Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002880.1 Hibiscus syriacus cultivar Beakdansim tig00005937_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: 129975
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:5035 original size:2 final size:2
Alignment explanation
Indices: 5028--5053 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5018 TTTGAAAAGA
5028 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
5054 GTTTTAGTTT
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:8647 original size:59 final size:60
Alignment explanation
Indices: 8555--8672 Score: 139
Period size: 59 Copynumber: 2.0 Consensus size: 60
8545 ACCACGATAC
* *** ** * *
8555 CGACATTTAGGTCGAACAAGCTGGTAATTGAATGTGT-TCCCTTGAACTTGAAGGCATCT
1 CGACATTGAGGTCGAACAAGCTCACAATTGAATGCCTCCCCCTAGAACTTGAAGGCATCT
* *
8614 CGACATTGAGGTCGAAGAAGCTCACAGTTGAATGCCTCCCCCTAGAACTTGAAGGCATC
1 CGACATTGAGGTCGAACAAGCTCACAATTGAATGCCTCCCCCTAGAACTTGAAGGCATC
8673 GTGTCATATG
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
59 29 0.60
60 19 0.40
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (60 bp):
CGACATTGAGGTCGAACAAGCTCACAATTGAATGCCTCCCCCTAGAACTTGAAGGCATCT
Found at i:10122 original size:21 final size:20
Alignment explanation
Indices: 10095--10142 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
10085 TTGATAAAAT
* *
10095 TTTTTTACATAAATCATTAT
1 TTTTTTACATAAAACATTAA
*
10115 TATTTTTACCTAAAACATTAA
1 T-TTTTTACATAAAACATTAA
10136 TTTTTTA
1 TTTTTTA
10143 ACATTTCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTTACATAAAACATTAA
Found at i:14073 original size:4 final size:4
Alignment explanation
Indices: 14066--14097 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
14056 GAAGAAAGAA
14066 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
14098 TGAGAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:15521 original size:16 final size:17
Alignment explanation
Indices: 15500--15532 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15490 GAATATACAA
15500 TGATATAATA-ATATAT
1 TGATATAATATATATAT
15516 TGATATAATATATATAT
1 TGATATAATATATATAT
15533 ATATTTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TGATATAATATATATAT
Found at i:16451 original size:85 final size:84
Alignment explanation
Indices: 16301--17535 Score: 889
Period size: 86 Copynumber: 14.6 Consensus size: 84
16291 GTCATCGAGT
* * * ** * * * *
16301 TGAATGGAATCGAACTCGACGGTTTTTGTTGACAAATAACTTTTCTCGACTTAAGCTATGTTGTA
1 TGAAT-GAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
* * *
16366 AATTTGACATGCCCTTGATC
65 AATTTGACGTGCCTTTGAGC
* * *
16386 TGAATAGAATCAAACTCGAAGGTCTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTA
1 TGAAT-GAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
16451 AATTTGACGTGCCTTTGAGC
65 AATTTGACGTGCCTTTGAGC
* * * *
16471 TGAATATAATCGAACTCGAAGGTCTTTTGTTAACAGATAACCTTTCTCGCCTTGAGCTATGCTGT
1 TGAAT-GAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
*
16536 AAATTTGATGTGCCTTTGAGC
64 AAATTTGACGTGCCTTTGAGC
* * * * * *
16557 TGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTTGCCTTCAGTTATACTGCA
1 TGAATG-AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
* * *
16622 AATTCGATGTGTCTTTGAGC
65 AATTTGACGTGCCTTTGAGC
* * * *
16642 TGAGTGTAATCGAACTCAAAGGTCTTTTGTTAACAGATAACCCTTCTCGCCTTGAGTTATGTTGT
1 TGAATG-AATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
* *
16707 AAATTTGATGTTCCTTTGAGC
64 AAATTTGACGTGCCTTTGAGC
* * * * * * * * * * * * * *
16728 TGAGTGTAATTG--GTTGACAGATAACCCTTCTTGCCTTGAGTTA---TGCT-G-C--AAATT-C
1 TGAATG-AATCGAACTCGA-AGGT---CTTTGTTGAC-AGA-TAACCCTTCTCGCCTTGAGTTAT
* ***
16783 GATGTGCCTTTGA---G-C--TGAG-
59 GCTGTAAATTTGACGTGCCTTTGAGC
* * *
16802 TGTAATCGAACTCGAA---G---GTCTTGTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATACT
1 TG-AAT-GAA-TCGAACTCGAAGGTCTT-TGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCT
** * ** *
16861 GCGAATTGGATATGTCTTTGAGC
62 GTAAATTTGACGTGCCTTTGAGC
* * * * *
16884 TTAATCTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCACCTTGAGTTATGCTGC
1 TGAAT-GAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
** *
16949 AAATTTGATATGCTTTTGAGC
64 AAATTTGACGTGCCTTTGAGC
* * * *
16970 TGAGTGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTA
1 TGAATG-AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
* ** *
17035 AATATGATAAT-CCTTTGAGG
65 AATTTGA-CGTGCCTTTGAGC
* * * * *
17055 TGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTATCTCCTTGAGTTATGCTGCA
1 TGAATG-AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
**
17120 AATTTGATATGCCTTTGAGC
65 AATTTGACGTGCCTTTGAGC
* * * *
17140 TGAGTGTAATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATTCTAT
1 TGAATG-AATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
*
17205 AAATTTGATGTGCCTTTGAGC
64 AAATTTGACGTGCCTTTGAGC
* * * * * **
17226 TGAATGTAATCAAACTCAAAGGTCCTTTGTTGGCATATAACCCTTCTAGCCTTGAGTTATGCTAC
1 TGAATG-AATCGAACTCGAAGGT-CTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
* * ** *
17291 GAATTTTATATGCCTTTGAAC
64 AAATTTGACGTGCCTTTGAGC
* * * *
17312 TGAATGTAATCGAAATCGAATGTCTTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGT
1 TGAATG-AATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
* * *
17377 AAATTTGATGTGCCTTTAAGT
64 AAATTTGACGTGCCTTTGAGC
* * * * * * * **
17398 TTAATGTAATCAAACTTGAAGGTCTTGGTTGACAGATAGCCCTTCTCACCTTGAGCTATGCTACA
1 TGAATG-AATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTA
* *
17463 AATTTGATGTGTCTTTGAGC
65 AATTTGACGTGCCTTTGAGC
* * ** *
17483 TGAATGTAATCAAACTCAAAGGTCTTTTGTTGGTAGATAACCCTTATCGCCTT
1 TGAATG-AATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTT
17536 TTCTCAGGTG
Statistics
Matches: 928, Mismatches: 178, Indels: 87
0.78 0.15 0.07
Matches are distributed among these distances:
67 1 0.00
68 4 0.00
69 5 0.01
70 3 0.00
71 2 0.00
72 1 0.00
74 4 0.00
75 16 0.02
76 3 0.00
77 1 0.00
78 1 0.00
79 1 0.00
80 5 0.01
81 19 0.02
82 4 0.00
83 1 0.00
84 5 0.01
85 387 0.42
86 452 0.49
87 8 0.01
88 3 0.00
89 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (84 bp):
TGAATGAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAA
ATTTGACGTGCCTTTGAGC
Found at i:16616 original size:171 final size:171
Alignment explanation
Indices: 16308--17535 Score: 1434
Period size: 171 Copynumber: 7.3 Consensus size: 171
16298 AGTTGAATGG
* * * ** * * *
16308 AATCGAACTCGACGGT-TTTTGTTGACAAATAACTTTTCTCGACTTAAGCTATGTTGTAAATTTG
1 AATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTG
** * * * **
16372 ACATGCCCTTGATCTGAATAG-AATCAAACTCGAAGGTCTTTATTGACAGATAACCCTTCTCGCC
66 ATGTGCCTTTGAGCTGAAT-GTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCC
* * * * *
16436 TTGAGTTATACTGTAAATTTGACGTGCCTTTGAGCTGAATAT
130 TTGAGTTATGCTGCAAATTTGATGTGCCTTTGAGCTGAGTGT
* * * * *
16478 AATCGAACTCGAAGGTCTTTTGTTAACAGATAACCTTTCTCGCCTTGAGCTATGCTGTAAATTTG
1 AATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTG
* *
16543 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTTGCCT
66 ATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCT
* * * *
16608 TCAGTTATACTGCAAATTCGATGTGTCTTTGAGCTGAGTGT
131 TGAGTTATGCTGCAAATTTGATGTGCCTTTGAGCTGAGTGT
*
16649 AATCGAACTCAAAGGTCTTTTGTTAACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTG
1 AATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTG
* *
16714 ATGTTCCTTTGAGCTG-A-G---T-G---T--AA----TTGGTTGACAGATAACCCTTCTTGCCT
66 ATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCT
*
16764 TGAGTTATGCTGCAAATTCGATGTGCCTTTGAGCTGAGTGT
131 TGAGTTATGCTGCAAATTTGATGTGCCTTTGAGCTGAGTGT
* * * * ** ** *
16805 AATCGAACTCGAAGGTCTTGTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATACTGCGAATTGG
1 AATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTG
* * * * * * *
16870 ATATGTCTTTGAGCTTAATCTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCACC
66 ATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCC
* *
16935 TTGAGTTATGCTGCAAATTTGATATGCTTTTGAGCTGAGTGT
130 TTGAGTTATGCTGCAAATTTGATGTGCCTTTGAGCTGAGTGT
* *
16977 AATCGAACTCAAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATATG
1 AATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTG
* * * * *
17041 ATAAT-CCTTTGAGGTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTATCTCC
66 AT-GTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCC
*
17105 TTGAGTTATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGT
130 TTGAGTTATGCTGCAAATTTGATGTGCCTTTGAGCTGAGTGT
*
17147 AATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT-TCTATAAATTT
1 AATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGT-TGTAAATTT
* * * * * *
17211 GATGTGCCTTTGAGCTGAATGTAATCAAACTCAAAGGTCCTTTGTTGGCATATAACCCTTCTAGC
65 GATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGT-CTTGGTTGACAGATAACCCTTCTCGC
* * * * * *
17276 CTTGAGTTATGCTACGAATTTTATATGCCTTTGAACTGAATGT
129 CTTGAGTTATGCTGCAAATTTGATGTGCCTTTGAGCTGAGTGT
* * * *
17319 AATCGAAATCGAATGTCTTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTG
1 AATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTG
* * * * * * *
17384 ATGTGCCTTTAAGTTTAATGTAATCAAACTTGAAGGTCTTGGTTGACAGATAGCCCTTCTCACCT
66 ATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCT
* * * *
17449 TGAGCTATGCTACAAATTTGATGTGTCTTTGAGCTGAATGT
131 TGAGTTATGCTGCAAATTTGATGTGCCTTTGAGCTGAGTGT
* ** *
17490 AATCAAACTCAAAGGTCTTTTGTTGGTAGATAACCCTTATCGCCTT
1 AATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTT
17536 TTCTCAGGTG
Statistics
Matches: 910, Mismatches: 124, Indels: 47
0.84 0.11 0.04
Matches are distributed among these distances:
156 132 0.15
157 1 0.00
160 2 0.00
161 1 0.00
162 2 0.00
165 2 0.00
166 1 0.00
167 2 0.00
169 1 0.00
170 98 0.11
171 440 0.48
172 227 0.25
173 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (171 bp):
AATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTG
ATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCT
TGAGTTATGCTGCAAATTTGATGTGCCTTTGAGCTGAGTGT
Found at i:16731 original size:86 final size:86
Alignment explanation
Indices: 16308--16737 Score: 526
Period size: 85 Copynumber: 5.0 Consensus size: 86
16298 AGTTGAATGG
* * ** * * * *
16308 AATCGAACTCGACGGT-TTTTGTTGACAAATAACTTTTCTCGACTTAAGCTATGTTGTAAATTTG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
** * * *
16372 ACATGCCCTTGATCTGAATAG-
66 ATGTGCCTTTGAGCTGAGT-GT
* * *
16393 AATCAAACTCGAAGGTC-TTTATTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAATTTG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
* * *
16457 ACGTGCCTTTGAGCTGAATAT
66 ATGTGCCTTTGAGCTGAGTGT
* * *
16478 AATCGAACTCGAAGGTCTTTTGTTAACAGATAACCTTTCTCGCCTTGAGCTATGCTGTAAATTTG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
16543 ATGTGCCTTTGAGCTGAGTGT
66 ATGTGCCTTTGAGCTGAGTGT
* * * * * *
16564 AATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTTGCCTTCAGTTATACTGCAAATTCG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
*
16628 ATGTGTCTTTGAGCTGAGTGT
66 ATGTGCCTTTGAGCTGAGTGT
* * *
16649 AATCGAACTCAAAGGTCTTTTGTTAACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTG
1 AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
*
16714 ATGTTCCTTTGAGCTGAGTGT
66 ATGTGCCTTTGAGCTGAGTGT
16735 AAT
1 AAT
16738 TGGTTGACAG
Statistics
Matches: 296, Mismatches: 45, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
85 158 0.53
86 138 0.47
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (86 bp):
AATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
ATGTGCCTTTGAGCTGAGTGT
Found at i:16787 original size:70 final size:70
Alignment explanation
Indices: 16674--16807 Score: 223
Period size: 70 Copynumber: 1.9 Consensus size: 70
16664 TCTTTTGTTA
* * * *
16674 ACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTGATGTTCCTTTGAGCTGAGTGTAATT
1 ACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTCGATGTGCCTTTGAGCTGAGTGTAATT
16739 GGTTG
66 GGTTG
*
16744 ACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATTCGATGTGCCTTTGAGCTGAGTGTAAT
1 ACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTCGATGTGCCTTTGAGCTGAGTGTAAT
16808 CGAACTCGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (70 bp):
ACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTCGATGTGCCTTTGAGCTGAGTGTAATT
GGTTG
Found at i:16894 original size:86 final size:86
Alignment explanation
Indices: 16740--17535 Score: 954
Period size: 86 Copynumber: 9.3 Consensus size: 86
16730 AGTGTAATTG
* * * *
16740 GTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATTCGATGTGCCTTTGAGCTGAGTGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGATATGCCTTTGAGCTGAATGT
16805 AATCGAACTCGAAGGTCTTGT
66 AATCGAACTCGAAGGTCTTGT
* * * * * * * *
16826 GTTGACAGATAGCCCTTCTCGCCTTGAGCTATACTGCGAATTGGATATGTCTTTGAGCTTAATCT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGATATGCCTTTGAGCTGAATGT
*
16891 AATCGAACTCGAAGGTCTTTT
66 AATCGAACTCGAAGGTCTTGT
* * * *
16912 GTTGACAGATAGCCCTTCTCACCTTGAGTTATGCTGCAAATTTGATATGCTTTTGAGCTGAGTGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGATATGCCTTTGAGCTGAATGT
*
16977 AATCGAACTCAAAGGTCTTG-
66 AATCGAACTCGAAGGTCTTGT
* * * * *
16997 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATATGATAAT-CCTTTGAGGTGAGTG
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGAT-ATGCCTTTGAGCTGAATG
17061 TAATCGAACTCGAAGGTCTTG-
65 TAATCGAACTCGAAGGTCTTGT
* * *
17082 GTTGACAGATAACCCTTATCTCCTTGAGTTATGCTGCAAATTTGATATGCCTTTGAGCTGAGTGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGATATGCCTTTGAGCTGAATGT
* *
17147 AATCGAACTCAAAGGTCTTTT
66 AATCGAACTCGAAGGTCTTGT
* ** *
17168 GTTGACAGATAACCCTTCTCGCCTTGAGTTATTCTATAAATTTGATGTGCCTTTGAGCTGAATGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGATATGCCTTTGAGCTGAATGT
* *
17233 AATCAAACTCAAAGGTCCTT-T
66 AATCGAACTCGAAGGT-CTTGT
* * * * * * *
17254 GTTGGCATATAACCCTTCTAGCCTTGAGTTATGCTACGAATTTTATATGCCTTTGAACTGAATGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGATATGCCTTTGAGCTGAATGT
* * *
17319 AATCGAAATCGAATGTCTTTT
66 AATCGAACTCGAAGGTCTTGT
* * * * * * *
17340 ATTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTGATGTGCCTTTAAGTTTAATGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGATATGCCTTTGAGCTGAATGT
* *
17405 AATCAAACTTGAAGGTCTTG-
66 AATCGAACTCGAAGGTCTTGT
* * * * * *
17425 GTTGACAGATAGCCCTTCTCACCTTGAGCTATGCTACAAATTTGATGTGTCTTTGAGCTGAATGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGATATGCCTTTGAGCTGAATGT
* * *
17490 AATCAAACTCAAAGGTCTTTT
66 AATCGAACTCGAAGGTCTTGT
** *
17511 GTTGGTAGATAACCCTTATCGCCTT
