Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001368.1 Hibiscus syriacus cultivar Beakdansim tig00002671_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: 67717
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:1818 original size:16 final size:16
Alignment explanation
Indices: 1784--1822 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1774 TGGTTTGAGA
1784 TAATTATAAAATATAT
1 TAATTATAAAATATAT
*
1800 TAATT-TAAAATATTTT
1 TAATTATAAAATA-TAT
1816 TAATTAT
1 TAATTAT
1823 TTTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 7 0.35
16 12 0.60
17 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATTATAAAATATAT
Found at i:3332 original size:20 final size:21
Alignment explanation
Indices: 3292--3332 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3282 CTCCTTTGCG
* *
3292 AAAATAAATTTCCATATTTTA
1 AAAATAAATTTCCACACTTTA
3313 AAAATAAATTTCC-CACTTTA
1 AAAATAAATTTCCACACTTTA
3333 CGATTCGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATAAATTTCCACACTTTA
Found at i:4472 original size:59 final size:59
Alignment explanation
Indices: 4356--4522 Score: 169
Period size: 59 Copynumber: 2.8 Consensus size: 59
4346 TATATAATTA
* * * **
4356 AGTTTGGGATGAAA-TGGAATGTTCAAAAGTTTGGGGA-TCAATTTAGAATGTAGATCAT
1 AGTTTGGGATGAAATTGGAATGTTTAAAAGTTTAGGGACT-AATTTAAAAAATAGATCAT
* *
4414 AGTTTGGGATAAAATTGGAATGTTTTAAAAGTTTAGGGACTAATTTAAAAAAT-TATCAT
1 AGTTTGGGATGAAATTGGAATG-TTTAAAAGTTTAGGGACTAATTTAAAAAATAGATCAT
* * * * * *
4473 AGAATAGGGATGAAATTGCAATATTTAAAAGATTAAGGACTAATTTAAAA
1 AG-TTTGGGATGAAATTGGAATGTTTAAAAGTTTAGGGACTAATTTAAAA
4523 TAAGGGTCAT
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
58 13 0.14
59 39 0.43
60 38 0.42
61 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (59 bp):
AGTTTGGGATGAAATTGGAATGTTTAAAAGTTTAGGGACTAATTTAAAAAATAGATCAT
Found at i:5106 original size:15 final size:15
Alignment explanation
Indices: 5048--5106 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
5038 TTCTACAAAA
*
5048 ATATT-TATTTTATT
1 ATATTATATATTATT
5062 ATATTATAT-TTATT
1 ATATTATATATTATT
* *
5076 -TATTATTTATTGTT
1 ATATTATATATTATT
5090 ATATTATATATTATT
1 ATATTATATATTATT
5105 AT
1 AT
5107 TTTTTTTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
13 7 0.18
14 14 0.37
15 17 0.45
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
ATATTATATATTATT
Found at i:5106 original size:28 final size:27
Alignment explanation
Indices: 5060--5115 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
5050 ATTTATTTTA
5060 TTATATTATATTTATTTATTATTTATTG
1 TTATATTATATTTATTTATT-TTTATTG
*
5088 TTATATTATATATTA-TTATTTTTTTTG
1 TTATATTATAT-TTATTTATTTTTATTG
5115 T
1 T
5116 AGGCCCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.27
28 16 0.62
29 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.70
Consensus pattern (27 bp):
TTATATTATATTTATTTATTTTTATTG
Found at i:5455 original size:85 final size:83
Alignment explanation
Indices: 5306--5787 Score: 456
Period size: 85 Copynumber: 5.8 Consensus size: 83
5296 CGTGGAGCCA
* ** * * * * *
5306 AAGGCACATCATTTGCAGCATAACTTAAATCAAGAAAGGTTATCTGCTAACCGAAGACCCTCGAG
1 AAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAG
* *
5371 TTCGATTACACTCAGCTTCG
65 TTCGACTACACTCAGC-TCC
* * * * *
5391 AGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATTTGTGACCAAAAGACCTTCGAG
1 AAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACC-AAAGACCTTCGAG
*
5456 TTCGACTACGCTCCAGCTCC
65 TTCGACTACACT-CAGCTCC
* * * * **
5476 AAGGCATATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCCTGCCAACCAAAGACCTTCGA
1 AAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTAT-CTG-TGACCAAAGACCTTCGA
*
5541 GTTCGACTACGCTCAGCTCC
64 GTTCGACTACACTCAGCTCC
* * * *
5561 AAGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TG-CCAAAGACCCTCGAGT
1 AAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGT
** * *
5623 TTTATTACACTCAGCTTCG
66 TCGACTACACTCAGC-TCC
* * * * * * *
5642 AGGGCACATCATTTACGGCATAACTCAAGGCTATAAGGGTTATCTGTCAACAAAGACCTTCGAGT
1 AAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGT
* *
5707 TCGACTCCACTCAGCTCA
66 TCGACTACACTCAGCTCC
* * *
5725 AAGGCACCATCATTTGCAGCATAGCTCAAGGCAAGAA-GGCTATC--TG-CCAAAGACCTTCGAG
1 AAGGCA-CATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAG
5786 TT
65 TT
5788 TGATTCCATT
Statistics
Matches: 328, Mismatches: 60, Indels: 23
0.80 0.15 0.06
Matches are distributed among these distances:
80 42 0.13
81 39 0.12
83 14 0.04
84 55 0.17
85 144 0.44
86 31 0.09
87 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (83 bp):
AAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGT
TCGACTACACTCAGCTCC
Found at i:5599 original size:170 final size:165
Alignment explanation
Indices: 5306--5787 Score: 520
Period size: 170 Copynumber: 2.9 Consensus size: 165
5296 CGTGGAGCCA
* * * * *
5306 AAGGCACATCATTTGCAGCATAACTTAAATCAAGAAAGGTTATCTGCTAACCGAAGACCCTCGAG
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
* * * * * *
5371 TTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATTT
66 TTCGACTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTA--T
* * *
5436 GTGACCAAAAGACCTTCGAGTTCGACTACGCTCCAGC-TCC
128 CTG-CC-AAAGACCCTCGAGTTCGACTACACT-CAGCTTCC
* * *
5476 AAGGCATATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCCTGCCAACCAAAGACCTTCGA
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTAT-CTGCCAACCAAAGACCTTCGA
* * * * *
5541 GTTCGACTACGCTCAGCTCCAAGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT
65 GTTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCT
** * *
5606 GCCAAAGACCCTCGAGTTTTATTACACTCAGCTTCG
130 GCCAAAGACCCTCGAGTTCGACTACACTCAGCTTCC
* * * * * * * *
5642 AGGGCACATCATTTACGGCATAACTCAAGGCTATAAGGGTTATCTGTCAA-CAAAGACCTTCGAG
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
* * * *
5706 TTCGACTCCACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTCAAGGCAAGAA-GGCTATCT
66 TTCGACTACACTCAGCTCAAAGGCA-CATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCT
*
5770 GCCAAAGACCTTCGAGTT
130 GCCAAAGACCCTCGAGTT
5788 TGATTCCATT
Statistics
Matches: 264, Mismatches: 45, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
164 59 0.22
165 36 0.14
166 56 0.21
167 2 0.01
168 3 0.01
170 75 0.28
171 33 0.12
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (165 bp):
AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
TTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTG
CCAAAGACCCTCGAGTTCGACTACACTCAGCTTCC
Found at i:6140 original size:3 final size:3
Alignment explanation
Indices: 6132--6185 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
6122 CGAAAACATT
*
6132 TTA TTA TTA TATA TTTA TTTA TTA TTA TTA TTA TTA -TA TTT TTA TT-
1 TTA TTA TTA T-TA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6178 TTA TTA TT
1 TTA TTA TT
6186 TTTGTAGGCC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 4 0.09
3 32 0.71
4 8 0.18
5 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:6168 original size:27 final size:28
Alignment explanation
Indices: 6132--6185 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
6122 CGAAAACATT
6132 TTATTATTATATATTTA-TTTATTATTA
1 TTATTATTATATATTTATTTTATTATTA
*
6159 TTATTATTATATTTTTATTTTATTATT
1 TTATTATTATATATTTATTTTATTATT
6186 TTTGTAGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (28 bp):
TTATTATTATATATTTATTTTATTATTA
Found at i:6282 original size:33 final size:33
Alignment explanation
Indices: 6235--6307 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
6225 TTCAGAAAAT
* *
6235 AAACTAACGTATTTGTGTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
6268 AAACCAACGTATTTGAGTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
6301 AAACCAA
1 AAACCAA
6308 AACATTTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTCCTATTGAAACACTA
Found at i:7609 original size:16 final size:16
Alignment explanation
Indices: 7588--7620 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7578 CCAAACCCTA
7588 GGCTACTTTGTTTCCT
1 GGCTACTTTGTTTCCT
7604 GGCTACTTTGTTTCCT
1 GGCTACTTTGTTTCCT
7620 G
1 G
7621 CCTTACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.24, G:0.21, T:0.48
Consensus pattern (16 bp):
GGCTACTTTGTTTCCT
Found at i:7629 original size:17 final size:16
Alignment explanation
Indices: 7590--7629 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
7580 AAACCCTAGG
*
7590 CTACTTTGTTTCCTGG
1 CTACTTTGTTTCCTGC
7606 CTACTTTGTTTCCTGC
1 CTACTTTGTTTCCTGC
7622 CTTACTTT
1 C-TACTTT
7630 TTGTTCAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.07, C:0.28, G:0.12, T:0.53
Consensus pattern (16 bp):
CTACTTTGTTTCCTGC
