Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001138.1 Hibiscus syriacus cultivar Beakdansim tig00002268_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: 87266
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:875 original size:20 final size:20
Alignment explanation
Indices: 850--887 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
840 AATAGTTTCT
850 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
870 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
888 GAGGAATCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:1181 original size:21 final size:22
Alignment explanation
Indices: 1144--1186 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1134 AGATGGAGAT
1144 AGACGGATTTCGCCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
*
1166 AGACGGA-TTCGTCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
1187 GTAGAGAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.23, C:0.16, G:0.42, T:0.19
Consensus pattern (22 bp):
AGACGGATTTCGCCGGAGATGG
Found at i:1408 original size:18 final size:18
Alignment explanation
Indices: 1370--1418 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
1360 GATTATGTAT
***
1370 TATCGCGTTGCGAAGTCG
1 TATCGCGTTGCGAAAAAG
1388 TATCGCGTTGCGAAAAAG
1 TATCGCGTTGCGAAAAAG
*
1406 TATCTCGTTGCGA
1 TATCGCGTTGCGA
1419 TTTTTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (18 bp):
TATCGCGTTGCGAAAAAG
Found at i:1474 original size:19 final size:19
Alignment explanation
Indices: 1450--1520 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
1440 GATTTTCCCA
*
1450 ATTCGCGTTGCGATTACTT
1 ATTCGCATTGCGATTACTT
* * **
1469 ATTCGCATTACGATTTTCCA
1 ATTCGCATTGCGA-TTACTT
*
1489 ATTCGCGTTGCGATTACTT
1 ATTCGCATTGCGATTACTT
1508 ATTCGCATTGCGA
1 ATTCGCATTGCGA
1521 ATTGGGAAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
19 26 0.65
20 14 0.35
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (19 bp):
ATTCGCATTGCGATTACTT
Found at i:1501 original size:39 final size:40
Alignment explanation
Indices: 1431--1516 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 40
1421 TTTTTTATTA
*
1431 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTACTTAT
1 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTACTTAT
1471 TCGCATTACGATTTT-CCAATTCGCGTTGCGATTACTTAT
1 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTACTTAT
1510 TCGCATT
1 TCGCATT
1517 GCGAATTGGG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 31 0.69
40 14 0.31
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (40 bp):
TCGCATTACGATTTTCCCAATTCGCGTTGCGATTACTTAT
Found at i:2566 original size:49 final size:49
Alignment explanation
Indices: 2494--2593 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
2484 GCGCACACAC
2494 ATATAAATTCTCAATTCTATTCGATAAAATAGAGAACTAATTGAAAAAA
1 ATATAAATTCTCAATTCTATTCGATAAAATAGAGAACTAATTGAAAAAA
2543 ATATAAATTCTCAATTCTATTCGATAAAATAGAGAACTAATTGAAAAAA
1 ATATAAATTCTCAATTCTATTCGATAAAATAGAGAACTAATTGAAAAAA
2592 AT
1 AT
2594 CGTATAGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (49 bp):
ATATAAATTCTCAATTCTATTCGATAAAATAGAGAACTAATTGAAAAAA
Found at i:7235 original size:17 final size:19
Alignment explanation
Indices: 7213--7252 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
7203 CTTTTCAAAT
7213 TTTTTATA-TATTTAT-TA
1 TTTTTATAGTATTTATATA
*
7230 TTTTTATAGTTTTTATATA
1 TTTTTATAGTATTTATATA
7249 TTTT
1 TTTT
7253 CTTATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 6 0.30
19 6 0.30
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTATAGTATTTATATA
Found at i:11825 original size:12 final size:13
Alignment explanation
Indices: 11808--11838 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
11798 TCCAACAAAG
11808 AAAGAAGAA-AAA
1 AAAGAAGAAGAAA
11820 AAAGAAGAAGAAA
1 AAAGAAGAAGAAA
11833 AAAGAA
1 AAAGAA
11839 AATTGAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAGAAA
Found at i:11829 original size:15 final size:16
Alignment explanation
Indices: 11804--11835 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11794 CTTATCCAAC
11804 AAAGAAAGAAGAAAAA
1 AAAGAAAGAAGAAAAA
11820 AAAG-AAGAAGAAAAA
1 AAAGAAAGAAGAAAAA
11835 A
1 A
11836 GAAAATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAGAAAAA
Found at i:14256 original size:83 final size:83
Alignment explanation
Indices: 14108--14370 Score: 483
Period size: 83 Copynumber: 3.2 Consensus size: 83
14098 GAACAAATGT
*
14108 AATGTGCTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCT-CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACCAA
14173 TCATTGAATTTAGAAGATG
65 TCATTGAATTTAGAAGATG
14192 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACCAAT
14257 CATTGAATTTAGAAGATG
66 CATTGAATTTAGAAGATG
*
14275 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTATACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACCAAT
14340 CATTGAATTTAGAAGATG
66 CATTGAATTTAGAAGATG
14358 AA-GTTGCTCATAG
1 AATG-TGCTCATAG
14371 GAGAAATAAT
Statistics
Matches: 176, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