1 GTTGACAGATAACCCTTCTCGCCTT
17536 TTCTCAGGTG
Statistics
Matches: 605, Mismatches: 99, Indels: 12
0.84 0.14 0.02
Matches are distributed among these distances:
84 2 0.00
85 222 0.37
86 378 0.62
87 3 0.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (86 bp):
GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGATATGCCTTTGAGCTGAATGT
AATCGAACTCGAAGGTCTTGT
Found at i:17271 original size:257 final size:256
Alignment explanation
Indices: 16740--17535 Score: 1040
Period size: 257 Copynumber: 3.1 Consensus size: 256
16730 AGTGTAATTG
* * *
16740 GTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATTCGATGTGCCTTTGAGCTGAGTGT
1 GTTGGCAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATT-GATATGCCTTTGAGCTGAGTGT
* * * * *
16805 AATCGAACTCGAAGGTCTTGTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATACTGCGAATTGG
65 AATCGAACTCGAAGGTCTTG-GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTG
* *
16870 ATATGTCTTTGAGCTTAATCTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCACC
129 ATATGCCTTTGAGCTTAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCACC
* * * * * *
16935 TTGAGTTATGCTGCAAATTTGATATGCTTTTGAGCTGAGTGTAATCGAACTCAAAGGT-CTTG
194 TTGAGTTATGCTACAAATTTGATGTGCCTTTGAGCTGAATGTAATCAAACTCAAAGGTCCTTT
* * * *
16997 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATATGATAAT-CCTTTGAGGTGAGTG
1 GTTGGCAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAAT-TGAT-ATGCCTTTGAGCTGAGTG
* *
17061 TAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTATCTCCTTGAGTTATGCTGCAAATTTG
64 TAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTG
* * * * *
17126 ATATGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCC
129 ATATGCCTTTGAGCTTAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCACC
* *
17191 TTGAGTTATTCTATAAATTTGATGTGCCTTTGAGCTGAATGTAATCAAACTCAAAGGTCCTTT
194 TTGAGTTATGCTACAAATTTGATGTGCCTTTGAGCTGAATGTAATCAAACTCAAAGGTCCTTT
* * * * * * *
17254 GTTGGCATATAACCCTTCTAGCCTTGAGTTATGCTACGAATTTTATATGCCTTTGAACTGAATGT
1 GTTGGCAGATAACCCTTCTCGCCTTGAGTTATGCTGC-AAATTGATATGCCTTTGAGCTGAGTGT
* * ** * *
17319 AATCGAAATCGAATGTCTTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTG
65 AATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTG
* * * * * *
17384 ATGTGCCTTTAAGTTTAATGTAATCAAACTTGAAGGTC-TTGGTTGACAGATAGCCCTTCTCACC
129 ATATGCCTTTGAGCTTAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCACC
* * *
17448 TTGAGCTATGCTACAAATTTGATGTGTCTTTGAGCTGAATGTAATCAAACTCAAAGGTCTTTT
194 TTGAGTTATGCTACAAATTTGATGTGCCTTTGAGCTGAATGTAATCAAACTCAAAGGTCCTTT
* *
17511 GTTGGTAGATAACCCTTATCGCCTT
1 GTTGGCAGATAACCCTTCTCGCCTT
17536 TTCTCAGGTG
Statistics
Matches: 467, Mismatches: 66, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
256 148 0.32
257 243 0.52
258 76 0.16
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (256 bp):
GTTGGCAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTGATATGCCTTTGAGCTGAGTGTA
ATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCAAATTTGAT
ATGCCTTTGAGCTTAATGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCACCTT
GAGTTATGCTACAAATTTGATGTGCCTTTGAGCTGAATGTAATCAAACTCAAAGGTCCTTT
Found at i:17358 original size:428 final size:429
Alignment explanation
Indices: 16740--17535 Score: 1067
Period size: 428 Copynumber: 1.9 Consensus size: 429
16730 AGTGTAATTG
* * *
16740 GTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATTCGATGTGCCTTTGAGCTGAGTGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTACAAATTCGATGTGCCTTTGAGCTGAATGT
* * * * *
16805 AATCGAACTCGAAGGTCTTGTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATACTGCGAATTGG
66 AATCAAACTCAAAGGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGCTATACTACGAATTGG
* * * * * *
16870 ATATGTCTTTGAGCTTAATCTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCACC
131 ATATGCCTTTGAACTGAATCTAATCGAAATCGAAGGTCTTTTATTGACAGATAACCCTTCTCACC
* * * *
16935 TTGAGTTATGCTGCAAATTTGATATGCTTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTGGTT
196 TTGAGTTATGCTGCAAATTTGATATGCCTTTAAGCTGAATGTAATCAAACTCAAAGGTCTTGGTT
* * * ** * *
17000 GACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATATGATAAT-CCTTTGAGGTGAGTGTAA
261 GACAGATAACCCTTCTCACCTTGAGCTATGCTACAAATATGAT-ATGCCTTTGAGCTGAATGTAA
* * *
17064 TCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTATCTCCTTGAGTTATGCTGCAAATTTGAT
325 TCAAACTCAAAGGTCTTTGGTTGACAGATAACCCTTATCGCCTTGAGTTATGCTGCAAATTTGAT
17128 ATGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTT
390 ATGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTT
* * *
17168 GTTGACAGATAACCCTTCTCGCCTTGAGTTATTCTATAAATTTGATGTGCCTTTGAGCTGAATGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTACAAATTCGATGTGCCTTTGAGCTGAATGT
* * * * *
17233 AATCAAACTCAAAGGTCCTT-TGTTGGCATATAACCCTTCTAGCCTTGAGTTATGCTACGAATTT
66 AATCAAACTCAAAGGT-CTTGTGTTGACAGATAACCCTTCTAGCCTTGAGCTATACTACGAATTG
* * * *
17297 TATATGCCTTTGAACTGAATGTAATCGAAATCGAATGTCTTTTATTGACAGATAACCCTTCTCGC
130 GATATGCCTTTGAACTGAATCTAATCGAAATCGAAGGTCTTTTATTGACAGATAACCCTTCTCAC
* * * * * **
17362 CTTGAGTTATGTTGTAAATTTGATGTGCCTTTAAGTTTAATGTAATCAAACTTGAAGGTCTTGGT
195 CTTGAGTTATGCTGCAAATTTGATATGCCTTTAAGCTGAATGTAATCAAACTCAAAGGTCTTGGT
* * * *
17427 TGACAGATAGCCCTTCTCACCTTGAGCTATGCTACAAATTTGATGTGTCTTTGAGCTGAATGTAA
260 TGACAGATAACCCTTCTCACCTTGAGCTATGCTACAAATATGATATGCCTTTGAGCTGAATGTAA
* **
17492 TCAAACTCAAAGGTCTTTTGTTGGTAGATAACCCTTATCGCCTT
325 TCAAACTCAAAGGTCTTTGGTTGACAGATAACCCTTATCGCCTT
17536 TTCTCAGGTG
Statistics
Matches: 311, Mismatches: 54, Indels: 5
0.84 0.15 0.01
Matches are distributed among these distances:
427 1 0.00
428 283 0.91
429 27 0.09
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (429 bp):
GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTACAAATTCGATGTGCCTTTGAGCTGAATGT
AATCAAACTCAAAGGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGCTATACTACGAATTGG
ATATGCCTTTGAACTGAATCTAATCGAAATCGAAGGTCTTTTATTGACAGATAACCCTTCTCACC
TTGAGTTATGCTGCAAATTTGATATGCCTTTAAGCTGAATGTAATCAAACTCAAAGGTCTTGGTT
GACAGATAACCCTTCTCACCTTGAGCTATGCTACAAATATGATATGCCTTTGAGCTGAATGTAAT
CAAACTCAAAGGTCTTTGGTTGACAGATAACCCTTATCGCCTTGAGTTATGCTGCAAATTTGATA
TGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTT
Found at i:21090 original size:23 final size:23
Alignment explanation
Indices: 21064--21121 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
21054 AATCCTTATT
*
21064 AGGGACAAAAATGTTACGTCTTA
1 AGGGACAAAAATGTTACATCTTA
*
21087 AGGGACAAAAGTGTTACATCTTA
1 AGGGACAAAAATGTTACATCTTA
*
21110 AGAGACAAAAAT
1 AGGGACAAAAAT
21122 ATTTTAAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (23 bp):
AGGGACAAAAATGTTACATCTTA
Found at i:23014 original size:14 final size:14
Alignment explanation
Indices: 22995--23026 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
22985 ATCCGATTAG
22995 TTGAACTGATTTAC
1 TTGAACTGATTTAC
23009 TTGAACTGATTTAC
1 TTGAACTGATTTAC
23023 TTGA
1 TTGA
23027 CACAATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (14 bp):
TTGAACTGATTTAC
Found at i:23184 original size:16 final size:16
Alignment explanation
Indices: 23174--23253 Score: 92
Period size: 16 Copynumber: 5.0 Consensus size: 16
23164 CAACCCAAAA
*
23174 CGAAATTAACCCGAAC
1 CGAAAATAACCCGAAC