Found at i:10613 original size:110 final size:110
Alignment explanation
Indices: 10416--11282 Score: 1209
Period size: 110 Copynumber: 8.0 Consensus size: 110
10406 GTGGTTGCTT
* * * * *
10416 AACTTCATAGCGAAAGGGCGACTAACGGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
** * * *
10481 TCAACTTCACAGTAAAGGATATTGGACTCAAGATAACACAAGCTC
66 TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
*
10526 AACTTCACAGCGAAGGGGCAACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
*
10591 TCAACTTCACAGCGAATAATATTGGACTCGAGACAACACAAGCTC
66 TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
* *
10636 AACTTCACAGCGAAGGGGCGGCTGACTATCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
* * *
10701 TCAACTTCACAGCGAAAGATATTAGACTCAAGACAACACAAGCTC
66 TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
* *
10746 AA-TTTACAGCGAAGGGGCGACTGACTGCCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
*
10810 TCAACTTCACAGAGAATGATATTGGACTCGAGACAACACAAGCTC
66 TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
*
10855 AACTTCACAGCGAAGGGGCGACTGACTGTCAATAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
* *
10920 TCAACTTCACAACGAA-GTATATTGGACTTGAGACAACACAAGCTC
66 TCAACTTCACAGCGAATG-ATATTGGACTCGAGACAACACAAGCTC
10965 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
* *
11030 TCAACTTCACAGTGAATGATATTAGACTCGAGACAACACAAGCTC
66 TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
* * * * *
11075 AACTTTACAGCGAAGGGGCGGCTGGCTGTCAACAAATAAC-TTT-A-TGGT--TTCAGAGTCAAT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGT-TTCATTCAGAGTCAAT
* * * *
11135 TTCAACTTCACGGTGAAGGATATTAGACTCGAGACAACACAAGCTC
65 TTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
* ** * * *
11181 AACTTCACAGCGAAGGGGTGGTTGGCTGTCAACAAATAAC-TTT-A-TGGT--TTCAGAGTCAAT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGT-TTCATTCAGAGTCAAT
* * * * * *
11241 TTCAACTTCACGGTGAAGGATATTGGCCTCGAAACAGCACAA
65 TTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
11283 ATATTTGGAT
Statistics
Matches: 701, Mismatches: 52, Indels: 12
0.92 0.07 0.02
Matches are distributed among these distances:
106 151 0.22
107 1 0.00
108 2 0.00
109 105 0.15
110 441 0.63
111 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (110 bp):
AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
Found at i:11029 original size:329 final size:330
Alignment explanation
Indices: 10424--11198 Score: 1260
Period size: 329 Copynumber: 2.4 Consensus size: 330
10414 TTAACTTCAT
* * *
10424 AGCGAAAGGGCGACTAACGGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTC
1 AGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTC
* *
10489 ACAGTA-AAGGATATTGGACTCAAGATAACACAAGCTCAACTTCACAGCGAAGGGGCAACTGACT
66 ACAG-AGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCAACTGACT
*
10553 GTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATAATATTGGAC
130 GTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAATAATATTGGAC
*
10618 TCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTATCAACAAACAACTTTTCAG
195 TCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTATCAACAAACAACTTTTCAG
10683 TTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCAAGACAACACAAGCTCAA
260 TTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCAAGACAACACAAGCTCAA
10748 -TTTAC
325 CTTTAC
* *
10753 AGCGAAGGGGCGACTGACTGCCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTC
1 AGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTC
* *
10818 ACAGAGAATGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTG
66 ACAGAGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCAACTGACTG
*
10883 TCAATAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGT-ATATTGGAC
131 TCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAA-TAATATTGGAC
* *
10947 TTGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAG
195 TCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTATCAACAAACAACTTTTCAG
* * *
11012 TTTCATTCAGAGTCAATTTCAACTTCACAGTGAATGATATTAGACTCGAGACAACACAAGCTCAA
260 TTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCAAGACAACACAAGCTCAA
11077 CTTTAC
325 CTTTAC
* * *
11083 AGCGAAGGGGCGGCTGGCTGTCAACAAATAAC-TTT-A-TGGT--TTCAGAGTCAATTTCAACTT
1 AGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGT-TTCATTCAGAGTCAATTTCAACTT
* * *
11143 CACGGTGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGG
65 CACAGAGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGG
11199 TGGTTGGCTG
Statistics
Matches: 416, Mismatches: 26, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
326 72 0.17
327 1 0.00
328 3 0.01
329 306 0.74
330 34 0.08
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (330 bp):
AGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTC
ACAGAGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCAACTGACTG
TCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAATAATATTGGACT
CGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTATCAACAAACAACTTTTCAGT
TTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCAAGACAACACAAGCTCAAC
TTTAC
Found at i:11368 original size:439 final size:431
Alignment explanation
Indices: 10478--11276 Score: 1061
Period size: 439 Copynumber: 1.8 Consensus size: 431
10468 TTCAGAGTCA
*** *
10478 ATTTCAACTTCACAGTAAAGGATATTGGACTCAAGATAACACAAGCTCAACTTCACAGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGG
10543 GCAACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAT
66 GCAACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAT
*
10608 AATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTATCAACAAAC
131 AATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTATCAACAAAC
*
10673 AACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCAAGACAAC
196 AACTTTT-AGTGT-ATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCAAGACAAC
* *
10738 ACAAGCTCAATTTACAGCGAAGGGGCGACTGACTGCCAACAAACAACTTTTCAGTTTCATTCAGA
259 ACAAGCTCAATTCACAGCGAAGGGGCGACTGACTGCCAACAAACAACTTTT-AGTGT-ATTCAGA
* * * *
10803 GTCAATTTCAACTTCACAGAGAATGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGA
322 GTCAATTTCAACTTCACAGAGAAGGATATTGGACTCGAAACAACAAAAGCTAAACTTCACAGCGA
* * * ** *** *
10868 AGGGGCGACTGACTGTCAATAAACAACTTTTCAGTTTCATTCAGAG
387 AGGGCCAACTGACGGTCAATAAACAACTAAT-AGGGCCATCCAGAG
* **
10914 TCAATTTCAACTTCACAACGAAGTATATTGGACTTGAGACAACACAAGCTCAACTTCACAGCGAA
1 ---ATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAA
* *
10979 GGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGTG
63 GGGGCAACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCG
* * * *
11044 AATGATATTAGACTCGAGACAACACAAGCTCAACTTTACAGCGAAGGGGCGGCTGGCTGTCAACA
128 AATAATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTATCAACA
* * * * *
11109 AATAAC-TTTA-TGGT-TTCAGAGTCAATTTCAACTTCACGGTGAAGGATATTAGACTCGAGACA
193 AACAACTTTTAGT-GTATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCAAGACA
* ** * * *
11171 ACACAAGCTCAACTTCACAGCGAAGGGGTGGTTGGCTGTCAACAAATAAC-TTTA-TGGT-TTCA
257 ACACAAGCTCAA-TTCACAGCGAAGGGGCGACTGACTGCCAACAAACAACTTTTAGT-GTATTCA
* * *
11233 GAGTCAATTTCAACTTCACGGTGAAGGATATTGGCCTCGAAACA
320 GAGTCAATTTCAACTTCACAGAGAAGGATATTGGACTCGAAACA
11277 GCACAAATAT
Statistics
Matches: 324, Mismatches: 33, Indels: 13
0.88 0.09 0.04
Matches are distributed among these distances:
432 43 0.13
433 1 0.00
434 2 0.01
435 59 0.18
436 31 0.10
437 2 0.01
438 3 0.01
439 183 0.56
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (431 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGG
GCAACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAT
AATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTATCAACAAAC
AACTTTTAGTGTATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCAAGACAACAC
AAGCTCAATTCACAGCGAAGGGGCGACTGACTGCCAACAAACAACTTTTAGTGTATTCAGAGTCA
ATTTCAACTTCACAGAGAAGGATATTGGACTCGAAACAACAAAAGCTAAACTTCACAGCGAAGGG
CCAACTGACGGTCAATAAACAACTAATAGGGCCATCCAGAG
Found at i:11635 original size:84 final size:82
Alignment explanation
Indices: 11391--12154 Score: 580
Period size: 84 Copynumber: 9.2 Consensus size: 82
11381 CGTGCCCACC
* * * * ** * * * **
11391 AAAGGCCTTCGAGTTTGACTACACTCAGCTCAAAGTAACATAAATTGTAGCATAACTTAAGTCAA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTTGA
*
11456 GAAGGGTTATTTGCCAA
66 GAAGGGTTATCTGCCAA
* * * * * * * *
11473 CCGAAGACCCTCGAGTTCGATTACACTCAGCTTCGAAGGCACATCATTTACAGTATAACTCAAGG
1 --AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAA-G
* * *
11538 CT-AGAAGGGTTATCTGTGTCTA
62 TTGAGAAGGGTTATC--TGCCAA
* * * *
11560 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCATGACTTAAATTGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTTGA
* *
11625 GAAGGTTTATCTACCAA
66 GAAGGGTTATCTGCCAA
* * * * *
11642 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGTAACATAGCTTAAGTC
1 --AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTT
*
11707 GAGAAGGGCTATCTGCC--
64 GAGAAGGGTTATCTGCCAA
* * * * * * * * *
11724 AAAGACCCTT-GAGTTTGATTACACTCAGTTTCGAGGGCACATCATTTACAGCATAACTCAAGGC
1 AAAGA-CCTTCGAGTTCGACTACGCTCAG-CTCCAAGGCACATCATTTGCAGCATAACTTAA-GT
*
11788 T-ACAAGGGTTATCTGTGACC-A
63 TGAGAAGGGTTATC--TG-CCAA
* * *
11809 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATTATTTGCAGCATAACTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTTGA
11874 GAAGGGTTATCTGCCAA
66 GAAGGGTTATCTGCCAA
* * * *
11891 CCAAAGACCTTCGAGTTCGACTACCCTCAGCTTCAAGGCACATCATTTGCAGCATAGCTTAAGTC
1 --AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTT
* *
11956 AAGAA-TGTTATCTGCC--
64 GAGAAGGGTTATCTGCCAA
* * * * * * * * * *
11972 AAAGACCCTCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTACGGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAA-GTT
* *
12037 -AGAAGTGTTATCTGTCAA
64 GAGAAGGGTTATCTGCCAA
* * * * * **
12055 CAAAGACCTTCGAGTTCGACTCCACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTCAAGAC
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTGCAGCATAACTTAAGTT
* * *
12120 AATAAGGGCTATCTGCC--
64 GAGAAGGGTTATCTGCCAA
12137 AAAGACCTTCGAGTTCGA
1 AAAGACCTTCGAGTTCGA
12155 TTCCATTCAG
Statistics
Matches: 541, Mismatches: 112, Indels: 57
0.76 0.16 0.08
Matches are distributed among these distances:
79 25 0.05
80 48 0.09
81 68 0.13
82 7 0.01
83 22 0.04
84 288 0.53
85 78 0.14
86 1 0.00
87 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (82 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTTGA
GAAGGGTTATCTGCCAA
Found at i:11830 original size:249 final size:249
Alignment explanation
Indices: 11388--12110 Score: 1011
Period size: 249 Copynumber: 2.9 Consensus size: 249
11378 AATCGTGCCC
* * * * * *
11388 ACCAAAGGCCTTCGAGTTTGACTACACTCAGCTCAAAGTA-ACATAAATTGTAGCATAACTTAAG
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAG-ACACATCATTTGTAGCATAGCTTAAG
* *
11452 TCAAGAAGGGTTATTTGCCAACCGAAGACCCTCGAGTTCGATTACACTCAGCTTCGAAGGCACAT
65 TCAAGAAGGGTTATCTGCC-A---AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * *
11517 CATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGTCTAAAAGACCTTCGAGTTCGACTAC
126 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
* * * *
11582 GCTCAGCTCTAAGGCATATCATTTGCAGCATGACTTAAATTGAGAAGGTTTATCTACCA
191 GCTCAGCTCAAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCA
* *
11641 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGTAACATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGACACATCATTTGTAGCATAGCTTAAGT
* * * * *
11706 CGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTTGATTACACTCAGTTTCGAGGGCACATCATTT
66 CAAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
*
11771 ACAGCATAACTCAAGGCTACAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCA
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCA
* * * *
11836 GCTCCAAGGCATATTATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCA
196 GCTCAAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCA
* * * *
11890 ACCAAAGACCTTCGAGTTCGACTACCCTCAGCTTCAAGGCACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGACACATCATTTGTAGCATAGCTTAAGT
* *
11955 CAAGAA-TGTTATCTGCCAAAGACCCTCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTT
66 CAAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* * * * * *
12019 ACGGCATAACTCAAGGCTAGAAGTGTTATCTGTCAAC-AAAGACCTTCGAGTTCGACTCCACTCA
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCA
*
12083 GCTCAAAGGCACCATCATTTGCAGCATA
196 GCTCAAAGGCA-TATCATTTGCAGCATA
12111 GCTCAAGACA
Statistics
Matches: 420, Mismatches: 48, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
247 35 0.08
248 98 0.23
249 215 0.51
252 2 0.00
253 70 0.17
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (249 bp):
ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGACACATCATTTGTAGCATAGCTTAAGT
CAAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCA
GCTCAAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCA
Found at i:14172 original size:166 final size:166
Alignment explanation
Indices: 13896--14228 Score: 515
Period size: 166 Copynumber: 2.0 Consensus size: 166
13886 ACTTTTGAGT
* * * *
13896 ATTCCAATTTCACCCATAAGCTATGAATTTAATTCTAAATTAGCCCTTAAATTTTTTATCATTCT
1 ATTCCAATTTCACCCACAAACTATGAATTTAATTATAAATTAGCCCTTAAATTTTTTATCATTCC
** * *
13961 AATTTCATCCCTAAACTCAACCCTCTTTCTAAATTGATCCCCCAAACTTTTGAATATTCTAATTT
66 AATGACATCCCTAAACTCAACACTCTTTCTAAATTGATCCCCCAAACTTTTAAATATTCTAATTT
14026 TATCCCTCAAATTCATCCAAATATATAATTAGTTTC
131 TATCCCTCAAATTCATCCAAATATATAATTAGTTTC
* * *
14062 ATTCCAATTTCATCCACAAACTATGAATTTAATTATAAATTAGTCCTTAAATTTTTTATGATTCC
1 ATTCCAATTTCACCCACAAACTATGAATTTAATTATAAATTAGCCCTTAAATTTTTTATCATTCC
**
14127 AATGACATCTTTAAACTACAACACTCTTTCTAAATTGAT-CCCCAAACTTTTAAATATTCTAATT
66 AATGACATCCCTAAACT-CAACACTCTTTCTAAATTGATCCCCCAAACTTTTAAATATTCTAATT
* *
14191 TTATCCCTCAAATTCATCCAAATATGTAATTATTTTC
130 TTATCCCTCAAATTCATCCAAATATATAATTAGTTTC
14228 A
1 A
14229 ACCCTAGTTT
Statistics
Matches: 151, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
166 131 0.87
167 20 0.13
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.41
Consensus pattern (166 bp):
ATTCCAATTTCACCCACAAACTATGAATTTAATTATAAATTAGCCCTTAAATTTTTTATCATTCC
AATGACATCCCTAAACTCAACACTCTTTCTAAATTGATCCCCCAAACTTTTAAATATTCTAATTT
TATCCCTCAAATTCATCCAAATATATAATTAGTTTC
Found at i:14407 original size:30 final size:29
Alignment explanation
Indices: 14324--14408 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 29
14314 TTATATAATT
* **
14324 ATAGTTTGGGATGAAATTGGAATGTTTAA
1 ATAGTTTGGGATAAAATTGGAATGTAGAA
* * * * *
14353 AAAGTTTGGGGATCAATTTAGAATGTAGACC
1 ATAGTTT-GGGATAAAATTGGAATGTAGA-A
14384 ATAGTTTGGGATAAAATTGGAATGT
1 ATAGTTTGGGATAAAATTGGAATGT
14409 TAAAAGTTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
29 6 0.14
30 31 0.72
31 6 0.14
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (29 bp):
ATAGTTTGGGATAAAATTGGAATGTAGAA
Found at i:14554 original size:2 final size:2
Alignment explanation
Indices: 14547--14576 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14537 AAATAAAATA
14547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14577 TGAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15078 original size:3 final size:3
Alignment explanation
Indices: 15055--15117 Score: 76
Period size: 3 Copynumber: 20.7 Consensus size: 3
15045 CTACAAAAAC
15055 ATT A-T ATT ATAT ATT ATTT ATT ATT ATT ATT ATT ATT ATAT ATT ATT
1 ATT ATT ATT AT-T ATT A-TT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
*
15102 ATT -TT ATT ATT TTT AT
1 ATT ATT ATT ATT ATT AT
15118 ATGCCCTACA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 4 0.08
3 40 0.75
4 9 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15081 original size:22 final size:21
Alignment explanation
Indices: 15055--15117 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 21
15045 CTACAAAAAC
15055 ATTATATTATATATTATTTATT
1 ATTATATTAT-TATTATTTATT
*
15077 ATTATTATTATTATTATATATT
1 ATTA-TATTATTATTATTTATT
*
15099 ATTATTTTATTATT-TTTAT
1 ATTATATTATTATTATTTAT
15118 ATGCCCTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 4 0.11
21 9 0.24
22 18 0.49
23 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTATATTATTATTATTTATT
Found at i:15084 original size:13 final size:13
Alignment explanation
Indices: 15059--15109 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
15049 AAAAACATTA
15059 TATTATATATTATT
1 TATTAT-TATTATT
15073 TATTATTATTA-T
1 TATTATTATTATT
15085 TATTATTA-TATAT
1 TATTATTATTAT-T
15098 TATTATT-TTATT
1 TATTATTATTATT
15110 ATTTTTATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.06
12 10 0.29
13 16 0.47
14 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:15088 original size:19 final size:19
Alignment explanation
Indices: 15055--15109 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
15045 CTACAAAAAC
15055 ATTA-TATTATATATTATTT
1 ATTATTATTAT-TATTATTT
15074 ATTATTATTATTATTA-TT
1 ATTATTATTATTATTATTT
15092 ATATATTATTATT-TTATT
1 AT-TATTATTATTATTATT
15110 ATTTTTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.21
19 20 0.61
20 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTATTATTATTATTATTT
Found at i:15204 original size:33 final size:33
Alignment explanation
Indices: 15162--15230 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
