATGATAGATTCA
1 CTCTTCAAAGATGATAGATTCT
* *
74134 CTTTTTAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
74156 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
74170 AAGCTTTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:74997 original size:166 final size:168
Alignment explanation
Indices: 74684--75015 Score: 490
Period size: 166 Copynumber: 2.0 Consensus size: 168
74674 AAAATGAGCA
* *
74684 TTATCTTGAGATTGGGGCATGTTACCCAATCAATATGATGTTTCCAAAAAAAAAACATAATGAGA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTT-----AAAAAAACATAATGAGA
* **
74749 AAACGATTTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACA
61 AAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACA
* *
74814 ATTTTCTTAGTTTTTTTTACTTAGTAAACTATTTCCAACAACC
126 ATTTCCTTAGTTTTTTTTACTTAATAAACTATTTCCAACAACC
* **
74857 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAA-ATAATGAGAAAACG
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTAAAAAAACATAATGAGAAAACG
*
74920 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
66 ATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACAATTT
74985 CCTTAG-TTTTTTTACTTAATAAACTATTTCC
130 CCTTAGTTTTTTTTACTTAATAAACTATTTCC
75016 CACATCTGTA
Statistics
Matches: 147, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
166 65 0.44
167 42 0.29
173 40 0.27
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (168 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTAAAAAAACATAATGAGAAAACG
ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACAATTTC
CTTAGTTTTTTTTACTTAATAAACTATTTCCAACAACC
Found at i:75198 original size:76 final size:76
Alignment explanation
Indices: 75018--75654 Score: 1134
Period size: 76 Copynumber: 8.4 Consensus size: 76
75008 CTATTTCCCA
75018 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75082 AGCCTTAGGGT
66 AGCCTTAGGGT
*
75093 CATCTGTAAGTCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
75158 AACCTTAGGGT
66 AGCCTTAGGGT
75169 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75233 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
75244 CATCTATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
75309 AACCTTAGGGT
66 AGCCTTAGGGT
*
75320 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGGCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75385 AGCCTTAGGGT
66 AGCCTTAGGGT
75396 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75461 AGCCTTAGGGT
66 AGCCTTAGGGT
*
75472 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
75537 AGCCTTAAGGT
66 AGCCTTAGGGT
75548 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* *
75613 AAACCTTCGGGT
65 AAGCCTTAGGGT
* *
75625 CATCTGTAAGCCCTTCAGTGCATAATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
75655 TCAACATTTC
Statistics
Matches: 537, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
75 128 0.24
76 371 0.69
77 38 0.07
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:75793 original size:3 final size:3
Alignment explanation
Indices: 75785--75852 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
75775 TCATTTAAAT
** ** * *
75785 TTA TTA TTA TTA TTA AAA TTA AAA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
75833 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
75853 AATATTACAA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:75858 original size:24 final size:24
Alignment explanation
Indices: 75779--75859 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 24
75769 ATTTTTTCAT
*
75779 TTAAAT-TTATTAT-TATTATTAAAA
1 TTAAATATTATTATATATTATT--TA