23190 CGAAAATAACCCGAAC
1 CGAAAATAACCCGAAC
*
23206 CGAAAGTAACCCGAAC
1 CGAAAATAACCCGAAC
* *
23222 C-AAATTTAACCCGATC
1 CGAAA-ATAACCCGAAC
23238 CGAAAGA-AACCCGAAC
1 CGAAA-ATAACCCGAAC
23254 ATATTGAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
15 3 0.05
16 49 0.89
17 3 0.05
ACGTcount: A:0.45, C:0.31, G:0.14, T:0.10
Consensus pattern (16 bp):
CGAAAATAACCCGAAC
Found at i:23200 original size:48 final size:47
Alignment explanation
Indices: 23126--23253 Score: 132
Period size: 48 Copynumber: 2.7 Consensus size: 47
23116 GTAGTGAAAC
* * * * *
23126 CGAAATAAACCAGAACTGAAATTAACCTGAACCAAAAGCAACCCAAAA
1 CGAAATTAACCCGAACCGAAAATAACCCGAACCAAAAGCAACCC-AAA
* * *
23174 CGAAATTAACCCGAACCGAAAATAACCCGAACCGAAAGTAACCCGAA
1 CGAAATTAACCCGAACCGAAAATAACCCGAACCAAAAGCAACCCAAA
* *
23221 CCAAATTTAACCCGATCCGAAAGA-AACCCGAAC
1 CGAAA-TTAACCCGAACCGAAA-ATAACCCGAAC
23254 ATATTGAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 6 0.09
48 61 0.90
49 1 0.01
ACGTcount: A:0.48, C:0.29, G:0.12, T:0.10
Consensus pattern (47 bp):
CGAAATTAACCCGAACCGAAAATAACCCGAACCAAAAGCAACCCAAA
Found at i:23232 original size:32 final size:31
Alignment explanation
Indices: 23123--23253 Score: 118
Period size: 32 Copynumber: 4.1 Consensus size: 31
23113 AATGTAGTGA
* * * * *
23123 AACCGAAATAAACCAGAACTGAAATTAACCTG
1 AACCAAAAT-AACCCGAACCGAAAGTAACCCG
* * * *
23155 AACCAAAAGCAACCCAAAACGAAATTAACCCG
1 AACCAAAA-TAACCCGAACCGAAAGTAACCCG
23187 AACCGAAAATAACCCGAACCGAAAGTAACCCG
1 AACC-AAAATAACCCGAACCGAAAGTAACCCG
* * *
23219 AACCAAATTTAACCCGATCCGAAAGAAACCCG
1 AACCAAA-ATAACCCGAACCGAAAGTAACCCG
23251 AAC
1 AAC
23254 ATATTGAAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
31 3 0.04
32 75 0.91
33 4 0.05
ACGTcount: A:0.49, C:0.29, G:0.12, T:0.10
Consensus pattern (31 bp):
AACCAAAATAACCCGAACCGAAAGTAACCCG
Found at i:24426 original size:15 final size:15
Alignment explanation
Indices: 24406--24435 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24396 TAGCTCTTCC
24406 TTTATATGTCAACTA
1 TTTATATGTCAACTA
24421 TTTATATGTCAACTA
1 TTTATATGTCAACTA
24436 CTGATGACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
TTTATATGTCAACTA
Found at i:25488 original size:3 final size:3
Alignment explanation
Indices: 25480--25522 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
25470 ACAATATTGC
25480 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
25523 TTGATAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:33809 original size:4 final size:4
Alignment explanation
Indices: 33800--33999 Score: 368
Period size: 4 Copynumber: 50.2 Consensus size: 4
33790 CTCTACCCTA
33800 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
33848 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
33896 ACAT ACAT ACAT ACAT ACAT ACA- ACAT A-AT ACAT ACAT AATAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT
33943 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
33991 ACAT ACAT A
1 ACAT ACAT A
34000 TAAAAGTTCA
Statistics
Matches: 191, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
3 6 0.03
4 182 0.95
5 3 0.02
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:41784 original size:91 final size:91
Alignment explanation
Indices: 41626--41803 Score: 284
Period size: 91 Copynumber: 2.0 Consensus size: 91
41616 TACCTACAAG
* * ** * *
41626 AGCAGCACAGCATACCTTAAGGACAGAACTAGGGGTAAAAGGAGACGAGAAAAAAGGTTTCATGT
1 AGCAGCACAGCATACCTTAAAGACAGAACAAGGGCCAAAAAGAGACGAGAAAAAAGGTTTCAAGT
41691 GATATGTTCTGGTAAACTTGCAAACA
66 GATATGTTCTGGTAAACTTGCAAACA
* *
41717 AGCAGCACAGCATACCTTAAAGACAGAACAAGGGCCAAAAAGAGATGAGAAATAAGGTTTCAAGT
1 AGCAGCACAGCATACCTTAAAGACAGAACAAGGGCCAAAAAGAGACGAGAAAAAAGGTTTCAAGT
41782 GATATGTTCTGGTAAACTTGCA
66 GATATGTTCTGGTAAACTTGCA
41804 GACTATTGGT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (91 bp):
AGCAGCACAGCATACCTTAAAGACAGAACAAGGGCCAAAAAGAGACGAGAAAAAAGGTTTCAAGT
GATATGTTCTGGTAAACTTGCAAACA
Found at i:45923 original size:26 final size:25
Alignment explanation
Indices: 45851--45923 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 25
45841 AATTTTCGAA
45851 TTAA-TCAAAAAAAATTAAATTTTT
1 TTAATTCAAAAAAAATTAAATTTTT
* * * *
45875 CTAATTTATATAACAAA-TGAATTTTT
1 TTAATTCA-A-AAAAAATTAAATTTTT
45901 TTAATTCAAAAAAAATTACAATT
1 TTAATTCAAAAAAAATTA-AATT
45924 AATTTAAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
24 8 0.22
25 4 0.11
26 19 0.53
27 5 0.14
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (25 bp):
TTAATTCAAAAAAAATTAAATTTTT
Found at i:46892 original size:21 final size:21
Alignment explanation
Indices: 46868--46920 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
46858 GTCTTACGTA
46868 AACTATCACATTATCATTGTG
1 AACTATCACATTATCATTGTG
46889 AACTATCACATTATCATTGTG
1 AACTATCACATTATCATTGTG
46910 AACTATCACAT
1 AACTATCACAT
46921 CAATATCGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (21 bp):
AACTATCACATTATCATTGTG
Found at i:51117 original size:21 final size:21
Alignment explanation
Indices: 51075--51117 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51065 TTTCTGGGCT
* *
51075 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
51096 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
51117 A
1 A
51118 ACGAGTATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:51669 original size:2 final size:2
Alignment explanation
Indices: 51662--51689 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51652 ACATGTTACA
51662 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
51690 TATGAGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52155 original size:30 final size:30
Alignment explanation
Indices: 52121--52463 Score: 650
Period size: 30 Copynumber: 11.4 Consensus size: 30
52111 GGTTCTTCGG
*
52121 GACCTATGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
52151 GACCTATGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
52181 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
52211 GACCTCTGGATAGTTATCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
52241 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
52271 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
52301 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
52331 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
52361 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
52391 GACCTCTGGATAGTTACCGATGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
52421 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
52451 GACCTCTGGATAG
1 GACCTCTGGATAG
52464 GTCCTTCGAA
Statistics
Matches: 308, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 308 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:53134 original size:23 final size:23
Alignment explanation
Indices: 53108--53171 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
53098 AGCTCATATA
53108 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
53131 AATTGCACC-ATAGTGCCGCGTAG
1 AATTGCACCGA-AGTGCCACGTAG
*
53154 AAATGCACCGAAGTGCCA
1 AATTGCACCGAAGTGCCA
53172 TATAAGGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 1 0.03
23 34 0.94
24 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.17
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:61200 original size:27 final size:27