82 1 0.01
83 167 0.95
84 8 0.05
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACCAAT
CATTGAATTTAGAAGATG
Found at i:15780 original size:75 final size:75
Alignment explanation
Indices: 15620--15789 Score: 200
Period size: 75 Copynumber: 2.3 Consensus size: 75
15610 AACAAGAAGC
* * * *
15620 AAATATTGGGGCATGCTGAAAACCCCTTTTCAAACAGAATCAGAAATGTTGAAATATTCTGAATA
1 AAATGTTGGGGCATGCTGAAAACCCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACA
15685 TTTATCAGCA
66 TTTATCAGCA
* * * ** *
15695 AAATGCTGGGGCATGCTGAAAA-CCCATTTCAATCAGAATCAGAACTGTTGATGCATTTTGAACA
1 AAATGTTGGGGCATGCTGAAAACCCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACA
*
15759 CTTGTATTAGC-
66 -TT-TATCAGCA
*
15770 CAATGTTGGGGCATGCTGAA
1 AAATGTTGGGGCATGCTGAA
15790 GGCCTATATC
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
74 34 0.43
75 40 0.50
76 6 0.08
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (75 bp):
AAATGTTGGGGCATGCTGAAAACCCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACA
TTTATCAGCA
Found at i:16708 original size:52 final size:53
Alignment explanation
Indices: 16631--16749 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 53
16621 AAAGAGCTTC
* ***
16631 AATGTTTGA-GAACATCTGAGCAGAAGCCACA-AAAAAATGAATGTGTTGTCA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACAGAAAAAATGAATGCACTGTCA
** *
16682 AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCACTGTTA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACA-GAAAAAATGAATGCACTGTCA
16736 AATGTTTTACGAAC
1 AATGTTTTACGAAC
16750 CTGCTATTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
51 8 0.14
52 22 0.38
54 28 0.48
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (53 bp):
AATGTTTTACGAACATCTGAGCAGAAGCCACAGAAAAAATGAATGCACTGTCA
Found at i:17133 original size:22 final size:22
Alignment explanation
Indices: 17104--17158 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
17094 ATCTACACTC
17104 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
17126 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
17148 TTCAAAGATGA
1 TTCAAAGATGA
17159 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:18235 original size:75 final size:76
Alignment explanation
Indices: 17834--19964 Score: 3939
Period size: 76 Copynumber: 28.5 Consensus size: 76
17824 ACTATTTCCC
*
17834 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
17899 AAACCTTCGGG
66 AAGCCTTCGGG
*
17910 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
17975 AAGCCTTCGGG
66 AAGCCTTCGGG
*
17986 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-AGAGC-TTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
18049 AAGCCTTCGGG
66 AAGCCTTCGGG
18060 TCATCTGTAAGTCCTTCAGTGC---ATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
18122 AAGCCTTCGGG
66 AAGCCTTCGGG
18133 TCATCTGTAAGTCCTTCAGTG-ATGATGTTTCCAAAAAG-CTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
18196 AAGCCTTCGGG
66 AAGCCTTCGGG
18207 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
18271 AAG-CTTCGGG
66 AAGCCTTCGGG
18281 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
18345 AAGCCTTCGGG
66 AAGCCTTCGGG
18356 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
18420 AAGCCTTC-GG
66 AAGCCTTCGGG
18430 ---TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
18492 AAGCCTTCGGG
66 AAGCCTTCGGG
18503 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
18568 AAGCCTTCGGG
66 AAGCCTTCGGG
18579 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
18643 AAGCCTTTGGG
66 AAGCCTTCGGG
18654 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
18719 AA-ACTTCGGG
66 AAGCCTTCGGG
18729 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT--TGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
18792 AAGCCTTCGGG
66 AAGCCTTCGGG
18803 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
18868 AAGCCTTCGGG
66 AAGCCTTCGGG
18879 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
18944 AAGCCTTCGGG
66 AAGCCTTCGGG
18955 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19020 AAGCCTTCGGG
66 AAGCCTTCGGG
19031 TCATCTGTAAGTCCTTCAGTGCATGA--TTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19094 AAGCCTTCGGG
66 AAGCCTTCGGG
19105 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19170 AAGCCTTCGGG
66 AAGCCTTCGGG
19181 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19245 AAGCCTTCGGG
66 AAGCCTTCGGG
19256 TCAT-TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19320 AAGCCTTCGGG
66 AAGCCTTCGGG
19331 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19396 AAGCCTTCGGG
66 AAGCCTTCGGG
19407 TCATCTGTAAGTCCTTCAGTGCATG-TGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19471 AAGCCTTCGGG
66 AAGCCTTCGGG
19482 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
19547 AAGCCTTTGGG
66 AAGCCTTCGGG
*
19558 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG-ATTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19622 AAGCCTTCGGG
66 AAGCCTTCGGG
*
19633 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGACGTTTTC-