75803 TTAAA-ATTATTAGTATTATTA-TTA
1 TTAAATATTATTA-TA-TATTATTTA
*
75827 -TAATTATTATTATATATTATTTA
1 TTAAATATTATTATATATTATTTA
75850 TTAAATATTA
1 TTAAATATTA
75860 CAAAGCCCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
22 5 0.11
23 8 0.17
24 27 0.57
25 1 0.02
26 1 0.02
27 5 0.11
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (24 bp):
TTAAATATTATTATATATTATTTA
Found at i:77688 original size:111 final size:111
Alignment explanation
Indices: 77481--77688 Score: 242
Period size: 111 Copynumber: 1.9 Consensus size: 111
77471 TCGAAAGAGC
** * *
77481 TGTCTTAAGGCACCTAGAAGCCATTTTCTGATATTTTTGAATAAATAAATATCTTACTATATTAA
1 TGTCTTAAAACACCTAGAAGCCATTTTCTGATATTTCTAAATAAATAAATATCTTACTATATTAA
* * * *
77546 AATAAAATGTTTTTGATATTTATTTTTAAATATCAAAGAAAATAGT
66 AATAAAATATTTTTGAAAATTATTTTGAAATATCAAAGAAAATAGT
* *
77592 TGTCTTAAAACACCTAGAAGCTC-TTTTCTGATATTTCTAAATAAGTAAATATCTTA-TTTATGT
1 TGTCTTAAAACACCTAGAAGC-CATTTTCTGATATTTCTAAATAAATAAATATCTTACTATAT-T
* * * *
77655 ATATTAATATATTTTCTTAAAATTA-TTTGAAATA
64 AAAATAAAATATTTT-TGAAAATTATTTTGAAATA
77689 GTAGTATTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
110 4 0.05
111 69 0.86
112 7 0.09
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (111 bp):
TGTCTTAAAACACCTAGAAGCCATTTTCTGATATTTCTAAATAAATAAATATCTTACTATATTAA
AATAAAATATTTTTGAAAATTATTTTGAAATATCAAAGAAAATAGT
Found at i:80194 original size:12 final size:11
Alignment explanation
Indices: 80170--80281 Score: 64
Period size: 12 Copynumber: 9.4 Consensus size: 11
80160 TTCAAAGAGG
80170 TTTTAT-TTAA
1 TTTTATATTAA
80180 TTTTATATTATA
1 TTTTATATTA-A
* *
80192 TTTGATTTTAA
1 TTTTATATTAA
80203 TTTTAATATTAA
1 TTTT-ATATTAA
* *
80215 TTTTTTAATAAA
1 TTTTAT-ATTAA
**
80227 TTAAATATTAATA
1 TTTTATATT-A-A
80240 TTTTAATATTATA
1 TTTT-ATATTA-A
*
80253 TTATAGATATTAA
1 TT-T-TATATTAA
80266 TTTTAATATTAA
1 TTTT-ATATTAA
80278 TTTT
1 TTTT
80282 TTAAATAAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
10 6 0.08
11 10 0.13
12 39 0.50
13 11 0.14
14 12 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TTTTATATTAA
Found at i:80284 original size:40 final size:37
Alignment explanation
Indices: 80230--80318 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 37
80220 TAATAAATTA
*
80230 AATATTAATATTTTAATATTATATTATAGATATTAA-TTTT
1 AATATTAATATTTTAA-A-TAAATTA-A-ATATTAATTTTT
*
80270 AATATTAATTTTTTAAATAAATTAAATATTAATTTTTT
1 AATATTAATATTTTAAATAAATTAAATATTAA-TTTTT
80308 AATATT-ATATT
1 AATATTAATATT
80319 ATAGATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 7 0.16
37 5 0.11
38 16 0.36
39 1 0.02
40 15 0.34
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (37 bp):
AATATTAATATTTTAAATAAATTAAATATTAATTTTT
Found at i:80308 original size:64 final size:63
Alignment explanation
Indices: 80179--80335 Score: 257
Period size: 64 Copynumber: 2.5 Consensus size: 63
80169 GTTTTATTTA
*
80179 ATTTT-ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTTAATAAATTAAATATTAAT
1 ATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAATAAATTAAATATTAAT
80239 ATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAAT
1 ATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTT-AATAAATTAAATATTAAT
*
80303 TTTTTAATATTATATTATAGATATTTAATTTTA
1 ATTTTAATATTATATTATAGATA-TTAATTTTA
80336 TATCATATAA
Statistics
Matches: 90, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
60 5 0.06
61 10 0.11
62 1 0.01
63 25 0.28
64 40 0.44
65 9 0.10
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (63 bp):
ATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAATAAATTAAATATTAAT
Found at i:80390 original size:20 final size:19
Alignment explanation
Indices: 80330--80391 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
80320 TAGATATTTA
*
80330 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
80349 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
80367 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
80387 ATTTT
1 ATTTT
80392 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:80904 original size:31 final size:31
Alignment explanation
Indices: 80845--80905 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
80835 GTAGTTGTAT
* * **
80845 AAATTATTTAAATTTTAGTATTGTAAAACTA
1 AAATTATTTAAATATCAGTATTACAAAACTA
80876 AAATTATTTAAATATCAGTATTACAAAACT
1 AAATTATTTAAATATCAGTATTACAAAACT
80906 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (31 bp):
AAATTATTTAAATATCAGTATTACAAAACTA
Found at i:91005 original size:23 final size:23
Alignment explanation
Indices: 90962--91005 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
90952 ACATATTAAG
**
90962 TAGCGCTTATATAATGTAATAAA
1 TAGCGCTTATATAATAAAATAAA
90985 TAGCGCTTATATAATAAAATA
1 TAGCGCTTATATAATAAAATA
91006 GGCATTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (23 bp):
TAGCGCTTATATAATAAAATAAA
Found at i:91067 original size:87 final size:87
Alignment explanation
Indices: 90921--91083 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
90911 TATGTTATAT
* *
90921 CATTTAACCGGAAATATTATCAAGTATAATAACATATTAAGTAGCGCTTATATAATGTAATAAAT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTATATAATGTAATAAAT
90986 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* **
91008 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTATATAATGTAATAAAT
91073 AGCGCTTATAT
66 AGCGCTTATAT
91084 TGACCTATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (87 bp):
CATTTAACCGAAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTATATAATGTAATAAAT
AGCGCTTATATAATAAAATAGG
Found at i:91593 original size:199 final size:200
Alignment explanation
Indices: 91131--91636 Score: 709
Period size: 200 Copynumber: 2.5 Consensus size: 200
91121 GTAACACTAC
* * **
91131 AAATTTACCTATTACATTATAATTATCGGTTTCTATTTTTTTGGGATCGATA-TAATTGTAAATG
1 AAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTGTAAATG
* * * *
91195 TATCGACACTTTATGCATGCACCTCGTTGGGCATTCATTATGG-AAAAAAGTATCGACACAAACT
66 TATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTCTGGAAAAAAAGTATCGACACAAACT
* * * * *
91259 TAAAAAGTGTCGATACATTATGGAGAATTATTTTCTCATAAAATCGGTATATTTCTATCGGGTAC
131 TAAAAAGTGTCGATACATTATGGAGAACTATTTTCTCATAAAATCGATAAATTTCTACCGAGTAC
91324 ATTGT
196 ATTGT
* * **
91329 AAATTTATCTATTACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATG
1 AAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTGTAAATG
* *
91394 TATAGACACTTTATGCGTGCACCCCGTTTGGCATTCATTCTGGAAAAAAAGTATCGACAC-AAGT
66 TATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTCTGGAAAAAAAGTATCGACACAAACT
* * * *
91458 TAAACAAGTGTCGATACATTATGTAGACCTATTTTTTCATAAAA-CAGATAAATTTCTACCGATT
131 TAAA-AAGTGTCGATACATTATGGAGAACTATTTTCTCATAAAATC-GATAAATTTCTACCGAGT
91522 ACATTGT
194 ACATTGT
*
91529 AAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTT-GGATCGATACTTTTTGTAAATG
1 AAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTGTAAATG
* *
91593 TATCGACACTTTATACGTGCA-CCCTTTTAGGCATTCATTCTGGA
66 TATCGACACTTTATGCGTGCACCCCGTTT-GGCATTCATTCTGGA
91637 GAACAAGTGT
Statistics
Matches: 273, Mismatches: 30, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
198 54 0.20
199 108 0.40
200 111 0.41
