Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003701.1 Hibiscus syriacus cultivar Beakdansim tig00007915_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: 316188
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:4054 original size:18 final size:18
Alignment explanation
Indices: 4031--4065 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4021 AGTATAGTAG
4031 AAATAATCA-CTAGACCGT
1 AAATAAT-AGCTAGACCGT
4049 AAATAATAGCTAGACCG
1 AAATAATAGCTAGACCG
4066 ACTCTGATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (18 bp):
AAATAATAGCTAGACCGT
Found at i:5044 original size:17 final size:19
Alignment explanation
Indices: 5022--5068 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
5012 TTGGAAGAGT
*
5022 GTTTTGGGATATAT-C-GG
1 GTTTTGGGATATATACTAG
* *
5039 GTTTTGGTATCTATACTAG
1 GTTTTGGGATATATACTAG
5058 GTTTTGGGATA
1 GTTTTGGGATA
5069 CATATGATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 12 0.52
18 1 0.04
19 10 0.43
ACGTcount: A:0.19, C:0.06, G:0.30, T:0.45
Consensus pattern (19 bp):
GTTTTGGGATATATACTAG
Found at i:6036 original size:20 final size:20
Alignment explanation
Indices: 6011--6081 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
6001 TCTGGACAAG
6011 TAGTATCGATATTGTTCATA
1 TAGTATCGATATTGTTCATA
*
6031 TAGTATCGATA--GCTCATGAA
1 TAGTATCGATATTGTTCAT--A
* * *
6051 CAATACCGATATTGTTCATA
1 TAGTATCGATATTGTTCATA
*
6071 TGGTATCGATA
1 TAGTATCGATA
6082 CCAAAGGTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
18 5 0.13
20 28 0.74
22 5 0.13
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (20 bp):
TAGTATCGATATTGTTCATA
Found at i:9203 original size:19 final size:19
Alignment explanation
Indices: 9167--9203 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9157 TGAAAATGAT
*
9167 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
9186 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
9204 ATAAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:12726 original size:32 final size:32
Alignment explanation
Indices: 12690--12750 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
12680 TCCAAATGTA
*
12690 ACACTGACACTCTTGTGCATTATCTGAATACT
1 ACACTAACACTCTTGTGCATTATCTGAATACT
** * *
12722 ACACTAACTTTGTTGTGCATTGTCTGAAT
1 ACACTAACACTCTTGTGCATTATCTGAAT
12751 GCACCCCTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (32 bp):
ACACTAACACTCTTGTGCATTATCTGAATACT
Found at i:15817 original size:104 final size:103
Alignment explanation
Indices: 15669--16112 Score: 377
Period size: 104 Copynumber: 4.3 Consensus size: 103
15659 CTTAAGTGAC
* ** * * *
15669 ACGAAA-TTTGTTTCAAGAGAAACAATATCAAGTG-GTATACATTTTTCT-TTTTGAGTGAAATG
1 ACGAAATTTTGTTTCAAGGGAAACAACCTCAAGTGAG-ATAAATTTTT-TATTTCGAGTGAAATA
* * * * *
15731 ATC-CTGAAGTTTGTATTTCGATGGAAACTGTCTTGAGCGAG
64 ATCTC-AAAGTTTGTGTTTCAAGGGAAACTGTCTCGAG-GAG
* * **
15772 A-GAAAATTTTGTTTCAAGGGAAACAACCTCAAGCGAGATAAATTTTTTGTTTCGAGTGAAGCAA
1 ACG-AAATTTTGTTTCAAGGGAAACAACCTCAAGTGAGATAAATTTTTTATTTCGAGTGAAATAA
* * * * * * *
15836 ACTGAAAGTTTGTGTTTCAAAGGATATTCTCTCAAGAGAG
65 TCTCAAAGTTTGTGTTTCAAGGGAAACTGTCTCGAG-GAG
* * * * * *
15876 ATGAAATTTT-TCTTTAAGGGAAACAACCTCAAGTGAGATAATTTTTTTTGTTTCGAGTGTAACA
1 ACGAAATTTTGT-TTCAAGGGAAACAACCTCAAGTGAGATAA-ATTTTTTATTTCGAGTGAAATA
**
15940 ATCTCAAAGTTTACGTTTCAAGGGAAACTGTCTCGAGTGAG
64 ATCTCAAAGTTTGTGTTTCAAGGGAAACTGTCTCGAG-GAG
* * *
15981 AC---ATTTTTTTTCAAGAGAAACAACCTCAAGTGAGATAAATTTTTTATTTCAAGTGAAATAAT
1 ACGAAATTTTGTTTCAAGGGAAACAACCTCAAGTGAGATAAATTTTTTATTTCGAGTGAAATAAT
* * * * *
16043 CTCAAAATTTTTGTTTCAAGGGAAACTATATTGAGTGAG
66 CTCAAAGTTTGTGTTTCAAGGGAAACTGTCTCGAG-GAG
*
16082 ACGAAA-TTTGTTTCAAGGGAAACAATCTCAA
1 ACGAAATTTTGTTTCAAGGGAAACAACCTCAA
16113 TGTTTTGAAA
Statistics
Matches: 276, Mismatches: 53, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
101 54 0.20
102 33 0.12
103 29 0.11
104 107 0.39
105 53 0.19
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (103 bp):
ACGAAATTTTGTTTCAAGGGAAACAACCTCAAGTGAGATAAATTTTTTATTTCGAGTGAAATAAT
CTCAAAGTTTGTGTTTCAAGGGAAACTGTCTCGAGGAG
Found at i:16079 original size:101 final size:101
Alignment explanation
Indices: 15777--16112 Score: 343
Period size: 101 Copynumber: 3.3 Consensus size: 101
15767 GCGAGAGAAA
* * * *
15777 ATTTTGTTTCAAGGGAAACAACCTCAAGCGAGATAAATTTTTTGTTTCGAGTGAAGCAAACTGAA
1 ATTTTGTTTCAAGGGAAACAACCTCAAGTGAGATAAATTTTTTGTTTCGAGTGAAACAATCTCAA
* * * * * *
15842 AGTTTGTGTTTCAAAGGATATTCTCTCA-AGAGAGATGAA
66 AGTTTATGTTTCAAGGGA-A-ACTAT-ATAGAGTGA-GAC
* * *
15881 ATTTT-TCTTTAAGGGAAACAACCTCAAGTGAGATAATTTTTTTTGTTTCGAGTGTAACAATCTC
1 ATTTTGT-TTCAAGGGAAACAACCTCAAGTGAGATAA-ATTTTTTGTTTCGAGTGAAACAATCTC
* * * *
15945 AAAGTTTACGTTTCAAGGGAAACTGTCTCGAGTGAGAC
64 AAAGTTTATGTTTCAAGGGAAACTATATAGAGTGAGAC
* * * * *
15983 ATTTTTTTTCAAGAGAAACAACCTCAAGTGAGATAAATTTTTTATTTCAAGTGAAATAATCTCAA
1 ATTTTGTTTCAAGGGAAACAACCTCAAGTGAGATAAATTTTTTGTTTCGAGTGAAACAATCTCAA
* * *
16048 AATTTTTGTTTCAAGGGAAACTATATTGAGTGAGAC
66 AGTTTATGTTTCAAGGGAAACTATATAGAGTGAGAC
* *
16084 GAAATTTGTTTCAAGGGAAACAATCTCAA
1 --ATTTTGTTTCAAGGGAAACAACCTCAA
16113 TGTTTTGAAA
Statistics
Matches: 193, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
101 54 0.28
102 34 0.18
103 33 0.17
104 33 0.17
105 39 0.20
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (101 bp):
ATTTTGTTTCAAGGGAAACAACCTCAAGTGAGATAAATTTTTTGTTTCGAGTGAAACAATCTCAA
AGTTTATGTTTCAAGGGAAACTATATAGAGTGAGAC
Found at i:25416 original size:20 final size:20
Alignment explanation
Indices: 25374--25429 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
25364 CAAAACAAAC
25374 TAAAAGTATCGATACTAGCG
1 TAAAAGTATCGATACTAGCG
* ***
25394 TAAGAGTATCGATACTCTTG
1 TAAAAGTATCGATACTAGCG
*
25414 TAAAAGTTTCGATACT
1 TAAAAGTATCGATACT
25430 TTATATAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
TAAAAGTATCGATACTAGCG
Found at i:27843 original size:16 final size:17
Alignment explanation
Indices: 27819--27862 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
27809 AAAATTGGTT
27819 TTCAAGTCTTCAACAAC
1 TTCAAGTCTTCAACAAC
27836 TT-AAGTCTAT-AACAAC
1 TTCAAGTCT-TCAACAAC
27852 TTCAA-TCTTCA
1 TTCAAGTCTTCA
27863 CGTAAGCTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 1 0.04
16 18 0.75
17 5 0.21
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (17 bp):
TTCAAGTCTTCAACAAC
Found at i:31277 original size:19 final size:22
Alignment explanation
Indices: 31253--31306 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 22
31243 TGCAAAAATG
31253 GTATTGATACCATA-T-TAG-A
1 GTATTGATACCATAGTATAGTA
*
31272 GTATTGGTACCATAGTATAGTA
1 GTATTGATACCATAGTATAGTA
*
31294 GTATCGATACCAT
1 GTATTGATACCAT
31307 GGTAGGGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 13 0.45
20 1 0.03
21 3 0.10
22 12 0.41
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (22 bp):
GTATTGATACCATAGTATAGTA
Found at i:31737 original size:54 final size:54
Alignment explanation
Indices: 31652--32040 Score: 481
Period size: 54 Copynumber: 7.2 Consensus size: 54
31642 AAATAGACAT
* * * *
31652 TAAGTGTGCAAAGTGCAAAATTCATCGTATGTTGATGAATAACCATTTCGGCAC
1 TAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCAC
* *** * * ** *
31706 TTAGTACACAAAGTACGGAATCCATCATATGTTGATGAATAATTGTTTCAGCAC
1 TAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCAC
* * * * * *
31760 TAAGTGTTCAAAGTACGGAATTCATCATATGATGATGAATAATCGTCTCAGCAC
1 TAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCAC
* * * *
31814 TAAGTGTGCAAATTACAAAATTCATCATATGTTGATGAATAACCATTTCGACAC
1 TAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCAC
* * *
31868 TCAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAGCCGTTTAGGCAC
1 TAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCAC
* *
31922 TAAGTGTGCAAAGTATGAAATTCATCATATGTTGATGAATAACTGTTTCGGCAC
1 TAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCAC
* ** *
31976 TACGTGTGCAAAGTACTTAATTCATCATATGTTGATGAATAACCATTTCGGCAC
1 TAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCAC
*
32030 TATGTGTGCAA
1 TAAGTGTGCAA
32041 CCCATAGAAT
Statistics
Matches: 285, Mismatches: 50, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 285 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (54 bp):
TAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCAC
Found at i:31924 original size:162 final size:161
Alignment explanation
Indices: 31652--32040 Score: 530
Period size: 162 Copynumber: 2.4 Consensus size: 161
31642 AAATAGACAT
* * ***
31652 TAAGTGTGCAAAGTGCAAAATTCATCGTATGTTGATGAATAACCATTTCGGCACTTAGTACACAA
1 TAAGTGTGCAAAGTACAAAATTCATCATATGTTGATGAATAACCATTTCGGCAC-TAGTGTGCAA
* ** * *
31717 AGTACGGAATCCATCATATGTTGATGAATAATTGTTTCAGCACTAAGTGTTCAAAGTACGGAATT
65 AGTACGAAATCCATCATATGTTGATGAATAACCGTTTCAGCACTAAGTGTGCAAAGTACGAAATT
31782 CATCATATGATGATGAATAA-TCGTCTCAGCAC
130 CATCATATGATGATGAATAACT-GTCTCAGCAC
* *
31814 TAAGTGTGCAAATTACAAAATTCATCATATGTTGATGAATAACCATTTCGACACTCAGTGTGCAA
1 TAAGTGTGCAAAGTACAAAATTCATCATATGTTGATGAATAACCATTTCGGCACT-AGTGTGCAA
* * *
31879 AGTACGAAATTCATCATATGTTGATGAATAGCCGTTT-AGGCACTAAGTGTGCAAAGTATGAAAT
65 AGTACGAAATCCATCATATGTTGATGAATAACCGTTTCA-GCACTAAGTGTGCAAAGTACGAAAT
* * *
31943 TCATCATATGTTGATGAATAACTGTTTCGGCAC
129 TCATCATATGATGATGAATAACTGTCTCAGCAC
* **
31976 TACGTGTGCAAAGTACTTAATTCATCATATGTTGATGAATAACCATTTCGGCACTATGTGTGCAA
1 TAAGTGTGCAAAGTACAAAATTCATCATATGTTGATGAATAACCATTTCGGCACTA-GTGTGCAA
32041 CCCATAGAAT
Statistics
Matches: 200, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
161 3 0.01
162 196 0.98
163 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (161 bp):
TAAGTGTGCAAAGTACAAAATTCATCATATGTTGATGAATAACCATTTCGGCACTAGTGTGCAAA
GTACGAAATCCATCATATGTTGATGAATAACCGTTTCAGCACTAAGTGTGCAAAGTACGAAATTC
ATCATATGATGATGAATAACTGTCTCAGCAC
Found at i:32083 original size:108 final size:108
Alignment explanation
Indices: 31655--32093 Score: 312
Period size: 108 Copynumber: 4.1 Consensus size: 108
31645 TAGACATTAA
* * * * * *** **
31655 GTGTGCAAAGTGCAAAATTCATCGTATGTTGATGAATAACCATTTCGGCACTTAGTACACAAAGT
1 GTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTAGGCACTAAGTGTGCAAACC
* * * * ** ** * *
31720 ACGGAATCCATCATATGTTGATGAATAATTGTTTCA-GCACTAA
66 ATGAAATTCATAATATGTTGATGAATAACCG-TAGAGGCACCAC
* * * * * * *
31763 GTGTTCAAAGTACGGAATTCATCATATGATGATGAATAATCGTCTCA-GCACTAAGTGTGCAAAT
1 GTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCAT-TTAGGCACTAAGTGTGCAAAC
* ** * * *** *
31827 TACAAAATTCATCATATGTTGATGAATAACCATTTCGACACTCA-
65 CATGAAATTCATAATATGTTGATGAATAACCGTAGAGGCAC-CAC
* * **
31871 GTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAGCCGTTTAGGCACTAAGTGTGCAAAGT
1 GTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTAGGCACTAAGTGTGCAAACC
* * *** *
31936 ATGAAATTCATCATATGTTGATGAATAACTGTTTCGGCACTAC
66 ATGAAATTCATAATATGTTGATGAATAACCGTAGAGGCACCAC
** * * *
31979 GTGTGCAAAGTACTTAATTCATCATATGTTGATGAATAACCATTTCGGCACTATGTGTGCAACCC
1 GTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTAGGCACTAAGTGTGCAAACC
* *
32044 AT-AGAATTCATAATGA-GTTTATGAATGACCGTAGAGGCACCAC
66 ATGA-AATTCATAAT-ATGTTGATGAATAACCGTAGAGGCACCAC
*
32087 GGGTGCA
1 GTGTGCA
32094 TCATAATGAA
Statistics
Matches: 268, Mismatches: 56, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
107 6 0.02
108 259 0.97
109 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (108 bp):
GTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTAGGCACTAAGTGTGCAAACC
ATGAAATTCATAATATGTTGATGAATAACCGTAGAGGCACCAC
Found at i:32380 original size:91 final size:91
Alignment explanation
Indices: 32270--32450 Score: 344
Period size: 91 Copynumber: 2.0 Consensus size: 91
32260 GACATCGAAG
* *
32270 CAAGGATCGTCTCGTCAGTAACATTATGACATACATGTCTACTTTTTGATGTTTTTAGTTGGCAA
1 CAAGGATCGTCTCATCAGTAACATTATGACATACATGTCTACTTTTTGATGTATTTAGTTGGCAA
32335 GTAATACATTTAGTAAAAACACTCTA
66 GTAATACATTTAGTAAAAACACTCTA
32361 CAAGGATCGTCTCATCAGTAACATTATGACATACATGTCTACTTTTTGATGTATTTAGTTGGCAA
1 CAAGGATCGTCTCATCAGTAACATTATGACATACATGTCTACTTTTTGATGTATTTAGTTGGCAA
32426 GTAATACATTTAGTAAAAACACTCT
66 GTAATACATTTAGTAAAAACACTCT
32451 GAAAAACATT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (91 bp):
CAAGGATCGTCTCATCAGTAACATTATGACATACATGTCTACTTTTTGATGTATTTAGTTGGCAA
GTAATACATTTAGTAAAAACACTCTA
Found at i:43375 original size:21 final size:20
Alignment explanation
Indices: 43346--43384 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43336 ACGAAGTACC
*
43346 ACATGTATGTTCCAAAGGATT
1 ACATATATG-TCCAAAGGATT
*
43367 ACATATATGTCCGAAGGA
1 ACATATATGTCCAAAGGA
43385 CCACGTAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (20 bp):
ACATATATGTCCAAAGGATT
Found at i:45521 original size:54 final size:54
Alignment explanation
Indices: 45460--45797 Score: 505
Period size: 54 Copynumber: 6.3 Consensus size: 54
45450 ACCAAATAGA
* *
45460 CACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCATTTCGA
1 CACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTCGG
* * *
45514 CACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATAAATAACCGTTTTGG
1 CACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTCGG
* * * * * *
45568 CACCAAGTGTGAAAAGTAAGGAATTCATCATATGTTGATGAATAACCGTTTTGG
1 CACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTCGG
*
45622 CACTAAGTGTGCAAAGTACAAAATTCATCATATGTTGATGAATAACCATTTCGG
1 CACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTCGG
* **
45676 CACTAAGTGTGTAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTCTA
1 CACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTCGG
* * *
45730 CACTAAGTGTCCAAAGTACAAAATTCATCATATGTTGATGAATAACCGTTTCGG
1 CACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTCGG
*
45784 CACTATGTGTGCAA
1 CACTAAGTGTGCAA
45798 CCCAACGAAT
Statistics
Matches: 255, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 255 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (54 bp):
CACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTCGG
Found at i:45809 original size:54 final size:53
Alignment explanation
Indices: 45460--45842 Score: 381
Period size: 54 Copynumber: 7.1 Consensus size: 53
45450 ACCAAATAGA
** * *
45460 CACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCATTTCGA
1 CACTAAGTGTGCAAACAAC-GAATTCATCATATGTTGATGAATAACCGTTTCGG
** * *
45514 CACTAAGTGTGCAAAGTACGAAATTCATCATATGTTGATAAATAACCGTTTTGG
1 CACTAAGTGTGCAAACAACG-AATTCATCATATGTTGATGAATAACCGTTTCGG
* * * * *
45568 CACCAAGTGTGAAAAGTAAGGAATTCATCATATGTTGATGAATAACCGTTTTGG
1 CACTAAGTGTGCAAA-CAACGAATTCATCATATGTTGATGAATAACCGTTTCGG
** * *
45622 CACTAAGTGTGCAAAGTACAAAATTCATCATATGTTGATGAATAACCATTTCGG
1 CACTAAGTGTGCAAACAAC-GAATTCATCATATGTTGATGAATAACCGTTTCGG
* ** * **
45676 CACTAAGTGTGTAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTCTA
1 CACTAAGTGTGCAAACAACG-AATTCATCATATGTTGATGAATAACCGTTTCGG
* ** *
45730 CACTAAGTGTCCAAAGTACAAAATTCATCATATGTTGATGAATAACCGTTTCGG
1 CACTAAGTGTGCAAACAAC-GAATTCATCATATGTTGATGAATAACCGTTTCGG
* * * * * * *
45784 CACTATGTGTGCAACCCAACGAATTCATAATGA-GTTTATGAATGACCGTATAGG
1 CACTAAGTGTGCAA-ACAACGAATTCATCAT-ATGTTGATGAATAACCGTTTCGG
45838 CACTA
1 CACTA
45843 TGGGTGCATC
Statistics
Matches: 283, Mismatches: 39, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.01
54 276 0.98
55 5 0.02
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (53 bp):
CACTAAGTGTGCAAACAACGAATTCATCATATGTTGATGAATAACCGTTTCGG
Found at i:45842 original size:108 final size:107
Alignment explanation
Indices: 45460--45842 Score: 453
Period size: 108 Copynumber: 3.5 Consensus size: 107
45450 ACCAAATAGA
* ** * * *
45460 CACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCATTTCGACACTAAGTGTG
1 CACTAAGTGTGAAAACAAC-GAATTCATCATATGTTGATGAATAACCGTTTAGGCACTAAGTGTG
* * *
45525 CAAAGTACGAAATTCATCATATGTTGATAAATAACCGTTTTGG
65 CAAAGTACAAAATTCATCATATGTTGATGAATAACCGTTTCGG
* * * *
45568 CACCAAGTGTGAAAAGTAAGGAATTCATCATATGTTGATGAATAACCGTTTTGGCACTAAGTGTG
1 CACTAAGTGTGAAAA-CAACGAATTCATCATATGTTGATGAATAACCGTTTAGGCACTAAGTGTG
*
45633 CAAAGTACAAAATTCATCATATGTTGATGAATAACCATTTCGG
65 CAAAGTACAAAATTCATCATATGTTGATGAATAACCGTTTCGG
* ** * *** *
45676 CACTAAGTGTGTAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTCTACACTAAGTGTC
1 CACTAAGTGTGAAAACAACG-AATTCATCATATGTTGATGAATAACCGTTTAGGCACTAAGTGTG
45741 CAAAGTACAAAATTCATCATATGTTGATGAATAACCGTTTCGG
65 CAAAGTACAAAATTCATCATATGTTGATGAATAACCGTTTCGG
* ** * * * *
45784 CACTATGTGTGCAACCCAACGAATTCATAATGA-GTTTATGAATGACCGTATAGGCACTA
1 CACTAAGTGTG-AAAACAACGAATTCATCAT-ATGTTGATGAATAACCGTTTAGGCACTA
45843 TGGGTGCATC
Statistics
Matches: 234, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
107 2 0.01
108 226 0.97
109 6 0.03
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (107 bp):
CACTAAGTGTGAAAACAACGAATTCATCATATGTTGATGAATAACCGTTTAGGCACTAAGTGTGC
AAAGTACAAAATTCATCATATGTTGATGAATAACCGTTTCGG
Found at i:45842 original size:162 final size:162
Alignment explanation
Indices: 45460--45842 Score: 461
Period size: 162 Copynumber: 2.4 Consensus size: 162
45450 ACCAAATAGA
* ** * * * *
45460 CACTAAGTGTGCAAAGTACGGAATTCATCATATGTTGATGAATAACCATTTCGACACTAAGTGTG
1 CACTAAGTGTGCAAAGCACAAAATTCATAATATGTTGATGAATAACCATATAGGCACTAAGTGTG
* * * *
45525 CAAAGTACGAAATTCATCATATGTTGATAAATAACCGTTTTGGCACCAAGTGTGAAAAGTAAGGA
66 CAAAGTACGAAATTCATCATATGTTGATAAATAACCATTTTGACACCAAGTGTCAAAAGTAAGAA
*
45590 ATTCATCATATGTTGATGAATAACCGTTTTGG
131 ATTCATCATATGTTGATGAATAACCGTTTCGG
* * * *
45622 CACTAAGTGTGCAAAGTACAAAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAGTGTG
1 CACTAAGTGTGCAAAGCACAAAATTCATAATATGTTGATGAATAACCATATAGGCACTAAGTGTG
* * * *
45687 TAAAGTACGAAATTCATCATATGTTGATGAATAACCATTTCT-ACACTAAGTGTCCAAAGTACA-
66 CAAAGTACGAAATTCATCATATGTTGATAAATAACCATTT-TGACACCAAGTGTCAAAAGTA-AG
45750 AAATTCATCATATGTTGATGAATAACCGTTTCGG
129 AAATTCATCATATGTTGATGAATAACCGTTTCGG
* * * * *
45784 CACTATGTGTGC-AA-CCCAACGAATTCATAATGA-GTTTATGAATGACCGTATAGGCACTA
1 CACTAAGTGTGCAAAGCACAA--AATTCATAAT-ATGTTGATGAATAACCATATAGGCACTA
45843 TGGGTGCATC
Statistics
Matches: 195, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
160 3 0.02
161 2 0.01
162 187 0.96
163 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (162 bp):
CACTAAGTGTGCAAAGCACAAAATTCATAATATGTTGATGAATAACCATATAGGCACTAAGTGTG
CAAAGTACGAAATTCATCATATGTTGATAAATAACCATTTTGACACCAAGTGTCAAAAGTAAGAA
ATTCATCATATGTTGATGAATAACCGTTTCGG
Found at i:46758 original size:14 final size:15
Alignment explanation
Indices: 46739--46767 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46729 CATCTATAAT
46739 CATAAC-AAAATATG
1 CATAACTAAAATATG
46753 CATAACTAAAATATG
1 CATAACTAAAATATG
46768 ATTCATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (15 bp):
CATAACTAAAATATG
Found at i:49986 original size:36 final size:37
Alignment explanation
Indices: 49925--50031 Score: 141
Period size: 39 Copynumber: 2.9 Consensus size: 37
49915 ATTAATCTTC
49925 AATAA-AAAAA-ACCCCAAATTT-TTATGAAACCTT-T
1 AATAAGAAAAATA-CCCAAATTTCTTATGAAACCTTAT
*
49959 AATAAGAAAAATACTCAAATTTCTTATGAAACCTTTAAT
1 AATAAGAAAAATACCCAAATTTCTTATGAAACC-TT-AT
*
49998 AATAATAAAAATACCCAAATTTCTTATGAAACCT
1 AATAAGAAAAATACCCAAATTTCTTATGAAACCT
50032 AAATTGGTGA
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
34 5 0.08
35 13 0.20
36 11 0.17
37 2 0.03
38 1 0.02
39 32 0.50
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.31
Consensus pattern (37 bp):
AATAAGAAAAATACCCAAATTTCTTATGAAACCTTAT
Found at i:53249 original size:41 final size:41
Alignment explanation
Indices: 53204--53322 Score: 195
Period size: 41 Copynumber: 2.9 Consensus size: 41
53194 ATTCGCGTTG
53204 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
53245 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
*
53286 TATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
53323 AGTCTACAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
40 1 0.01
41 69 0.97
42 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.36
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:53356 original size:41 final size:41
Alignment explanation
Indices: 53311--53468 Score: 273
Period size: 41 Copynumber: 3.9 Consensus size: 41
53301 TAGTTGAAAA
53311 TCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATT
* *
53352 TCGCGTTGCGATAGTTGTA-AATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAG-TCTACAGTCGCGTTGCGATTTTCCATT
*
53393 TCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCGTT
1 TCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATT
53434 TCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTT
1 TCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTT
53469 ACCACGACCA
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
40 3 0.03
41 104 0.95
42 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATT
Found at i:53356 original size:82 final size:83
Alignment explanation
Indices: 53205--53466 Score: 284
Period size: 82 Copynumber: 3.2 Consensus size: 83
53195 TTCGCGTTGC
* * * * *
53205 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT--TTTCCATTTCGCGTTGCGATAGTCTAC
1 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACA-GTCGCGTTGCGAT--TTTCC
* *
53268 A-GTCGCGTTGCGAT-TTTCT
63 ATTTCGCGTTGCGATAGTTCT
53287 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATT
1 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATT
*
53352 TCGCGTTGCGATAGTTGT
66 TCGCGTTGCGATAGTTCT
** * ** ** *
53370 AAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCGTT
