Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008076.1 Hibiscus syriacus cultivar Beakdansim tig00110578_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: 1136582
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:256947 original size:24 final size:24
Alignment explanation
Indices: 256891--256940 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
256881 TTGTTTACTT
* *
256891 TAATTAAATATATAATATTATTAA
1 TAATTAAATATATAATAATATAAA
256915 TAATTAAATATATAATAATAGTAAA
1 TAATTAAATATATAATAATA-TAAA
256940 T
1 T
256941 CATAAATCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TAATTAAATATATAATAATATAAA
Found at i:259852 original size:2 final size:2
Alignment explanation
Indices: 259845--259869 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
259835 TCGACTGCCT
259845 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
259870 GGTCATCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:261920 original size:3 final size:3
Alignment explanation
Indices: 261912--261938 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
261902 AGAGAGAACT
261912 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
261939 ATTTGGAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:262183 original size:25 final size:28
Alignment explanation
Indices: 262155--262208 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
262145 TTAAATATTC
262155 AAATAATTT-TTTTG-A-AGAATAAAGG
1 AAATAATTTCTTTTGAATAGAATAAAGG
*
262180 AAATATTTTCTTTTGAATAGAATAAAGG
1 AAATAATTTCTTTTGAATAGAATAAAGG
262208 A
1 A
262209 GATATTCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 8 0.32
26 5 0.20
27 1 0.04
28 11 0.44
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (28 bp):
AAATAATTTCTTTTGAATAGAATAAAGG
Found at i:262825 original size:23 final size:23
Alignment explanation
Indices: 262799--262843 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
262789 AAAAATTTTA
262799 TATAAAATTTTAAAAAAGAAAAT
1 TATAAAATTTTAAAAAAGAAAAT
* * *
262822 TATATATTTTTTAAAAAGAAAA
1 TATAAAATTTTAAAAAAGAAAA
262844 CAAATAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
TATAAAATTTTAAAAAAGAAAAT
Found at i:262854 original size:24 final size:23
Alignment explanation
Indices: 262800--262855 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
262790 AAAATTTTAT
* **
262800 ATAAAATTTTAAAAAAGAAAATT
1 ATAAATTTTTAAAAAAGAAAAAA
* *
262823 ATATATTTTTTAAAAAGAAAACAA
1 ATAAATTTTTAAAAAAGAAAA-AA
262847 ATAAATTTT
1 ATAAATTTT
262856 GAAATAACCT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
ATAAATTTTTAAAAAAGAAAAAA
Found at i:265036 original size:20 final size:20
Alignment explanation
Indices: 264983--265024 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
264973 CAATGCAAAC
*
264983 TCCAATTTCGCAACACAGTT
1 TCCAAATTCGCAACACAGTT
*
265003 TCCAAATTCGCAACTCAGTT
1 TCCAAATTCGCAACACAGTT
265023 TC
1 TC
265025 TGAAATCGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (20 bp):
TCCAAATTCGCAACACAGTT
Found at i:265072 original size:20 final size:20
Alignment explanation
Indices: 265030--265074 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
265020 GTTTCTGAAA
**
265030 TCGCAACGCGAATGTCTTTT
1 TCGCAACGCGAATGTCTAAT
* *
265050 TCGCAACGCGAATTTGTAAT
1 TCGCAACGCGAATGTCTAAT
265070 TCGCA
1 TCGCA
265075 GAGTGCGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (20 bp):
TCGCAACGCGAATGTCTAAT
Found at i:265277 original size:22 final size:22
Alignment explanation
Indices: 265230--265282 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
265220 TTTCACTCTC
* *
265230 TCCGACGACATCCGTCACCATC
1 TCCGGCGACATCCGTCACCATA
*
265252 TCCGGCGACATCCG-CCCCTATA
1 TCCGGCGACATCCGTCACC-ATA
265274 TCCGGCGAC
1 TCCGGCGAC
265283 CCCCCTCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.19, C:0.45, G:0.19, T:0.17
Consensus pattern (22 bp):
TCCGGCGACATCCGTCACCATA
Found at i:265698 original size:21 final size:21
Alignment explanation
Indices: 265672--265722 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
265662 TCGCAACGCG
265672 ATTTTAGTTTTCGCGTTGCGA
1 ATTTTAGTTTTCGCGTTGCGA
* *
265693 ATTTTA-TTTTTGTGTTGCGA
1 ATTTTAGTTTTCGCGTTGCGA
*
265713 ATTTAAGTTT
1 ATTTTAGTTT
265723 CAAAAACTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.18, C:0.08, G:0.20, T:0.55
Consensus pattern (21 bp):
ATTTTAGTTTTCGCGTTGCGA
Found at i:267425 original size:21 final size:21
Alignment explanation
Indices: 267382--267431 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
267372 GTTAGGGGAG
* *
267382 TTACGTGATGAGGTCAGTGCT
1 TTACGTGATGAGGTCAATACT
*
267403 TTGCGTGATGAGGTCAATACT
1 TTACGTGATGAGGTCAATACT
267424 TTACGTGA
1 TTACGTGA
267432 CGACAATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCAATACT
Found at i:267904 original size:21 final size:21
Alignment explanation
Indices: 267844--267997 Score: 86
Period size: 21 Copynumber: 7.3 Consensus size: 21
267834 GAAGAAGCCC
* **
267844 GATCCACCTACCATTATTCAG
1 GATCCACCTATCATCGTTCAG
** *
267865 GATCCACCTCCCATTGTTCAG
1 GATCCACCTATCATCGTTCAG
* *
267886 GATTCACCTATCATCGTTCAA
1 GATCCACCTATCATCGTTCAG
*
267907 GATGCC-CCTATCATCGTTCAA
1 GAT-CCACCTATCATCGTTCAG
* *
267928 GAGGCC-CCT-CCAATCGTTCAAG
1 GA-TCCACCTATC-ATCGTTC-AG
* * *
267950 AATAC-CCTTTCATCGTTCAG
1 GATCCACCTATCATCGTTCAG
267970 GATCCACCT-TCCA-CGGTTCAG
1 GATCCACCTAT-CATC-GTTCAG
267991 GATCCAC
1 GATCCAC
267998 ATGGCATACT
Statistics
Matches: 108, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
20 8 0.07
21 96 0.89
22 4 0.04
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.27
Consensus pattern (21 bp):
GATCCACCTATCATCGTTCAG
Found at i:267926 original size:42 final size:42
Alignment explanation
Indices: 267880--267978 Score: 96
Period size: 42 Copynumber: 2.4 Consensus size: 42
267870 ACCTCCCATT
* * *
267880 GTTCAGGATTCACCTATC-ATCGTTCAAG-ATGCCCCTATCATC
1 GTTCAGGATCCACCT-CCAATCGTTCAAGAAT-ACCCTATCATC
* * *
267922 GTTCAAGAGGCC-CCTCCAATCGTTCAAGAATACCCTTTCATC
1 GTTCAGGA-TCCACCTCCAATCGTTCAAGAATACCCTATCATC
267964 GTTCAGGATCCACCT
1 GTTCAGGATCCACCT
267979 TCCACGGTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
41 3 0.07
42 39 0.87
43 3 0.07
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.28
Consensus pattern (42 bp):
GTTCAGGATCCACCTCCAATCGTTCAAGAATACCCTATCATC
Found at i:269551 original size:20 final size:20
Alignment explanation
Indices: 269499--269570 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
269489 GTCAAATTCA
* * *
269499 CGTTGCGATTTTTATTTTAG
1 CGTTGCGAATTTGATTTTCG
* *
269519 CG-TGTCGATTTTGATTTTTG
1 CGTTG-CGAATTTGATTTTCG
*
269539 TGTTGCGAATTTGATTTTCG
1 CGTTGCGAATTTGATTTTCG