15152 TTTAGAAAAT
15162 AAACCAACGTATTTGAGTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
*
15195 AAACCAACGTATTTGATTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
15228 AAA
1 AAA
15231 TCGAAGCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTCCTATTGAAACACTA
Found at i:15571 original size:84 final size:83
Alignment explanation
Indices: 15346--16078 Score: 711
Period size: 84 Copynumber: 8.8 Consensus size: 83
15336 CGTGGAACCA
* * * * *
15346 AAGGCACGTCATTTGTAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCGAAGACCCTCGAG
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT-TCAACCAAAGACCTTCGAG
* *
15411 TTCGATTACACTCAGCTTCG
65 TTCGACTACACTCAGC-TCC
* * * * * * **
15431 AGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGATTATCTGT-GGCCAAAAGACCTTCGA
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT-TCAACC-AAAGACCTTCGA
*
15495 GTTCGACTACGCTCAGCTCC
64 GTTCGACTACACTCAGCTCC
* *
15515 AAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAG
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTT-CAACCAAAGACCTTCGAG
*
15580 TTCGACTACGCTCAGCTCC
65 TTCGACTACACTCAGCTCC
* * * *
15599 AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTT---CCAAAGACCCTCGAGT
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCAACCAAAGACCTTCGAGT
* * *
15661 TTGATTACACTCTA-CTTCG
66 TCGACTACACTC-AGC-TCC
* * * * * *
15680 AAGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTAT-GACCAAAAGACCTTCGA
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT-TCAACC-AAAGACCTTCGA
*
15744 GTTCGACTCCACTCAGCTCC
64 GTTCGACTACACTCAGCTCC
* * * * *
15764 AAGGTATATCATTTGCAGCATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAAGACCTTCGAG
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT-TCAACCAAAGACCTTCGAG
*
15829 TTCGACTACGCTCAGCTCC
65 TTCGACTACACTCAGCTCC
* * * *
15848 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATC-T--GCCAAAGACCCTCGAGT
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCAACCAAAGACCTTCGAGT
** * *
15910 TAAATTACACTCAGCTTCG
66 TCGACTACACTCAGC-TCC
* * * * *
15929 AGGGCACATCATTTAC-GACATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAAGACCTTCGA
1 AAGGCACATCATTTGCAG-CATAACTTAAGTCAAGAAGGGTTATCT-TCAACCAAAGACCTTCGA
* *
15992 GTTCGACTCCACTCAGCTCA
64 GTTCGACTACACTCAGCTCC
* * * * *
16012 AAGGCACCATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTAT-AT--GCCAAAGACCTTCGAG
1 AAGGCA-CATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCAACCAAAGACCTTCGAG
16074 TTCGA
65 TTCGA
16079 TTCCATTCAG
Statistics
Matches: 538, Mismatches: 90, Indels: 44
0.80 0.13 0.07
Matches are distributed among these distances:
80 52 0.10
81 97 0.18
82 2 0.00
83 9 0.02
84 286 0.53
85 92 0.17
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (83 bp):
AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCAACCAAAGACCTTCGAGT
TCGACTACACTCAGCTCC
Found at i:15788 original size:249 final size:249
Alignment explanation
Indices: 15346--16078 Score: 1095
Period size: 249 Copynumber: 2.9 Consensus size: 249
15336 CGTGGAACCA
* * * *
15346 AAGGCACGTCATTTGTAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCGAAGACCCTCGAG
1 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCC-A---AAGACCCTCGAG
*
15411 TTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAG-AAGGATTATC
62 TTAGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGG-TTATC
* * *
15475 TGTGGCCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACT
126 TGTGACCAAAAGACCTTCGAGTTCGACTCCACTCAGCTCCAAGGCATATCATTTGCAGCATAACT
*
15540 TAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
191 TAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* * *
15599 AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCGAGTTTG
1 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTTAG
* *
15664 ATTACACTCTA-CTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTATG
66 ATTACACTC-AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTGTG
*
15728 ACCAAAAGACCTTCGAGTTCGACTCCACTCAGCTCCAAGGTATATCATTTGCAGCATAACTTAAG
130 ACCAAAAGACCTTCGAGTTCGACTCCACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAG
*
15793 TCGAGAAAGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
195 TCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
15848 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTTAA
1 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTTAG
* *
15913 ATTACACTCAGCTTCGAGGGCACATCATTTAC-GACATAACTCAAGGCTAGAAGGGTTATCTGTC
66 ATTACACTCAGCTTCGAGGGCACATCATTTACAG-CATAACTCAAGGCTAGAAAGGTTATCTGTG
* * * *
15977 AAC-AAAGACCTTCGAGTTCGACTCCACTCAGCTCAAAGGCACCATCATTTGCAGCATAACTCAA
130 ACCAAAAGACCTTCGAGTTCGACTCCACTCAGCTCCAAGGCA-TATCATTTGCAGCATAACTTAA
* * * *
16041 GGCAAGAAGGGCTATATG----CCAAAGACCTTCGAGTTCGA
194 GTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGA
16079 TTCCATTCAG
Statistics
Matches: 442, Mismatches: 33, Indels: 18
0.90 0.07 0.04
Matches are distributed among these distances:
245 20 0.05
248 38 0.09
249 336 0.76
250 5 0.01
252 1 0.00
253 42 0.10
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (249 bp):
AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTTAG
ATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTGTGA
CCAAAAGACCTTCGAGTTCGACTCCACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGT
CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
Found at i:16091 original size:165 final size:164
Alignment explanation
Indices: 15344--16097 Score: 761
Period size: 165 Copynumber: 4.5 Consensus size: 164
15334 AACGTGGAAC
* * * *
15344 CAAAGGCACGTCATTTGTAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCGAAGACCCTCG
1 CAAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATATGCC-A---AAGACCTTCG
* *
15409 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGATTAT
62 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTAT
* *
15474 CTGTGGCCA-AAAGACCTTCGAGTTCGACTACGCTCAGCT
127 CTGT--CAACAAAGACCTTCGAGTTCGACTACACTCAGCT
* * * * *
15513 CCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCG
1 CAAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTAT-AT---GCCAAAGACCTTCG
* * * * * * * * *
15578 AGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
62 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTAT
* * *
15642 CT-TC--CAAAGACCCTCGAGTTTGATTACACTCTA-CTT
127 CTGTCAACAAAGACCTTCGAGTTCGACTACACTC-AGC-T
* * * * * *
15678 CGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTATGACCAAAAGACCTTCG
1 CAAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTA--TATG-CC-AAAGACCTTCG
* * * * * * * * * *
15743 AGTTCGACTCCACTCAGC-TCCAAGGTATATCATTTGCAGCATAACTTAAGTCGAGAAAGGTTAT
62 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTAT
* *
15807 CTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
127 CTGTCAA-CAAAGACCTTCGAGTTCGACTACACTCAGCT
* * * * *
15846 CCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTT
1 CAAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATATGCCAAAGACCTTCGAGTT
** *
15911 AAATTACACTCAGCTTCGAGGGCACATCATTTAC-GACATAACTCAAGGCTAGAAGGGTTATCTG
66 CGATTACACTCAGCTTCGAGGGCACATCATTTACAG-CATAACTCAAGGCGAGAAGGGTTATCTG
*
15975 TCAACAAAGACCTTCGAGTTCGACTCCACTCAGCT
130 TCAACAAAGACCTTCGAGTTCGACTACACTCAGCT
* * *
16010 CAAAGGCACCATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATATGCCAAAGACCTTCGAGT
1 CAAAGGCA-CATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATATGCCAAAGACCTTCGAGT
* *
16075 TCGATTCCATTCAGCTT-GAGGGC
65 TCGATTACACTCAGCTTCGAGGGC
16098 GTATCAACTG
Statistics
Matches: 486, Mismatches: 80, Indels: 43
0.80 0.13 0.07
Matches are distributed among these distances:
164 92 0.19
165 217 0.45
166 5 0.01
167 2 0.00
168 77 0.16
169 89 0.18
170 1 0.00
172 1 0.00
173 2 0.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (164 bp):
CAAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATATGCCAAAGACCTTCGAGTT
CGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGT
CAACAAAGACCTTCGAGTTCGACTACACTCAGCT
Found at i:16443 original size:21 final size:20
Alignment explanation
Indices: 16419--16475 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
16409 CTACAAAAAC
16419 ATTTTA-TTA-TATTATATAT
1 ATTTTATTTATTATTA-ATAT
16438 ATATTTATTTATTATTAATAT
1 AT-TTTATTTATTATTAATAT
16459 ATTTTTATTTTATTATT
1 A-TTTTA-TTTATTATT
16476 TTTGTAGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
19 2 0.06
20 4 0.12
21 12 0.36
22 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTATTTATTATTAATAT
Found at i:16475 original size:25 final size:22
Alignment explanation
Indices: 16419--16474 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