Alignment explanation
Indices: 61170--61235 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
61160 CCAGCATATT
61170 CGATCTTAATATAAGGTACGAATCAAA
1 CGATCTTAATATAAGGTACGAATCAAA
61197 CGATCTTAATATAAGGTACGAATCAAA
1 CGATCTTAATATAAGGTACGAATCAAA
61224 CGATCTTAATAT
1 CGATCTTAATAT
61236 TTAAAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (27 bp):
CGATCTTAATATAAGGTACGAATCAAA
Found at i:61649 original size:40 final size:39
Alignment explanation
Indices: 61555--61652 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 39
61545 TGCATAAGGA
*
61555 CTTTAGGCTAATTAATATACTTTCAAAGTTGGAGCATAAT
1 CTTTAGGC-AATTAATATACTTTCAAAGTTGAAGCATAAT
*** * *
61595 CTTTTCTTCTATTAATATACTTTCAAAGTTGAAGCATCAT
1 C-TTTAGGCAATTAATATACTTTCAAAGTTGAAGCATAAT
61635 CTTTAGGCAAATTAATAT
1 CTTTAGGC-AATTAATAT
61653 GTTTGAAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
39 4 0.09
40 38 0.83
41 4 0.09
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (39 bp):
CTTTAGGCAATTAATATACTTTCAAAGTTGAAGCATAAT
Found at i:61960 original size:24 final size:24
Alignment explanation
Indices: 61933--61997 Score: 130
Period size: 24 Copynumber: 2.7 Consensus size: 24
61923 GCATTCCTAC
61933 ATTTGAACATGATGCAATGATGGG
1 ATTTGAACATGATGCAATGATGGG
61957 ATTTGAACATGATGCAATGATGGG
1 ATTTGAACATGATGCAATGATGGG
61981 ATTTGAACATGATGCAA
1 ATTTGAACATGATGCAA
61998 CAAAAATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (24 bp):
ATTTGAACATGATGCAATGATGGG
Found at i:62834 original size:21 final size:22
Alignment explanation
Indices: 62786--62838 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
62776 ACATATAATC
*
62786 ATAAATTAGTTAAAAATTTAAAG
1 ATAAATTA-TTAAAAATTAAAAG
*
62809 ATAAATTATTTAAAA-TAAAAG
1 ATAAATTATTAAAAATTAAAAG
*
62830 GTAAATTAT
1 ATAAATTAT
62839 ATCAGTGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 13 0.48
22 6 0.22
23 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (22 bp):
ATAAATTATTAAAAATTAAAAG
Found at i:63326 original size:30 final size:30
Alignment explanation
Indices: 63292--63652 Score: 135
Period size: 30 Copynumber: 12.5 Consensus size: 30
63282 ATTTTACATC
*
63292 TTAACATTAAAAATATATTTTATTTTTATA
1 TTAACATTAAAAATATATTTTATTCTTATA
* * *
63322 TTAAC-TTATTAAATATATTTTATTCTTGTG
1 TTAACATTA-AAAATATATTTTATTCTTATA
* * * *
63352 TTAACCTAAAAAATATATTGTATTCTTATT
1 TTAACATTAAAAATATATTTTATTCTTATA
* *
63382 TTAA-ATT-AAAATATACTTTAGTCTT-TA
1 TTAACATTAAAAATATATTTTATTCTTATA
** *
63409 TCGTAAC-TTAAAAA-A-A-AGTATTCTTATC
1 T--TAACATTAAAAATATATTTTATTCTTATA
* * * * *
63437 TTAAC-TTATTACATAAATTATATACTTA-A
1 TTAACATTA-AAAATATATTTTATTCTTATA
* * * * *
63466 CTTAA-ATTATTAAATGTGTTCTATTCTTACA
1 -TTAACATTA-AAAATATATTTTATTCTTATA
* * *
63497 TTAA-ATTATCAAAA-ATAATTAATTCTTATT
1 TTAACATTA--AAAATATATTTTATTCTTATA
* *
63527 TTAAC-TTAAAATATATCTTTTATTCTTATC
1 TTAACATTAAAA-ATATATTTTATTCTTATA
63557 TTAAC-TTAAAAATATATTTTTATT-TTA-A
1 TTAACATTAAAAATATA-TTTTATTCTTATA
* *
63585 TT---A--AAAAATATATTTTATTTTTTATC
1 TTAACATTAAAAATATATTTTA-TTCTTATA
* * *
63611 TTAAC--TAAAAA-ATATTATATTTTTATC
1 TTAACATTAAAAATATATTTTATTCTTATA
*
63638 TTAA-ATTTAAAATAT
1 TTAACATTAAAAATAT
63653 TATCATAATA
Statistics
Matches: 252, Mismatches: 49, Indels: 61
0.70 0.14 0.17
Matches are distributed among these distances:
23 5 0.02
24 11 0.04
25 3 0.01
26 9 0.04
27 22 0.09
28 36 0.14
29 26 0.10
30 134 0.53
31 6 0.02
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.49
Consensus pattern (30 bp):
TTAACATTAAAAATATATTTTATTCTTATA
Found at i:63568 original size:57 final size:56
Alignment explanation
Indices: 63507--63652 Score: 172
Period size: 54 Copynumber: 2.6 Consensus size: 56
63497 TTAAATTATC
* * *
63507 AAAAATAATTAATTCTTATTTTAACTTAAAATATATCTTTTA-TTCTTATCTTAACTT
1 AAAAAT-ATTAATTTTTATTTTAA-TTAAAATATATATTTTATTTCTTATCTTAACTA
* *
63564 AAAAATA-T-ATTTTTATTTTAATTAAAAAATATATTTTATTTTTTATCTTAACTA
1 AAAAATATTAATTTTTATTTTAATTAAAATATATATTTTATTTCTTATCTTAACTA
*
63618 AAAAATATTATATTTTTATCTTAAATTTAAAATAT
1 AAAAATATTA-ATTTTTAT-TTTAA-TTAAAATAT
63653 TATCATAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
53 15 0.20
54 32 0.42
55 2 0.03
56 1 0.01
57 14 0.18
58 4 0.05
59 8 0.11
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.51
Consensus pattern (56 bp):
AAAAATATTAATTTTTATTTTAATTAAAATATATATTTTATTTCTTATCTTAACTA
Found at i:63600 original size:23 final size:23
Alignment explanation
Indices: 63547--63605 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
63537 ATATATCTTT
*
63547 TATTCTTATCTTAACTTAAAAATA
1 TATT-TTATTTTAACTTAAAAATA
63571 TATTTTTATTTTAA-TTAAAAAATA
1 TA-TTTTATTTTAACTT-AAAAATA
63595 TATTTTATTTT
1 TATTTTATTTT
63606 TTATCTTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 11 0.34
24 19 0.59
25 2 0.06
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTTATTTTAACTTAAAAATA
Found at i:63642 original size:53 final size:53
Alignment explanation
Indices: 63523--63642 Score: 138
Period size: 53 Copynumber: 2.2 Consensus size: 53
63513 AATTAATTCT
* * *
63523 TATTTTAACTTAAAATATATCTTTTATTCTTATCTTAACTTAAAAATATATTTT
1 TATTTT-ACTTAAAAAATATATTTTATTCTTATCTTAACTTAAAAATATATTTA
* *
63577 TATTTTAATTAAAAAATATATTTTATTTTTTATCTTAAC-TAAAAA-ATA-TTA
1 TATTTTACTTAAAAAATATATTTTA-TTCTTATCTTAACTTAAAAATATATTTA
63628 TATTTTTATCTTAAA
1 TA-TTTTA-CTTAAA
63643 TTTAAAATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
51 4 0.07
52 8 0.14
53 27 0.47
54 18 0.32
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (53 bp):
TATTTTACTTAAAAAATATATTTTATTCTTATCTTAACTTAAAAATATATTTA
Found at i:63812 original size:18 final size:18
Alignment explanation
Indices: 63780--63828 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
63770 AAAAATATTT
63780 TTAATTTTAAGATGTAAAA
1 TTAA-TTTAAGATGTAAAA
* * *
63799 TTAATTTAATATGTTAAT
1 TTAATTTAAGATGTAAAA
63817 TTAATTTAAGAT
1 TTAATTTAAGAT
63829 ATATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (18 bp):
TTAATTTAAGATGTAAAA
Found at i:67862 original size:30 final size:31
Alignment explanation
Indices: 67798--67863 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
67788 GATTTAAAAA
* *
67798 AATTTAGATAAAATCACTTTCGTTTTTATTT
1 AATTAAGATAAAATCACTTTCGTTTATATTT
*
67829 AATTAAGATAAGATCA-TTTCTGTTTATA-TT
1 AATTAAGATAAAATCACTTTC-GTTTATATTT
67859 AATTA
1 AATTA
67864 GCAAGTGGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (31 bp):
AATTAAGATAAAATCACTTTCGTTTATATTT
Found at i:70383 original size:13 final size:13
Alignment explanation
Indices: 70367--70393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
70357 CTTATGGTAA
70367 CACATTAGTATAT
1 CACATTAGTATAT
70380 CACATTAGTATAT
1 CACATTAGTATAT
70393 C
1 C
70394 GTTAATTTTT
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:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (13 bp):
CACATTAGTATAT
Found at i:76682 original size:28 final size:28
Alignment explanation
Indices: 76598--76695 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 28
76588 ATTTTTCATT
*
76598 TAAGTATCTAAAGTAATTTTTCGTCAAAA
1 TAAGTACCTAAAGTAATTTTT-GTCAAAA
* *
76627 TAAGTACCTAAGGTAATTTTTTATCAAAA
1 TAAGTACCTAAAGTAA-TTTTTGTCAAAA
76656 TAAGTACCTAAAGT-ATTTTGTGTCAAAA
1 TAAGTACCTAAAGTAATTTT-TGTCAAAA
*
76684 TAGGTACCTAAA
1 TAAGTACCTAAA