269559 CGTTGCGAATTT
1 CGTTGCGAATTT
269571 AACTTTCAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
19 2 0.05
20 40 0.91
21 2 0.05
ACGTcount: A:0.14, C:0.11, G:0.24, T:0.51
Consensus pattern (20 bp):
CGTTGCGAATTTGATTTTCG
Found at i:269577 original size:20 final size:20
Alignment explanation
Indices: 269540--269577 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
269530 TGATTTTTGT
* *
269540 GTTGCGAATTTGATTTTCGC
1 GTTGCGAATTTAACTTTCGC
269560 GTTGCGAATTTAACTTTC
1 GTTGCGAATTTAACTTTC
269578 AATTCAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (20 bp):
GTTGCGAATTTAACTTTCGC
Found at i:279024 original size:24 final size:24
Alignment explanation
Indices: 278990--279043 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
278980 CTGAAACATC
278990 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
279014 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
279038 ATCAAA
1 ATCAAA
279044 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:279057 original size:24 final size:24
Alignment explanation
Indices: 278990--279057 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
278980 CTGAAACATC
* * *
278990 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
279014 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
279038 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
279058 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:280041 original size:21 final size:20
Alignment explanation
Indices: 279933--280110 Score: 114
Period size: 20 Copynumber: 8.9 Consensus size: 20
279923 GCTGTTGCAA
* *
279933 AATTA-AAATTCGTGTTGTG
1 AATTAGAAATTCGCGTTGCG
* * *
279952 AATTCGAAAATCGAGTTGCG
1 AATTAGAAATTCGCGTTGCG
* **
279972 AATTAGAAAATCTTGTTGCG
1 AATTAGAAATTCGCGTTGCG
* *
279992 AA-AAGGAAACTT-GTGTTGCG
1 AATTA-GAAA-TTCGCGTTGCG
*
280012 AA-AAGAAATTCGCGTTGCG
1 AATTAGAAATTCGCGTTGCG
*
280031 AATTCAGAAATT-GAGTTGCG
1 AATT-AGAAATTCGCGTTGCG
*
280051 AATTTGAAATTCCGCGTTGCG
1 AATTAGAAATT-CGCGTTGCG
* *
280072 AATTTGGAAAATCGCGTTGCG
1 AA-TTAGAAATTCGCGTTGCG
** *
280093 AAAAATAAATTCGCGTTG
1 AATTAGAAATTCGCGTTG
280111 TGATTTCAAA
Statistics
Matches: 128, Mismatches: 22, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.02
19 24 0.19
20 67 0.52
21 28 0.22
22 7 0.05
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (20 bp):
AATTAGAAATTCGCGTTGCG
Found at i:280108 original size:41 final size:39
Alignment explanation
Indices: 280006--280110 Score: 111
Period size: 41 Copynumber: 2.6 Consensus size: 39
279996 GGAAACTTGT
* *
280006 GTTGCGAAAAGAAATTCGCGTTGCGAATTCAGAAATTGA
1 GTTGCGAAAATAAATTCGCGTTGCGAATTCAGAAATCGA
** ** *
280045 GTTGCGAATTTGAAATTCCGCGTTGCGAATTTGGAAAATCGC
1 GTTGCGAAAAT-AAATT-CGCGTTGCGAATTCAG-AAATCGA
280087 GTTGCGAAAAATAAATTCGCGTTG
1 GTTGCG-AAAATAAATTCGCGTTG
280111 TGATTTCAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
39 8 0.15
40 5 0.09
41 21 0.40
42 16 0.30
43 3 0.06
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (39 bp):
GTTGCGAAAATAAATTCGCGTTGCGAATTCAGAAATCGA
Found at i:280135 original size:82 final size:80
Alignment explanation
Indices: 280006--280174 Score: 198
Period size: 82 Copynumber: 2.1 Consensus size: 80
279996 GGAAACTTGT
* * *
280006 GTTGCG-AAAAGAAATTCGCGTTGCGAATTCAGAAATTGAGTTGCGAATTT-GAAATTCCGCGTT
1 GTTGCGAAAAAGAAATTCGCGTTGCGAATTCAAAAACTGAGTTACGAATTTGGAAATT--GCGTT
*
280069 GCGAATTTGGAAAATCGC
64 GCGAAATTGG-AAATCGC
* * * * *
280087 GTTGCGAAAAATAAATTCGCGTTGTGATTTCAAAAACTGTGTTACGAATTTGGAAATTGTGTTGC
1 GTTGCGAAAAAGAAATTCGCGTTGCGAATTCAAAAACTGAGTTACGAATTTGGAAATTGCGTTGC
**
280152 GAAATTGGAGTTCGC
66 GAAATTGGAAATCGC
280167 GTTGCGAA
1 GTTGCGAA
280175 TTTGTTGGTT
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
80 13 0.17
81 19 0.25
82 37 0.49
83 6 0.08
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (80 bp):
GTTGCGAAAAAGAAATTCGCGTTGCGAATTCAAAAACTGAGTTACGAATTTGGAAATTGCGTTGC
GAAATTGGAAATCGC
Found at i:281836 original size:25 final size:25
Alignment explanation
Indices: 281796--281854 Score: 100
Period size: 25 Copynumber: 2.3 Consensus size: 25
281786 TATCCTAAAA
*
281796 AGGTGTAAAACTAAAAGTTTTATACT
1 AGGTGT-AAACTAAAAGTTTTACACT
281822 AGGTGTAAACTAAAAGTTTTACACT
1 AGGTGTAAACTAAAAGTTTTACACT
281847 AGGTGTAA
1 AGGTGTAA
281855 GTGGATCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 26 0.81
26 6 0.19
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (25 bp):
AGGTGTAAACTAAAAGTTTTACACT
Found at i:287917 original size:31 final size:31
Alignment explanation
Indices: 287876--287936 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
287866 CATCTCATTA
* *
287876 TTAATTAAATTACAAATAAATTGTTTAATTG
1 TTAATAAAATTACAAATAAATTATTTAATTG
*
287907 TTAATAAAATTATAAATAAATTATTTAATT
1 TTAATAAAATTACAAATAAATTATTTAATT
287937 TGAAAAAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (31 bp):
TTAATAAAATTACAAATAAATTATTTAATTG
Found at i:296022 original size:17 final size:17
Alignment explanation
Indices: 295992--296025 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
295982 ACAAATCTAC
295992 ATTGGAGAAAGCTAAAA
1 ATTGGAGAAAGCTAAAA
* *
296009 ATTGGGGAAGGCTAAAA
1 ATTGGAGAAAGCTAAAA
296026 GAACCCTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.29, T:0.18
Consensus pattern (17 bp):
ATTGGAGAAAGCTAAAA
Found at i:296923 original size:22 final size:21
Alignment explanation
Indices: 296898--296961 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
296888 ATTTTATAAG
296898 TTATAAAATTATAATTAAATT
1 TTATAAAATTATAATTAAATT
* * *
296919 ATTATTAAATGATCATTAAATT
1 -TTATAAAATTATAATTAAATT
* *
296941 TTTTATAAATTTTAA-TAAATT
1 TTATA-AAATTATAATTAAATT
296962 CAAAGATTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
21 9 0.27
22 24 0.73
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TTATAAAATTATAATTAAATT
Found at i:297034 original size:30 final size:31
Alignment explanation
Indices: 296991--297063 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
296981 GTTTGATAGA
* *
296991 TTTAATCATTATTTTATGATA-ATTT-GTAAG
1 TTTAATGATTATTTTAT-AAAGATTTAGTAAG
* *
297021 TTTAGTGATTATTTTATAAAGATTTATTAAG
1 TTTAATGATTATTTTATAAAGATTTAGTAAG
297052 TTTAATGATTAT
1 TTTAATGATTAT
297064 AAAATAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.06
30 19 0.53
31 15 0.42
ACGTcount: A:0.34, C:0.01, G:0.11, T:0.53
Consensus pattern (31 bp):
TTTAATGATTATTTTATAAAGATTTAGTAAG
Found at i:298172 original size:26 final size:26
Alignment explanation
Indices: 298143--298194 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
298133 CTCTATTTAC
*
298143 TTGTCCAC-CTATTATTTAGATTTTTT
1 TTGTCCACTCAATTA-TTAGATTTTTT