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (200 bp):
AAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTGTAAATG
TATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTCTGGAAAAAAAGTATCGACACAAACT
TAAAAAGTGTCGATACATTATGGAGAACTATTTTCTCATAAAATCGATAAATTTCTACCGAGTAC
ATTGT
Found at i:94287 original size:19 final size:19
Alignment explanation
Indices: 94263--94310 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
94253 TTACATTCAC
94263 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
* *
94282 ATACAAAATTATGAATTGT
1 ATACAAAATTATAAATCGT
*
94301 ATACAGAATT
1 ATACAAAATT
94311 TCCCATACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:96260 original size:196 final size:196
Alignment explanation
Indices: 95926--96884 Score: 1333
Period size: 196 Copynumber: 4.9 Consensus size: 196
95916 GCGTAATTTA
* * * *
95926 AAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGATCTATTTTTGAATTAACCA
1 AAAAAGTATCAACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTCGAATTAACCG
*
95991 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTCGATGTTGT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTCGATGTTTT
*
96056 TGGGATCGATACAATTTTAAATATATCGACACTTTATGAGTGCACCCAAAGGCATTCATTCTGGA
131 TGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCACCCAAAGGCATTCATTCTGGA
96121 C
196 C
* * * * * *
96122 AAAAAGTTTCAATACAAATTCCATAAGTGTTGATACATTATGTATACCTATTTTCGAATTAACCG
1 AAAAAGTATCAACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTCGAATTAACCG
* *
96187 GTATATTTCGACCGGTTACATTGTAAATTTACATATTACATTATAATTAACTTATTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTCGATGTTTT
* ***
96252 TGGGATCGATACAAATTTAAATGTATCGACACTTTATGAGTGCACCCCTTTTGGGCATTCATTCT
131 TGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCA-CCC--AAAGGCATTCATTCT
96317 GGAC
193 GGAC
* * * *
96321 AAAAACTATCAACACAAGTTACACAAGTGTCAATACATTATGTAGACTTATTTTCGAATTAACCG
1 AAAAAGTATCAACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTCGAATTAACCG
96386 GTATATTT-TACCGGTTACATCT-TAAATTTACCTATTACATTATAATTAACTTATTCGATGTTT
66 GTATATTTCTACCGGTTACAT-TGTAAATTTACCTATTACATTATAATTAACTTATTCGATGTTT
*
96449 CTGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCACCCAAAGGCATTCATTCTGG
130 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCACCCAAAGGCATTCATTCTGG
96514 AC
195 AC
* *
96516 AAAAAGTATCGACACAAGTTCCATAAGTGTCGATACATTATGTAGACCTATTTTCGAATTAACCG
1 AAAAAGTATCAACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTCGAATTAACCG
* * * *
96581 GTATATTTCGACCGGTTACATTATAAATTTACATATTACATTATAATTAACTTATTCGATGTTTC
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTCGATGTTTT
* * ***
96646 TAGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCACCC-----CTTTTGGGCTCTG
131 TGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCACCCAAAGGC-ATT-CATTCTG
96706 GAC
194 GAC
* * ** * * *
96709 AAAAATTATCGACACAAGTTAAACAAGTGTTGATAC-TTATGTAGACCTATTTTGGAATTAATCG
1 AAAAAGTATCAACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTCGAATTAACCG
* * * * *
96773 GTATATGTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTTGGTGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTCGATGTTTT
* ** *
96838 TGGGATCAATA-TTTTTAATAAATGTATCGACACTTTATGTGTGCACC
131 TGGGATCGATACAATTT--TAAATGTATCGACACTTTATGAGTGCACC
96885 TTGGTTGGGC
Statistics
Matches: 684, Mismatches: 69, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
191 4 0.01
192 93 0.14
193 66 0.10
195 84 0.12
196 257 0.38
197 6 0.01
198 94 0.14
199 80 0.12
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (196 bp):
AAAAAGTATCAACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTCGAATTAACCG
GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTCGATGTTTT
TGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCACCCAAAGGCATTCATTCTGGA
C
Found at i:96667 original size:394 final size:387
Alignment explanation
Indices: 95926--96884 Score: 1476
Period size: 394 Copynumber: 2.4 Consensus size: 387
95916 GCGTAATTTA
* * *
95926 AAAAAGTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGA-TCTATTTTTGAATTAACC
1 AAAAACTATCGACACAAGTTACACAAGTGTCGATACATTATGTAGACT-TATTTTCGAATTAACC
*
95990 AGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTCGATGTTG
65 GGTATATTT-TACCGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTCGATGTT-
*
96055 TTGGGATCGATACAATTTTAAATATATCGACACTTTATGAGTGCACCCAAAGGCATTCATTCTGG
128 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCACCCAAAGGCATTCATTCTGG
* * * *
96120 ACAAAAAGTTTCAATACAAATTCCATAAGTGTTGATACATTATGTATACCTATTTTCGAATTAAC
193 ACAAAAAGTATCAACACAAATTCCATAAGTGTCGATACATTATGTAGACCTATTTTCGAATTAAC
*
96185 CGGTATATTTCGACCGGTTACATTGTAAATTTACATATTACATTATAATTAACTTATTCGATGTT
258 CGGTATATTTCGACCGGTTACATTATAAATTTACATATTACATTATAATTAACTTATTCGATGTT
* *
96250 TTTGGGATCGATACAAATTTAAATGTATCGACACTTTATGAGTGCACCCCTTTTGGGCATTCATT
323 TCTAGGATCGATACAAATTTAAATGTATCGACACTTTATGAGTGCACCCCTTTTGGG----C--T
96315 CTGGAC
382 CTGGAC
* *
96321 AAAAACTATCAACACAAGTTACACAAGTGTCAATACATTATGTAGACTTATTTTCGAATTAACCG
1 AAAAACTATCGACACAAGTTACACAAGTGTCGATACATTATGTAGACTTATTTTCGAATTAACCG
96386 GTATATTTTACCGGTTACATCT-TAAATTTACCTATTACATTATAATTAACTTATTCGATGTTTC
66 GTATATTTTACCGGTTACAT-TGTAAATTTACCTATTACATTATAATTAACTTATTCGATGTTT-
96450 TGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCACCCAAAGGCATTCATTCTGGA
129 TGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCACCCAAAGGCATTCATTCTGGA
* *
96515 CAAAAAGTATCGACACAAGTTCCATAAGTGTCGATACATTATGTAGACCTATTTTCGAATTAACC
194 CAAAAAGTATCAACACAAATTCCATAAGTGTCGATACATTATGTAGACCTATTTTCGAATTAACC
96580 GGTATATTTCGACCGGTTACATTATAAATTTACATATTACATTATAATTAACTTATTCGATGTTT
259 GGTATATTTCGACCGGTTACATTATAAATTTACATATTACATTATAATTAACTTATTCGATGTTT
*
96645 CTAGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCACCCCTTTTGGGCTCTGGAC
324 CTAGGATCGATACAAATTTAAATGTATCGACACTTTATGAGTGCACCCCTTTTGGGCTCTGGAC
* * * * * *
96709 AAAAATTATCGACACAAGTTAAACAAGTGTTGATAC-TTATGTAGACCTATTTTGGAATTAATCG
1 AAAAACTATCGACACAAGTTACACAAGTGTCGATACATTATGTAGACTTATTTTCGAATTAACCG
* * * *
96773 GTATATGTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTTGGTGTTTT
66 GTATAT-TTTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTCGATG-TTT
* ** *
96838 TGGGATCAATA-TTTTTAATAAATGTATCGACACTTTATGTGTGCACC
129 TGGGATCGATACAATTT--TAAATGTATCGACACTTTATGAGTGCACC
96885 TTGGTTGGGC
Statistics
Matches: 523, Mismatches: 33, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
387 35 0.07
388 96 0.18
389 31 0.06
390 1 0.00
393 1 0.00
394 292 0.56
395 66 0.13
396 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (387 bp):
AAAAACTATCGACACAAGTTACACAAGTGTCGATACATTATGTAGACTTATTTTCGAATTAACCG
GTATATTTTACCGGTTACATTGTAAATTTACCTATTACATTATAATTAACTTATTCGATGTTTTG
GGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCACCCAAAGGCATTCATTCTGGACA
AAAAGTATCAACACAAATTCCATAAGTGTCGATACATTATGTAGACCTATTTTCGAATTAACCGG
TATATTTCGACCGGTTACATTATAAATTTACATATTACATTATAATTAACTTATTCGATGTTTCT
AGGATCGATACAAATTTAAATGTATCGACACTTTATGAGTGCACCCCTTTTGGGCTCTGGAC
Found at i:101496 original size:200 final size:201
Alignment explanation