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19697 AAG-C--CGGG
66 AAGCCTTCGGG
*
19705 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGACGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19770 AAGCCTTCGGG
66 AAGCCTTCGGG
19781 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19846 AAGCCTTCGGG
66 AAGCCTTCGGG
*
19857 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGACG-TTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
19920 AAGCCTT-GGG
66 AAGCCTTCGGG
19930 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAA
19965 TATTTCAATC
Statistics
Matches: 2009, Mismatches: 17, Indels: 61
0.96 0.01 0.03
Matches are distributed among these distances:
71 75 0.04
72 85 0.04
73 99 0.05
74 363 0.18
75 494 0.25
76 893 0.44
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTCGGG
Found at i:18954 original size:226 final size:227
Alignment explanation
Indices: 17834--19964 Score: 3886
Period size: 226 Copynumber: 9.5 Consensus size: 227
17824 ACTATTTCCC
*
17834 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT-ATGTTTTCA
* *
17899 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
17964 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
18029 C-AGAGC-TTTTGATGTTTTCAAAGCCTTCGGG
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
18060 TCATCTGTAAGTCCTTCAGTGC---ATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT-ATGTTTTCA
18122 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTG-ATGATGTTTCCAAAAAG-CTTCGGGAGCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
18185 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTT
130 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
18249 CGGGAGCTTTTTGATGTTTTCAAAG-CTTCGGG
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
*
18281 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTATGTTTTCAA
18346 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
18411 GATG-TTTCAAAGCCTTC-GG---TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
18471 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
18503 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT-ATGTTTTCA
18568 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
18633 TGATG-TTTCAAAGCCTTTGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
18697 CGGGAGCTTTTTGATGTTTTCAAA-ACTTCGGG
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
18729 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT-TGTTTTCAA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTATGTTTTCAA
18793 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
18858 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
18923 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
18955 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT-ATGTTTTCA
19020 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGA--TTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
19083 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
19148 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
*
19181 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTATGTTTTCAA
19246 AGCCTTCGGGTCAT-TGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
19310 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
19375 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
19407 TCATCTGTAAGTCCTTCAGTGCATG-TGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT-ATGTTTTCA
19471 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
19536 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
19601 CGGGAG-ATTTTGATGTTTTCAAAGCCTTCGGG
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
*
19633 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGACGTTTTC-
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT-ATGTTTTCA
19697 AAG-C--CGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
19759 TGACGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
19824 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
* *
19857 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGACG-TTTCAA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTATGTTTTCAA
19921 AGCCTT-GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAA
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAA
19965 TATTTCAATC
Statistics
Matches: 1858, Mismatches: 19, Indels: 57
0.96 0.01 0.03
Matches are distributed among these distances:
220 40 0.02
221 136 0.07
222 98 0.05
223 337 0.18
224 240 0.13
225 192 0.10
226 550 0.30
227 220 0.12
228 45 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (227 bp):
TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
Found at i:23377 original size:2 final size:2
Alignment explanation
Indices: 23370--23394 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23360 CTAAGAAATA
23370 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 A
23395 AAGTTATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24515 original size:53 final size:53
Alignment explanation
Indices: 24431--24531 Score: 184