* *
298169 TTGTTCACTCAATTATTATATTTTTT
1 TTGTCCACTCAATTATTAGATTTTTT
298195 AAAATCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (26 bp):
TTGTCCACTCAATTATTAGATTTTTT
Found at i:299708 original size:30 final size:34
Alignment explanation
Indices: 299672--299747 Score: 97
Period size: 36 Copynumber: 2.3 Consensus size: 34
299662 AAAATCAAAT
299672 TAAACGGGGA-A-GA-G-GAAAAACCGTTTATGC
1 TAAACGGGGACAGGACGAGAAAAACCGTTTATGC
*
299702 TAAACGGGGACGAGGACGGAGAAAAACTGTTTATGC
1 TAAACGGGGAC-AGGAC-GAGAAAAACCGTTTATGC
299738 TAAACGGGGA
1 TAAACGGGGA
299748 TACCCGTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 10 0.26
32 1 0.03
33 2 0.05
35 1 0.03
36 25 0.64
ACGTcount: A:0.38, C:0.13, G:0.33, T:0.16
Consensus pattern (34 bp):
TAAACGGGGACAGGACGAGAAAAACCGTTTATGC
Found at i:300248 original size:23 final size:23
Alignment explanation
Indices: 300214--300268 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
300204 TATTTAAATT
300214 TTAA-AATTATATATTTTAAGAG
1 TTAAGAATTATATATTTTAAGAG
300236 TTAAGAATTATATATTTTAAGAG
1 TTAAGAATTATATATTTTAAGAG
300259 TTAAGAATTA
1 TTAAGAATTA
300269 AAATTTAGCG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.12
23 28 0.88
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.44
Consensus pattern (23 bp):
TTAAGAATTATATATTTTAAGAG
Found at i:301519 original size:29 final size:30
Alignment explanation
Indices: 301482--301556 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 30
301472 TTAGCTTAAA
* *
301482 TGTTCACATTTAAATTA-ATTTGATGTCAT
1 TGTTTACATTCAAATTAGATTTGATGTCAT
* *
301511 TGTTTACA-TCAATTTAGTTTTGATGTCAT
1 TGTTTACATTCAAATTAGATTTGATGTCAT
* *
301540 TGCTTACA-TCAATTTAG
1 TGTTTACATTCAAATTAG
301557 TTAGGTGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (30 bp):
TGTTTACATTCAAATTAGATTTGATGTCAT
Found at i:301557 original size:29 final size:29
Alignment explanation
Indices: 301500--301558 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
301490 TTTAAATTAA
*
301500 TTTGATGTCATTGTTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
301529 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
301558 T
1 T
301559 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.51
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:306189 original size:29 final size:29
Alignment explanation
Indices: 306155--306213 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
306145 CCTAAATTAA
306155 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
306184 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
306213 T
1 T
306214 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:316597 original size:23 final size:23
Alignment explanation
Indices: 316562--316605 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
316552 AAATAATATT
** *
316562 TATTTATTTATTTATTTTTATCC
1 TATTTATAAATTTAATTTTATCC
316585 TATTTATAAATTTAATTTTAT
1 TATTTATAAATTTAATTTTAT
316606 AAATTACTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTTATAAATTTAATTTTATCC
Found at i:316762 original size:56 final size:55
Alignment explanation
Indices: 316702--316808 Score: 135
Period size: 56 Copynumber: 1.9 Consensus size: 55
316692 CATTTTCTGA
*
316702 TATTT-TTAAATAAATAAATATTTTACTTTTATAAATTATATTTTTAATAAATGGTT
1 TATTTATT-AATAAATAAATATTTTACTTTTATAAATTATACTTTT-ATAAATGGTT
** ** *
316758 TATTTATTTCTATTTTAATATTTTACTTTTATAAATTATACTTTTATAAAT
1 TATTTATTAATAAATAAATATTTTACTTTTATAAATTATACTTTTATAAAT
316809 AATATTTGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
55 6 0.14
56 36 0.82
57 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (55 bp):
TATTTATTAATAAATAAATATTTTACTTTTATAAATTATACTTTTATAAATGGTT
Found at i:317591 original size:19 final size:20
Alignment explanation
Indices: 317567--317613 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
317557 CGTACGTCTA
317567 ATAATTTTTAA-ATTTTTAT
1 ATAATTTTTAATATTTTTAT
* *
317586 ATAA-TTTAAATATTTTTTT
1 ATAATTTTTAATATTTTTAT
317605 AT-ATTTTTA
1 ATAATTTTTA
317614 TTGATGATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATAATTTTTAATATTTTTAT
Found at i:323664 original size:26 final size:26
Alignment explanation
Indices: 323628--323681 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
323618 GAACGTTGGA
323628 CTGGTTTTTAGAAACCCTTTCTTCTT
1 CTGGTTTTTAGAAACCCTTTCTTCTT
323654 CTGGTTTTTAGAAACCCTTTCTTCTT
1 CTGGTTTTTAGAAACCCTTTCTTCTT
323680 CT
1 CT
323682 TCTTTTCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.15, C:0.24, G:0.11, T:0.50
Consensus pattern (26 bp):
CTGGTTTTTAGAAACCCTTTCTTCTT
Found at i:323687 original size:26 final size:26
Alignment explanation
Indices: 323632--323687 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
323622 GTTGGACTGG
*
323632 TTTTTAGAAACCCTTTCTTCTTCTGG
1 TTTTTAGAAACCCTTTCTTCTTCTGC
*
323658 TTTTTAGAAACCCTTTCTTCTTCTTC
1 TTTTTAGAAACCCTTTCTTCTTCTGC
323684 TTTT
1 TTTT
323688 CACAGACAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.14, C:0.23, G:0.07, T:0.55
Consensus pattern (26 bp):
TTTTTAGAAACCCTTTCTTCTTCTGC
Found at i:324760 original size:15 final size:15
Alignment explanation
Indices: 324742--324775 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
324732 CAATGCCGTT
*
324742 ATCATCATCTTCTTA
1 ATCATCATCATCTTA
*
324757 ATCATCATCATCTTT
1 ATCATCATCATCTTA
324772 ATCA
1 ATCA
324776 GCTTTTTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.44
Consensus pattern (15 bp):
ATCATCATCATCTTA
Found at i:329530 original size:19 final size:19
Alignment explanation
Indices: 329506--329557 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
329496 CATCACTCAA
329506 GGTGCATCGATGCATAAGG
1 GGTGCATCGATGCATAAGG
329525 GGTGCATCGATGCATAAGG
1 GGTGCATCGATGCATAAGG
**
329544 AATGCATCGATGCA
1 GGTGCATCGATGCA
329558 CTCATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (19 bp):
GGTGCATCGATGCATAAGG
Found at i:331061 original size:22 final size:22
Alignment explanation
Indices: 331032--331149 Score: 154
Period size: 22 Copynumber: 5.5 Consensus size: 22
331022 GGGTATATTA
331032 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
331054 GTCATTCGGGAC--AT--AGTG
1 GTCCTTCGGGACGTATCCAGTG
* *
331072 GTCCTTCGGGACGTGTCCAATG
1 GTCCTTCGGGACGTATCCAGTG
* *
331094 GTCCTTCGGGACGTGTCCAATG
1 GTCCTTCGGGACGTATCCAGTG
331116 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
331138 GTCCTTCAGGAC
1 GTCCTTCGGGAC
331150 ATAGTGGTCC
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
18 15 0.18
20 3 0.04
22 67 0.79
ACGTcount: A:0.15, C:0.26, G:0.31, T:0.27
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:331126 original size:44 final size:40