1 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATT
53434 TCGCGTTGCGATAG-TCT
66 TCGCGTTGCGATAGTTCT
**
53451 ACAGTCGCGTTGCGAT
1 A-TTTCGCGTTGCGAT
53467 TTACCACGAC
Statistics
Matches: 157, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
81 7 0.04
82 118 0.75
83 28 0.18
84 4 0.03
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (83 bp):
ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATT
TCGCGTTGCGATAGTTCT
Found at i:53387 original size:103 final size:103
Alignment explanation
Indices: 53208--53425 Score: 325
Period size: 103 Copynumber: 2.1 Consensus size: 103
53198 GCGTTGCATT
*
53208 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCG
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAATCG
*
53273 CGTTGCGATTTTCTATTTCGCGTTGCGATAGT-TGAAAA
66 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-AAAA
* * *
53311 TCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGTA-AAT
1 TCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAG-TCTACAAT
* *
53374 CGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
64 CGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAAAA
53414 TCGCGTTGCGAT
1 TCGCGTTGCGAT
53426 TTTCCGTTTC
Statistics
Matches: 105, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
103 100 0.95
104 5 0.05
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (103 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAATCG
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAAAA
Found at i:53464 original size:144 final size:144
Alignment explanation
Indices: 53204--53466 Score: 465
Period size: 144 Copynumber: 1.8 Consensus size: 144
53194 ATTCGCGTTG
53204 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
*
53269 GTCGCGTTGCGATTTTCTATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTC
66 GTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTC
53334 GCGTTGCGATTTTC
131 GCGTTGCGATTTTC
*
53348 CATTTCGCGTTGCGATAGTTGTAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
* * *
53413 GTCGCGTTGCGATTTTCCGTTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGAT
66 GTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGAT
53467 TTACCACGAC
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
144 112 0.99
145 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (144 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
GTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTC
GCGTTGCGATTTTC
Found at i:53507 original size:5 final size:5
Alignment explanation
Indices: 53473--53534 Score: 88
Period size: 5 Copynumber: 11.6 Consensus size: 5
53463 CGATTTACCA
53473 CGACC ACGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC CGACC
1 CGACC -CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC
53522 CGACC CGACC CGA
1 CGACC CGACC CGA
53535 GACGAGACGG
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 33 0.59
6 23 0.41
ACGTcount: A:0.26, C:0.55, G:0.19, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:54050 original size:6 final size:6
Alignment explanation
Indices: 54024--54071 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
54014 GTCCGTCTCG
54024 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
54069 GGT
1 GGT
54072 AACACGTCCG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.36
6 27 0.64
ACGTcount: A:0.00, C:0.17, G:0.54, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:54193 original size:41 final size:40
Alignment explanation
Indices: 54134--54359 Score: 308
Period size: 41 Copynumber: 5.5 Consensus size: 40
54124 TCTTTTTTTT
*
54134 TAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTG
1 TAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTC
* *
54174 TAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTT
1 TA-ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTC
* *
54215 TCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTT
1 T-AACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTC
*
54256 TCAACTATCGAAACGCGAAATGGAAAATCGCAACGCGATCTC
1 T-AACTATCGCAACGCGAAATGGAAAATCGCAACGCGA-CTC
* * *
54298 CAGCTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
1 TAACTATCGCAACGCGAAATGGAAAATCGCAACGCGA-CTC
* *
54339 CAACTATCGCAATGCGAAATG
1 TAACTATCGCAACGCGAAATG
54360 CAACGTGAAT
Statistics
Matches: 172, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.01
41 168 0.98
42 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (40 bp):
TAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTC
Found at i:54226 original size:21 final size:21
Alignment explanation
Indices: 54135--54363 Score: 137
Period size: 21 Copynumber: 11.1 Consensus size: 21
54125 CTTTTTTTTT
* *
54135 AACTATCGCAACGCGAAATGG
1 AACTATCGCAACGCGATATGC
* * *
54156 AA-AATCGCAACGCGA-CTGT
1 AACTATCGCAACGCGATATGC
* *
54175 AGACTATCGCAACGCGAAATGG
1 A-ACTATCGCAACGCGATATGC
* * *
54197 AA-AATCGCAACGCGATTTTC
1 AACTATCGCAACGCGATATGC
* *
54217 AACTATCGCAACGCGAAATGG
1 AACTATCGCAACGCGATATGC
* * *
54238 AA-AATCGCAACGCGATTTTC
1 AACTATCGCAACGCGATATGC
* * *
54258 AACTATCGAAACGCGAAATGG
1 AACTATCGCAACGCGATATGC
* * *
54279 AA-AATCGCAACGCGATCTCC
1 AACTATCGCAACGCGATATGC
* * *
54299 AGCTATCGCAACGCGAAATGG
1 AACTATCGCAACGCGATATGC
* * * *
54320 AA-AAACGCAACGCGATCTCC
1 AACTATCGCAACGCGATATGC
* *
54340 AACTATCGCAATGCGAAATGC
1 AACTATCGCAACGCGATATGC
54361 AAC
1 AAC
54364 GTGAATTTGC
Statistics
Matches: 149, Mismatches: 52, Indels: 14
0.69 0.24 0.07
Matches are distributed among these distances:
19 3 0.02
20 70 0.47
21 73 0.49
22 3 0.02
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.16
Consensus pattern (21 bp):
AACTATCGCAACGCGATATGC
Found at i:54272 original size:82 final size:82
Alignment explanation
Indices: 54130--54359 Score: 345
Period size: 82 Copynumber: 2.8 Consensus size: 82
54120 AAAATCTTTT
* * *
54130 TTTTTAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAA
1 TTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAA
54194 TGGAAAATCGCAACGCGA
65 TGGAAAATCGCAACGCGA
*
54212 TTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGAAACGCGAAAT
1 TTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAAT
54277 GGAAAATCGCAACGCGA
66 GGAAAATCGCAACGCGA
* * * * * * *
54294 TCTCCAGCTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTCCAACTATCGCAATGCGAAAT
1 TTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAAT
54359 G
66 G
54360 CAACGTGAAT
Statistics
Matches: 135, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
82 134 0.99
83 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (82 bp):
TTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAAT
GGAAAATCGCAACGCGA
Found at i:54356 original size:123 final size:123
Alignment explanation
Indices: 54130--54359 Score: 372
Period size: 123 Copynumber: 1.9 Consensus size: 123
54120 AAAATCTTTT
* * **
54130 TTTTTAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAAT
1 TTTTCAACTATCGAAACGCGAAATGGAAAATCGCAACGCGACTCCAGACTATCGCAACGCGAAAT
* * *
54195 GGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
66 GGAAAAACGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
54253 TTTTCAACTATCGAAACGCGAAATGGAAAATCGCAACGCGATCTCCAG-CTATCGCAACGCGAAA
1 TTTTCAACTATCGAAACGCGAAATGGAAAATCGCAACGCGA-CTCCAGACTATCGCAACGCGAAA
*
54317 TGGAAAAACGCAACGCGATCTCCAACTATCGCAATGCGAAATG
65 TGGAAAAACGCAACGCGATCTCCAACTATCGCAACGCGAAATG
54360 CAACGTGAAT
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
123 94 0.96
124 4 0.04
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (123 bp):
TTTTCAACTATCGAAACGCGAAATGGAAAATCGCAACGCGACTCCAGACTATCGCAACGCGAAAT
GGAAAAACGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
Found at i:56495 original size:27 final size:26
Alignment explanation
Indices: 56465--56523 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
56455 TGTCTAATTT
*
56465 TTATTTACATTTTA-TATTAATATTTTA
1 TTATTTA-ATTTTACTAATAAT-TTTTA
* *
56492 TTATTTATTTTTACTAATAATTTTTT
1 TTATTTAATTTTACTAATAATTTTTA
56518 TTATTT
1 TTATTT
56524 TTTTAAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (26 bp):
TTATTTAATTTTACTAATAATTTTTA
Found at i:56731 original size:20 final size:20
Alignment explanation
Indices: 56706--56780 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
56696 CAATTTCGTT
56706 TCAAATTCGCAACGTCATAG
1 TCAAATTCGCAACGTCATAG
*
56726 TCAAATTCACAACG-CGATAG
1 TCAAATTCGCAACGTC-ATAG
* *
56746 TTAAATTCGCAACGCTGA-AG
1 TCAAATTCGCAACG-TCATAG
56766 TCAAATTCGCAACGT
1 TCAAATTCGCAACGT
56781 GAATCTGTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.04
20 44 0.94
21 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (20 bp):
TCAAATTCGCAACGTCATAG
Found at i:56795 original size:20 final size:20
Alignment explanation
Indices: 56772--56818 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
56762 GAAGTCAAAT
56772 TCGCAACGTGAATCTGTAAA
1 TCGCAACGTGAATCTGTAAA
* *
56792 TCGCAACTTGAATTTGTAAA
1 TCGCAACGTGAATCTGTAAA
56812 TCGCAAC
1 TCGCAAC
56819 ACAGAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (20 bp):
TCGCAACGTGAATCTGTAAA
Found at i:56835 original size:20 final size:20
Alignment explanation
Indices: 56812--56857 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
56802 AATTTGTAAA
56812 TCGCAACAC-AGAAGTCAAAT
1 TCGCAACACGA-AAGTCAAAT
*
56832 TCGCAACGCGAAAGTCAAAT
1 TCGCAACACGAAAGTCAAAT
56852 TCGCAA
1 TCGCAA
56858 AGCGCGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAGTCAAAT
Found at i:56856 original size:40 final size:38
Alignment explanation
Indices: 56706--56857 Score: 91
Period size: 40 Copynumber: 3.8 Consensus size: 38
56696 CAATTTCGTT
* *
56706 TCAAATTCGCAACGTC-ATAGTCAAATTCACAACGCGATAG
1 TCAAATTCGCAACG-CGAAAGTCAAATTCGCAAC-CGA-AG
* *
56746 TTAAATTCGCAACGCTG-AAGTCAAATTCGCAACGTGAA-
1 TCAAATTCGCAACGC-GAAAGTCAAATTCGCAAC-CGAAG
** *
56784 TCTGTAAA-TCGCAACTTGAATTTGT-AAA-TCGCAACACAGAAG
1 TC---AAATTCGCAACGCGAA--AGTCAAATTCGCAAC-C-GAAG
56826 TCAAATTCGCAACGCGAAAGTCAAATTCGCAA
1 TCAAATTCGCAACGCGAAAGTCAAATTCGCAA
56858 AGCGCGTTTA
Statistics
Matches: 86, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
38 3 0.03
39 9 0.10
40 61 0.71
41 9 0.10
42 4 0.05
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.23
Consensus pattern (38 bp):
TCAAATTCGCAACGCGAAAGTCAAATTCGCAACCGAAG
Found at i:57049 original size:76 final size:76
Alignment explanation
Indices: 56946--57100 Score: 247
Period size: 76 Copynumber: 2.0 Consensus size: 76
56936 GTTGAGATAG
* *
56946 TACTGTTTACCTATATCAGTAATTAGCGTTGCAAATTTGAAAATCTCATTGATAATTTGTAAACC
1 TACTGATTACCTATATCAGTAATTAGCGTTGCAAATTTGAAAATCTCATTGAGAATTTGTAAACC
57011 GCGTTGCTAAT
66 GCGTTGCTAAT