Period size: 53 Copynumber: 1.9 Consensus size: 53
24421 GGTTATGATT
*
24431 GGTAAGAACTCTATCACGAAAGACTAATCACAAGAAGCAACGAATTTTTTCCC
1 GGTAAGAACTCTATCACGAAAGACTAATCACAAGAAGCAACAAATTTTTTCCC
*
24484 GGTAAGAACTCTATCACGAAAGACTATTCACAAGAAGCAACAAATTTT
1 GGTAAGAACTCTATCACGAAAGACTAATCACAAGAAGCAACAAATTTT
24532 GAATCACGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.23
Consensus pattern (53 bp):
GGTAAGAACTCTATCACGAAAGACTAATCACAAGAAGCAACAAATTTTTTCCC
Found at i:26980 original size:39 final size:39
Alignment explanation
Indices: 26937--27133 Score: 286
Period size: 39 Copynumber: 5.1 Consensus size: 39
26927 ATGGTGTAGC
* * * **
26937 ACGCAAACCAGAGTATCTCCTTTCACCAGCATCAACATT
1 ACGCAAACTAGAGTACCTCCTTTCATCAAAATCAACATT
* * *
26976 ACGCAAACTAGAGTAACTCTTTTCACCAAAATCAACATT
1 ACGCAAACTAGAGTACCTCCTTTCATCAAAATCAACATT
*
27015 ACGCAAACTAGAGTACCTCCTTTCATGAAAATCAACATT
1 ACGCAAACTAGAGTACCTCCTTTCATCAAAATCAACATT
*
27054 ACGCAAACTAGAGTACCTCCTTTCATCACAATCAACATT
1 ACGCAAACTAGAGTACCTCCTTTCATCAAAATCAACATT
* *
27093 GCGCAAACTAGAGTACCTCCTTTCATCAGAATCAACATT
1 ACGCAAACTAGAGTACCTCCTTTCATCAAAATCAACATT
27132 AC
1 AC
27134 AGCTAGAATT
Statistics
Matches: 144, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 144 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.25
Consensus pattern (39 bp):
ACGCAAACTAGAGTACCTCCTTTCATCAAAATCAACATT
Found at i:28130 original size:81 final size:81
Alignment explanation
Indices: 27995--28161 Score: 316
Period size: 81 Copynumber: 2.1 Consensus size: 81
27985 CTCAACTCAT
* *
27995 TTTCCTCAGTCAAATCCAGATTATACTGTGGAAAAGATAAATTTGAATGAGTTTCAATGGACTTT
1 TTTCCTCAGGCAAATCCAGATTATAATGTGGAAAAGATAAATTTGAATGAGTTTCAATGGACTTT
28060 TCTGGTGATGCAGATC
66 TCTGGTGATGCAGATC
28076 TTTCCTCAGGCAAATCCAGATTATAATGTGGAAAAGATAAATTTGAATGAGTTTCAATGGACTTT
1 TTTCCTCAGGCAAATCCAGATTATAATGTGGAAAAGATAAATTTGAATGAGTTTCAATGGACTTT
28141 TCTGGTGATGCAGATC
66 TCTGGTGATGCAGATC
28157 TTTCC
1 TTTCC
28162 AGCAAAGGAG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (81 bp):
TTTCCTCAGGCAAATCCAGATTATAATGTGGAAAAGATAAATTTGAATGAGTTTCAATGGACTTT
TCTGGTGATGCAGATC
Found at i:29408 original size:13 final size:13
Alignment explanation
Indices: 29390--29416 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29380 ACTCGTACAA
29390 GAAATTTATATAT
1 GAAATTTATATAT
29403 GAAATTTATATAT
1 GAAATTTATATAT
29416 G
1 G
29417 TCATTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (13 bp):
GAAATTTATATAT
Found at i:32135 original size:2 final size:2
Alignment explanation
Indices: 32128--32156 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32118 CCCAAAATCC
32128 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32157 CCAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32793 original size:3 final size:3
Alignment explanation
Indices: 32785--32817 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
32775 GTTAATCCTA
32785 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32818 CTCCTCTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:34708 original size:2 final size:2
Alignment explanation
Indices: 34701--34733 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
34691 TTGGACTTAG
34701 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34734 GAGTAATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47483 original size:3 final size:3
Alignment explanation
Indices: 47477--47533 Score: 64
Period size: 3 Copynumber: 18.7 Consensus size: 3
47467 AATAATTATT
*
47477 TAA TAA TAA T-A TAA TATA TAA TAA TATT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
47523 T-A TAAA TAA TA
1 TAA T-AA TAA TA
47534 TTTAAATGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 4 0.09
3 36 0.77
4 7 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:47499 original size:15 final size:15
Alignment explanation
Indices: 47479--47534 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
47469 TAATTATTTA
47479 ATAATAATATAATAT
1 ATAATAATATAATAT
47494 ATAATAATATTTAATA-
1 ATAATAATA--TAATAT
47510 ATAATAATAATAATAT
1 ATAATAAT-ATAATAT
47526 A-AATAATAT
1 ATAATAATAT
47535 TTAAATGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.05
15 20 0.54
16 9 0.24
17 6 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATAATATAATAT
Found at i:47520 original size:34 final size:31
Alignment explanation
Indices: 47467--47538 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 31
47457 ATGGGCATGT
47467 AATAATTATTTAATAATAAT-ATAAT-ATAT-
1 AATAA-TATTTAATAATAATAATAATAATATA
47496 AATAATATTTAATAATAATAATAATAATATA
1 AATAATATTTAATAATAATAATAATAATATA
47527 AATAATATTTAA
1 AATAATATTTAA
47539 ATGAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 14 0.35
29 10 0.25
30 4 0.10
31 12 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
AATAATATTTAATAATAATAATAATAATATA
Found at i:47556 original size:31 final size:32
Alignment explanation
Indices: 47477--47538 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 32
47467 AATAATTATT
47477 TAATAATAAT-ATAATATATAATAATATTTAA
1 TAATAATAATAATAATATATAATAATATTTAA