Alignment explanation
Indices: 331032--331166 Score: 162
Period size: 40 Copynumber: 3.3 Consensus size: 40
331022 GGGTATATTA
* *
331032 GTCCTTCGGGACGTATCCAGTGGTCATTCGGGACATAGTG
1 GTCCTTCGGGACGTATCCAGTGGTCCTTCGGGACATAATG
* * *
331072 GTCCTTCGGGACGTGTCCAATGGTCCTTCGGGACGTGTCCAATG
1 GTCCTTCGGGACGTATCCAGTGGTCCTTCGGGAC--AT--AATG
* *
331116 GTCCTTCGGGACGTATCCAGTGGTCCTTCAGGACATAGTG
1 GTCCTTCGGGACGTATCCAGTGGTCCTTCGGGACATAATG
*
331156 GTCCTTTGGGA
1 GTCCTTCGGGA
331167 TGAATACTGA
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
40 44 0.55
42 2 0.03
44 34 0.43
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (40 bp):
GTCCTTCGGGACGTATCCAGTGGTCCTTCGGGACATAATG
Found at i:331158 original size:62 final size:60
Alignment explanation
Indices: 331032--331166 Score: 139
Period size: 62 Copynumber: 2.2 Consensus size: 60
331022 GGGTATATTA
* * *
331032 GTCCTTCGGGACGTATCCAGTGGTCATTCGGGACATAGTGGTCCTTCGGGACGTGTCCAATG
1 GTCCTTCGGGACGTATCCAATGGTCATTCGGGACATAGTGGTCCTTCAGGACG-AT-CAATG
* * *
331094 GTCCTTCGGGACGTGTCCAATGGTCCTTCGGGACGTATCCAGTGGTCCTTCAGGAC-AT-AGTG
1 GTCCTTCGGGACGTATCCAATGGTCATTCGGGAC--AT--AGTGGTCCTTCAGGACGATCAATG
*
331156 GTCCTTTGGGA
1 GTCCTTCGGGA
331167 TGAATACTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
62 44 0.71
64 3 0.05
66 15 0.24
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (60 bp):
GTCCTTCGGGACGTATCCAATGGTCATTCGGGACATAGTGGTCCTTCAGGACGATCAATG
Found at i:336294 original size:22 final size:19
Alignment explanation
Indices: 336269--336362 Score: 102
Period size: 18 Copynumber: 4.7 Consensus size: 19
336259 GGGTATATTA
336269 GTCCTTCGGGACGTATCTAGTG
1 GTCCTTCGGGACG-A--TAGTG
336291 GTCCTTCGGGAC-ATAGTG
1 GTCCTTCGGGACGATAGTG
*
336309 GTCCTTCGGGACGTATCCAGTA
1 GTCCTTCGGGACG-AT--AGTG
336331 GTCCTTCGGGAC-ATAGTG
1 GTCCTTCGGGACGATAGTG
*
336349 GTCATTCGGGACGA
1 GTCCTTCGGGACGA
336363 ATACTGAACA
Statistics
Matches: 64, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
18 31 0.48
19 1 0.02
20 5 0.08
22 27 0.42
ACGTcount: A:0.17, C:0.23, G:0.32, T:0.28
Consensus pattern (19 bp):
GTCCTTCGGGACGATAGTG
Found at i:336324 original size:40 final size:40
Alignment explanation
Indices: 336269--336361 Score: 159
Period size: 40 Copynumber: 2.3 Consensus size: 40
336259 GGGTATATTA
* *
336269 GTCCTTCGGGACGTATCTAGTGGTCCTTCGGGACATAGTG
1 GTCCTTCGGGACGTATCCAGTAGTCCTTCGGGACATAGTG
336309 GTCCTTCGGGACGTATCCAGTAGTCCTTCGGGACATAGTG
1 GTCCTTCGGGACGTATCCAGTAGTCCTTCGGGACATAGTG
*
336349 GTCATTCGGGACG
1 GTCCTTCGGGACG
336362 AATACTGAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (40 bp):
GTCCTTCGGGACGTATCCAGTAGTCCTTCGGGACATAGTG
Found at i:337945 original size:22 final size:22
Alignment explanation
Indices: 337888--337946 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
337878 TTTATTTATT
337888 TATTTATCCATTTTTTTGTCTTTA
1 TATTTAT--ATTTTTTTGTCTTTA
* * *
337912 TCTGTAT-TTTTTATTTTCTTTA
1 TATTTATATTTTT-TTGTCTTTA
337934 TATTTATATTTTT
1 TATTTATATTTTT
337947 CATTTACTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 5 0.18
22 13 0.46
23 5 0.18
24 5 0.18
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.71
Consensus pattern (22 bp):
TATTTATATTTTTTTGTCTTTA
Found at i:339564 original size:22 final size:22
Alignment explanation
Indices: 339507--339581 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 22
339497 TGTGTATATA
*
339507 TATATATTAATTGTTTAGTAGTTT
1 TATAT-TTAATT-TTTAGTATTTT
* *
339531 AAT-TTTTA-TTTTAGTATTTT
1 TATATTTAATTTTTAGTATTTT
*
339551 TATATTTAATTTTTTGTATATTT
1 TATATTTAATTTTTAGTAT-TTT
339574 GTATATTT
1 -TATATTT
339582 TGAATTTTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
20 12 0.29
21 5 0.12
22 11 0.27
23 4 0.10
24 9 0.22
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (22 bp):
TATATTTAATTTTTAGTATTTT
Found at i:340015 original size:25 final size:25
Alignment explanation
Indices: 339987--340091 Score: 104
Period size: 25 Copynumber: 4.0 Consensus size: 25
339977 TTAAATAATG
339987 TAAAAGTGAAAATATCTAAAATTAT
1 TAAAAGTGAAAATATCTAAAATTAT
340012 TAAAAGTGAAAATATCTAAAATTAT
1 TAAAAGTGAAAATATCTAAAATTAT
* ** * *
340037 CATGAGGGTTGACAATTATCATAATAAAT-T
1 --TAAAAG-TGA-AAATATC-TAA-AATTAT
340067 TAAAAGTGAAAATATCTAAAATTAT
1 TAAAAGTGAAAATATCTAAAATTAT
340092 CATAAGGGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
24 3 0.05
25 29 0.46
26 6 0.10
27 6 0.10
28 6 0.10
29 6 0.10
30 4 0.06
31 3 0.05
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.32
Consensus pattern (25 bp):
TAAAAGTGAAAATATCTAAAATTAT
Found at i:340075 original size:55 final size:55
Alignment explanation
Indices: 340011--340126 Score: 223
Period size: 55 Copynumber: 2.1 Consensus size: 55
340001 TCTAAAATTA
*
340011 TTAAAAGTGAAAATATCTAAAATTATCATGAGGGTTGACAATTATCATAATAAAT
1 TTAAAAGTGAAAATATCTAAAATTATCATAAGGGTTGACAATTATCATAATAAAT
340066 TTAAAAGTGAAAATATCTAAAATTATCATAAGGGTTGACAATTATCATAATAAAT
1 TTAAAAGTGAAAATATCTAAAATTATCATAAGGGTTGACAATTATCATAATAAAT
340121 TTAAAA
1 TTAAAA
340127 TTAATGTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (55 bp):
TTAAAAGTGAAAATATCTAAAATTATCATAAGGGTTGACAATTATCATAATAAAT
Found at i:340212 original size:13 final size:13
Alignment explanation
Indices: 340196--340220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
340186 CAATTATCAT
340196 AATAAATTTAAAA
1 AATAAATTTAAAA
340209 AATAAATTTAAA
1 AATAAATTTAAA
340221 TAATGTAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAAATTTAAAA
Found at i:349251 original size:36 final size:37
Alignment explanation
Indices: 349180--349253 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 37
349170 ATTGAAAAAT
**
349180 ATTTATATATTTTCTTTCAAAAAATTAAATTTATAAA
1 ATTTATATATTTTCTTTCAAAAAATTAAAAATATAAA
*
349217 ATTTATATAATTTT-TTT-ACAAAATTAAAAATATAAA
1 ATTTATAT-ATTTTCTTTCAAAAAATTAAAAATATAAA
349253 A
1 A
349254 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 17 0.52
37 11 0.33
38 5 0.15
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (37 bp):
ATTTATATATTTTCTTTCAAAAAATTAAAAATATAAA
Found at i:351072 original size:221 final size:216
Alignment explanation
Indices: 350613--351146 Score: 762
Period size: 221 Copynumber: 2.4 Consensus size: 216
350603 TATAAGGTAA
* * * *
350613 AATTATAT-TTTTTTGGGTCGCTCCGGTTTTTTTCACCCTAAACCCGAACCCGA-CC--T--GAC
1 AATTATATATATTTTCGGTCGGTCCGGGTTTTTTCACCCTAAACCCGAACCCGACCCGATCCGAC
* *
350672 TCGAATATCACAC-TTAAAAAACCTGACCCGACCCGAACAAAATAAAGTTTCATCCGACCTGAAT
66 CCGAATATCACACTTTAAAAAACC-GACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGAAT
*
350736 ATATGAATTAGAAATCCGACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATATAA
130 ATATGAATTAGAAAT----CCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAA
350801 ACAGTAACTTAATCCGACCCGACCCG
191 ACAGTAACTTAATCCGACCCGACCCG
*
350827 AATTATATATATTTTCGAGTCGGTCCGGGTTTTTTCACCCTAAACCCAAACCCGACCCGATCCGA
1 AATTATATATATTTTCG-GTCGGTCCGGGTTTTTTCACCCTAAACCCGAACCCGACCCGATCCGA
*
350892 CCCGAATATCACACTTTAAAAATCCGACCCGACCCGAACAAAATAAAGTTTCATCCGATCCGACC
65 CCCGAATATCACACTTTAAAAAACCGACCCGACCCGAACAAAATAAAG-TT--T-C-ATCCGACC
350957 CGAATATATGAATTAGAAAT-CCGACCCGACCCGAAATAATAAAAAAAATATTTTTATTTAATAA
125 CGAATATATGAATTAGAAATCCCGACCCGACCCGAAATAAT-AAAAAAATATTTTTATTTAATAA
*
351021 AAACAGTGACTTAATCCGACCCGACCCG
189 AAACAGTAACTTAATCCGACCCGACCCG
* *
351049 AATTATATATATTTTCGGTCGGTCC-GGTTTTTTCCACCCTAAACCCGAACCCGACTCGATCCAA
1 AATTATATATATTTTCGGTCGGTCCGGGTTTTTT-CACCCTAAACCCGAACCCGACCCGATCCGA
*
351113 CCCGAATATCACACTTAAAAAAACCCGACCCGAC
65 CCCGAATATCACACTTTAAAAAA-CCGACCCGAC
351147 TCTACCCGAA
Statistics
Matches: 289, Mismatches: 15, Indels: 24
0.88 0.05 0.07
Matches are distributed among these distances:
214 8 0.03
215 6 0.02
216 34 0.12
217 2 0.01
219 1 0.00
220 8 0.03
221 114 0.39
222 87 0.30
224 1 0.00
225 1 0.00
226 27 0.09
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (216 bp):
AATTATATATATTTTCGGTCGGTCCGGGTTTTTTCACCCTAAACCCGAACCCGACCCGATCCGAC
CCGAATATCACACTTTAAAAAACCGACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGAATA
TATGAATTAGAAATCCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGT
AACTTAATCCGACCCGACCCG
Found at i:351180 original size:37 final size:38
Alignment explanation
Indices: 351112--351183 Score: 137
Period size: 37 Copynumber: 1.9 Consensus size: 38
351102 ACTCGATCCA
351112 ACCCGAATATCACACTTAAAAAAACCCGACCCGACTCT
1 ACCCGAATATCACACTTAAAAAAACCCGACCCGACTCT
351150 ACCCGAATATCACACTT-AAAAAACCCGACCCGAC
1 ACCCGAATATCACACTTAAAAAAACCCGACCCGAC
351184 CCGAACAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 17 0.50
38 17 0.50
ACGTcount: A:0.40, C:0.38, G:0.08, T:0.14
Consensus pattern (38 bp):
ACCCGAATATCACACTTAAAAAAACCCGACCCGACTCT
Found at i:351180 original size:259 final size:254
Alignment explanation
Indices: 350874--351413 Score: 897
Period size: 259 Copynumber: 2.1 Consensus size: 254
350864 CCCTAAACCC
* * *
350874 AAACCCGACCCGA-TCCGACCCGAATATCACACTTTAAAAATCCGACCCGACCCGAACAAAATAA
1 AAACCCGACCCGACT-CTACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAA
*
350938 AGTTTCATCCGATCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGAAATAATAAAAAA
65 AGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGAAATAAT-AAAAA
*
351003 AATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTC-GG
129 AATATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGG
*
351067 TCGGTCCGGTTTTTTCCACCCTAAACCCGAACCCGACTCGATCCAACCCGAATATCACACTTAAA
194 TCGGTCCGGTTTTTTCCACCCTAAACCCG-A----ACTCGACCCAACCCGAATATCACACTTAAA
351132 A
254 A
351133 AAACCCGACCCGACTCTACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAA
1 AAACCCGACCCGACTCTACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAA
*
351198 GTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGAAATAATAAAAAAT
66 GTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGAAATAATAAAAAAA
351263 TATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTC
131 TATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTC
* *
351328 GGTCCGGTTTTTTTCACCCTAAACCCGAACTCGACCCGACCCGAATATCACACTTAAAA
196 GGTCCGGTTTTTTCCACCCTAAACCCGAACTCGACCCAACCCGAATATCACACTTAAAA
*
351387 AAACCCGATCCGAC-CTGACCCGAATAT
1 AAACCCGACCCGACTCT-ACCCGAATAT
351414 ATGAATTAGA
Statistics
Matches: 268, Mismatches: 10, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
253 2 0.01
254 52 0.19
258 66 0.25
259 147 0.55
260 1 0.00
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.22
Consensus pattern (254 bp):
AAACCCGACCCGACTCTACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAA
GTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGAAATAATAAAAAAA
TATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTC
GGTCCGGTTTTTTCCACCCTAAACCCGAACTCGACCCAACCCGAATATCACACTTAAAA
Found at i:353218 original size:21 final size:21
Alignment explanation
Indices: 353192--353405 Score: 328
Period size: 21 Copynumber: 10.2 Consensus size: 21
353182 GATTCGTAAC
353192 GCGAACTTCGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
353213 GCGAACTTCGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
353234 GCGAACTTCGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
353255 GCGAACTTGGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
353276 GCGAACTTGGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
353297 GCGAACTTAGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
353318 GCGAA-TAT-GTA-AATCGCAAT
1 GCGAACT-TCG-ACTATCGCAAT
*
353338 GCGATA-GTCGACTATCGCAAT
1 GCGA-ACTTCGACTATCGCAAT
353359 GCGAACTTCGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
353380 GCGAACTTCGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
353401 GCGAA
1 GCGAA
353406 TATGTAAATC
Statistics
Matches: 181, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
20 17 0.09
21 164 0.91
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (21 bp):
GCGAACTTCGACTATCGCAAT
Found at i:353439 original size:41 final size:41
Alignment explanation
Indices: 353205--353472 Score: 216
Period size: 42 Copynumber: 6.5 Consensus size: 41
353195 AACTTCGACT
* *
353205 ATCGCAATGCGA-ACTTCGACTATCGCAATGCGAACTTCG-ACT
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAA-TT-GTACA
* * * *
353247 ATCGCAATGCGA-ACTTGGACTATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAA-TTGTACA
* *
353289 ATCGCAATGCGA-ACTTAGACTATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAAT-TGTACA
*
353330 ATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTCG-ACT
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAA-TT-GTACA
*
353372 ATCGCAATGCGA-ACTTCGACTATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAAT-TGTACA
* *
353413 ATCGCAATGCGATAGTCGAAGT-TCGCATTGCG-ATT-TACA
1 ATCGCAATGCGATAGTCG-ACTATCGCAATGCGAATTGTACA
*
353452 TATTCGCATTGCGATAGTCGA
1 -A-TCGCAATGCGATAGTCGA
353473 AGTTCGCGTT
Statistics
Matches: 199, Mismatches: 13, Indels: 30
0.82 0.05 0.12
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 4 0.02
41 77 0.39
42 114 0.57
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (41 bp):
ATCGCAATGCGATAGTCGACTATCGCAATGCGAATTGTACA
Found at i:353439 original size:104 final size:105
Alignment explanation
Indices: 353192--353405 Score: 310
Period size: 104 Copynumber: 2.0 Consensus size: 105
353182 GATTCGTAAC