76696 CTATTCAAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 4 0.07
28 19 0.31
29 33 0.54
30 5 0.08
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (28 bp):
TAAGTACCTAAAGTAATTTTTGTCAAAA
Found at i:76820 original size:29 final size:28
Alignment explanation
Indices: 76783--76874 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 28
76773 GAAAAAAATT
*
76783 AAATACTTTAGGTATCTATGTTGACCAAA
1 AAATACTTTAGGTA-CTATTTTGACCAAA
* *
76812 AAATACTTTAGGTACCTATTTTAACTAAA
1 AAATACTTTAGGTA-CTATTTTGACCAAA
* *
76841 AAGATAATTTTAGATACTTATTTTGACCAAA
1 AA-AT-ACTTTAGGTAC-TATTTTGACCAAA
76872 AAA
1 AAA
76875 AATGTTAAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
29 27 0.52
30 4 0.08
31 21 0.40
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (28 bp):
AAATACTTTAGGTACTATTTTGACCAAA
Found at i:77817 original size:5 final size:5
Alignment explanation
Indices: 77807--77846 Score: 73
Period size: 5 Copynumber: 8.2 Consensus size: 5
77797 TCATTAACTT
77807 TAATA TAATA TAATA TAATA TAATA TAATA T-ATA TAATA T
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA T
77847 TATGTTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:83409 original size:21 final size:21
Alignment explanation
Indices: 83385--83543 Score: 209
Period size: 21 Copynumber: 7.6 Consensus size: 21
83375 TTGTACCAAG
*
83385 GACGAGAAGAGCATTCATCAA
1 GACGAGAAGACCATTCATCAA
*
83406 GACGAGAATG-TCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
83427 GACGAGAATG-CCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
*
83448 GACGAGAAGGCCATTCATCAA
1 GACGAGAAGACCATTCATCAA
83469 GACGAGAAGACCATTCATCAA
1 GACGAGAAGACCATTCATCAA
*
83490 GACGAGAAGACCTTTCAT-AA
1 GACGAGAAGACCATTCATCAA
* *
83510 CGACGAGAAGACC-TTCGTAAA
1 -GACGAGAAGACCATTCATCAA
83531 GACGAGAAGACCA
1 GACGAGAAGACCA
83544 CATCACATGG
Statistics
Matches: 128, Mismatches: 5, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
20 19 0.15
21 108 0.84
22 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (21 bp):
GACGAGAAGACCATTCATCAA
Found at i:85889 original size:2 final size:2
Alignment explanation
Indices: 85882--85922 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
85872 CATTTATCCT
85882 TA TA TA TA 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 TA TA TA TA T
85923 CCCTTGTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89464 original size:54 final size:54
Alignment explanation
Indices: 89376--90500 Score: 1129
Period size: 54 Copynumber: 20.8 Consensus size: 54
89366 AGTTAAGCAA
* ** * * *
89376 AAGAAGATTTTCGAGTTCTATACTCATTGAAGAAAGAGAGAGAGAACCCGTTTA
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
*
89430 AAGAAGATGTTCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTG
* * **
89484 AAGAAGATGTTTGAGTTCCATACTCCCT-AGAGAAAGAGGGAGATAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTG
* * *
89538 AAGAAAAT-TTCCAAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTT-CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * * * **
89592 CAGAAGATTTTCGAGTTCTATACTTCCTGAAGAAAGAGCGAAGCGAACCCGTAAG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAG-GGAGCGAACCCGTTTG
* * *
89647 AAGAAGAT-TCTTGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTT
1 AAGAAGATGT-TCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * *
89701 CAGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCG-TT-
1 AAGAAGA-TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * * * *
89754 -AGAAGATTTTCGAGTTCTATACTCCTTGAAGAAAGAGGGAGAGAACCCATTTA
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * *
89807 AAGAAGATGTTTGAGTTCCATAATCCCT-AGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTG
* * * *
89861 AAGAAGATGTTTGAGTTCCATACTCCCT-AGAGAAATAGGGAGCGAACCTGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTG
* * * * * **
89915 CAGAAGATTATTCGAGTTTTATACTTCCTGAAGAAAGAGCGAAGCGAACCCGTAAG
1 AAGAAGA-TGTTCGAGTTCTATACTCCCTGAAGAAAGAG-GGAGCGAACCCGTTTG
* *
89971 AAGAAGAT-TCTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTT
1 AAGAAGATGT-TCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * *
90025 TAGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCG-TT-
1 AAGAAGA-TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* ** **
90078 -AGAAGATTTTCGAGTTCTATACTCATTGAAGAAAGAGGGAGAAAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* *
90131 AAGAAGATGTTTGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTG
* * **
90185 AAGAAAAT-TTCCAAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACATGTTTG
1 AAGAAGATGTT-CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * * * * *
90239 AAGAAAATGTCCAAGTTCTATACTCCCT-AGAGAAAAAGGGAGAGAACTCGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTG
* * *
90293 AAGAATATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTG
1 AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
* * * *
90347 CAGAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGGACTCGATTAT-
1 AAGAAGA-TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCG-TT-TG
* ** * * * * * *
90403 TA-AAGATTGTTCGAG-TCTTATACTCTTTGAAGAAATAAGGAACAAACACGATTG
1 AAGAAGA-TGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
** * *
90457 TTGAAGAATGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGAGC
1 AAGAAG-ATGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGC
90501 ATACACGAAT
Statistics
Matches: 911, Mismatches: 126, Indels: 67
0.83 0.11 0.06
Matches are distributed among these distances:
51 74 0.08
52 16 0.02
53 9 0.01
54 498 0.55
55 288 0.32
56 25 0.03
57 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (54 bp):
AAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
Found at i:90054 original size:324 final size:324
Alignment explanation
Indices: 89377--90437 Score: 1505
Period size: 324 Copynumber: 3.3 Consensus size: 324
89367 GTTAAGCAAA
* * * * *
89377 AGAAGATT-TTCGAGTTCTATACTCAT-TGAAGAAAGAGAGAGAGAACCCGTTTAAAGAAGATGT
1 AGAAGATTGTTCGAGTTCTATACTC-TCTAAAGAAAGAGGGAGCGAACCCGATT--AGAAGATTT
* * *
89440 TCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTTGAGTTCCA
63 TCGAGTTCTATACTCCTTGA-AGAAAGAGGGAGAGAACCCGTTTGAAGAAGATGTTTGAGTTCCA
**
89504 TACTCCCTAGAGAAAGAGGGAGATAACCCGTTTGAAGAAAATTTCCAAGTTCTATACTCCCTGAA
127 TACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATTTCCAAGTTCTATACTCCCTGAA
89569 GAAAGAGGGAGCGAACCTGTTTGCAGAAGATTTTCGAGTTCTATACTTCCTGAAGAAAGAGCGAA
192 GAAAGAGGGAGCGAACCTGTTTGCAGAAGATTTTCGAGTTCTATACTTCCTGAAGAAAGAGCGAA
*
89634 GCGAACCCGTAAGAAGAAGATTCTTGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTT
257 GCGAACCCGTAAGAAGAAGATTCTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTT
89699 TTC
322 TTC
89702 AGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCG-TTAGAAGATTTTCG
1 AGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCGATTAGAAGATTTTCG
* * *
89766 AGTTCTATACTCCTTGAAGAAAGAGGGAGAGAACCCATTTAAAGAAGATGTTTGAGTTCCATAAT
66 AGTTCTATACTCCTTGAAGAAAGAGGGAGAGAACCCGTTTGAAGAAGATGTTTGAGTTCCATACT
* ** *
89831 CCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT-TGAGTTCCATACTCCCT-AGAGA
131 CCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAAT-TTCCAAGTTCTATACTCCCTGA-AGA
* *
89894 AATAGGGAGCGAACCTGTTTGCAGAAGATTATTCGAGTTTTATACTTCCTGAAGAAAGAGCGAAG