* * * * *
57022 TACTGATTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCTCGTTGCGAATTTGTAAATC
1 TACTGATTACCTATATCAGTAATTAGCGTTGCAAATTTGAAAATCTCATTGAGAATTTGTAAACC
57087 GCGTTGCTAAT
66 GCGTTGCTAAT
57098 TAC
1 TAC
57101 CTATATAGGT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (76 bp):
TACTGATTACCTATATCAGTAATTAGCGTTGCAAATTTGAAAATCTCATTGAGAATTTGTAAACC
GCGTTGCTAAT
Found at i:57073 original size:20 final size:20
Alignment explanation
Indices: 57047--57098 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
57037 TCGGTAATTA
57047 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
* *
57067 TCGTTGCGAATTTGTAAATC
1 GCGTTGCGAATTTGAAAATC
*
57087 GCGTTGCTAATT
1 GCGTTGCGAATT
57099 ACCTATATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:57149 original size:20 final size:20
Alignment explanation
Indices: 57124--57170 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
57114 CAGTACTATT
57124 GCAACGCGATTTACAAATTC
1 GCAACGCGATTTACAAATTC
* *
57144 GCAACGAGATTTTCAAATTC
1 GCAACGCGATTTACAAATTC
57164 GCAACGC
1 GCAACGC
57171 TAATTACCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (20 bp):
GCAACGCGATTTACAAATTC
Found at i:57219 original size:77 final size:77
Alignment explanation
Indices: 57092--57321 Score: 397
Period size: 77 Copynumber: 3.0 Consensus size: 77
57082 AAATCGCGTT
* *
57092 GCTAATTACCTATATAGGTAAACAGTACTATTGCAACGCGATTTACAAATTCGCAACGAGATTTT
1 GCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTACAAATTCGCAACGAGATTTT
57157 CAAATTCGCAAC
66 CAAATTCGCAAC
*
57169 GCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCAATTTACAAATTCGCAACGAGATTTT
1 GCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTACAAATTCGCAACGAGATTTT
*
57234 CAAATTTGCAAC
66 CAAATTCGCAAC
* * *
57246 GCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTACAAATTCGCAATGCGATTTA
1 GCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTACAAATTCGCAACGAGATTTT
57311 CAAATTCGCAA
66 CAAATTCGCAA
57322 TGCGATTTAC
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 144 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (77 bp):
GCTAATTACCGATATAGGTAAACAGTACTATCGCAACGCGATTTACAAATTCGCAACGAGATTTT
CAAATTCGCAAC
Found at i:57224 original size:20 final size:20
Alignment explanation
Indices: 57199--57252 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
57189 AACAGTACTA
57199 TCGCAACGCAATTTACAAAT
1 TCGCAACGCAATTTACAAAT
*
57219 TCGCAACG-AGATTTTCAAAT
1 TCGCAACGCA-ATTTACAAAT
*
57239 TTGCAACGCTAATT
1 TCGCAACGC-AATT
57253 ACCGATATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 1 0.03
20 24 0.83
21 3 0.10
22 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (20 bp):
TCGCAACGCAATTTACAAAT
Found at i:57301 original size:20 final size:20
Alignment explanation
Indices: 57276--57344 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
57266 AACAGTACTA
57276 TCGCAACGCGATTTACAAAT
1 TCGCAACGCGATTTACAAAT
*
57296 TCGCAATGCGATTTACAAAT
1 TCGCAACGCGATTTACAAAT
*
57316 TCGCAATGCGATTTACAAAT
1 TCGCAACGCGATTTACAAAT
*
57336 TCACAACGC
1 TCGCAACGC
57345 TAATTACCGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTTACAAAT
Found at i:57310 original size:97 final size:97
Alignment explanation
Indices: 57199--57406 Score: 335
Period size: 97 Copynumber: 2.1 Consensus size: 97
57189 AACAGTACTA
* **
57199 TCGCAACGCAATTTACAAATTCGCAACGAGATTTTCAAATTTGCAACGCTAATTACCGATATAGG
1 TCGCAACGCAATTTACAAATTCGCAACGAGATTTACAAATTCACAACGCTAATTACCGATATAGG
57264 TAAACAGTACTATCGCAACGCGATTTACAAAT
66 TAAACAGTACTATCGCAACGCGATTTACAAAT
* * * * *
57296 TCGCAATGCGATTTACAAATTCGCAATGCGATTTACAAATTCACAACGCTAATTACCGTTATAGG
1 TCGCAACGCAATTTACAAATTCGCAACGAGATTTACAAATTCACAACGCTAATTACCGATATAGG
57361 TAAACAGTACTATCGCAACGCGATTTACAAAT
66 TAAACAGTACTATCGCAACGCGATTTACAAAT
57393 TCGCAACGCTAATT
1 TCGCAACGC-AATT
57407 ACCGATATAG
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
97 97 0.97
98 3 0.03
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (97 bp):
TCGCAACGCAATTTACAAATTCGCAACGAGATTTACAAATTCACAACGCTAATTACCGATATAGG
TAAACAGTACTATCGCAACGCGATTTACAAAT
Found at i:57351 original size:20 final size:20
Alignment explanation
Indices: 57276--57337 Score: 115
Period size: 20 Copynumber: 3.1 Consensus size: 20
57266 AACAGTACTA
*
57276 TCGCAACGCGATTTACAAAT
1 TCGCAATGCGATTTACAAAT
57296 TCGCAATGCGATTTACAAAT
1 TCGCAATGCGATTTACAAAT
57316 TCGCAATGCGATTTACAAAT
1 TCGCAATGCGATTTACAAAT
57336 TC
1 TC
57338 ACAACGCTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (20 bp):
TCGCAATGCGATTTACAAAT
Found at i:57385 original size:57 final size:57
Alignment explanation
Indices: 57316--57425 Score: 193
Period size: 57 Copynumber: 1.9 Consensus size: 57
57306 ATTTACAAAT
* *
57316 TCGCAATGCGATTTACAAATTCACAACGCTAATTACCGTTATAGGTAAACAGTACTA
1 TCGCAACGCGATTTACAAATTCACAACGCTAATTACCGATATAGGTAAACAGTACTA
*
57373 TCGCAACGCGATTTACAAATTCGCAACGCTAATTACCGATATAGGTAAACAGT
1 TCGCAACGCGATTTACAAATTCACAACGCTAATTACCGATATAGGTAAACAGT
57426 GTTGCGAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (57 bp):
TCGCAACGCGATTTACAAATTCACAACGCTAATTACCGATATAGGTAAACAGTACTA
Found at i:57484 original size:20 final size:20
Alignment explanation
Indices: 57459--57710 Score: 221
Period size: 20 Copynumber: 12.6 Consensus size: 20
57449 TAAACGCGCT
57459 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGCG
* * *
57479 TTGCGAATTTTACTTTTGTG
1 TTGCGAATTTGACTTTCGCG
* ** *
57499 TTGCGAATTTAAAATTCAGTG
1 TTGCGAATTTGACTTTC-GCG
*
57520 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTCGCG
* *
57540 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTTCGCG
57560 TTGCGAATTTGAC-TTCAGCG
1 TTGCGAATTTGACTTTC-GCG
* *
57580 TTGCGAATTTGACTATCACG
1 TTGCGAATTTGACTTTCGCG
* *
57600 TTGCGAATTTGACTATCACG
1 TTGCGAATTTGACTTTCGCG
*
57620 TTGCGAATTTGACTTAT-GTG
1 TTGCGAATTTGACTT-TCGCG
*
57640 TTGCGAATTTGAC-TTCTGTG
1 TTGCGAATTTGACTTTC-GCG
*
57660 TTGCG-ATTT-ACAAATTCGCG
1 TTGCGAATTTGAC--TTTCGCG
*
57680 TTGCG-ATTT-ACATATTCGCA
1 TTGCGAATTTGAC-T-TTCGCG
57700 TTGCGAATTTG
1 TTGCGAATTTG
57711 GAAACGGGGT
Statistics
Matches: 195, Mismatches: 25, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
18 3 0.02
19 8 0.04
20 158 0.81
21 26 0.13
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGCG
Found at i:57665 original size:60 final size:60
Alignment explanation
Indices: 57459--57653 Score: 275
Period size: 60 Copynumber: 3.2 Consensus size: 60
57449 TAAACGCGCT
* * * *
57459 TTGCGAATTTGACTTTCGCGTTGCGAATTTTACTTTTGTGTTGCGAATTTAAAATTCAGTG
1 TTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTT-GACTTCAGTG
*
57520 TTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCAGCG
1 TTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCAGTG
* * ***
57580 TTGCGAATTTGACTATCACGTTGCGAATTTGACTATCACGTTGCGAATTTGACTT-ATGTG
1 TTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCA-GTG
57640 TTGCGAATTTGACT
1 TTGCGAATTTGACT
57654 TCTGTGTTGC
Statistics
Matches: 122, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
59 1 0.01
60 73 0.60
61 48 0.39
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.41
Consensus pattern (60 bp):
TTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCAGTG
Found at i:57683 original size:40 final size:40
Alignment explanation
Indices: 57459--57750 Score: 196
Period size: 40 Copynumber: 7.3 Consensus size: 40
57449 TAAACGCGCT
* * * *
57459 TTGCGAATTTGAC-TTTCGCGTTGCGAATTTTACTTTTGTG
1 TTGCGAATTTGACAATTCGCGTTGCGAATTTGAC-TTCGCG
* *
57499 TTGCGAATTT-AAAATTCAGTGTTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACAATTC-GCGTTGCGAATTTGACT-TCGCG
* * *
57540 TTGCGAATTTGAC-TTTTGTGTTGCGAATTTGACTTCAGCG
1 TTGCGAATTTGACAATTCGCGTTGCGAATTTGACTTC-GCG
* * *
57580 TTGCGAATTTGACTA-TCACGTTGCGAATTTGACTATCACG
1 TTGCGAATTTGACAATTCGCGTTGCGAATTTGACT-TCGCG
* * *
57620 TTGCGAATTTGAC--TTATGTGTTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACAATT-CGCGTTGCGAATTTGACTTC-GCG
*
57660 TTGCG-ATTT-ACAAATTCGCGTTGCG-ATTT-ACATATTCGCA
1 TTGCGAATTTGAC-AATTCGCGTTGCGAATTTGAC---TTCGCG
* * *
57700 TTGCGAATTTGGA-AA--CGGGGTTGCGAAATTGGAGTTCGCG
1 TTGCGAATTT-GACAATTC-GCGTTGCG-AATTTGACTTCGCG
57740 TTGCGAATTTG
1 TTGCGAATTTG
57751 TTGGTCATTT
Statistics
Matches: 202, Mismatches: 27, Indels: 47
0.73 0.10 0.17
Matches are distributed among these distances:
38 4 0.02
39 16 0.08
40 134 0.66
41 42 0.21
42 4 0.02
43 2 0.01
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.39
Consensus pattern (40 bp):
TTGCGAATTTGACAATTCGCGTTGCGAATTTGACTTCGCG
Found at i:59504 original size:132 final size:132
Alignment explanation
Indices: 59295--59535 Score: 337
Period size: 133 Copynumber: 1.8 Consensus size: 132
59285 AAGTAAAATT
* * * * *
59295 ATTAATTTATATAAATAAGATATTTATTTATTTAGAAATATCAGAAAAGAGCTTCTAGGTGTTTT
1 ATTAATATATATAAATAAAATATTTATTTATTTAGAAATATCAGAAAACAGCATCTAGGTGCTTT
*
59360 AAGACAGCTCC-TTCCTTTGATATTAAAAAATAAATAAATATTAAAACATTTATCTAAAAAATAA
66 AAGACA-CTCCTTTCCTTTGATATTAAAAAATAAATAAACATTAAAACATTTATCTAAAAAATAA
59424 TAG
130 TAG
*
59427 ATTAATATATA-AAAGTAAAATATTTATTTATTTA-AAATTATCAGAAAACAGACATCTAGTTGC
1 ATTAATATATATAAA-TAAAATATTTATTTATTTAGAAA-TATCAGAAAACAG-CATCTAGGTGC
*
59490 TTTAAGACTA-TCCTTTTCTTTGATATTAAAAAATAAATAAACATTA
63 TTTAAGAC-ACTCCTTTCCTTTGATATTAAAAAATAAATAAACATTA
59536 TTATAAAATT
Statistics
Matches: 96, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
131 6 0.06
132 43 0.45
133 46 0.48
134 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (132 bp):
ATTAATATATATAAATAAAATATTTATTTATTTAGAAATATCAGAAAACAGCATCTAGGTGCTTT
AAGACACTCCTTTCCTTTGATATTAAAAAATAAATAAACATTAAAACATTTATCTAAAAAATAAT
AG
Found at i:59579 original size:22 final size:21
Alignment explanation
Indices: 59554--59602 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
59544 TTTTTATAAA
*
59554 ATTAATCAAATAATATATTAAT
1 ATTAATAAAATAATA-ATTAAT
* *
59576 ATTATTAAAATAATAATTATT
1 ATTAATAAAATAATAATTAAT
59597 ATTAAT
1 ATTAAT
59603 TTAAATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAATAAAATAATAATTAAT
Found at i:59608 original size:22 final size:21
Alignment explanation
Indices: 59561--59614 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
59551 AAAATTAATC
59561 AAATAATATATTAATATTATTA
1 AAATAATA-ATTAATATTATTA
* *
59583 AAATAATAATTATTATTAATTT
1 AAATAATAATTAATATT-ATTA
59605 AAATATATAA
1 AAATA-ATAA
59615 CAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 8 0.29
22 16 0.57
23 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATAATTAATATTATTA
Found at i:60913 original size:26 final size:26
Alignment explanation
Indices: 60884--60938 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
60874 TCTGGTAGGT
* * *