16409 CTACAAAAAC
16419 ATTTTATTA-TATTATATATAT
1 ATTTTATTATTATTATATATAT
16440 A-TTTATTTATTATTA-ATATAT
1 ATTTTA-TTATTATTATATATAT
16461 -TTTTATT-TTATTAT
1 ATTTTATTATTATTAT
16475 TTTTGTAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
19 6 0.19
20 6 0.19
21 14 0.45
22 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTTTATTATTATTATATATAT
Found at i:16576 original size:33 final size:33
Alignment explanation
Indices: 16525--16611 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 33
16515 TTCAGAAAAT
* * *
16525 AAACTAACGTATTTGAGTCCTATTGAAACACTA
1 AAACCAACATATTTGAGTCCGATTGAAACACTA
16558 AAACCAACATATTTGAGTCCGATTGAAACACTA
1 AAACCAACATATTTGAGTCCGATTGAAACACTA
16591 AAACCGAAGCAT-TTTGAGTCC
1 AAACC-AA-CATATTTGAGTCC
16612 AAGTAGGACT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
33 35 0.71
34 11 0.22
35 3 0.06
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (33 bp):
AAACCAACATATTTGAGTCCGATTGAAACACTA
Found at i:17028 original size:14 final size:15
Alignment explanation
Indices: 17009--17038 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
16999 TTCATTTTTT
17009 TATTAATA-TTATTA
1 TATTAATATTTATTA
17023 TATTAATATTTATTA
1 TATTAATATTTATTA
17038 T
1 T
17039 TATTCTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTAATATTTATTA
Found at i:18647 original size:17 final size:18
Alignment explanation
Indices: 18614--18647 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18604 CAATAAAGAA
18614 TAACCAACTTAAACAACT
1 TAACCAACTTAAACAACT
18632 TAACCAACTT-AACAAC
1 TAACCAACTTAAACAAC
18648 CATCCTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (18 bp):
TAACCAACTTAAACAACT
Found at i:19773 original size:3 final size:3
Alignment explanation
Indices: 19765--19819 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
19755 CGGGTCTTTT
*
19765 TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19813 TTA TTA T
1 TTA TTA T
19820 GTTTATTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:19825 original size:12 final size:11
Alignment explanation
Indices: 19763--19827 Score: 80
Period size: 12 Copynumber: 5.7 Consensus size: 11
19753 TCCGGGTCTT
19763 TTTTATTATTA
1 TTTTATTATTA
19774 -TTT-TTATTA
1 TTTTATTATTA
19783 TTATTATTATTA
1 TT-TTATTATTA
19795 TTATTATTATTA
1 TT-TTATTATTA
19807 TTATTATTATTA
1 TT-TTATTATTA
19819 TGTTTATTA
1 T-TTTATTA
19828 ATTACATATT
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.12
10 4 0.08
11 2 0.04
12 37 0.74
13 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:19964 original size:25 final size:25
Alignment explanation
Indices: 19935--20006 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
19925 ACCAACCCAT
19935 CAGATTAGGGTTTTAAACCCTAAAA
1 CAGATTAGGGTTTTAAACCCTAAAA
*
19960 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTTAAACCCTAAAA
*
19985 CAAATTAGGGTTTT-AACCCTAA
1 CAGATTAGGGTTTTAAACCCTAA
20007 TCCCCTAATG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
24 8 0.18
25 36 0.82
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (25 bp):
CAGATTAGGGTTTTAAACCCTAAAA
Found at i:26911 original size:12 final size:12
Alignment explanation
Indices: 26887--26935 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 12
26877 GAGCAAAGAG
26887 CAAAGAGAAAAAT
1 CAAAGA-AAAAAT
*
26900 CAAAGCAAAAAT
1 CAAAGAAAAAAT
*
26912 CAAAGAAAAAAG
1 CAAAGAAAAAAT
26924 CAAAGAACAAAA
1 CAAAGAA-AAAA
26936 AGAGGACAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
12 23 0.72
13 9 0.28
ACGTcount: A:0.71, C:0.12, G:0.12, T:0.04
Consensus pattern (12 bp):
CAAAGAAAAAAT
Found at i:26927 original size:24 final size:24
Alignment explanation
Indices: 26865--26937 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 24
26855 TATTAAAGTG
* *
26865 AAGAGAAAAG-AAGAGCAAAGAGCA
1 AAGAAAAAAGCAA-AGCAAAAAGCA
* *
26889 AAGAGAAAAATCAAAGCAAAAATCA
1 AAGA-AAAAAGCAAAGCAAAAAGCA
26914 AAGAAAAAAGCAAAGAACAAAAAG
1 AAGAAAAAAGCAAAG--CAAAAAG
26938 AGGACAAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 14 0.36
25 17 0.44
26 8 0.21
ACGTcount: A:0.68, C:0.10, G:0.19, T:0.03
Consensus pattern (24 bp):
AAGAAAAAAGCAAAGCAAAAAGCA
Found at i:28136 original size:16 final size:16
Alignment explanation
Indices: 28106--28155 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
28096 TCGAGAAAAG
*
28106 TATACACAAACATACA
1 TATACACATACATACA
*
28122 TCA-ACTCATACATACA
1 T-ATACACATACATACA
28138 TATACACATACATACA
1 TATACACATACATACA
28154 TA
1 TA
28156 ATATATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (16 bp):
TATACACATACATACA
Found at i:28559 original size:36 final size:38
Alignment explanation
Indices: 28508--28625 Score: 124
Period size: 36 Copynumber: 3.3 Consensus size: 38
28498 GAGAATTTTT
*
28508 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTC-A
1 AAAACAAA-TTTTGTCTCGATTGAGACAATTTCTTTCTA
* *
28546 AAGA-AAATTTTGTCTCGATTGAGAC-A--GCTTTCTA
1 AAAACAAATTTTGTCTCGATTGAGACAATTTCTTTCTA
* * *
28580 AAAACAAATCTTGTCTCGTTTGAGACAATTTC-TT-GA
1 AAAACAAATTTTGTCTCGATTGAGACAATTTCTTTCTA
28616 AAAACAAATT
1 AAAACAAATT
28626 CCGCCTCACT
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
33 5 0.08
34 4 0.06
35 20 0.30
36 28 0.42
37 5 0.08
38 4 0.06
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (38 bp):
AAAACAAATTTTGTCTCGATTGAGACAATTTCTTTCTA
Found at i:28641 original size:71 final size:72
Alignment explanation
Indices: 28508--28642 Score: 159
Period size: 71 Copynumber: 1.9 Consensus size: 72
28498 GAGAATTTTT
* * ** * *
28508 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTCAAAGAAAATTTTGTCTCGATTGAGACAG
1 AAAACAAATTCTTGTCTCGCTTGAGACAATTTCTTTCAAAAAAAATTCCGCCTCGATGGAGACAG
28573 CTTTCTA
66 CTTTCTA
* *
28580 AAAACAAA-TCTTGTCTCGTTTGAGACAATTTC-TTGAAAAACAAATTCCGCCTC-ACTGGAGAC
1 AAAACAAATTCTTGTCTCGCTTGAGACAATTTCTTTCAAAAA-AAATTCCGCCTCGA-TGGAGAC
28642 A
64 A
28643 TTTTTCCTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
70 7 0.13
71 38 0.72
72 8 0.15
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (72 bp):
AAAACAAATTCTTGTCTCGCTTGAGACAATTTCTTTCAAAAAAAATTCCGCCTCGATGGAGACAG
CTTTCTA
Found at i:28809 original size:36 final size:36
Alignment explanation
Indices: 28728--28809 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
28718 ATTTTGTTTT
* * *
28728 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
* * *
28764 ACTTAAGACAAATTCTCTT-AAAACAAACTTCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAACTTCGTATC
28800 GCTTGAGACA
1 GCTTGAGACA
28810 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
36 35 0.95
37 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
Found at i:28909 original size:105 final size:102
Alignment explanation
Indices: 28783--29021 Score: 290
Period size: 105 Copynumber: 2.3 Consensus size: 102
28773 AAATTCTCTT
* *
28783 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAACCTT-GAATTTGATTCAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAA-CTTCGAATTTGATTCAC
*
28847 -TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
65 ATT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
28888 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAACTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAACTTCGAATTTGATTCACA
* *
28953 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
28990 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
29022 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 7 0.06
105 75 0.63
106 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAACTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:29012 original size:36 final size:36
Alignment explanation
Indices: 28967--29086 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
28957 ACAAAGTTGA
**
28967 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
29003 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * * * *
29039 TCTCATTTGAGACTATATCT-T-AAAGCAAAGTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
*
29073 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
29087 TCATTTTCTC
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
34 21 0.30
35 8 0.12
36 40 0.58
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:29418 original size:27 final size:28
Alignment explanation
Indices: 29332--29434 Score: 163
Period size: 29 Copynumber: 3.7 Consensus size: 28
29322 ACAGTTTCTC
29332 TTGAAAAAAATCTTTGAGTTTGTTCCTT
1 TTGAAAAAAATCTTTGAGTTTGTTCCTT
*
29360 TTGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAA-AAAAATCTTTGAGTTTGTTCCTT
* *
29389 TTGAATAAAATCTTTGAG-TTGTTTCTT
1 TTGAAAAAAATCTTTGAGTTTGTTCCTT
29416 TTGAAAAAAATCTTTGAGT