Indices: 100995--101730 Score: 1171
Period size: 201 Copynumber: 3.7 Consensus size: 201
100985 TTTAAAAAGG
* * * * *
100995 TACCGACACAAA-TTACACATGTGTCGATACATTATGTTGACC-GTTTTTTTAATTAAACCGGTA
1 TACCGACACAAATTTA-AAAAGTGTCGATACATTATGTTGACCTGCTTTTCTAATTAAACCGATA
*
101058 TATTTATACCGGTTACATTGCAAAATTACCTATTACATTAAAATTATGGGTTTTGATGTTTTTGG
65 TATTTATACCGGTTACATTGCAAAATTACCTATTACATTAAAATTATGGGTTTCGATGTTTTTGG
* *
101123 GATCGATACTTTTTATAAATGTATCGACACTTTATGGGTGCACCTAGTTTGGGCACAGATTCTAG
130 GATCGATACTTTTTATAAATGTATCGACACTTTATGGGTGCACCTAGTTTGGGCATACATTCTAG
101188 ACAATAAGA
195 ACAA-AA-A
* * *
101197 -ACCGAAACAAAATTAAAAAGTGTCGATACATTAAGTTGA-CTGCTTTTCTAATTAAACCGATAT
1 TACCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTGCTTTTCTAATTAAACCGATAT
*
101260 ATTTATACCGGTTACATTGCAAAATTACCTATTACATTAAAATTATGGGTTTTGATGTTTTTGGG
66 ATTTATACCGGTTACATTGCAAAATTACCTATTACATTAAAATTATGGGTTTCGATGTTTTTGGG
*
101325 ATCGATACTTTTTATAAATGTATCGACACTTTAT-GGTACACCTAGTTTGGGCATACATTCTAGA
131 ATCGATACTTTTTATAAATGTATCGACACTTTATGGGTGCACCTAGTTTGGGCATACATTCTAGA
101389 CAAGAAA
196 CAA-AAA
*
101396 TACTGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTG-TTTTCTAATTAAACCGATAT
1 TACCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTGCTTTTCTAATTAAACCGATAT
*
101460 ATTTATACCGGTTACATTGCAAAATTACCTATTACATTAAAATTATAGGTTTCGATGTTTTTGGG
66 ATTTATACCGGTTACATTGCAAAATTACCTATTACATTAAAATTATGGGTTTCGATGTTTTTGGG
* * *
101525 ATCGATACTTTTTATAAATGTATCAACACTTTATGGGTGCATCTAGTTTGGGCATACATTCTGGA
131 ATCGATACTTTTTATAAATGTATCGACACTTTATGGGTGCACCTAGTTTGGGCATACATTCTAGA
101590 CAAAAA
196 CAAAAA
* * * *
101596 GTACCGACACAAATTTAAAAAGTGTCGATACATTATATTGACCTG-TTTTCTGATTAAACTGGTA
1 -TACCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTGCTTTTCTAATTAAACCGATA
*
101660 TATTTATACCGGTTACATTACAAAATTACCTATTACATTAAAATTATGGGTTTCGATGTTTTTGG
65 TATTTATACCGGTTACATTGCAAAATTACCTATTACATTAAAATTATGGGTTTCGATGTTTTTGG
101725 GATCGA
130 GATCGA
101731 ATCTCGGCCT
Statistics
Matches: 500, Mismatches: 28, Indels: 13
0.92 0.05 0.02
Matches are distributed among these distances:
199 1 0.00
200 187 0.37
201 309 0.62
202 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (201 bp):
TACCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTGCTTTTCTAATTAAACCGATAT
ATTTATACCGGTTACATTGCAAAATTACCTATTACATTAAAATTATGGGTTTCGATGTTTTTGGG
ATCGATACTTTTTATAAATGTATCGACACTTTATGGGTGCACCTAGTTTGGGCATACATTCTAGA
CAAAAA
Found at i:102914 original size:182 final size:181
Alignment explanation
Indices: 102606--103207 Score: 922
Period size: 180 Copynumber: 3.3 Consensus size: 181
102596 TACGCCTACT
* * * *
102606 TATTAATGTATCGACACTTTCAACATATCCGGTAGCGCTTTACTGATTTTGTCATTTATAGACCG
1 TATTAATGTATCGACACCTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTATAGACCG
102671 TTTT-TGCAATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
66 TTTTGT-C-ATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
* *
102735 TTTATAAGCGCTATTATTGCTCCTCTTTTAAATTCCAAAAGTGTCGATACTTA
129 TTTATAGGCGCTATTACTGCTCCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
102788 TATTAATGTATCGACACCTTCAATATATCCGATAGCGCTTTACCGGTTTTGTCATTTTTAGACCA
1 TATTAATGTATCGACACCTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTATAGACC-
* * * *
102853 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATTGATACATTTTTATAAATTATCGACAC-
65 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
* *
102917 -TATAGGCGCCATTACTGCTCCTCTTTTAAATTCCAAAGGTGTCGATACTTA
130 TTATAGGCGCTATTACTGCTCCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * * **
102968 TATTAATGTATCAACACTTTTAACATATCCGGTAGCGCTTTGTCGGTTTTGTCATTTATAGACCG
1 TATTAATGTATCGACACCTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTATAGACCG
* *
103033 ATTTTGGCATTTTTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACAC
66 -TTTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
* *
103098 TTTATAGGCGCTATTACTGTTCCCCTTTTAAATTCCAAAAGTGTCGATACTTA
129 TTTATAGGCGCTATTACTGCTCCTCTTTTAAATTCCAAAAGTGTCGATACTTA
103151 TATTAATGTATCGACACCTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTT
1 TATTAATGTATCGACACCTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTT
103208 TTTTGCCTGT
Statistics
Matches: 376, Mismatches: 38, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
179 1 0.00
180 110 0.29
181 50 0.13
182 110 0.29
183 104 0.28
184 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (181 bp):
TATTAATGTATCGACACCTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTATAGACCG
TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
TATAGGCGCTATTACTGCTCCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:103310 original size:162 final size:162
Alignment explanation
Indices: 103029--103914 Score: 631
Period size: 182 Copynumber: 5.1 Consensus size: 162
103019 TCATTTATAG
* * *
103029 ACCGATTTTGGCATTTTTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCG
1 ACCGGTTTTGTCA-TTTTTTTACCTGTTATATTATTATGGATCGATACAATTTTATAAAGTATCG
* *
103094 ACACTTTATAGGCGCTATTACTGTTCCCCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATG
65 ACACTTTATAGGCGCCATTACTGCTCCCCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATG
103159 TATCGACACCTTCAACATATCCGATAGCGCTTT
130 TATCGACACCTTCAACATATCCGATAGCGCTTT
* * *
103192 ACCGGTTTTGTCATTTTTTTGCCTGTTATATTGTTATGGATTGATACAATTTTATAAAGTATCGA
1 ACCGGTTTTGTCATTTTTTTACCTGTTATATTATTATGGATCGATACAATTTTATAAAGTATCGA
* * * *
103257 TACTTTATAGGCGCCATTACTGCTCCTCTTTTAAATTCTAAAGGTGTCGATACTTATATTAATGT
66 CACTTTATAGGCGCCATTACTGCTCCCCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATGT
* * * *
103322 ATCGACACTTTTAACATATCTGGTAGCGCTTT
131 ATCGACACCTTCAACATATCCGATAGCGCTTT
* * * ** * * *
103354 ATCGGTTTTGTTATTTATAGACCAATTTTGTCATTTTTTTACATGTTATATTGTTATGGATCGAT
1 ACCGGTTTTGTCATTTTTTTACC-----TG---TTATATT--A---T-TA-TG---G--ATCGAT
* ** * * * *
103419 ACATTTTTATAAAGTATCGACACTTTATAAACGCTATTATTGTTCCTCTTTTAAATTCCAAAAGT
46 ACAATTTTATAAAGTATCGACACTTTATAGGCGCCATTACTGCTCCCCTTTTAAATTCCAAAAGT
* * *
103484 GTCGATACTTATATTAATGTATCGACACTTTCAACATATCTGGTAGCGCTTT
111 GTCGATACTTATATTAATGTATCGACACCTTCAACATATCCGATAGCGCTTT
* * * * * * *
103536 ATCGGTTTTGTTATTTATAGACAAATTTTGTCATTTTTTTACCTGT-TATATTGTTATGGATCGA
1 ACCGGTTTTGTCA-TT-T-------TTTT-AC-CTGTTATA--T-TAT-TA-TG---G--ATCGA
* ** * * * *
103600 TACATTTTTATAAAGTATCGACACTTTATAAACGCTATTATTGTTCCTCTTTTAAATTCCAAAAG
45 TACAATTTTATAAAGTATCGACACTTTATAGGCGCCATTACTGCTCCCCTTTTAAATTCCAAAAG
* *
103665 TGTCGATACTTATATTAATGTATCGATACCTTCCACATATCCGATAGCGCTTT
110 TGTCGATACTTATATTAATGTATCGACACCTTCAACATATCCGATAGCGCTTT
* * ** *
103718 ACCGATTTTGTCATTTGTAGACCAGTTTTGTTATTTTTTACTTGTTATATTGTTATGGATCGATA
1 ACCGGTTTTGTCATTTTTTTACC-----TGTTA-----TA-TT-AT-TA-TG-----GATCGATA
* * * *
103783 CATTTTTATAAAGTATTGACACTTTATAGGCGCCATTACTGCTCCTCTTTTAAATTCCAAAGGTG
47 CAATTTTATAAAGTATCGACACTTTATAGGCGCCATTACTGCTCCCCTTTTAAATTCCAAAAGTG
* * *
103848 TTGATACTTATATTAATGTATCGACACTTTCAACATATCCGGTAGCGCTTT
112 TCGATACTTATATTAATGTATCGACACCTTCAACATATCCGATAGCGCTTT
** *
103899 GTCAGTTTTGTCATTT
1 ACCGGTTTTGTCATTT
103915 ATAGACCGAT
Statistics
Matches: 597, Mismatches: 78, Indels: 78
0.79 0.10 0.10