60884 CTGGGCCGGTTCTGTTTTGTTTGTAA
1 CTGGGCCGGTCCAGTTTGGTTTGTAA
60910 CTGGGCCGGTCCAGTTTGGTTTGTAA
1 CTGGGCCGGTCCAGTTTGGTTTGTAA
60936 CTG
1 CTG
60939 TTTGTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.09, C:0.18, G:0.33, T:0.40
Consensus pattern (26 bp):
CTGGGCCGGTCCAGTTTGGTTTGTAA
Found at i:62025 original size:76 final size:76
Alignment explanation
Indices: 61133--61998 Score: 1579
Period size: 76 Copynumber: 11.3 Consensus size: 76
61123 TCTTAAAAAT
* * *
61133 ATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGT
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGG-
*
61198 TTTTTTTTTGGAAAC
65 ---CTTTTTGGAAAC
* * * *
61213 ATCATGCACTGCAGGACTTACAGATGACCCGACGGTTTTGAAAACATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
61278 TTTTTGGAAAC
66 TTTTTGGAAAC
*
61289 ATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
61354 TTTTTGGAAAC
66 TTTTTGGAAAC
*
61365 ATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
61430 TTTTTGGAAAC
66 TTTTTGGAAAC
*
61441 ATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
61506 TTTTTGGAAAC
66 TTTTTGGAAAC
61517 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
61582 TTTTTGGAAAC
66 TTTTTGGAAAC
61593 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
61658 TTTTTGGAAAC
66 TTTTTGGAAAC
61669 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
61734 TTTTTGGAAAC
66 TTTTTGGAAAC
*
61745 ATCATGCACTGAAGGGCTTACATATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
61810 TTTTTGGAAAC
66 TTTTTGGAAAC
61821 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
61886 TTTTTGGAAAC
66 TTTTTGGAAAC
*
61897 ATCATGCCCTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
1 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
61962 TTTTTGGAAAC
66 TTTTTGGAAAC
61973 ATCATGCACTGAAGGGCTTACAGATG
1 ATCATGCACTGAAGGGCTTACAGATG
61999 TGGGAAATAG
Statistics
Matches: 774, Mismatches: 12, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
76 713 0.92
80 61 0.08
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (76 bp):
ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
TTTTTGGAAAC
Found at i:62704 original size:22 final size:22
Alignment explanation
Indices: 62679--62733 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
62669 CATAAAGTTT
*
62679 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
62701 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
62723 TCATCTTTGAA
1 TCATCTTTGAA
62734 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:63183 original size:54 final size:54
Alignment explanation
Indices: 63101--63324 Score: 376
Period size: 54 Copynumber: 4.1 Consensus size: 54
63091 AGAATAACAG
* * **
63101 GTTCGTAAAACATTTGACAGTGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
63155 GTTCGTAAAACATTTGACAATACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
63209 GTTCGTAAAACATTTGACAATACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
* * * *
63263 GTTCATAAAATATTTGAAAATACATTCATCTTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
63317 GTTCGTAA
1 GTTCGTAA
63325 TCATTGAAGT
Statistics
Matches: 161, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 161 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAATACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
Found at i:64112 original size:116 final size:115
Alignment explanation
Indices: 63996--64605 Score: 889
Period size: 116 Copynumber: 5.2 Consensus size: 115
63986 CTCTTTAGAT
* ** * * * * ** *
63996 GAGTTCTTCTTATTATGAACTCTTTCTAGCAATACTGATCCATCGAATGATGAAATCGAGCAAAA
1 GAGTTCTTCTCATTATGAACTCTACCT-GCAATGCTGATCCATCAAATAATGAATTTAAACAAAA
** *
64061 ATTTGAACAAATTCTTCTCATTATGAA-TTCCTTCTTTCTTCTTCTTTAGATGAC
65 GGTTGAACAAATTCTTCTCATTATGAACTT-CTTC-TTC--CTTCTTCAGATGAC
* * *
64115 GAATTGTTCTCATTATGAACTCTACCTGGCAATGGTGATCCATCAAATAATGAATTTAAACAAAA
1 GAGTTCTTCTCATTATGAACTCTACCT-GCAATGCTGATCCATCAAATAATGAATTTAAACAAAA
64180 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* *
64231 GAGTTCTTCTCATTATGAACTCTACCTGACAATGTTAATCCATCAAATAATGAATTTAAACAAAA
1 GAGTTCTTCTCATTATGAACTCTACCTG-CAATGCTGATCCATCAAATAATGAATTTAAACAAAA
*
64296 GGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* *
64347 GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAA
1 GAGTTCTTCTCATTATGAACTCTACCT-GCAATGCTGATCCATCAAATAATGAATTTAAACAAAA
*
64412 GGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* * * * *
64463 GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTGATCCATCAAGTGATGAATTCAAACAAAA
1 GAGTTCTTCTCATTATGAACTCTACCT-GCAATGCTGATCCATCAAATAATGAATTTAAACAAAA
64528 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
64579 GAGTTCTTCTCATTATGAACTCTACCT
1 GAGTTCTTCTCATTATGAACTCTACCT
64606 AGAAAAGATG
Statistics
Matches: 458, Mismatches: 30, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
115 1 0.00
116 371 0.81
117 1 0.00
118 3 0.01
119 80 0.17
120 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (115 bp):
GAGTTCTTCTCATTATGAACTCTACCTGCAATGCTGATCCATCAAATAATGAATTTAAACAAAAG
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
Found at i:65695 original size:94 final size:93
Alignment explanation
Indices: 65427--65710 Score: 428
Period size: 93 Copynumber: 3.0 Consensus size: 93
65417 CTTATTTCTA
* *
65427 CTATGAGCACATTCATCTTTCAAATCTAATGATTGGTTTTGTGGTTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAATTTAATGATGGGTTTTGTGGTTTCATACCAAACCAGATCAG
*
65492 ATAACTCAAAGAACACTTCCAGAAGATA
66 ATAACTCAAAGAACACTTCCAGAAGATG
* * * * *
65520 TTATGAGCACATTCATC-TTCTAAATTCAATAATTGGTTTT-TGGGGTTCATACCAAACCAGATC
1 CTATGAGCACATTCATCTTTC-AAATTTAATGATGGGTTTTGT-GGTTTCATACCAAACCAGATC
*
65583 AGATAACTCAAAGAACACTTTCAGAAGATG
64 AGATAACTCAAAGAACACTTCCAGAAGATG
* *
65613 CTATGAGTAAATTCATCTTTCAAATTTAATGATGGGGTTTTGTGGTTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTTCAAATTTAATGAT-GGGTTTTGTGGTTTCATACCAAACCAGATCA
65678 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
65707 CTAT
1 CTAT
65711 TGGGTCTTCT
Statistics
Matches: 171, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
92 4 0.02
93 104 0.61
94 62 0.36
95 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (93 bp):
CTATGAGCACATTCATCTTTCAAATTTAATGATGGGTTTTGTGGTTTCATACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATG
Found at i:67946 original size:2 final size:2
Alignment explanation
Indices: 67934--67968 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
67924 ACAATAAAGG
*
67934 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67969 AAAGGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:70224 original size:14 final size:14
Alignment explanation
Indices: 70207--70245 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
70197 TAAAAGTATG
70207 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
70221 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
70236 AATG-AAAATG
1 AATGCAAAATG
70246 CATGTATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:72971 original size:135 final size:135
Alignment explanation
Indices: 72759--73002 Score: 343
Period size: 136 Copynumber: 1.8 Consensus size: 135
72749 AAGTAAATTT
* * * * *
72759 ATTAATTTATATAAATAAGATATTTATTTATTTAGAAATATCAGAAAAGAGCTTCTAGGTGTTTT
1 ATTAATATATATAAATAAAATATTTATTTATTTAGAAATATCAGAAAACAGCATCTAGGTGCTTT
*
72824 AAGACAGCTCC-TTCCTTTGATATTAAAAAATAAATAAATATTAAAACATTTATCTAAAAAATAA
66 AAGACA-CTCCTTTCCTTTGATATTAAAAAATAAATAAACATTAAAACATTTATCTAAAAAATAA
72888 TAATAG
130 TAATAG
*
72894 ATTAATATATA-AAAGTAAAATATTTATTTATTTA-AAATTATCAGAAAACAGACATCTAGTTGC
1 ATTAATATATATAAA-TAAAATATTTATTTATTTAGAAA-TATCAGAAAACAG-CATCTAGGTGC
*
72957 TTTAAGACTA-TCCTTTTCTTTGATATTAAAAAATAAATAAACATTA
63 TTTAAGAC-ACTCCTTTCCTTTGATATTAAAAAATAAATAAACATTA
73003 TTATAAAATT
Statistics
Matches: 96, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
134 6 0.06
135 43 0.45
136 46 0.48
137 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (135 bp):
ATTAATATATATAAATAAAATATTTATTTATTTAGAAATATCAGAAAACAGCATCTAGGTGCTTT
AAGACACTCCTTTCCTTTGATATTAAAAAATAAATAAACATTAAAACATTTATCTAAAAAATAAT
AATAG
Found at i:73046 original size:22 final size:21
Alignment explanation
Indices: 73021--73069 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
73011 TTTTTATAAA
*
73021 ATTAATCAAATAATATATTAAT
1 ATTAATAAAATAATA-ATTAAT
* *
73043 ATTATTAAAATAATAATTATT
1 ATTAATAAAATAATAATTAAT
73064 ATTAAT
1 ATTAAT
73070 TTAAATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAATAAAATAATAATTAAT
Found at i:73075 original size:22 final size:21
Alignment explanation
Indices: 73028--73081 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
73018 AAAATTAATC
73028 AAATAATATATTAATATTATTA
1 AAATAATA-ATTAATATTATTA
* *
73050 AAATAATAATTATTATTAATTT
1 AAATAATAATTAATATT-ATTA
73072 AAATATATAA
1 AAATA-ATAA
73082 CAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 8 0.29
22 16 0.57
23 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATAATTAATATTATTA
Found at i:74377 original size:26 final size:26
Alignment explanation
Indices: 74348--74402 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
74338 TCTGGTTGGT
* * *
74348 CTGGGCCGGTTCTGTTTTGTTTGTAA
1 CTGGGCCGGTCCAGTTTGGTTTGTAA
74374 CTGGGCCGGTCCAGTTTGGTTTGTAA
1 CTGGGCCGGTCCAGTTTGGTTTGTAA
74400 CTG
1 CTG
74403 TTTGTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.09, C:0.18, G:0.33, T:0.40
Consensus pattern (26 bp):
CTGGGCCGGTCCAGTTTGGTTTGTAA
Found at i:74421 original size:3 final size:3
Alignment explanation
Indices: 74409--74446 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
74399 ACTGTTTGTA
*
74409 AAT AAT -AT AAT AAT AAT ATTT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA
74447 AAACAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:76538 original size:19 final size:17
Alignment explanation
Indices: 76514--76548 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
76504 TAGCAACATC
76514 AATGATTTAGGATTAAGTA
1 AATGATTT-GGA-TAAGTA
76533 AATGATTTGGATAAGT
1 AATGATTTGGATAAGT
76549 CTAGAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (17 bp):
AATGATTTGGATAAGTA
Found at i:77401 original size:39 final size:39
Alignment explanation
Indices: 77318--77401 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
77308 TTTTCACCAT
*
77318 GCTCCTCGGCTTTGTGCTCAAGGTAAGTCCTTACCATAG
1 GCTCCTCGGCTTTGTGCTCAAGGTAAGTCCTTACCACAG
* * * *
77357 TCTCCTCGGCTTTGTGCTCAGGGTAAGTCTTTACCGCAG
1 GCTCCTCGGCTTTGTGCTCAAGGTAAGTCCTTACCACAG
77396 GCTCCT
1 GCTCCT
77402 TTGCTATGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.14, C:0.30, G:0.24, T:0.32
Consensus pattern (39 bp):
GCTCCTCGGCTTTGTGCTCAAGGTAAGTCCTTACCACAG
Found at i:77412 original size:39 final size:39