47508 TAATAATAATAATAATATA-AATAATATTTAA
1 TAATAATAATAATAATATATAATAATATTTAA
47539 ATGAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
TAATAATAATAATAATATATAATAATATTTAA
Found at i:47872 original size:109 final size:111
Alignment explanation
Indices: 47755--48010 Score: 318
Period size: 109 Copynumber: 2.3 Consensus size: 111
47745 TAGAGTCATT
* * * * *
47755 CAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTTTTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
*** * * *
47820 TTATGAACTTTCTCTGGAAAGGTTGATGC-T-GTGATAAATTTGAA
66 TTATGAACTTGAACTGGAAAAGATGATCCATAGTGATAAATTTGAA
* * *
47864 CAAAAGGTTAAACAAGTTCTTCTTATTACGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
** *
47929 TTATGAACTTGAACTGGAAAAGATGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTGAACTGGAAAAGATGATCCAT--AGTGATAAATTTGAA
*
47977 CAAAAGGTTGAACAAATTCTTCTCATTATGAACT
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
48011 CGAACTAGAA
Statistics
Matches: 122, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
109 80 0.66
110 1 0.01
113 41 0.34
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (111 bp):
CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTGAACTGGAAAAGATGATCCATAGTGATAAATTTGAA
Found at i:48006 original size:73 final size:73
Alignment explanation
Indices: 47920--48071 Score: 277
Period size: 73 Copynumber: 2.1 Consensus size: 73
47910 TTCAGATGAG
* *
47920 TTCTTCTCATTATGAACTTGAACTGGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTAGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGGT
47985 TGAACAAA
66 TGAACAAA
*
47993 TTCTTCTCATTATGAACTCGAACTAGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTAGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGGT
48058 TGAACAAA
66 TGAACAAA
48066 TTCTTC
1 TTCTTC
48072 CTTCTTCAGA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (73 bp):
TTCTTCTCATTATGAACTCGAACTAGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGGT
TGAACAAA
Found at i:48152 original size:93 final size:93
Alignment explanation
Indices: 47993--48164 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47983 GTTGAACAAA
47993 TTCTTCTCATTATGAACTCGAACTAGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTAGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
48058 TGAACAAATTCTTCCTTCTTCAGATGAG
66 TGAACAAATTCTTCCTTCTTCAGATGAG
* * *
48086 TTCTTCTTATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTAGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
48151 TGAACAAATTCTTC
66 TGAACAAATTCTTC
48165 TCATTATGAA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (93 bp):
TTCTTCTCATTATGAACTCGAACTAGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
TGAACAAATTCTTCCTTCTTCAGATGAG
Found at i:48200 original size:113 final size:113
Alignment explanation
Indices: 48066--48277 Score: 388
Period size: 113 Copynumber: 1.9 Consensus size: 113
48056 GTTGAACAAA
* *
48066 TTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
**
48131 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
66 GATGGATTTGAAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
48179 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
48244 GATGGATTTGAAAAAAAGGTTGAACAAATTCTTC
66 GATGGATTTGAAAAAAAGGTTGAACAAATTCTTC
48278 CTTCTTCAGA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 95 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (113 bp):
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
GATGGATTTGAAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
Found at i:48236 original size:206 final size:206
Alignment explanation
Indices: 47993--48480 Score: 940
Period size: 206 Copynumber: 2.4 Consensus size: 206
47983 GTTGAACAAA
* **
47993 TTCTTCTCATTATGAACTCGAACTAGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAAAAAAAGGT
*
48058 TGAACAAATTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGAAAAGTTGATC
66 TGAACAAATTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGAAAAGCTGATC
48123 CATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
131 CATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
48188 CTTCAGATGAG
196 CTTCAGATGAG
48199 TTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAAAAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAAAAAAAGGT
48264 TGAACAAATTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGAAAAGCTGATC
66 TGAACAAATTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGAAAAGCTGATC
48329 CATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
131 CATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
48394 CTTCAGATGAG
196 CTTCAGATGAG
48405 TTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAAAAAAAGGT
1 TTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAAAAAAAGGT
48470 TGAACAAATTC
66 TGAACAAATTC
48481 AACAAATTCT
Statistics
Matches: 278, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
206 278 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (206 bp):
TTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGAAAAAAAGGT
TGAACAAATTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGAAAAGCTGATC
CATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
CTTCAGATGAG
Found at i:48283 original size:93 final size:93
Alignment explanation
Indices: 48179--48370 Score: 357
Period size: 93 Copynumber: 2.1 Consensus size: 93
48169 TATGAACTTC
48179 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
48244 GATGGATTTGAAAAAAAGGTTGAACAAA
66 GATGGATTTGAAAAAAAGGTTGAACAAA
*
48272 TTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
**
48337 GATGGATTTGAGCAAAAGGTTGAACAAA
66 GATGGATTTGAAAAAAAGGTTGAACAAA
48365 TTCTTC
1 TTCTTC
48371 TCATTATGAA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 96 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (93 bp):
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
GATGGATTTGAAAAAAAGGTTGAACAAA
Found at i:48381 original size:113 final size:113
Alignment explanation
Indices: 48272--48693 Score: 702
Period size: 113 Copynumber: 3.7 Consensus size: 113
48262 GTTGAACAAA
*
48272 TTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
48337 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
66 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
48385 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
**
48450 GATGGATTTGAAAAAAAGGTTGAACAAATTCAACAAATTCTTCTCATTATGAACTTC
66 GATGGATTTGAGCAAAAGGTTG---------AACAAATTCTTCTCATTATGAACTTC
48507 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
*
48572 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTC
66 GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
*
48620 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATTGAA-
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCA-TCAAG
48684 TGATGGATTT
65 TGATGGATTT
48694 AAATCTTTGC
Statistics
Matches: 292, Mismatches: 7, Indels: 20
0.92 0.02 0.06
Matches are distributed among these distances:
113 178 0.61
114 3 0.01
122 111 0.38
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (113 bp):
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGT
GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
Found at i:49980 original size:83 final size:83
Alignment explanation
Indices: 49421--49976 Score: 961
Period size: 83 Copynumber: 6.7 Consensus size: 83
49411 GTTCCTATTG
*
49421 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCCTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
49486 CAATAACTGGTTTTACCA
66 CAATAACTGGTTTTACCA
* *
49504 AACCAGATCAGATAACTCAAAGAACACATCCAGAAGATGCTATTAGCACATTCCTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
49569 CAATAACTGGTTTTACCA
66 CAATAACTGGTTTTACCA
49587 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
49652 CAATAACTGGTTTTACCA
66 CAATAACTGGTTTTACCA
49670 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
49735 CAATAACTGGTTTTACCA
66 CAATAACTGGTTTTACCA
* **
49753 AACCAGATCAGATAACTTAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATC-TCTCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTC-CAAAT
* *
49817 TCAATGATTGGTTTTACCA
65 TCAATAACTGGTTTTACCA
** *
49836 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
* *
49901 CAATGATTGGTTTTACCA
66 CAATAACTGGTTTTACCA
* *
49919 AACCAGATCAGATAACTCAAAGAACACTTCCAGAATATGCTATGAGCACATTCATCTT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTT
49977 TCAAGCTAAT
Statistics
Matches: 459, Mismatches: 12, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
82 2 0.00
83 456 0.99
84 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
CAATAACTGGTTTTACCA
Found at i:51130 original size:8 final size:8
Alignment explanation
Indices: 51117--51177 Score: 56
Period size: 8 Copynumber: 7.8 Consensus size: 8
51107 TTGACCCCCC
51117 TTTTTTCT
1 TTTTTTCT
51125 TTTTTT-T
1 TTTTTTCT
51132 TTCTTTT-T
1 TT-TTTTCT
51140 TCTTTTTCT
1 T-TTTTTCT
*
51149 CTTTTTCT
1 TTTTTTCT
* *
51157 CTCTTT-T
1 TTTTTTCT
51164 TTTTTTCT
1 TTTTTTCT
51172 TTTTTT
1 TTTTTT
51178 TTCTTCAAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 8 0.18
8 35 0.78
9 2 0.04
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:51182 original size:10 final size:11
Alignment explanation
Indices: 51117--51179 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
51107 TTGACCCCCC
51117 TTTTTTCTTTT
1 TTTTTTCTTTT
51128 TTTTTTCTTTTT
1 TTTTTTC-TTTT
51140 TCTTTTTCTCTTT
1 T-TTTTTCT-TTT
* *
51153 TTCTCTCTTTT
1 TTTTTTCTTTT
51164 TTTTTTCTTTT
1 TTTTTTCTTTT
51175 TTTTT
1 TTTTT
51180 CTTCAAGCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
11 24 0.53
12 11 0.24
13 10 0.22
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:58533 original size:15 final size:15
Alignment explanation
Indices: 58510--58541 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58500 TGAAATGAAT
58510 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
58525 AATGCATGTATGCAA
1 AATGAATGTATGCAA
58540 AA
1 AA
58542 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:61883 original size:27 final size:27
Alignment explanation