* * * *
353192 GCGAACTTCGACTATCGCAATGCGAACT-TCG-ACTATCGCAATGCGA-ACTTCGACTATCGCAA
1 GCGAACTTAGACAATCGCAATGCGAA-TAT-GTA-AATCGCAATGCGATACGTCGACTATCGCAA
* *
353254 TGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAAT
63 TGCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAAT
*
353297 GCGAACTTAGACTATCGCAATGCGAATATGTAAATCGCAATGCGATA-GTCGACTATCGCAATGC
1 GCGAACTTAGACAATCGCAATGCGAATATGTAAATCGCAATGCGATACGTCGACTATCGCAATGC
353361 GAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAAT
66 GAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAAT
353401 GCGAA
1 GCGAA
353406 TATGTAAATC
Statistics
Matches: 101, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
104 73 0.72
105 28 0.28
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (105 bp):
GCGAACTTAGACAATCGCAATGCGAATATGTAAATCGCAATGCGATACGTCGACTATCGCAATGC
GAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAAT
Found at i:353444 original size:21 final size:21
Alignment explanation
Indices: 353414--353487 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
353404 AATATGTAAA
*
353414 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
353435 TCGCATTGCGAT-TTAC-ATA-T
1 TCGCATTGCGATAGT-CGA-AGT
353455 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
353476 TCGCGTTGCGAT
1 TCGCATTGCGAT
353488 TTATTCCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:353445 original size:83 final size:83
Alignment explanation
Indices: 353192--353431 Score: 378
Period size: 83 Copynumber: 2.9 Consensus size: 83
353182 GATTCGTAAC
*
353192 GCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAACT-TCG-ACTATCGCAAT
1 GCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAA-TAT-GTA-AATCGCAAT
* *
353255 GCGA-ACTTGGACTATCGCAAT
63 GCGATA-GTCGACTATCGCAAT
* *
353276 GCGAACTTGGACTATCGCAATGCGAACTTAGACTATCGCAATGCGAATATGTAAATCGCAATGCG
1 GCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCG
353341 ATAGTCGACTATCGCAAT
66 ATAGTCGACTATCGCAAT
353359 GCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCG
1 GCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCG
353424 ATAGTCGA
66 ATAGTCGA
353432 AGTTCGCATT
Statistics
Matches: 146, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
83 98 0.67
84 48 0.33
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (83 bp):
GCGAACTTCGACTATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCG
ATAGTCGACTATCGCAAT
Found at i:353597 original size:6 final size:6
Alignment explanation
Indices: 353586--353618 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
353576 GACACGTATT
353586 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
353619 CGAGACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:354554 original size:42 final size:42
Alignment explanation
Indices: 354488--354578 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
354478 TGCGATTTTG
* * *
354488 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTGAGAATAAATCACAACACGAACTTC
*
354530 GACTATCGCAACGAACTTGA-AATAAATCACAACACGAACTTG
1 GACTATCGCAACGAA-TTGAGAATAAATCACAACACGAACTTC
354572 GACTATC
1 GACTATC
354579 ACAATGCGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 41 0.93
43 3 0.07
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAATTGAGAATAAATCACAACACGAACTTC
Found at i:361027 original size:2 final size:2
Alignment explanation
Indices: 361020--361047 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
361010 TTAAATGTGA
361020 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
361048 CAATTATTTT
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:362017 original size:2 final size:2
Alignment explanation
Indices: 362010--362041 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
362000 ATTACAGCCT
362010 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
362042 CAACAAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:366553 original size:19 final size:18
Alignment explanation
Indices: 366526--366564 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
366516 GCTAAGGAAT
* *
366526 AAATTTTTAATATTTTTTA
1 AAATATTTAA-ATTTATTA
366545 AAATATTTAAATTTATTA
1 AAATATTTAAATTTATTA
366563 AA
1 AA
366565 TTTAAAGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATATTTAAATTTATTA
Found at i:368813 original size:2 final size:2
Alignment explanation
Indices: 368808--368835 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
368798 TGTGTGTAGA
368808 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
368836 GTAATAAAGT
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:368874 original size:16 final size:16
Alignment explanation
Indices: 368853--368915 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 16
368843 AGTAAAAATA
368853 ATAAAAATATATACAT
1 ATAAAAATATATACAT
*
368869 AT-AAAATAT-TAGAT
1 ATAAAAATATATACAT
*
368883 A-AAAAAAATAATA-AT
1 ATAAAAATAT-ATACAT
*
368898 AAAATAAATATATACAT
1 ATAA-AAATATATACAT
368915 A
1 A
368916 CTAACTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
14 11 0.29
15 10 0.26
16 9 0.24
17 8 0.21
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (16 bp):
ATAAAAATATATACAT
Found at i:370911 original size:211 final size:210
Alignment explanation
Indices: 370617--371289 Score: 1123
Period size: 211 Copynumber: 3.2 Consensus size: 210
370607 GTATTGTTCC
* *** * * * * *
370617 GAGTCCAATATCCTCCACCGTGGAGTTGAAATTGGTTCTGGAA-CTGGGAAATTGTTTCTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAATTTGAGAAA-TGTTTGTTGACA
* *
370681 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATGTCCTTCGTTGTGA
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
* * * * *
370746 AGTTGAAATTGGCTCCGAAATTGAGAAGTTGCTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
129 AGTTGAAATTGGCTCTGAATTTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
*
370811 TTGAACTTGCGTTGTCTA
193 TTGAACTTGCGTTGTCTG
*
370829 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATATTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
370894 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTTGTGAA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG-TTGTGAA
370959 GTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
130 GTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
371024 GAACTTGCGTTGTCTG
195 GAACTTGCGTTGTCTG
371040 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
* *
371105 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTCGTCTGGAGTCCAATATCCTTTGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
371170 TTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
131 TTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