1 TTGAAAAAAATCTTTGAGT
29435 CTGAAACAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
27 25 0.37
28 16 0.24
29 27 0.40
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.46
Consensus pattern (28 bp):
TTGAAAAAAATCTTTGAGTTTGTTCCTT
Found at i:29509 original size:29 final size:30
Alignment explanation
Indices: 29475--29537 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
29465 ATTTCGTGAA
*
29475 AAAAATCTTTGAGATTGTTT-TTTTGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
*
29504 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
29534 AAAA
1 AAAA
29538 TTTTGTCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (30 bp):
AAAAATCTTTGAGATTGTTTCTTTGGAAAC
Found at i:29823 original size:121 final size:118
Alignment explanation
Indices: 29693--29916 Score: 281
Period size: 121 Copynumber: 1.9 Consensus size: 118
29683 TTAACAAAAT
* * *
29693 CATCTTTGAGTCTATTTCTTTAAAAAC-AAATGTTGTCTCTCTT-GAGACAGTTTCTAATGAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAACAAAAT-TT-TATCTCTTAAAGACAATTTCTAATGAAAA
29756 ACTAACTTTTGAGATTGTTTCATTTGAAACAAAATTTAGTCTCACTTAAGATGTGATC
64 A--AAC-TTTGAGATTGTTTCATTTGAAACAAAATTTAGTCTCACTTAAGATGTGATC
* ** **
29814 CATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAACAAAATTTTATCTCTTAAAGACAATTTCTAATGAAAAAA
* * * *
29879 TCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC
66 ACTTTGAGATTGTTTCATTTGAAACAAAATTTAGTCTC
29917 TTGAGACAAC
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
118 33 0.37
119 2 0.02
120 7 0.08
121 43 0.48
122 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (118 bp):
CATCTTTGAGTCTATTTCTTTAAAAACAAAATTTTATCTCTTAAAGACAATTTCTAATGAAAAAA
ACTTTGAGATTGTTTCATTTGAAACAAAATTTAGTCTCACTTAAGATGTGATC
Found at i:29941 original size:63 final size:65
Alignment explanation
Indices: 29814--30172 Score: 210
Period size: 63 Copynumber: 5.6 Consensus size: 65
29804 AGATGTGATC
* *
29814 CATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTG-AAAAA
1 CATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTGAAAAAA
* * *
29878 -ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTT-GAGACAACTTCTTTTGAAAAAA
1 CATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTG-AAAAA
29941 A
65 A
* * ** * ** * *
29942 CATCTTTGAGATC-GTTT-CTATTAAAAC-AAATTCTATCTCACATGAGACAGTTTCCTTT-CAA
1 CATCTTTGAG-TCTGTTTCCT-TTGAAACAAAATTTTATCTCTTA-AAGACAACTTCTTTTGAAA
* *
30003 TAT
63 AAA
* * * * * ** * *
30006 CCTATTTGAGTC-GTTTCCTTTGAAAC-GAATTTTGTCTCTTGAA-ACATTTTCTCTTAAAACAA
1 CATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTGAAA-AA
30068 GA
65 -A
* * ** * **
30070 TCATCTTTGAGTTTGTTT-CTCTGGAAACAAGGTTTTATCGCTTAAA-ACAGTTTCTTTTGAAGA
1 -CATCTTTGAGTCTGTTTCCT-TTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTGAA-A
30133 AAA
63 AAA
* *
30136 -ATC--TGAGTCCGTTT-CTTTGGAAACAAAATTTTGTCTC
1 CATCTTTGAGTCTGTTTCCTTT-GAAACAAAATTTTATCTC
30173 ACTAAGATAC
Statistics
Matches: 225, Mismatches: 53, Indels: 36
0.72 0.17 0.11
Matches are distributed among these distances:
61 10 0.04
62 42 0.19
63 60 0.27
64 33 0.15
65 30 0.13
66 24 0.11
67 25 0.11
68 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (65 bp):
CATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTGAAAAAA
Found at i:29969 original size:128 final size:129
Alignment explanation
Indices: 29814--30172 Score: 333
Period size: 128 Copynumber: 2.8 Consensus size: 129
29804 AGATGTGATC
* *
29814 CATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAA
1 CATCTTTGAGTC-GTTTCTATTGAAACAAAATTTTATCTCTTAAAGACAGTTTCTTTTGAAAAAA
* * *
29879 TCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTTGAGACAACTTCTTTTGAAAA-AA-A
65 TCTTTGAGTTCGTTTCCTTTGAAACAAAATTTTGTCTCTTGAAACAACTTCTCTT-AAAACAAGA
29942 -
129 T
* * ** * * * *
29942 CATCTTTGAGATCGTTTCTATTAAAAC-AAATTCTATCTCACATGAGACAGTTTCCTTTCAATAT
1 CATCTTTGAG-TCGTTTCTATTGAAACAAAATTTTATCTCTTA-AAGACAGTTTCTTTTGAA-AA
** * * **
30006 CCTATTTGAG-TCGTTTCCTTTGAAAC-GAATTTTGTCTCTTGAAACATTTTCTCTTAAAACAAG
63 AATCTTTGAGTTCGTTTCCTTTGAAACAAAATTTTGTCTCTTGAAACAACTTCTCTTAAAACAAG
30069 AT
128 AT
* * * ** *
30071 CATCTTTGAGTTTGTTTCTCTGGAAACAAGGTTTTATCGCTTAAA-ACAGTTTCTTTTGAAGAAA
1 CATCTTTGAG-TCGTTTCTATTGAAACAAAATTTTATCTCTTAAAGACAGTTTCTTTTG-A-AAA
*
30135 AATC--TGAGTCCGTTT-CTTTGGAAACAAAATTTTGTCTC
63 AATCTTTGAGTTCGTTTCCTTT-GAAACAAAATTTTGTCTC
30173 ACTAAGATAC
Statistics
Matches: 180, Mismatches: 39, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
126 4 0.02
127 46 0.26
128 73 0.41
129 47 0.26
130 10 0.06
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (129 bp):
CATCTTTGAGTCGTTTCTATTGAAACAAAATTTTATCTCTTAAAGACAGTTTCTTTTGAAAAAAT
CTTTGAGTTCGTTTCCTTTGAAACAAAATTTTGTCTCTTGAAACAACTTCTCTTAAAACAAGAT
Found at i:30358 original size:36 final size:34
Alignment explanation
Indices: 30307--30402 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 34
30297 TTTGAGAAAA
* * * *
30307 ATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTACC
1 ATCTTTGAATCTGTTTCTTT-GAAACAAAA-TAAAC
*
30343 ATCTTTGAATCTGTTTCCCTTGAAACAAAATAAAC
1 ATCTTTGAATCTGTTT-CTTTGAAACAAAATAAAC
30378 ATCTTTGAGATC-GTTTCTCTTGAAA
1 ATCTTTGA-ATCTGTTTCT-TTGAAA
30403 TGAATTTTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 1 0.02
35 21 0.41
36 26 0.51
37 3 0.06
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (34 bp):
ATCTTTGAATCTGTTTCTTTGAAACAAAATAAAC
Found at i:30394 original size:35 final size:36
Alignment explanation
Indices: 30328--30402 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
30318 TGTTTCTTTG
* *
30328 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
*
30364 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCTGTTTCCCTT
30399 GAAA
1 GAAA
30403 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
Found at i:30475 original size:66 final size:63
Alignment explanation
Indices: 30374--30554 Score: 197
Period size: 66 Copynumber: 2.8 Consensus size: 63
30364 GAAACAAAAT
* * * *
30374 AAAC-ATCTTTGAGATCGTTTCTCTTGAAATGAATTTTGTCTCATTTGAGACAATTTCCCATG
1 AAACAATCTTTGAGATCATTTCCCTTTAAACGAATTTTGTCTCATTTGAGACAATTTCCCATG
* * *
30436 AAACACCGATCTTTGAGATCATTTCCCTTTAAACGAATTTTGTCTCATTTGAGACAGTTTTCCTT
1 AAACA---ATCTTTGAGATCATTTCCCTTTAAACGAATTTTGTCTCATTTGAGACAATTTCCCAT
*
30501 T
63 G
* * *
30502 AAACAATCTTTGAG-TCATTT-CCTTTGAAACAAAATTTTGTTTCTTTTGAGACA
1 AAACAATCTTTGAGATCATTTCCCTTT-AAAC-GAATTTTGTCTCATTTGAGACA
30555 GTTGCTTTTG
Statistics
Matches: 102, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
61 5 0.05
62 14 0.14
63 28 0.27
66 55 0.54
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (63 bp):
AAACAATCTTTGAGATCATTTCCCTTTAAACGAATTTTGTCTCATTTGAGACAATTTCCCATG
Found at i:30520 original size:36 final size:36
Alignment explanation
Indices: 30447--30521 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
30437 AACACCGATC
*
30447 TTTGAGATCATTTCCCTTTAAACGAATTTTGTCTCA
1 TTTGAGATCATTTCCCTTTAAACGAATTTTGACTCA
* *
30483 TTTGAGA-CAGTTTTCCTTTAAAC-AATCTTTGAGTCA
1 TTTGAGATCA-TTTCCCTTTAAACGAAT-TTTGACTCA
30519 TTT
1 TTT
30522 CCTTTGAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 5 0.15
36 29 0.85
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.45
Consensus pattern (36 bp):
TTTGAGATCATTTCCCTTTAAACGAATTTTGACTCA
Found at i:30747 original size:43 final size:44
Alignment explanation
Indices: 30654--30978 Score: 185
Period size: 40 Copynumber: 7.6 Consensus size: 44
30644 TGGCCAGCCG
* * **
30654 TCCTCATCATGTAGGAACCGTGTCAT-CCCCAG---ACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGATC
30694 TCCTCATCACGTAGGAGCCGTGTCA-ACCATAGATAACCAG-TC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGATC
* * * * ** *
30736 GTCCGCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCAT-ACC-ATAGATAACCAGATC
* * * **
30783 TCTTCATCACGTATGAGCCGTGTCATTCCCCAG---ACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGATC
* * *
30824 TCCTCATCACGTAGGAGTCGTGTCA-ACCATAGATAACC-CACC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGATC
* * * ** *
30866 GTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCAT-ACCAT-AGATAACC-AGATC
* * * * * *
30914 TCTTCATCACGTATGAGCAGTGTCA-ACCCTCG---ACCAGATT
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGATC
* *
30954 TCCTCATCACGTAGGAACCATGTCA
1 TCCTCATCACGTAGGAGCCGTGTCA
30979 CCCTTAGACG
Statistics
Matches: 215, Mismatches: 52, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
40 54 0.25
41 30 0.14
42 4 0.02
43 52 0.24
44 3 0.01
45 13 0.06
46 36 0.17
47 21 0.10
48 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (44 bp):
TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGATC
Found at i:30794 original size:46 final size:45
Alignment explanation
Indices: 30641--31005 Score: 175
Period size: 43 Copynumber: 8.5 Consensus size: 45
30631 TAACTCCTAA
* * *
30641 AGATGGCCAG-CCGTCCTCATCATGTAGGAACCGTGTCATC-CC-C
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAACCGTGTCATCACCTT
* * *
30684 AGA---CCAGATCTCCTCATCACGTAGGAGCCGTGTCA--ACCAT
1 AGATGGCCAGAACTCCTCATCACGTAGGAACCGTGTCATCACCTT
** * * *
30724 AGATAACCAG-TCGTCCGCATCACGTAGGAACCGTGTTATCACCTTT
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAACCGTGTCATCACC-TT
* * * *
30770 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTC-CC-C
1 AGATGGCCAGAACTCCTCATCACGTAGGAACCGTGTCA-TCACCTT
* ** *
30814 AGA---CCAGATCTCCTCATCACGTAGGAGTCGTGTCA--ACCAT
1 AGATGGCCAGAACTCCTCATCACGTAGGAACCGTGTCATCACCTT
** * * *
30854 AGATAACC-CACCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
1 AGATGGCCAGAAC-TCCTCATCACGTAGGAACCGTGTCATCACCTT
* * * * *
30899 AAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCA--ACCCT
1 -AGATGGCC-AGAACTCCTCATCACGTAGGAACCGTGTCATCACCTT
* ** *
30944 CGA---CCAGATTTCCTCATCACGTAGGAACCATGTCA-C-CCTT
1 AGATGGCCAGAACTCCTCATCACGTAGGAACCGTGTCATCACCTT
* * *
30984 AGACGACCAGAACTCTTCATCA
1 AGATGGCCAGAACTCCTCATCA
31006 TGTATGAGCA
Statistics
Matches: 244, Mismatches: 51, Indels: 54
0.70 0.15 0.15
Matches are distributed among these distances:
39 4 0.02
40 61 0.25
41 31 0.13
42 4 0.02
43 66 0.27
44 5 0.02
45 11 0.05
46 37 0.15
47 23 0.09
48 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.23
Consensus pattern (45 bp):
AGATGGCCAGAACTCCTCATCACGTAGGAACCGTGTCATCACCTT
Found at i:30875 original size:130 final size:130
Alignment explanation
Indices: 30657--30978 Score: 488
Period size: 130 Copynumber: 2.5 Consensus size: 130
30647 CCAGCCGTCC
* * *
30657 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
* *
30722 ATAGATAACCAGTCGTCCGCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCT
66 ATAGATAACCAGCCGTCCGCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCT
*
30786 TCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCATCACGTAGGAGTCGTGTCAAC
1 TCATCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAAC
*
30851 CATAGATAACCCA-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACT
65 CATAGATAA-CCAGCCGTCCGCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACT
30915 CT
129 CT
* * * * *
30917 TCATCACGTATGAGCAGTGTCAACCCTC-GACCAGATTTCCTCATCACGTAGGAACCATGTCA
1 TCATCACGTATGAGCCGTGTCATCCC-CAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
30979 CCCTTAGACG
Statistics
Matches: 176, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
129 19 0.11
130 124 0.70
131 33 0.19
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (130 bp):
TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACC
ATAGATAACCAGCCGTCCGCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCT
Found at i:31181 original size:3 final size:3
Alignment explanation
Indices: 31173--31223 Score: 68
Period size: 3 Copynumber: 16.3 Consensus size: 3
31163 CGGGTCTTTT
31173 TTA TTA TTA TT- TATA TTA TTTA TTA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA
31220 TTA T
1 TTA T
31224 GTTTATTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 1 0.02
3 36 0.82
4 7 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:31201 original size:22 final size:21
Alignment explanation
Indices: 31173--31231 Score: 86
Period size: 19 Copynumber: 2.8 Consensus size: 21
31163 CGGGTCTTTT
31173 TTATTATTATTTATATTATTTA
1 TTATTATTATTT-TATTATTTA
31195 TTATTATTA--TTATTATTTA
1 TTATTATTATTTTATTATTTA
31214 TTATTATTATGTTTATTA
1 TTATTATTAT-TTTATTA
31232 ATTACATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 18 0.53
20 1 0.03
22 15 0.44
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TTATTATTATTTTATTATTTA
Found at i:31222 original size:16 final size:16
Alignment explanation
Indices: 31173--31223 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
31163 CGGGTCTTTT
31173 TTATTATTATTTA-TA
1 TTATTATTATTTATTA
31188 TTA-T-TTA-TTATTA
1 TTATTATTATTTATTA
31201 TTATTATTATTTATTA
1 TTATTATTATTTATTA
31217 TTATTAT
1 TTATTAT
31224 GTTTATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.09
13 8 0.25
14 2 0.06
15 6 0.19
16 13 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTATTATTTATTA
Found at i:31222 original size:19 final size:20
Alignment explanation
Indices: 31172--31223 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
31162 CCGGGTCTTT
31172 TTTATTATTATT-TATATTA
1 TTTATTATTATTATATATTA
31191 TTTATTATTATTAT-TATTA
1 TTTATTATTATTATATATTA
31210 TTTATTATTATTAT
1 TTTATTATTATTAT
31224 GTTTATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 31 0.97
20 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATTATTATTATATATTA
Found at i:31368 original size:25 final size:25
Alignment explanation
Indices: 31339--31410 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
31329 ACTAACCCAT
31339 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
31364 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
* *
31389 CAAATTAGGGTTT-TAACCCTAA
1 CAGATTAGGGTTTCAAACCCTAA
31411 TCCCCTAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
24 8 0.18
25 37 0.82
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAA
Found at i:34783 original size:3 final size:3
Alignment explanation
Indices: 34770--34799 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
34760 GAGTCTTTAT
34770 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT
34800 TACTAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:34811 original size:19 final size:20
Alignment explanation
Indices: 34765--34821 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
34755 TGTCCGAGTC
*
34765 TTTATTTATTATTTATTATTAT
1 TTTA-TTATTATTTACTA-TAT
34787 TATTATTATTATTTACTA-AT
1 T-TTATTATTATTTACTATAT
34807 TTTATCT-TTATTTAC
1 TTTAT-TATTATTTAC
34822 AGGTTATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 12 0.38
20 4 0.12
22 13 0.41
23 3 0.09
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTATTATTATTTACTATAT
Found at i:34811 original size:22 final size:22
Alignment explanation
Indices: 34770--34811 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34760 GAGTCTTTAT
*
34770 TTATTATTTATTATTATTATTA
1 TTATTATTTATAATTATTATTA
34792 TTATTATTTACTAATT-TTAT
1 TTATTATTTA-TAATTATTAT
34812 CTTTATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTATTTATAATTATTATTA
Found at i:34817 original size:22 final size:21
Alignment explanation
Indices: 34769--34818 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
34759 CGAGTCTTTA
*
34769 TTTATTATTTATTATTATTAT
1 TTTATTATTTATAATTATTAT
34790 TATTATTATTTACTAATT-TTAT
1 T-TTATTATTTA-TAATTATTAT
34812 CTTTATT
1 -TTTATT
34819 TACAGGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 19 0.76
23 5 0.20
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTATTATTTATAATTATTAT
Found at i:35577 original size:14 final size:14
Alignment explanation
Indices: 35558--35596 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
35548 CTCTTTCGAG
35558 CACTTACATTTCAA
1 CACTTACATTTCAA
35572 CACTTACATTTCAA
1 CACTTACATTTCAA
35586 CACTTACATTT
1 CACTTACATTT
35597 AAGTCACTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.38
Consensus pattern (14 bp):
CACTTACATTTCAA
Found at i:38802 original size:20 final size:18
Alignment explanation
Indices: 38765--38798 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38755 CAATAAAGAA
38765 TAACCAACTTAAACAACC
1 TAACCAACTTAAACAACC
38783 TAACCAACTT-AACAAC
1 TAACCAACTTAAACAAC
38799 AACCATCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (18 bp):
TAACCAACTTAAACAACC
Found at i:55384 original size:18 final size:18
Alignment explanation
Indices: 55361--55402 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
55351 ACAAAATAAC
55361 TTAAAACACAAAATTTCA
1 TTAAAACACAAAATTTCA
**
55379 TTAAAATTCAAAATTTCA
1 TTAAAACACAAAATTTCA
55397 TTAAAA
1 TTAAAA
55403 TAACAGGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAAACACAAAATTTCA
Found at i:55403 original size:18 final size:18
Alignment explanation
Indices: 55369--55403 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
55359 ACTTAAAACA
55369 CAAAATTTCATTAAAATT
1 CAAAATTTCATTAAAATT
55387 CAAAATTTCATTAAAAT
1 CAAAATTTCATTAAAAT
55404 AACAGGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
CAAAATTTCATTAAAATT
Found at i:58984 original size:81 final size:81
Alignment explanation
Indices: 58847--59332 Score: 767
Period size: 81 Copynumber: 6.0 Consensus size: 81
58837 TTGACTCTTC
* * * * *