Indices: 61830--61884 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 27
61820 AAAAAAAGAA
*
61830 TTATAAATTAAATATAGAAATTTTAAT
1 TTATAAATTAAATAGAGAAATTTTAAT
61857 TTAT-AATT-AATAGAGACAATTTATAAT
1 TTATAAATTAAATAGAGA-AATTT-TAAT
61884 T
1 T
61885 GATTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 7 0.28
26 9 0.36
27 9 0.36
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (27 bp):
TTATAAATTAAATAGAGAAATTTTAAT
Found at i:63924 original size:3 final size:3
Alignment explanation
Indices: 63918--63971 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
63908 AATAATTATT
*
63918 TAA TAA TAA T-A TAA TATA TAA TAA TATT TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
63963 TAAA TAA TA
1 T-AA TAA TA
63972 TTTAAATGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 4 0.09
3 33 0.75
4 7 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:63948 original size:28 final size:29
Alignment explanation
Indices: 63907--63976 Score: 117
Period size: 28 Copynumber: 2.4 Consensus size: 29
63897 AATGGGCCTG
63907 TAATAATTATTTAATAATAAT-ATAATATA
1 TAATAA-TATTTAATAATAATAATAATATA
63936 TAATAATATTTAATAATAATAATAATATA
1 TAATAATATTTAATAATAATAATAATATA
63965 -AATAATATTTAA
1 TAATAATATTTAA
63977 ATGAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
28 26 0.65
29 14 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TAATAATATTTAATAATAATAATAATATA
Found at i:66986 original size:19 final size:18
Alignment explanation
Indices: 66966--67035 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 18
66956 ATTTTGCTTG
*
66966 AAAAAAATGATGAAAAAT
1 AAAAAAATGAAGAAAAAT
66984 GAAATAAAA--AAGAGAAAAT
1 -AAA-AAAATGAAGA-AAAAT
*
67003 AAAAAAAAGAAGGAAAAAT
1 AAAAAAATGAA-GAAAAAT
67022 AAAAAAATGAAGAA
1 AAAAAAATGAAGAA
67036 TGAAGAATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
17 4 0.09
18 9 0.20
19 25 0.57
20 6 0.14
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (18 bp):
AAAAAAATGAAGAAAAAT
Found at i:67048 original size:22 final size:22
Alignment explanation
Indices: 66998--67050 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
66988 TAAAAAAGAG
66998 AAAAT-AAAAAA--AAGAAGGA
1 AAAATAAAAAAATGAAGAAGGA
*
67017 AAAATAAAAAAATGAAGAATGA
1 AAAATAAAAAAATGAAGAAGGA
* *
67039 AGAATGAAAAAA
1 AAAATAAAAAAA
67051 GAGACAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.18
20 6 0.21
22 17 0.61
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.09
Consensus pattern (22 bp):
AAAATAAAAAAATGAAGAAGGA
Found at i:68148 original size:55 final size:55
Alignment explanation
Indices: 68071--68654 Score: 652
Period size: 55 Copynumber: 10.7 Consensus size: 55
68061 CCAACGATCA
* *
68071 TTGAAGATTGTTCGAGTCTTATAATCTCTGAAGAAATAGGGAGCAGACACGATCG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * * *
68126 TCGAAGATTGTTCGAGTTTTATACT-TCCTGACAGAAAGAGGAAGC-GAACCCGTTTG
1 TTGAAGATTGTTCGAGTCTTATACTCT-CTGA-AGAAATAGGGAGCAG-ACACGATTG
** * *
68182 AAGAAGA-TGTTCGAGTCTTATACTCTCTAAAGAAATAGGGAGCAGACGCGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * * * *
68236 TTAAAAATTGTTCGGGTCTTATACTCTCTGAAGAAGTAGAGAGCAGACACAATTA
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * *
68291 TTGAAGATTGTTCGAGTCTTATACTCTCTAAAGAAATGGGGAGCAGACACAATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * *
68346 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAAACACAATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
68401 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * *
68455 ATGAAGATTGTTCCAGTCTTATACTCTC-CAAAAGAATAGGGAGCAGACACGA-TG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACACGATTG
*
68509 TTGAAGATTG-TCTGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACGATT-
1 TTGAAGATTGTTC-GAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * *
68563 ATGAAAGATT-TCTCGAGT-TCTATACTGC-CTGTAGGAATAGGGAGCAGACACAATTA
1 TTG-AAGATTGT-TCGAGTCT-TATACT-CTCTGAAGAAATAGGGAGCAGACACGATTG
* * *
68619 TTGAAGATTATTCTAGT-TCTATACTCCCTGAAGAAA
1 TTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAA
68655 AAGGAGTGAA
Statistics
Matches: 451, Mismatches: 60, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
53 5 0.01
54 114 0.25
55 303 0.67
56 29 0.06
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (55 bp):
TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
Found at i:72593 original size:16 final size:16
Alignment explanation
Indices: 72572--72602 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72562 TAAAGTATGA
72572 TTGGGTAGACACCATG
1 TTGGGTAGACACCATG
*
72588 TTGGGTAGATACCAT
1 TTGGGTAGACACCAT
72603 ATGAATAAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (16 bp):
TTGGGTAGACACCATG
Found at i:75543 original size:2 final size:2
Alignment explanation
Indices: 75536--75560 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
75526 TTGGACTTAG
75536 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
75561 TTGAGTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:76644 original size:101 final size:102
Alignment explanation
Indices: 76510--76728 Score: 341