371235 AACTTGCGTTGTCTG
196 AACTTGCGTTGTCTG
371250 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
371290 GGTAAATCCT
Statistics
Matches: 438, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
210 128 0.29
211 240 0.55
212 70 0.16
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (210 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTG
Found at i:370938 original size:105 final size:105
Alignment explanation
Indices: 370617--371289 Score: 1123
Period size: 105 Copynumber: 6.4 Consensus size: 105
370607 GTATTGTTCC
* *** * * * * *
370617 GAGTCCAATATCCTCCACCGTGGAGTTGAAATTGGTTCTGGAA-CTGGGAAATTGTTTCTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAATTTGAGAAA-TGTTTGTTGACA
*
370681 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
370723 GAGTCCAATGTCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAGTTGCTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAA-ATGTTTGTTGACAA
*
370788 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
370829 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATATTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
370894 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
370934 GAGTCCAATATCCTTCGTTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAA
1 GAGTCCAATATCCTTCG-TTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAA
370999 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
371040 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
*
371105 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTCGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
371145 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
371210 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
371250 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
371290 GGTAAATCCT
Statistics
Matches: 536, Mismatches: 28, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
105 299 0.56
106 237 0.44
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:371513 original size:1 final size:1
Alignment explanation
Indices: 371507--371537 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
371497 CACATTCTGG
371507 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
371538 GGAAATGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:372155 original size:58 final size:58
Alignment explanation
Indices: 372067--372177 Score: 177
Period size: 58 Copynumber: 1.9 Consensus size: 58
372057 TTTTCTCTTC
* *
372067 TTTTTTCTTTTTCTTTTTTCAATTTAGGACGCCCTTTCGGGTTTTCACCCTAAACGTT
1 TTTTTTCTTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGTT
* * *
372125 TTTTTTTTTTTTTTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTTCTTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
372178 GCGAAATATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.14, C:0.22, G:0.12, T:0.53
Consensus pattern (58 bp):
TTTTTTCTTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGTT
Found at i:382689 original size:42 final size:41
Alignment explanation
Indices: 382641--382735 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 41
382631 TAGAATATAT
*
382641 ATATATATATATATAATATGTA-ATAAAGTAAAAATAATAA-AA
1 ATATATATATATAAAATAT-TAGATAAA--AAAAATAATAATAA
*
382683 ATATATACATATAAAATATTAGATAAAAAAAATAATAATAA
1 ATATATATATATAAAATATTAGATAAAAAAAATAATAATAA
*
382724 A-ATAAATATATA
1 ATATATATATATA
382736 CATACTAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
40 20 0.43
41 5 0.11
42 22 0.47
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (41 bp):
ATATATATATATAAAATATTAGATAAAAAAAATAATAATAA
Found at i:382698 original size:16 final size:16
Alignment explanation
Indices: 382677--382739 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 16
382667 AGTAAAAATA
382677 ATAAAAATATATACAT
1 ATAAAAATATATACAT
*
382693 AT-AAAATAT-TAGAT
1 ATAAAAATATATACAT
*
382707 A-AAAAAAATAATA-AT
1 ATAAAAATAT-ATACAT
*
382722 AAAATAAATATATACAT
1 ATAA-AAATATATACAT
382739 A
1 A
382740 CTAACTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
14 11 0.29
15 10 0.26
16 9 0.24
17 8 0.21
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (16 bp):
ATAAAAATATATACAT
Found at i:392230 original size:29 final size:32
Alignment explanation
Indices: 392198--392270 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 32
392188 TAAACAAAGA
* * *
392198 TTAAATTATTAGATTATTTTAAA-TTT-AA-A
1 TTAAATTATTAAATTATATAAAATTTTAAAGA
*
392227 TTAAATTAATAAATTATATAAAATTTTAAAGA
1 TTAAATTATTAAATTATATAAAATTTTAAAGA
392259 TTAAAATTATTA
1 TT-AAATTATTA
392271 TTACATCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 19 0.54
30 3 0.09
31 2 0.06
32 3 0.09
33 8 0.23
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (32 bp):
TTAAATTATTAAATTATATAAAATTTTAAAGA
Found at i:394954 original size:37 final size:37
Alignment explanation
Indices: 394904--394977 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
394894 CACCCGCCTC
*
394904 CCCGCCCTCCTCTAGATCTATCCCTAAATCCTGATTA
1 CCCGCCCTCCTCTAGATCTATCCCTAAATCCAGATTA
*
394941 CCCGCCCTCCTCTAGATCTATTCCTAAATCCAGATTA
1 CCCGCCCTCCTCTAGATCTATCCCTAAATCCAGATTA
394978 ACCAAGATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.39, G:0.08, T:0.30
Consensus pattern (37 bp):
CCCGCCCTCCTCTAGATCTATCCCTAAATCCAGATTA
Found at i:395540 original size:25 final size:22
Alignment explanation
Indices: 395510--395570 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 22
395500 ATTGTAAAAT
395510 AAAAATAAATATGAAAAACGAATTA
1 AAAAATAAATAT-AAAAAC-AA-TA
*
395535 AAAAATATTAATATAATAACAATA
1 AAAAATA--AATATAAAAACAATA
395559 ATAAAATAAATA
1 A-AAAATAAATA
395571 AAGTAGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
23 4 0.12
24 3 0.09
25 15 0.47
26 5 0.16
27 5 0.16
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAATAAATATAAAAACAATA
Found at i:396387 original size:12 final size:12
Alignment explanation
Indices: 396372--396405 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
396362 TTTAGGCTTG
396372 GCCTGTTTAAAA
1 GCCTGTTTAAAA
*
396384 GCCTATTTAAAA
1 GCCTGTTTAAAA
396396 GCCTGTTTAA
1 GCCTGTTTAA
396406 CAATAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (12 bp):
GCCTGTTTAAAA
Found at i:396596 original size:41 final size:41
Alignment explanation
Indices: 396551--396656 Score: 212
Period size: 41 Copynumber: 2.6 Consensus size: 41
396541 ATGCCTAAGT
396551 CTGGCCTGTTTAGTTAAATAGGCCTTTAAAAAGGCCTGGGC
1 CTGGCCTGTTTAGTTAAATAGGCCTTTAAAAAGGCCTGGGC
396592 CTGGCCTGTTTAGTTAAATAGGCCTTTAAAAAGGCCTGGGC
1 CTGGCCTGTTTAGTTAAATAGGCCTTTAAAAAGGCCTGGGC
396633 CTGGCCTGTTTAGTTAAATAGGCC
1 CTGGCCTGTTTAGTTAAATAGGCC