Alignment explanation
Indices: 77318--77429 Score: 111
Period size: 39 Copynumber: 2.9 Consensus size: 39
77308 TTTTCACCAT
* *
77318 GCTCCTCGGCTTTGTGCTCAAGGTAAGTCCTTACCATAG
1 GCTCCTCGGCTATGTGCTCAAGGTAAGTCCTTACCACAG
* * * * *
77357 TCTCCTCGGCTTTGTGCTCAGGGTAAGTCTTTACCGCAG
1 GCTCCTCGGCTATGTGCTCAAGGTAAGTCCTTACCACAG
** *
77396 GCTCCTTTGCTATGTG--CAAGGATAAGACCTTACC
1 GCTCCTCGGCTATGTGCTCAAGG-TAAGTCCTTACC
77430 GTTTCACAGG
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
37 4 0.07
38 10 0.17
39 46 0.77
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (39 bp):
GCTCCTCGGCTATGTGCTCAAGGTAAGTCCTTACCACAG
Found at i:77441 original size:43 final size:43
Alignment explanation
Indices: 77393--77734 Score: 486
Period size: 43 Copynumber: 8.0 Consensus size: 43
77383 GTCTTTACCG
*
77393 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCA
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
** *
77436 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTATTGTTTAC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
*
77479 CAGGCTCCTTTGCTATGTGCAATGATAAGACCTTACCGTTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
* * * *
77522 CAGGCTTCTTTTCTATGTACAAGGATAAGACCTTACAGTTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
* * * *
77565 CAGGCTCCTTTGCTATGTGTAAGGCTAAGAACTTACCATTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
* * * *
77608 CAGGCTTCTTTGCTATATGCAAGGATAAGACCTTACCATTTCT
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
* *
77651 CAGGCTCCTTTACTATGTGTAAGGATAAGACCTTACCGTTTCC
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
* * *
77694 CAGGCTCTTTTGCTATGTGTAAGGGTAAGACCTTACCGTTT
1 CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTT
77735 TTGCAGGCTC
Statistics
Matches: 263, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 263 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (43 bp):
CAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCC
Found at i:79665 original size:30 final size:29
Alignment explanation
Indices: 79631--79696 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
79621 AGGATTTTTT
*
79631 TAAAAACAATATAAGAAATTCTTTTAGAAA
1 TAAAAAAAAT-TAAGAAATTCTTTTAGAAA
* *
79661 TAAAAAAAATTAAGACATTTTTTTAGAAA
1 TAAAAAAAATTAAGAAATTCTTTTAGAAA
79690 TAAAAAA
1 TAAAAAA
79697 TCAACAAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 24 0.73
30 9 0.27
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (29 bp):
TAAAAAAAATTAAGAAATTCTTTTAGAAA
Found at i:79709 original size:27 final size:28
Alignment explanation
Indices: 79652--79710 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
79642 TAAGAAATTC
* * * *
79652 TTTTAGAAATAAAAAAAATTAAGACATTT
1 TTTTAGAAAT-AAAAAAATCAACAAAGTT
79681 TTTTAGAAAT-AAAAAATCAACAAAGTT
1 TTTTAGAAATAAAAAAATCAACAAAGTT
79708 TTT
1 TTT
79711 ATAAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 16 0.62
29 10 0.38
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.36
Consensus pattern (28 bp):
TTTTAGAAATAAAAAAATCAACAAAGTT
Found at i:79788 original size:28 final size:26
Alignment explanation
Indices: 79743--79806 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
79733 TACTTATGAA
* * **
79743 TTTTAAGAAACTATAAATATTAAGAAT
1 TTTTTAGAAACTAAAAATAAGAA-AAT
79770 TTTTTAGAAACTGAAAAATAAGAAAAT
1 TTTTTAGAAACT-AAAAATAAGAAAAT
*
79797 TTGTTAGAAA
1 TTTTTAGAAA
79807 TTTAAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.52, C:0.03, G:0.11, T:0.34
Consensus pattern (26 bp):
TTTTTAGAAACTAAAAATAAGAAAAT
Found at i:79837 original size:16 final size:17
Alignment explanation
Indices: 79805--79839 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
79795 ATTTGTTAGA
*
79805 AATTTAAAAAATCTAAT
1 AATTTAAAAAATATAAT
79822 AATTTAAAAAA-ATAAT
1 AATTTAAAAAATATAAT
79838 AA
1 AA
79840 AGGAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AATTTAAAAAATATAAT
Found at i:80450 original size:114 final size:112
Alignment explanation
Indices: 80285--80747 Score: 457
Period size: 114 Copynumber: 4.1 Consensus size: 112
80275 GAAAAGGACA
* *
80285 TGAATTGTTAAGATTCTCTGTCATTTGAAATTATTATCGTCTAGGATCATCATTTTCTTGCAGTA
1 TGAATAGTTAAGATTCTCTGTCATTTGAAATTATTAT-GTCTAGGATCATCATTTTCTTGTAGT-
* * * *
80350 AT-CAGAAAGTTC-ATATTTGAATTGATGTTTCACTGCACATAAAATAAAG
64 ATGAAGAAAGTTCTA-ATATGAAGTGATGTTTCACTGCAAATAAAA-AAAG
* * * *
80399 TGAATAGTTAATATTCTCTTTCATTTGAAATTATTACTGTCTCGGGTCATCATTTTCTTGTAGTA
1 TGAATAGTTAAGATTCTCTGTCATTTGAAATTATTA-TGTCTAGGATCATCATTTTCTTGTAGTA
* * * * * **
80464 TGAAGAATGTTTTAATATGAAGTGATGTTTCACTACAAAGAAAAGGACC
65 TGAAGAAAGTTCTAATATGAAGTGATGTTTCACTGCAAATAAAA-AAAG
* *
80513 TGAATAGTTAGGATTCTCTGTCATTTGAAATTATTATTGTCTTA-GATCATCATTTTCTTATAGT
1 TGAATAGTTAAGATTCTCTGTCATTTGAAATTATTA-TGTC-TAGGATCATCATTTTCTTGTAGT
* * * * * *
80577 ATGAAGAAAGTTCTAATATGAGGTGATGTTTTATTGTAGATAAAAATATG
64 ATGAAGAAAGTTCTAATATGAAGTGATGTTTCACTGCAAATAAAAA-AAG
* * * * * * *
80627 TGAATAGTTAAGATTCTATATCATTTGAAATTATTATCGCCTCA-AATTATCATTTTCTTCTAAT
1 TGAATAGTTAAGATTCTCTGTCATTTGAAATTATTAT-GTCT-AGGATCATCATTTTCTTGTAGT
* * * * *
80691 ATGAAGAAAGTTCTGATATGAGGTGATGTTTTACTGTAAAGAAAAGAAAG
64 ATGAAGAAAGTTCTAATATGAAGTGATGTTTCACTGCAAATAAAA-AAAG
80741 TGAATAG
1 TGAATAG
80748 GCTTGGATCA
Statistics
Matches: 291, Mismatches: 50, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
113 4 0.01
114 283 0.97
115 4 0.01
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.40
Consensus pattern (112 bp):
TGAATAGTTAAGATTCTCTGTCATTTGAAATTATTATGTCTAGGATCATCATTTTCTTGTAGTAT
GAAGAAAGTTCTAATATGAAGTGATGTTTCACTGCAAATAAAAAAAG
Found at i:80681 original size:228 final size:228
Alignment explanation
Indices: 80255--80736 Score: 569
Period size: 228 Copynumber: 2.1 Consensus size: 228
80245 ATGATTTGAG
* *
80255 GTGATGTTTCACGACTAAAAGAAAAGGACATGAATTGTTAAGATTCTCTGTCATTTGAAATTATT
1 GTGATGTTTCACTAC--AAAGAAAAGGACATGAATAGTTAAGATTCTCTGTCATTTGAAATTATT
* * * *
80320 ATCGTCTAGGATCATCATTTTCTTGCAGTAATCAGAAAGTTCATATTTGAATTGATGTTTCACTG
64 ATCGTCTAGGATCATCATTTTCTTACAGTAATAAGAAAGTTCATATATGAAGTGATGTTTCACTG
* * * * ***
80385 CACATAAAATAAAGTGAATAGTTAATATTCTCTTTCATTTGAAATTATTACTGTCTCGGGTCATC
129 CACATAAAATAAAGTGAATAGTTAAGATTCTATATCATTTGAAATTATTACTGCCTCAAATCATC
* * * *
80450 ATTTTCTTGTAGTATGAAGAATGTTTTAATATGAA
194 ATTTTCTTCTAATATGAAGAAAGTTCTAATATGAA
* *
80485 GTGATGTTTCACTACAAAGAAAAGGACCTGAATAGTTAGGATTCTCTGTCATTTGAAATTATTAT
1 GTGATGTTTCACTACAAAGAAAAGGACATGAATAGTTAAGATTCTCTGTCATTTGAAATTATTAT
* * * * *
80550 TGTCTTA-GATCATCATTTTCTTATAGT-ATGAAGAAAGTTC-TAATATGAGGTGATGTTTTATT
66 CGTC-TAGGATCATCATTTTCTTACAGTAAT-AAGAAAGTTCAT-ATATGAAGTGATGTTTCACT
* * * *
80612 GTAGATAAAA-ATATGTGAATAGTTAAGATTCTATATCATTTGAAATTATTA-TCGCCTCAAATT
128 GCACATAAAATA-AAGTGAATAGTTAAGATTCTATATCATTTGAAATTATTACT-GCCTCAAATC
* *
80675 ATCATTTTCTTCTAATATGAAGAAAGTTCTGATATGAG
191 ATCATTTTCTTCTAATATGAAGAAAGTTCTAATATGAA
* **
80713 GTGATGTTTTACTGTAAAGAAAAG
1 GTGATGTTTCACTACAAAGAAAAG
80737 AAAGTGAATA
Statistics
Matches: 214, Mismatches: 33, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
227 5 0.02
228 193 0.90
229 2 0.01
230 14 0.07
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.39
Consensus pattern (228 bp):
GTGATGTTTCACTACAAAGAAAAGGACATGAATAGTTAAGATTCTCTGTCATTTGAAATTATTAT
CGTCTAGGATCATCATTTTCTTACAGTAATAAGAAAGTTCATATATGAAGTGATGTTTCACTGCA
CATAAAATAAAGTGAATAGTTAAGATTCTATATCATTTGAAATTATTACTGCCTCAAATCATCAT
TTTCTTCTAATATGAAGAAAGTTCTAATATGAA
Found at i:87227 original size:2 final size:2
Alignment explanation
Indices: 87220--87438 Score: 120
Period size: 2 Copynumber: 112.5 Consensus size: 2
87210 CATATAAAAC
87220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * **
87262 TA TA TA TCA CA T- TA TA TA TA TT TA CA TA GA T- TT TCA -A AA CC
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * * * * *
87303 TG CA TA T- TA TA T- TA TA TC CA TG TA TA TA TG TA T- TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87341 TA CTA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
87383 TA TA T- TCA -A AA T- TA TA T- TA TA TA TC TA TT TA TA AA CTA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
*
87423 TA CTA TA TA TT TA TA T
1 TA -TA TA TA TA TA TA T
87439 TTTTAAACTA
Statistics
Matches: 165, Mismatches: 34, Indels: 36
0.70 0.14 0.15
Matches are distributed among these distances:
1 12 0.07
2 147 0.89
3 6 0.04
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:88150 original size:134 final size:134
Alignment explanation
Indices: 87987--88249 Score: 375
Period size: 134 Copynumber: 2.0 Consensus size: 134
87977 ATCCACTTTG
* * *
87987 CTGCTCTTCATGAAGACCAAATCTAAAAGAA-AGAGAATTTGCTCTACTACTCTTTAGGGGAGAT
1 CTGCTCTTCAGGAAGACCAAATCTAAAAGAATA-AGAATCTACTCTACTACTCTTTAGGGGAGAT
* * * * * *
88051 CATACTCGAGAAAATTTTGATCCACTTTGCTGCTCTTTAGGGAAGATTGAATCGAACTTGATTTG
65 CAGACTCGAGAAAAATTTGATCCACTTCGCTGCTCTTCAAGGAAGATTAAATCGAACTTGATTTG
88116 CTTCA
130 CTTCA
* * * * *
88121 CTGCTCTTTAGGAAGACCGAATCTGAAAGAATAAGAATCTACTCTGCTACTCTTTAGGGGATATC
1 CTGCTCTTCAGGAAGACCAAATCTAAAAGAATAAGAATCTACTCTACTACTCTTTAGGGGAGATC
*
88186 AGACTCGAGAAAAATTTGATCCACTTCGCTGCTCTTCAAGGAAGATTAAATCGATCTTGATTTG
66 AGACTCGAGAAAAATTTGATCCACTTCGCTGCTCTTCAAGGAAGATTAAATCGAACTTGATTTG
88250 TTTATCTTAT
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
134 112 0.99
135 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (134 bp):
CTGCTCTTCAGGAAGACCAAATCTAAAAGAATAAGAATCTACTCTACTACTCTTTAGGGGAGATC
AGACTCGAGAAAAATTTGATCCACTTCGCTGCTCTTCAAGGAAGATTAAATCGAACTTGATTTGC
TTCA
Found at i:89812 original size:21 final size:21
Alignment explanation
Indices: 89786--89830 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
89776 GATTTCTGGG
* *
89786 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
89807 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
89828 CAA
1 CAA
89831 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:90853 original size:2 final size:2
Alignment explanation
Indices: 90846--90871 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
90836 GAACATGTGA
90846 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
90872 GTCTAAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91518 original size:149 final size:149
Alignment explanation
Indices: 91338--91642 Score: 592
Period size: 149 Copynumber: 2.0 Consensus size: 149
91328 AGAGTCGAGG
91338 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
1 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
*
91403 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATT
66 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
91468 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