Period size: 101 Copynumber: 2.1 Consensus size: 102
76500 TAGATATTTT
* * * *
76510 TTAAAATATTTATTGTTGATTTATCACAACAATAAATAAATAATAATAGCCCAAAAAGGATAAAC
1 TTAAAA-AATTATTGTCGATTTATCACAACAATAAATAAAAAAGAATAGCCCAAAAAGGATAAAC
*
76575 ATTTAA-CTTTATTACACGAAATAAACATTTTCAGTAG
65 ATTTAATCTTTATTACACGAAACAAACATTTTCAGTAG
*
76612 TTAAAAAATTATTGTCGATTTATCACACCAATAAATAAAAAAGAATAGCCCAAAAAGGATAAACA
1 TTAAAAAATTATTGTCGATTTATCACAACAATAAATAAAAAAGAATAGCCCAAAAAGGATAAACA
* *
76677 TTTAATCTTTATTACACGAAACAAACGTTTTCGGTAG
66 TTTAATCTTTATTACACGAAACAAACATTTTCAGTAG
*
76714 TTAAAATATTATTGT
1 TTAAAAAATTATTGT
76729 TATTTTTTAG
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
101 59 0.55
102 48 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (102 bp):
TTAAAAAATTATTGTCGATTTATCACAACAATAAATAAAAAAGAATAGCCCAAAAAGGATAAACA
TTTAATCTTTATTACACGAAACAAACATTTTCAGTAG
Found at i:77138 original size:17 final size:17
Alignment explanation
Indices: 77116--77149 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
77106 CTCAAAGAAA
77116 GTTATAA-ATTCTATATT
1 GTTATAATATT-TATATT
77133 GTTATAATATTTATATT
1 GTTATAATATTTATATT
77150 ACTATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
GTTATAATATTTATATT
Found at i:79371 original size:21 final size:21
Alignment explanation
Indices: 79345--79385 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79335 TCATGAATAG
* *
79345 TGCTACGGTGCATTGATGCAT
1 TGCTACAGTGCATCGATGCAT
79366 TGCTACAGTGCATCGATGCA
1 TGCTACAGTGCATCGATGCA
79386 CAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (21 bp):
TGCTACAGTGCATCGATGCAT
Found at i:80014 original size:22 final size:22
Alignment explanation
Indices: 79989--80067 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 22
79979 ACTGAATATT
*
79989 TGTCCTGAAAGACCACTATGTA
1 TGTCCCGAAAGACCACTATGTA
* *
80011 TGTCCCG-AAG--GACTA-CTA
1 TGTCCCGAAAGACCACTATGTA
* * *
80029 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAAGACCACTATGTA
*
80051 TGTCCCGAAGGACCACT
1 TGTCCCGAAAGACCACT
80068 CCTTAAGAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
18 9 0.20
19 6 0.13
21 6 0.13
22 25 0.54
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (22 bp):
TGTCCCGAAAGACCACTATGTA
Found at i:85524 original size:14 final size:14
Alignment explanation
Indices: 85492--85545 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
85482 ACATAATCGG
85492 GTTTAGGGTTTATA
1 GTTTAGGGTTTATA
* * *
85506 ATTTAGAGTTCATA
1 GTTTAGGGTTTATA
85520 GTTTAGGGTTTATA
1 GTTTAGGGTTTATA
85534 GTTTAGGGTTTA
1 GTTTAGGGTTTA
85546 GGGATTAGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATA
Found at i:85531 original size:21 final size:21
Alignment explanation
Indices: 85507--85560 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
85497 GGGTTTATAA
85507 TTTAGAGTTCATAGTTTAGGG
1 TTTAGAGTTCATAGTTTAGGG
* * **
85528 TTTATAGTTTAGGGTTTAGGG
1 TTTAGAGTTCATAGTTTAGGG
*
85549 ATTAGAGTTCAT
1 TTTAGAGTTCAT
85561 TATAAAGACA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.28, T:0.44
Consensus pattern (21 bp):
TTTAGAGTTCATAGTTTAGGG
Found at i:85553 original size:28 final size:28
Alignment explanation
Indices: 85494--85553 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
85484 ATAATCGGGT
* *
85494 TTAGGGTTTATAATTTAGAGTTCATAGT
1 TTAGGGTTTATAATTTAGAGTTCAGAGA
* * * *
85522 TTAGGGTTTATAGTTTAGGGTTTAGGGA
1 TTAGGGTTTATAATTTAGAGTTCAGAGA
85550 TTAG
1 TTAG
85554 AGTTCATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.45
Consensus pattern (28 bp):
TTAGGGTTTATAATTTAGAGTTCAGAGA
Found at i:85624 original size:7 final size:7
Alignment explanation
Indices: 85612--85641 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
85602 GTAAGTACAA
85612 TTTAGGG
1 TTTAGGG
85619 TTTAGGG
1 TTTAGGG
*
85626 TTTAGAG
1 TTTAGGG
85633 TTTAGGG
1 TTTAGGG
85640 TT
1 TT
85642 CATTATAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:85704 original size:11 final size:11
Alignment explanation
Indices: 85688--85750 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
85678 GTATTGAAGA
85688 ATTTTTAATAT
1 ATTTTTAATAT
85699 ATTTTTAA-A-
1 ATTTTTAATAT
85708 ATTTTATAAT-T
1 ATTTT-TAATAT
*** * *
85719 ATCAATAGTGT
1 ATTTTTAATAT
85730 ATTTTTAATAT
1 ATTTTTAATAT
85741 ATTTTTAATA
1 ATTTTTAATA
85751 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:86097 original size:62 final size:62
Alignment explanation
Indices: 86020--86154 Score: 236
Period size: 62 Copynumber: 2.2 Consensus size: 62
86010 ACAAACATTC
*
86020 ATGAAAAATAATTAAAACTTTAGAAAATATTCGTCATAACATATTTTCAACATACATGAGAT
1 ATGAAAAATAATTAAAACTTTAGAAAATATTCATCATAACATATTTTCAACATACATGAGAT
*
86082 ATGAAAAATCATTAAAACTTTAGAAAATATTCATCATAACATATTTTCAACATACATGAGAT
1 ATGAAAAATAATTAAAACTTTAGAAAATATTCATCATAACATATTTTCAACATACATGAGAT
86144 A-GAAAATATAA
1 ATGAAAA-ATAA
86155 AATTATTTAA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
61 5 0.07
62 64 0.93
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.31
Consensus pattern (62 bp):
ATGAAAAATAATTAAAACTTTAGAAAATATTCATCATAACATATTTTCAACATACATGAGAT
Done.