194 AAGAGGGAGCGAACCTGTTTGCAGAAGATT-TTCGAGTTCTATACTTCCTGAAGAAAGAGCGAAG
89959 CGAACCCGTAAGAAGAAGATTCTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
258 CGAACCCGTAAGAAGAAGATTCTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTT
*
90024 TT
323 TC
90026 AGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCG-TTAGAAGATTTTCG
1 AGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCGATTAGAAGATTTTCG
* *
90090 AGTTCTATACTCATTGAAGAAAGAGGGAGAAAACCCGTTTGAAGAAGATGTTTGAGTTCCATACT
66 AGTTCTATACTCCTTGAAGAAAGAGGGAGAGAACCCGTTTGAAGAAGATGTTTGAGTTCCATACT
90155 CCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATTTCCAAGTTCTATACTCCCTGAAGAAA
131 CCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATTTCCAAGTTCTATACTCCCTGAAGAAA
* * * * * * * * * *
90220 GAGGGAGCGAACATGTTTGAAGAAAATGTCCAAGTTCTATACTCCCT-AGAGAAAAAG-GGAGAG
196 GAGGGAGCGAACCTGTTTGCAGAAGATTTTCGAGTTCTATACTTCCTGA-AGAAAGAGCGAAGCG
* ** * * * *
90283 AACTCGTTTGAAGAATATGTC-CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTG
260 AACCCGTAAGAAGAAGAT-TCTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTT
90347 C
324 C
* * * * * *
90348 AGAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGGACTCGATTATTAAAGATTGT
1 AGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCGATTA--GAAGATT-T
*
90413 TCGAG-TCTTATACTCTTTGAAGAAA
63 TCGAGTTC-TATACTCCTTGAAGAAA
90438 TAAGGAACAA
Statistics
Matches: 665, Mismatches: 56, Indels: 29
0.89 0.07 0.04
Matches are distributed among these distances:
322 105 0.16
323 178 0.27
324 304 0.46
325 20 0.03
326 58 0.09
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (324 bp):
AGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCGATTAGAAGATTTTCG
AGTTCTATACTCCTTGAAGAAAGAGGGAGAGAACCCGTTTGAAGAAGATGTTTGAGTTCCATACT
CCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATTTCCAAGTTCTATACTCCCTGAAGAAA
GAGGGAGCGAACCTGTTTGCAGAAGATTTTCGAGTTCTATACTTCCTGAAGAAAGAGCGAAGCGA
ACCCGTAAGAAGAAGATTCTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTTC
Found at i:90507 original size:55 final size:55
Alignment explanation
Indices: 90357--90637 Score: 307
Period size: 55 Copynumber: 5.1 Consensus size: 55
90347 CAGAAGATTA
* * * * * * *
90357 TTCGAGT-TCTATACTCCCTGAAGAAAGAGGGAGCGGACTCGATTATTAAAGATTG
1 TTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGAATG
* * * *
90412 TTCGAGTCTTATACTCTTTGAAGAAATAAGGAACAAACACGATTGTTGAAGAATG
1 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGAATG
* *
90467 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACGAATGTTGAA-AATTG
1 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGAA-TG
* * * *
90522 TTCGAGTCTAATTCTCTCTGAAGAAATAGGGAGCAGAAACGATTGTTGAAGATTG
1 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGAATG
* * * * * *
90577 TTCGAGTCTTATACTCTCTGAAG-CATAGAGAACAGAGACGTTTGTTGAAGATTG
1 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGAATG
*
90631 TGCGAGT
1 TTCGAGT
90638 TTCATGCATC
Statistics
Matches: 193, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
54 34 0.18
55 157 0.81
56 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (55 bp):
TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGAATG
Found at i:101002 original size:21 final size:21
Alignment explanation
Indices: 100978--101046 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
100968 AAATTCGCGT
*
100978 TGCGATTTTCCTAAATCGCAA
1 TGCGATTTACCTAAATCGCAA
* *
100999 TGCGA-ATACGTAAATCGCAA
1 TGCGATTTACCTAAATCGCAA
* ***
101019 TGCGAATTAGGAAAATCGCAA
1 TGCGATTTACCTAAATCGCAA
101040 TGCGATT
1 TGCGATT
101047 ACGTATTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.43
21 23 0.57
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (21 bp):
TGCGATTTACCTAAATCGCAA
Found at i:101014 original size:20 final size:20
Alignment explanation
Indices: 100989--101051 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
100979 GCGATTTTCC
100989 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
101009 TAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCGAA-TACG
* *
101030 AAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACG
101050 TA
1 TA
101052 TTTTCTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:101084 original size:20 final size:20
Alignment explanation
Indices: 101061--101105 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
101051 ATTTTCTAAT
101061 TCGCATTGCGATTTACGT-AA
1 TCGCATTGCGATTTA-GTAAA
101081 TCGCATTGCGATTTAGTAAA
1 TCGCATTGCGATTTAGTAAA
101101 TCGCA
1 TCGCA
101106 ACGATATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (20 bp):
TCGCATTGCGATTTAGTAAA
Found at i:101396 original size:21 final size:21
Alignment explanation
Indices: 101351--101420 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
101341 ACTATCACAT
* * **
101351 TGCGATTTCCCAAATTCGCGT
1 TGCGATTTACCAAAATCGCAA
* *
101372 TGCGATTTTCCTAAATCGCAA
1 TGCGATTTACCAAAATCGCAA
* * *
101393 TGCGAATTACGAAAATTGCAA
1 TGCGATTTACCAAAATCGCAA
101414 TGCGATT
1 TGCGATT
101421 ATTGCGATTT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (21 bp):
TGCGATTTACCAAAATCGCAA
Found at i:101463 original size:20 final size:21
Alignment explanation
Indices: 101421--101476 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
101411 CAATGCGATT
* *
101421 ATTGCGATTTTCCTAATTCGC
1 ATTGCGATTTACGTAATTCGC
101442 ATTGCGATTTACGTAA-TCGC
1 ATTGCGATTTACGTAATTCGC
101462 ATTGCGATTTA-GTAA
1 ATTGCGATTTACGTAA
101477 ATCGTAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.12
20 15 0.45
21 14 0.42
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (21 bp):
ATTGCGATTTACGTAATTCGC
Found at i:101632 original size:21 final size:21
Alignment explanation
Indices: 101608--101666 Score: 102
Period size: 20 Copynumber: 2.9 Consensus size: 21
101598 ATGGCGCTAT
*
101608 GTAAATCGCAATGCGAATTAG
1 GTAAATCGCAATGCGAATTAC
101629 GTAAATCGCAATGCG-ATTAC
1 GTAAATCGCAATGCGAATTAC
101649 GTAAATCGCAATGCGAAT
1 GTAAATCGCAATGCGAAT
101667 CGCATTGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (21 bp):
GTAAATCGCAATGCGAATTAC
Found at i:101710 original size:20 final size:21
Alignment explanation
Indices: 101666--101721 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
101656 GCAATGCGAA
*
101666 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACCTAAT
* *
101687 TCGCGTTGCGATTTACGT-AT
1 TCGCATTGCGATTTACCTAAT
101707 TCGCATTGCGATTTA
1 TCGCATTGCGATTTA
101722 GGAAAATCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTACCTAAT
Found at i:101738 original size:21 final size:21
Alignment explanation
Indices: 101725--101801 Score: 145
Period size: 21 Copynumber: 3.7 Consensus size: 21
101715 CGATTTAGGA
101725 AAATCGCAACGCGAATTTGGG
1 AAATCGCAACGCGAATTTGGG
101746 AAATCGCAACGCGAATTTGGG
1 AAATCGCAACGCGAATTTGGG
101767 AAATCGCAACGCGAATTTGGG
1 AAATCGCAACGCGAATTTGGG
*
101788 AAATCGCAATGCGA
1 AAATCGCAACGCGA
101802 TAGTCAGAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.18
Consensus pattern (21 bp):
AAATCGCAACGCGAATTTGGG
Found at i:115275 original size:19 final size:19
Alignment explanation
Indices: 115251--115297 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
115241 GATCAGCTTG
115251 AAATGTTGCCTATGGCTGC
1 AAATGTTGCCTATGGCTGC
115270 AAATGTTGCCTATGGCTGC
1 AAATGTTGCCTATGGCTGC