91487 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
1 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
91552 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
91617 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
*
91636 TTCTACG
1 GTCTACG
91643 GGGCACTTCG
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAA
Found at i:91665 original size:23 final size:23
Alignment explanation
Indices: 91621--91665 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
91611 ATCATTATAT
*
91621 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
91644 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
91666 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:94903 original size:21 final size:21
Alignment explanation
Indices: 94877--94921 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
94867 GATTTCTGGG
* *
94877 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
94898 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
94919 CAA
1 CAA
94922 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:96605 original size:149 final size:149
Alignment explanation
Indices: 96424--96728 Score: 574
Period size: 149 Copynumber: 2.0 Consensus size: 149
96414 AGAGTCGAGG
*
96424 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTAGAACATGTGTGAAGTCTGGAAAGACACA
1 GTCTACGCGATTCTTAGGGACATATGTATATTCTTTAGAACATGTGTGAAGTCTGGAAAGACACA
*
96489 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATT
66 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
96554 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
*
96573 GTCTACGCGATTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
1 GTCTACGCGATTCTTAGGGACATATGTATATTCTTTAGAACATGTGTGAAGTCTGGAAAGACACA
96638 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
96703 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
*
96722 TTCTACG
1 GTCTACG
96729 GGGCACTTCG
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
GTCTACGCGATTCTTAGGGACATATGTATATTCTTTAGAACATGTGTGAAGTCTGGAAAGACACA
TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAA
Found at i:96751 original size:23 final size:23
Alignment explanation
Indices: 96707--96751 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
96697 ATCATTATAT
*
96707 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
96730 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
96752 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:97739 original size:22 final size:23
Alignment explanation
Indices: 97714--97757 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
97704 TCTTGAAACC
97714 CCTTTTATTT-CTTTTTATTTTT
1 CCTTTTATTTCCTTTTTATTTTT
*
97736 CCTTTTTTTTCCCTTTTTATTT
1 CCTTTTATTT-CCTTTTTATTT
97758 ATTTTTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
24 10 0.53
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (23 bp):
CCTTTTATTTCCTTTTTATTTTT
Found at i:108228 original size:19 final size:19
Alignment explanation
Indices: 108206--108244 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
108196 TTTGATTTTC
*
108206 AAATAACATTTTAAATAAA
1 AAATAACACTTTAAATAAA
* *
108225 AAATACCCCTTTAAATAAA
1 AAATAACACTTTAAATAAA
108244 A
1 A
108245 TAAATACCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATAACACTTTAAATAAA
Found at i:113502 original size:145 final size:146
Alignment explanation
Indices: 113315--113608 Score: 563
Period size: 145 Copynumber: 2.0 Consensus size: 146
113305 ATAAATAGAA
113315 ACCCTAATGGGTTTTAGGTTTTTTTGGGTCATGATCTGCTGGGCTTGATCCAGCTCGGGTTTAGC
1 ACCCTAATGGGTTTTAGGTTTTTTTGGGTCATGATCTGCTGGGCTTGATCCAGCTCGGGTTTAGC
113380 CACTTTTTGGATCTCTCAACCGGACTCCCTCAACCAGGCTGGCACTGCTGGGTCAGGCTTGTGAG
66 CACTTTTTGGATCTCTCAACCGGACTCCCTCAACCAGGCTGGCACTGCTGGGTCAGGCTTGTGAG
113445 CCTGGACACCTATCGT
131 CCTGGACACCTATCGT
113461 ACCCTAATGGGTTTTAGG-TTTTTTGGGTCATGATCTGCTGGGCTTGATCCAGCTCGGGTTTAGC
1 ACCCTAATGGGTTTTAGGTTTTTTTGGGTCATGATCTGCTGGGCTTGATCCAGCTCGGGTTTAGC
* *
113525 CACTTTTTGGATCTCTCAATCGGACTCCCTCAACCAGGCTGGCACTTCTGGGTCAGGCTTGTGAG
66 CACTTTTTGGATCTCTCAACCGGACTCCCTCAACCAGGCTGGCACTGCTGGGTCAGGCTTGTGAG
113590 CCTGGACACCTATCGT
131 CCTGGACACCTATCGT
113606 ACC
1 ACC
113609 ATTGGTCTAT
Statistics
Matches: 146, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
145 128 0.88
146 18 0.12
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (146 bp):
ACCCTAATGGGTTTTAGGTTTTTTTGGGTCATGATCTGCTGGGCTTGATCCAGCTCGGGTTTAGC
CACTTTTTGGATCTCTCAACCGGACTCCCTCAACCAGGCTGGCACTGCTGGGTCAGGCTTGTGAG
CCTGGACACCTATCGT
Found at i:113859 original size:2 final size:2
Alignment explanation
Indices: 113788--113840 Score: 63
Period size: 2 Copynumber: 26.5 Consensus size: 2
113778 TCAAAACTTG
* * *
113788 TA TA CTA TA T- TA TT TA TC TA TG TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113830 TA TA TA TA TA T
1 TA TA TA TA TA T
113841 TCAAAACTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
1 1 0.02
2 40 0.93
3 2 0.05
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:113871 original size:25 final size:26
Alignment explanation
Indices: 113822--113919 Score: 99
Period size: 25 Copynumber: 3.7 Consensus size: 26
113812 TATATATATA
* *
113822 TATATATATATATATATATTCAAAAC
1 TATATATATATATATATTTTAAAAAC
* *
113848 TATAT-TATATATCTATTTTTAAAAC
1 TATATATATATATATATTTTAAAAAC
* *
113873 TATATACTATATATTTATTTAAAAAAC
1 TATATA-TATATATATATTTTAAAAAC
113900 ATATACTATATATTATATAT
1 -TATA-TATATA-TATATAT
113920 ATATATATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
25 22 0.37
26 5 0.08
27 17 0.28
28 8 0.13
29 8 0.13
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (26 bp):
TATATATATATATATATTTTAAAAAC
Found at i:113913 original size:60 final size:59
Alignment explanation
Indices: 113848--114012 Score: 152
Period size: 63 Copynumber: 2.7 Consensus size: 59
113838 TATTCAAAAC
*
113848 TATATTATATATCTATTTTTAAAACTATATACTATATATTTATTTAAAAAACATATACTA
1 TATATTATATATCTATTTTTAAAATTATATACTATATATTTATTT-AAAAACATATACTA
* * * * * * **
113908 TATATTATATATATATATATTATATTTTTAAACTATACTATATTTATTTAAATCCATATACTA
1 TATATTATATATCTAT-TTTTAAAATTATATAC--TA-TATATTTATTTAAAAACATATACTA
*
113971 TATATATATTTATATACT-TTTTTAAAATTATATATTATATAT
1 TATAT-TA--TATAT-CTATTTTTAAAATTATATACTATATAT
114013 AATAATAAAT
Statistics
Matches: 81, Mismatches: 16, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
60 15 0.19
61 10 0.12
62 5 0.06
63 21 0.26
64 13 0.16
65 10 0.12
66 6 0.07
67 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (59 bp):
TATATTATATATCTATTTTTAAAATTATATACTATATATTTATTTAAAAACATATACTA
Found at i:113967 original size:89 final size:95
Alignment explanation
Indices: 113810--113982 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 95
113800 TTTATCTATG
* *
113810 TATATATATATATATATATATATATATATATTCAAAACTATATTATATATCTATTTTTAAAACTA
1 TATATATATATATATATATATATATATATATTCAAAACTATACTATATATCTA-TTTTAAAACCA
*
113875 TATACTATATATTTATTTAAAAAACATATAC
65 TATACTATATATATATTTAAAAAACATATAC
** *
113906 TATATAT-TATATATATATATAT-TATAT-TTTTAAACTATACTATAT-T-TA-TTTAAATCCAT
1 TATATATATATATATATATATATATATATATTCAAAACTATACTATATATCTATTTTAAAACCAT
113965 ATACTATATATATATTTA
66 ATACTATATATATATTTA
113983 TATACTTTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
89 26 0.37
91 2 0.03
92 1 0.01
93 15 0.21
94 5 0.07
95 15 0.21
96 7 0.10
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.49
Consensus pattern (95 bp):
TATATATATATATATATATATATATATATATTCAAAACTATACTATATATCTATTTTAAAACCAT
ATACTATATATATATTTAAAAAACATATAC
Found at i:114416 original size:2 final size:2
Alignment explanation
Indices: 114373--114398 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
114363 AATAAATTTA
114373 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
114399 TACTTTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114645 original size:2 final size:2
Alignment explanation
Indices: 114521--114628 Score: 216
Period size: 2 Copynumber: 54.0 Consensus size: 2
114511 AATAAATTTA
114521 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
114563 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
114605 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
114629 TACTTAATCG
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 106 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115176 original size:3 final size:3
Alignment explanation
Indices: 115168--115220 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
115158 CCGATAATTG
115168 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
115217 ATT A
1 ATT A
115221 ATTTTTTTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:117491 original size:22 final size:22
Alignment explanation
Indices: 117463--117522 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 22
117453 TAATTTTATA
117463 TATATTAACTTAAAA-ATAGTTT
1 TATATTAACTTAAAATATA-TTT
117485 TATATTAACTTATTAAATATATTT
1 TATATTAACTTA--AAATATATTT
*
117509 CATTATTAACTTAA
1 TA-TATTAACTTAA
117523 TTTATAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
22 12 0.36
23 1 0.03
24 7 0.21
25 13 0.39
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (22 bp):
TATATTAACTTAAAATATATTT
Found at i:120001 original size:10 final size:10
Alignment explanation
Indices: 119986--120013 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
119976 GAGGACACTT
119986 CACGCGCCCA
1 CACGCGCCCA
119996 CACGCGCCCA
1 CACGCGCCCA
120006 CACGCGCC
1 CACGCGCC
120014 GCCGCAGGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.61, G:0.21, T:0.00
Consensus pattern (10 bp):
CACGCGCCCA
Found at i:120062 original size:11 final size:11
Alignment explanation
Indices: 120037--120075 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
120027 GAAATCTGGA
120037 AACCGG-TTT-
1 AACCGGTTTTG
120046 AACCGGTTTTG
1 AACCGGTTTTG
120057 AACCGGTTTTG
1 AACCGGTTTTG
120068 -ACCGGTTT
1 AACCGGTTT
120076 GACCGGTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 6 0.21
10 11 0.39
11 11 0.39
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:120088 original size:19 final size:21
Alignment explanation
Indices: 120047--120089 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
120037 AACCGGTTTA
**
120047 ACCGGTTTTGAACCGGTTTTG
1 ACCGGTTTTGAACCGGTCATG
120068 ACCGG-TTTG-ACCGGTCATG
1 ACCGGTTTTGAACCGGTCATG
120087 ACC
1 ACC
120090 CGTTGACCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 4 0.20
21 5 0.25
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
ACCGGTTTTGAACCGGTCATG
Found at i:120107 original size:18 final size:18
Alignment explanation
Indices: 120086--120120 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
120076 GACCGGTCAT
120086 GACCCGTTGACCCGACCC