58847 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGTCATAATTAACATCTTTCTTCCAATT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
58912 GCACAGTTAGGCCATT
66 GCACAGTTAGGCCATT
* * *
58928 ATTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTGGTATGACTGACACCTTTCTGCCAATT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
58993 GCACAGTTAGGCCATT
66 GCACAGTTAGGCCATT
* * * **
59009 ATT-TTTTACTCAACGGTATTTAATCGTTCATCTAACCGGCATAATTGACATTTTTCTGCCAATT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
* *
59073 ACACAGTTAGGTCATT
66 GCACAGTTAGGCCATT
*
59089 ATTCTTTTACTCAACGGTATTTAACAGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
*
59154 GTACAGTTAGGCCATT
66 GCACAGTTAGGCCATT
* *
59170 ATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTAGCATGATTGACACCTTTCTGCCAATT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
*
59235 GCACAGTTAGGTCATT
66 GCACAGTTAGGCCATT
* *
59251 ATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAATT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
59316 GCACAGTTAGGCCATT
66 GCACAGTTAGGCCATT
59332 A
1 A
59333 AAGACACTTA
Statistics
Matches: 367, Mismatches: 37, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
80 70 0.19
81 297 0.81
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (81 bp):
ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
GCACAGTTAGGCCATT
Found at i:59431 original size:68 final size:68
Alignment explanation
Indices: 59278--59467 Score: 263
Period size: 68 Copynumber: 2.8 Consensus size: 68
59268 TATTTAACCG
* * * *
59278 TTCATCTAACTGGCATGATTGACACATTTCTGCCAATTGCACAGTTAGGCCATTAAAGACACTTA
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAGTTAGGCC-TCAAAGACACTTA
*
59343 GCCT
65 GCAT
* * * * **
59347 TTCATCTAACTGGCATAAATGACACTTTTCTATCAAATGTACAGTTAGGCCTCAAAGGTACTTAG
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAGTTAGGCCTCAAAGACACTTAG
*
59412 TAT
66 CAT
59415 TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAGTTAGGCCTC
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAGTTAGGCCTC
59468 TTAATCTTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
68 61 0.58
69 44 0.42
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAGTTAGGCCTCAAAGACACTTAG
CAT
Found at i:59765 original size:58 final size:58
Alignment explanation
Indices: 59665--59821 Score: 167
Period size: 58 Copynumber: 2.7 Consensus size: 58
59655 TATATTTCCC
** * * * * *
59665 ATACAAAAATTCATAC-CTTGGGTATGAGTTTCTTATCTTTTTGCAC-CTAAGGTGCCCA
1 ATACAAAAATTCATACAC-TCAGTATCAATTTCTTAACATTTTGCACAC-AAAGTGCCCA
** * *
59723 ATACGGAAATTCATACACTCAGTATTAATTTCTTAACATTTTGCACACAAAGTGTCCA
1 ATACAAAAATTCATACACTCAGTATCAATTTCTTAACATTTTGCACACAAAGTGCCCA
*
59781 ATACAAAAATTCATACACTTAGTATCAATTTCTTAA-ATTTT
1 ATACAAAAATTCATACACTCAGTATCAATTTCTTAACATTTT
59822 TTGCACACTT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
57 5 0.06
58 76 0.92
59 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (58 bp):
ATACAAAAATTCATACACTCAGTATCAATTTCTTAACATTTTGCACACAAAGTGCCCA
Found at i:59875 original size:19 final size:19
Alignment explanation
Indices: 59851--59893 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
59841 TGGTAATCAC
59851 CATACTTACATTAATAAAT
1 CATACTTACATTAATAAAT
59870 CATACTTACATTAATAAAT
1 CATACTTACATTAATAAAT
59889 CATAC
1 CATAC
59894 AACTAGGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CATACTTACATTAATAAAT
Found at i:60147 original size:12 final size:12
Alignment explanation
Indices: 60130--60159 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
60120 ATTATTATCT
60130 CAATTTCTATAA
1 CAATTTCTATAA
60142 CAATTTCTATAA
1 CAATTTCTATAA
60154 CAATTT
1 CAATTT
60160 TAACCTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (12 bp):
CAATTTCTATAA
Found at i:60352 original size:95 final size:95
Alignment explanation
Indices: 60214--60411 Score: 342
Period size: 95 Copynumber: 2.1 Consensus size: 95
60204 CACCGGTAAT
* * * * *
60214 GATACTTCTATACTATGGTACTAATACCCCCTTCCGGTATCGATACCAATTTTAGGTTCGATGTT
1 GATACTACCATACTATGGTACTAATACCCACTTCCGGTATCGATACCAATTTTAGATTCGATGTG
60279 GCCTGGTATCGATACCCTTACCATGGTATC
66 GCCTGGTATCGATACCCTTACCATGGTATC
*
60309 GATACTACCATACTATGGTACTGATACCCACTTCCGGTATCGATACCAATTTTAGATTCGATGTG
1 GATACTACCATACTATGGTACTAATACCCACTTCCGGTATCGATACCAATTTTAGATTCGATGTG
60374 GCCTGGTATCGATACCCTTACCATGGTATC
66 GCCTGGTATCGATACCCTTACCATGGTATC
60404 GATACTAC
1 GATACTAC
60412 TCAGCTAATT
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (95 bp):
GATACTACCATACTATGGTACTAATACCCACTTCCGGTATCGATACCAATTTTAGATTCGATGTG
GCCTGGTATCGATACCCTTACCATGGTATC
Found at i:64393 original size:2 final size:2
Alignment explanation
Indices: 64386--64419 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
64376 ATTGTTGTAC
64386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64420 CATCCATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64719 original size:81 final size:81
Alignment explanation
Indices: 64584--65147 Score: 729
Period size: 81 Copynumber: 7.0 Consensus size: 81
64574 ATTTGACCCT
** * * * *
64584 TTATTCTTTTACTCAACAATATTTAATCGTTCAACTAACTTGCATGATTAACACATTTCTGCCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
*
64649 TTGCATAGTTAGGCCA
66 TTGCACAGTTAGGCCA
* * * *
64665 TTATTCGTTTACTCAATGGTATTTAACCGTTCATCTAACTGGAATGATTGACACATTTCTACCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
64730 TTGCACAGTTAGGCCA
66 TTGCACAGTTAGGCCA
* * * *
64746 TTATTCTTTTACTCAACGGTATTTAATCGTTCATCTAACTGGCATGATTGACACCTTTTTGTCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
64811 TTGCACAGTTAGGCCA
66 TTGCACAGTTAGGCCA
* *
64827 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTTGCATGATTGACACATCTCTGCCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
*
64892 TTACACAGTTAGGCCA
66 TTGCACAGTTAGGCCA
** ** * * *
64908 TTATTCTTTTACTCAACAATATTTAATTGTTCATCTAATTGTCATGATTGACACATTTCTTCCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
*
64973 TTGCACAGTTAGACCAA
66 TTGCACAGTTAGGCC-A
* ** * * * *
64990 TT-TTCTTTTAATCAAC-GTATTTAACCGTTCATCTAACTAACATGATTAAAACCTTTCTGTCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
*
65053 TTGCACAATTAGGCCA
66 TTGCACAGTTAGGCCA
* * * * * *
65069 TTATTC-TTTACTCAATGGCATTTAACTGTTCATCTCACTGGCATGATTGACACCTTTCTTCCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
*
65133 TTGAACAGTTAGGCC
66 TTGCACAGTTAGGCC
65148 TCAAAGGCAC
Statistics
Matches: 416, Mismatches: 64, Indels: 7
0.85 0.13 0.01
Matches are distributed among these distances:
79 11 0.03
80 103 0.25
81 299 0.72
82 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (81 bp):
TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
TTGCACAGTTAGGCCA
Found at i:65188 original size:68 final size:68
Alignment explanation
Indices: 65097--65353 Score: 381
Period size: 68 Copynumber: 3.8 Consensus size: 68
65087 CATTTAACTG
* * * * * *
65097 TTCATCTCACTGGCATGATTGACACCTTTCT-TCCAATTGAACAGTTAGGCCTCAAAGGCACTTA
1 TTCATCTAACTGGCATAAATGACACTTTTCTGT-CAAATGCACAGTTAGGCCTCAAAGGCACTTA
65161 GCCT
65 GCCT
* * *
65165 TTCATCTAACTGGCATAAATGACACTTTTATGTCAAATGCACATTTAGGCCTCAAAGGCACATAG
1 TTCATCTAACTGGCATAAATGACACTTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
65230 CCT
66 CCT
*
65233 TTCATCTAACTGGCATAAATGACACTTTTCTGTCAAATGCACAGTTAGGCCACAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACTTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
65298 CCT
66 CCT
* * *
65301 TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAATTAGGCCTC
1 TTCATCTAACTGGCATAAATGACACTTTTCTGTCAAATGCACAGTTAGGCCTC
65354 TTAATCTTTT
Statistics
Matches: 171, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
68 170 0.99
69 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACTTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:67329 original size:33 final size:32
Alignment explanation
Indices: 67285--67347 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
67275 ATGAGTTACG
*
67285 CAGAGTCAGTATTTG-CATTTAGATAATGCACCA
1 CAGAGTCAGTA--TGACATTCAGATAATGCACCA
*
67318 CAGAGTTAGTATGACATTCAGATAATGCAC
1 CAGAGTCAGTATGACATTCAGATAATGCAC
67348 GGTAGAGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 2 0.07
32 15 0.56
33 10 0.37
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (32 bp):
CAGAGTCAGTATGACATTCAGATAATGCACCA
Found at i:67517 original size:13 final size:13
Alignment explanation
Indices: 67499--67524 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67489 CTTCTGTACG
67499 CTTGAGTTTATGA
1 CTTGAGTTTATGA
67512 CTTGAGTTTATGA
1 CTTGAGTTTATGA
67525 AATTTTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
CTTGAGTTTATGA
Done.