115289 AAATGTTGC
1 AAATGTTGC
115298 ACAATGTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (19 bp):
AAATGTTGCCTATGGCTGC
Found at i:117015 original size:33 final size:33
Alignment explanation
Indices: 116978--117043 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
116968 AATCTCTGCG
* * *
116978 AGTTGTTACACCAGTCAGAAACTCACGTGCTCA
1 AGTTGTTAAACCAGTCACAAAATCACGTGCTCA
117011 AGTTGTTAAACCAGTCACAAAATCACGTGCTCA
1 AGTTGTTAAACCAGTCACAAAATCACGTGCTCA
117044 GTCTCCACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (33 bp):
AGTTGTTAAACCAGTCACAAAATCACGTGCTCA
Found at i:127937 original size:60 final size:60
Alignment explanation
Indices: 127863--127977 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
127853 GAGAGGATCA
* * *
127863 TAGTTTAGGGATGAAATTAGAATGTACAAAAGTTTAAGGA-CTAATTTAGAATGAGAGTAG
1 TAGTTTAGGGATGAAATTAAAATATACAAAAGTTTAAGGATC-AATTTAAAATGAGAGTAG
* * *
127923 TAGTTTGGGGATGAAATTAAAATATTCCAAAGTTTAAGGATCAATTTAAAATGAG
1 TAGTTTAGGGATGAAATTAAAATATACAAAAGTTTAAGGATCAATTTAAAATGAG
127978 GGTTATAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
60 47 0.98
61 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.31
Consensus pattern (60 bp):
TAGTTTAGGGATGAAATTAAAATATACAAAAGTTTAAGGATCAATTTAAAATGAGAGTAG
Found at i:127990 original size:60 final size:60
Alignment explanation
Indices: 127870--127993 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 60
127860 TCATAGTTTA
* * * *
127870 GGGATGAAATTAGAATGTACAAAAGTTTAAGGACTAATTTAGAATGAGAGTAGTAGTTTG
1 GGGATGAAATTAAAATATACAAAAGTTTAAGGACTAATTTAAAATGAGAGTAGTAATTTG
* * *
127930 GGGATGAAATTAAAATATTCCAAAGTTTAAGGA-TCAATTTAAAATGAGGGTTA-TAATTTG
1 GGGATGAAATTAAAATATACAAAAGTTTAAGGACT-AATTTAAAATGAGAG-TAGTAATTTG
127990 GGGA
1 GGGA
127994 CATATGATGT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 1 0.02
60 52 0.95
61 2 0.04
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (60 bp):
GGGATGAAATTAAAATATACAAAAGTTTAAGGACTAATTTAAAATGAGAGTAGTAATTTG
Found at i:128525 original size:50 final size:50
Alignment explanation
Indices: 128467--128596 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
128457 GTAGCAGTAA
**
128467 AGCGCGCCCCCTGAACCGCGCTATATTCTAAATTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACACTAAATTGGCGCCACGTGGGTAT
** * * * *
128517 AGCGCGCCCCCTGCCCCGCGATATACAGTGATTTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACACTAAATTGGCGCCACGTGGGTAT
* * *
128567 AGCGCACCCTCTGATCCGCGCTATAC-CTAA
1 AGCGCGCCCCCTGAACCGCGCTATACACTAA
128597 GTATCTGACA
Statistics
Matches: 65, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
49 2 0.03
50 63 0.97
ACGTcount: A:0.19, C:0.35, G:0.25, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCGCTATACACTAAATTGGCGCCACGTGGGTAT
Found at i:128823 original size:17 final size:18
Alignment explanation
Indices: 128789--128824 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
128779 ATGTATATAA
*
128789 TTTATTTAAGTGTTTTAC
1 TTTATTTAAGTATTTTAC
128807 TTTATTTAA-TATTTTAC
1 TTTATTTAAGTATTTTAC
128824 T
1 T
128825 AATATAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (18 bp):
TTTATTTAAGTATTTTAC
Found at i:129026 original size:107 final size:107
Alignment explanation
Indices: 128886--129421 Score: 769
Period size: 107 Copynumber: 5.0 Consensus size: 107
128876 TGAAAATCAT
*
128886 ATATCTCTACACTTTGTTTATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTG---ATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
128951 CATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
63 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
128996 ATATCTCGACACTTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGT-ATAA
1 ATATCTCGACACTTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAA
*
129060 TTAGTTG----ATTTAATGCATGATTTTATAGATTAAGAATTAA
66 TTAGTTGATTTATTTAATGCATGATTAT-TAGATTAAGAATT-A
* *
129100 ATATATCGACACTTTGCTTATACGGT-ATA-TTTAACG-TTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTG---ATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
129162 TAATTAGTTGATTTATTTAATGCATGATTA-GA-ATTAAGAATTA
63 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
*
129205 ATATCTCGACACTTTGCTGATACGGTAACATTTTATCGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACAC-TT--TGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
129270 TAATT-GTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
63 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
129314 A-ATCTCGACACTTTGCTGATA-GGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACAC-TT--TGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
129377 TAATTAGTTGATTTATTTAA-GC-TGATTATTAGATTAAGAATTA
63 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
129420 AT
1 AT
129422 TTTTGTAATT
Statistics
Matches: 393, Mismatches: 13, Indels: 43
0.88 0.03 0.10
Matches are distributed among these distances:
102 16 0.04
103 13 0.03
104 40 0.10
105 37 0.09
106 47 0.12
107 130 0.33
108 68 0.17
109 27 0.07
110 15 0.04
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (107 bp):
ATATCTCGACACTTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAA
TTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
Found at i:129388 original size:215 final size:214
Alignment explanation
Indices: 128886--129421 Score: 826
Period size: 215 Copynumber: 2.5 Consensus size: 214
128876 TGAAAATCAT
* *
128886 ATATCTCTACACTTTGTTTATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTTATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
128951 CATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAATATCTCGACACTTTGATAC
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAATATCTCGACACTTTGATAC
129016 GGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTATAATTAGTTGATTTAATGCATGAT
131 GGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTATAATTAGTTGATTTAATGCATGAT
*
129081 TTTATAGATTAAGAATTAA
196 TATATAGATTAAGAATTAA
* *
129100 ATATATCGACACTTTGCTTATACGGT-ATA-TTTAACG-TTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTTATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
129162 TAATTAGTTGATTTATTTAATGCATGATTA-GA-ATTAAGAATTAATATCTCGACACTTTGCTGA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAATATCTCGACAC-TT--TGA
*
129225 TACGGTAACATTTTATCGTTTTAATTTAATTTAAATTATTAGTAATAATT-GTTGATTTATTTAA
128 TACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGT-ATAATTAGTTG----ATTTAA
129289 TGCATGATTAT-TAGATTAAGAATT-A
188 TGCATGATTATATAGATTAAGAATTAA
*
129314 A-ATCTCGACACTTTGCTGATA-GGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTTATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
129377 TAATTAGTTGATTTATTTAA-GC-TGATTATTAGATTAAGAATTAAT
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAAT
129422 TTTTGTAATT
Statistics
Matches: 296, Mismatches: 13, Indels: 25
0.89 0.04 0.07
Matches are distributed among these distances:
209 23 0.08
210 3 0.01
211 54 0.18
212 59 0.20
213 34 0.11
214 35 0.12
215 72 0.24
216 16 0.05
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (214 bp):
ATATCTCGACACTTTGCTTATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAATATCTCGACACTTTGATAC
GGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTATAATTAGTTGATTTAATGCATGAT
TATATAGATTAAGAATTAA
Done.