1 GACCCGTTGACCCGACCC
120104 GACCCGTTGACCCGACC
1 GACCCGTTGACCCGACC
120121 GTTGATCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (18 bp):
GACCCGTTGACCCGACCC
Found at i:120255 original size:29 final size:28
Alignment explanation
Indices: 120128--120265 Score: 90
Period size: 29 Copynumber: 5.0 Consensus size: 28
120118 ACCGTTGATC
* ***
120128 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGAGAATTAATTC-GAAAT
*
120157 GGTGCTATTCT-AGGAATTAATTTGAAAT
1 GGTGCTATTCTGA-GAATTAATTCGAAAT
*
120185 GGTGCTATTTTG-GTAATT--TTCGAAA-
1 GGTGCTATTCTGAG-AATTAATTCGAAAT
* * *
120210 AGTGATAATCT-AGGAATTAATTCGAAATT
1 GGTGCTATTCTGA-GAATTAATTCGAAA-T
* *
120239 GGTGCTATTTTGAGAATTAATTTGAAA
1 GGTGCTATTCTGAGAATTAATTCGAAA
120266 AAGAGTGCTA
Statistics
Matches: 83, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
25 11 0.13
26 7 0.08
27 8 0.10
28 16 0.19
29 40 0.48
30 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (28 bp):
GGTGCTATTCTGAGAATTAATTCGAAAT
Found at i:120276 original size:30 final size:28
Alignment explanation
Indices: 120157--120307 Score: 107
Period size: 29 Copynumber: 5.4 Consensus size: 28
120147 ATTCGGTTTT
* *
120157 GGTGCTATTCTAGGAATTAATTTG-AAAT
1 GGTGCTATT-TTGGAATTAATTTGAAAAA
*
120185 GGTGCTATTTTGGTAATT--TTCG-AAAA
1 GGTGCTATTTTGG-AATTAATTTGAAAAA
* * * * **
120211 -GTGATAATCTAGGAATTAATTCGAAATT
1 GGTGCT-ATTTTGGAATTAATTTGAAAAA
120239 GGTGCTATTTTGAGAATTAATTTGAAAAA
1 GGTGCTATTTTG-GAATTAATTTGAAAAA
*
120268 GAGTGCTATTTTGGTAATT-ATTTAAAAAA
1 G-GTGCTATTTTGG-AATTAATTTGAAAAA
120297 GGGTGCTATTT
1 -GGTGCTATTT
120308 GTGTAAAATG
Statistics
Matches: 98, Mismatches: 15, Indels: 19
0.74 0.11 0.14
Matches are distributed among these distances:
25 8 0.08
26 11 0.11
27 7 0.07
28 19 0.19
29 37 0.38
30 16 0.16
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (28 bp):
GGTGCTATTTTGGAATTAATTTGAAAAA
Found at i:121019 original size:24 final size:24
Alignment explanation
Indices: 120987--121055 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
120977 ATAGTTTATC
*
120987 TGATTTTTGACCTGGATTCTGATA
1 TGATATTTGACCTGGATTCTGATA
* * *
121011 TGATATTTGACCTGAATTTTTATA
1 TGATATTTGACCTGGATTCTGATA
* * *
121035 TGATACTTGACATGGACTCTG
1 TGATATTTGACCTGGATTCTG
121056 TTTTGTACTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATTTGACCTGGATTCTGATA
Found at i:122879 original size:13 final size:14
Alignment explanation
Indices: 122856--122885 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
122846 TTCCCATTAC
122856 AGACGTGCATATGA
1 AGACGTGCATATGA
122870 AGAC-TGCATATGA
1 AGACGTGCATATGA
122883 AGA
1 AGA
122886 TTGTCCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (14 bp):
AGACGTGCATATGA
Found at i:123064 original size:3 final size:3
Alignment explanation
Indices: 123056--123083 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
123046 GAATAGGGTT
123056 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
123084 ATCTAGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:125987 original size:31 final size:31
Alignment explanation
Indices: 125944--126005 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
125934 GTTTAAATTT
*
125944 ATATTTAAAAACATTAATTCAAATAGAAATA
1 ATATTTAAAAACATTAATTCAAATACAAATA
* *
125975 ATATTTACAAACATTCATTCAAATACAAATA
1 ATATTTAAAAACATTAATTCAAATACAAATA
126006 TGCAAGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (31 bp):
ATATTTAAAAACATTAATTCAAATACAAATA
Found at i:129653 original size:2 final size:2
Alignment explanation
Indices: 129646--129672 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
129636 CATTTTTCTC
129646 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
129673 GAACAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131489 original size:6 final size:6
Alignment explanation
Indices: 131473--131502 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
131463 TTTTAATTTT
131473 AAATTA TAAATTA AAATTA AAATTA AAATT
1 AAATTA -AAATTA AAATTA AAATTA AAATT
131503 TGTACATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
AAATTA
Found at i:149146 original size:27 final size:28
Alignment explanation
Indices: 149116--149177 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
149106 TATGATAATG
*
149116 CCCTAAAATGTAAAATGACC-AAACTAC
1 CCCTAAAATGTAAAATGACCTAAAATAC
* *
149143 CCCTAAAGTGTAAAATGGCCTAAAATAC
1 CCCTAAAATGTAAAATGACCTAAAATAC
*
149171 CTCTAAA
1 CCCTAAA
149178 CCCTGGAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.21
Consensus pattern (28 bp):
CCCTAAAATGTAAAATGACCTAAAATAC
Found at i:150057 original size:24 final size:24
Alignment explanation
Indices: 150026--150075 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
150016 ATTATATTCT
*
150026 ATATCTGATATGGATTCTGTTATG
1 ATATCTGATATGAATTCTGTTATG
* *
150050 ATATCTGATTTGAATTCTGTTCTG
1 ATATCTGATATGAATTCTGTTATG
150074 AT
1 AT
150076 TTCTATTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.48
Consensus pattern (24 bp):
ATATCTGATATGAATTCTGTTATG
Found at i:157825 original size:24 final size:24
Alignment explanation
Indices: 157793--157873 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
157783 ACACTTAACA
157793 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCCTTTGAAT
* *
157817 GTGCATCGATTCAT-CATGTTG-A-
1 GTGCATCGATGCATCCCT-TTGAAT
*
157839 -TGCACCGATGCA-CGCC-TTGAAT
1 GTGCATCGATGCATC-CCTTTGAAT
157861 GTGCATCGATGCA
1 GTGCATCGATGCA
157874 CGGGGTCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 11 0.24
22 1 0.02
23 14 0.31
24 16 0.36
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTGAAT
Found at i:159457 original size:21 final size:21
Alignment explanation
Indices: 159415--159458 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
159405 ACTTCGGGAG
*
159415 CTAGTTCCTCACGAGCTGCTC
1 CTAGTTCCTCACGAGCTCCTC
* *
159436 CTAGTTCCTCTCGTGCTCCTC
1 CTAGTTCCTCACGAGCTCCTC
159457 CT
1 CT
159459 CCGGCTCCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGTTCCTCACGAGCTCCTC
Found at i:160578 original size:45 final size:46
Alignment explanation
Indices: 160522--160629 Score: 125
Period size: 46 Copynumber: 2.4 Consensus size: 46
160512 TGCACTAATC
*
160522 CATGCATCGATGCACCATGA-ATTAAATTG-AACATCGAATGCATTT
1 CATGCATCGATGCACCATGAGATTAAA-TGAAACATCAAATGCATTT
**
160567 CATGCATCGATGCA-C-TGAGGATTTTATGAAAACATCAAATGCATTT
1 CATGCATCGATGCACCATGA-GATTAAATG-AAACATCAAATGCATTT
*
160613 GATGCATCGATGCACCA
1 CATGCATCGATGCACCA
160630 GCCATGCATC
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
43 3 0.06
44 3 0.06
45 18 0.34
46 28 0.53
47 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGCATCGATGCACCATGAGATTAAATGAAACATCAAATGCATTT
Found at i:160679 original size:64 final size:65
Alignment explanation
Indices: 160567--160691 Score: 182
Period size: 64 Copynumber: 1.9 Consensus size: 65
160557 GAATGCATTT
* *
160567 CATGCATCGATGCACTGAGGATTTTATGAAAACATCAAATGCATTTGATGCATCGATGCACCAGC
1 CATGCATCGATGCACTCAGGATTTTATGAAAACATCAAATGCACTTGATGCATCGATGCACCAGC
* * *
160632 CATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACTTGATGCATCGATGCAC
1 CATGCATCGATGCACTCAGGAT-TTTATGAAAACATCAAATGCACTTGATGCATCGATGCAC
160692 TCTTAGTGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 30 0.56
65 21 0.39
66 3 0.06
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (65 bp):
CATGCATCGATGCACTCAGGATTTTATGAAAACATCAAATGCACTTGATGCATCGATGCACCAGC
Found at i:160691 original size:17 final size:19
Alignment explanation
Indices: 160663--160711 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
160653 TATTTTGAAA
160663 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
160681 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
160700 CACCGATGCACT
1 CATCGATGCACT
160712 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:170813 original size:22 final size:22
Alignment explanation
Indices: 170788--170838 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
170778 TGTGGAAATT
*
170788 GAAGATGAAGGTCATCCTAAGG
1 GAAGATGAAGGTCATCATAAGG
*
170810 GAAGATGAAGTTCATCATAAGG
1 GAAGATGAAGGTCATCATAAGG
170832 GAAGATG
1 GAAGATG
170839 GTTGTCTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.31, T:0.20
Consensus pattern (22 bp):
GAAGATGAAGGTCATCATAAGG
Found at i:176030 original size:24 final size:23
Alignment explanation
Indices: 175983--176045 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
175973 CATTTATTTT
*
175983 TTTAAATATAATAATATTACATA
1 TTTAATTATAATAATATTACATA
* *
176006 TTTAATTATTAATAATTTTATATA
1 TTTAATTA-TAATAATATTACATA
*
176030 TTAAATTA-AACTAATA
1 TTTAATTATAA-TAATA
176046 AAATAAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 2 0.06
23 11 0.33
24 20 0.61
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTAATTATAATAATATTACATA
Found at i:176507 original size:27 final size:27
Alignment explanation
Indices: 176461--176513 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
176451 TATTCTAAAG
176461 AGAGTTTTTCTTCTTCTTGA-TCAACT
1 AGAGTTTTTCTTCTTCTTGATTCAACT
*
176487 AGAGTTTTTAC-TCTATTTTGATTCAAC
1 AGAGTTTTT-CTTCT-TCTTGATTCAAC
176514 AATTGGTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 12 0.52
27 6 0.26
28 5 0.22
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (27 bp):
AGAGTTTTTCTTCTTCTTGATTCAACT
Found at i:179543 original size:29 final size:29
Alignment explanation
Indices: 179509--179567 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
179499 CCTAAATTAA
179509 TTTGATGTCATTGCGTACATCAATTTAGT
1 TTTGATGTCATTGCGTACATCAATTTAGT
*
179538 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCGTACATCAATTTAGT
179567 T
1 T
179568 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47
Consensus pattern (29 bp):
TTTGATGTCATTGCGTACATCAATTTAGT
Found at i:186687 original size:11 final size:11
Alignment explanation
Indices: 186673--186698 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
186663 AAATATTTAA
186673 TATATATTATT
1 TATATATTATT
186684 TATATATTATT
1 TATATATTATT
186695 TATA
1 TATA
186699 AATTTCAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATATTATT
Found at i:189072 original size:30 final size:30
Alignment explanation
Indices: 189038--189151 Score: 156
Period size: 30 Copynumber: 3.8 Consensus size: 30
189028 AGACTGCCTT
* * * *
189038 CCAGAGGGCTTAATGTTAGAGGTCATACGG
1 CCAGAGGACTTAATGCTAGAGGCCATACTG
*
189068 CCAGAGGACTTAATGCTAGAGGCCTTACTG
1 CCAGAGGACTTAATGCTAGAGGCCATACTG
* *
189098 CCAGAGGACTTGATGCTAGAAGCCATACTG
1 CCAGAGGACTTAATGCTAGAGGCCATACTG
*
189128 CCAGATGACTTAATGCTAGAGGCC
1 CCAGAGGACTTAATGCTAGAGGCC
189152 TTGGGTTTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (30 bp):
CCAGAGGACTTAATGCTAGAGGCCATACTG
Done.