Matches are distributed among these distances:
162 152 0.25
163 11 0.02
167 2 0.00
170 5 0.01
172 1 0.00
173 1 0.00
175 1 0.00
176 5 0.01
177 2 0.00
179 1 0.00
180 3 0.01
181 134 0.22
182 266 0.45
183 3 0.01
184 1 0.00
185 4 0.01
187 1 0.00
188 2 0.00
191 1 0.00
192 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (162 bp):
ACCGGTTTTGTCATTTTTTTACCTGTTATATTATTATGGATCGATACAATTTTATAAAGTATCGA
CACTTTATAGGCGCCATTACTGCTCCCCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATGT
ATCGACACCTTCAACATATCCGATAGCGCTTT
Found at i:103504 original size:182 final size:182
Alignment explanation
Indices: 103197--103985 Score: 1186
Period size: 182 Copynumber: 4.3 Consensus size: 182
103187 GCTTTACCGG
* * * *
103197 TTTTGTCATTTTTTTGCCTGTTATATTGTTATGGATTGATACAATTTTATAAAGTATCGATACTT
1 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
** * *
103262 TATAGGCGCCATTACTGCTCCTCTTTTAAATTCTAAAGGTGTCGATACTTATATTAATGTATCGA
66 TATAAACGCCATTACTGCTCCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATGTATCGA
* * *
103327 CACTTTTAACATATCTGGTAGCGCTTTATCGGTTTTGTTATTTATAGACCAA
131 CACTTTCAACATATCCGGTAGCGCTTTATCGGTTTTGTCATTTATAGACCAA
*
103379 TTTTGTCATTTTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
1 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
* * *
103444 TATAAACGCTATTATTGTTCCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATGTATCGA
66 TATAAACGCCATTACTGCTCCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATGTATCGA
* * *
103509 CACTTTCAACATATCTGGTAGCGCTTTATCGGTTTTGTTATTTATAGACAAA
131 CACTTTCAACATATCCGGTAGCGCTTTATCGGTTTTGTCATTTATAGACCAA
103561 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
1 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
* * *
103626 TATAAACGCTATTATTGTTCCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATGTATCGA
66 TATAAACGCCATTACTGCTCCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATGTATCGA
* * * * * * * *
103691 TACCTTCCACATATCCGATAGCGCTTTACCGATTTTGTCATTTGTAGACCAG
131 CACTTTCAACATATCCGGTAGCGCTTTATCGGTTTTGTCATTTATAGACCAA
* * *
103743 TTTTGTTA-TTTTTTACTTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATTGACACTT
1 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
** * *
103807 TATAGGCGCCATTACTGCTCCTCTTTTAAATTCCAAAGGTGTTGATACTTATATTAATGTATCGA
66 TATAAACGCCATTACTGCTCCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATGTATCGA
* * *
103872 CACTTTCAACATATCCGGTAGCGCTTTGTCAGTTTTGTCATTTATAGACCGA
131 CACTTTCAACATATCCGGTAGCGCTTTATCGGTTTTGTCATTTATAGACCAA
* * *
103924 TTTTGGCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATACAGTATCAACAC
1 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
103986 AAACCGACAA
Statistics
Matches: 554, Mismatches: 53, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
181 209 0.38
182 345 0.62
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (182 bp):
TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
TATAAACGCCATTACTGCTCCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAATGTATCGA
CACTTTCAACATATCCGGTAGCGCTTTATCGGTTTTGTCATTTATAGACCAA
Found at i:104296 original size:36 final size:36
Alignment explanation
Indices: 104255--104326 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
104245 CAACAAAGGC
104255 AAATAGATGGTTACCGTGGAACCATAGGTCGATGTT
1 AAATAGATGGTTACCGTGGAACCATAGGTCGATGTT
104291 AAATAGATGGTTACCGTGGAACCATAGGTCGATGTT
1 AAATAGATGGTTACCGTGGAACCATAGGTCGATGTT
104327 TTATCTTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (36 bp):
AAATAGATGGTTACCGTGGAACCATAGGTCGATGTT
Done.