396657 AGGCCAGGCC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (41 bp):
CTGGCCTGTTTAGTTAAATAGGCCTTTAAAAAGGCCTGGGC
Found at i:397240 original size:8 final size:8
Alignment explanation
Indices: 397207--397274 Score: 64
Period size: 8 Copynumber: 8.1 Consensus size: 8
397197 AGGCATGCAA
397207 AAAATAATT
1 AAAATAA-T
*
397216 ATAATATAT
1 AAAATA-AT
*
397225 AAATTAAT
1 AAAATAAT
397233 AAAATAAT
1 AAAATAAT
397241 AATAATAAT
1 AA-AATAAT
*
397250 AATATAAT
1 AAAATAAT
*
397258 ATAATAAT
1 AAAATAAT
*
397266 AATATAAT
1 AAAATAAT
397274 A
1 A
397275 TAATGTTTTC
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
8 29 0.60
9 18 0.38
10 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAATAAT
Found at i:397243 original size:3 final size:3
Alignment explanation
Indices: 397209--397278 Score: 71
Period size: 3 Copynumber: 25.0 Consensus size: 3
397199 GCATGCAAAA
* *
397209 AAT AAT TAT AAT ATAT AA- ATT AAT AA- AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
397253 -AT AAT -AT AAT AAT AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
397279 GTTTTCGTAG
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
2 11 0.20
3 42 0.75
4 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:397245 original size:11 final size:11
Alignment explanation
Indices: 397229--397274 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
397219 ATATATAAAT
397229 TAATAAAATAA
1 TAATAAAATAA
397240 TAATAATAATAA
1 TAATAA-AATAA
*
397252 T-ATAATATAA
1 TAATAAAATAA
*
397262 TAATAATATAA
1 TAATAAAATAA
397273 TA
1 TA
397275 TAATGTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 5 0.16
11 21 0.66
12 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:397261 original size:16 final size:16
Alignment explanation
Indices: 397210--397278 Score: 88
Period size: 16 Copynumber: 4.3 Consensus size: 16
397200 CATGCAAAAA
*
397210 ATAATTATAATAT-AT
1 ATAATAATAATATAAT
*
397225 A-AATTAATAAAATAAT
1 ATAA-TAATAATATAAT
397241 AATAATAATAATATAAT
1 -ATAATAATAATATAAT
397258 ATAATAATAATATAAT
1 ATAATAATAATATAAT
397274 ATAAT
1 ATAAT
397279 GTTTTCGTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
14 2 0.04
15 8 0.17
16 23 0.49
17 12 0.26
18 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATAATAATATAAT
Found at i:397530 original size:34 final size:34
Alignment explanation
Indices: 397447--397539 Score: 102
Period size: 32 Copynumber: 2.8 Consensus size: 34
397437 CATTAGGCAC
397447 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATG
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATG
* * * ** *
397481 GCT-T-ATTCGTTGTGAAGTTGAGCT-TTGAATTG
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGAA-TG
397513 GATATCCTTCGTCGTGAAGTTGAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
397540 CAATCTAAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
31 4 0.09
32 20 0.45
33 2 0.05
34 18 0.41
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.37
Consensus pattern (34 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGAATG
Found at i:397663 original size:124 final size:124
Alignment explanation
Indices: 397443--398548 Score: 1591
Period size: 124 Copynumber: 8.9 Consensus size: 124
397433 AATCCATTAG
* * ** *
397443 GCACGATAT-CCTTCGTCGTGAAGTTGAAATCGTGAATGGCTTATTCGTTGTGAAGTTGAGCTTT
1 GCACGAT-TCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTT
*
397507 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAA-AGTGAATGTTGTTGGTGA
65 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGA-TGAATGTTGCTGGTGA
*
397567 GCACGATTCCCTTCGTCGTGAAGTTGAAACAGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTG
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTG
*
397632 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTGA
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGA
* * *
397691 GCACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCTTTG
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTG
* ** * * ** *
397756 AATTGGATATCCTTCGTCGTGAAGTTGAAAT-C---CGAGGGTTGCATTGCTT-CTTATGG
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATG-AATG-TTGCTGGTGA
* * * *
397812 GCACGATAT-CCTTCGTCGTGAAGTTGAAATCATGGATGACTCATTCGTTGTGAAGTTGAGCCTT
1 GCACGAT-TCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTT
*
397876 GAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGA
65 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGA
* * *
397936 GCACGATTCCCTTCGTCGTGAAGCTGAAACCGTGGATGGCCTATTCGTTGTGAAGTTAAGCCTTG
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTG
* * *
398001 AATTGGATATCATTCGTCGTAAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGAGA
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGA
* * * * * * *
398060 GCACGATTCTCTTCGTCGTAAAGTTGAAACCGTAGACGACCCCTTCGTTATGAAGTTGAGCCTTG
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTG
* * *
398125 AATTGGATATACTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTGA
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGA
*
398184 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATAGCCCATTCGTTGTGAAGTTGAGCCTTG
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTG
* * * *
398249 AATTGGATATCTTTCGTCGTGAAGTTAAAATTCAATCTAAAGATAAATGTTGCTGGTGA
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGA
* * * * *
398308 GCACGATTCCCTTCGTCGTGAAGTTGAAATCATGGATGGTCCTTTCGTTGTGAAATTGAGCCTTG
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTG
* *
398373 AATTGGATATCCTTCGTCGTGAAGTTGAAATACAATCTAAAGATAAATGTTGCTGGTGA
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGA
* * *
398432 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCATTGTGAAGTTGAGCCTTG
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTG
*
398497 AATTGAATATCC-TCTGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTG
66 AATTGGATATCCTTC-GTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTG
398549 TTTCGAGTCC
Statistics
Matches: 872, Mismatches: 98, Indels: 24
0.88 0.10 0.02
Matches are distributed among these distances:
120 5 0.01
121 92 0.11
122 4 0.00
123 7 0.01
124 758 0.87
125 6 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (124 bp):
GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTG
AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGA
Found at i:398128 original size:369 final size:368
Alignment explanation
Indices: 397442--398529 Score: 1612
Period size: 369 Copynumber: 2.9 Consensus size: 368
397432 CAATCCATTA
* * * *
397442 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCTTATTCGTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACTCATTCGTTGTGAAGTTGAGCCTT
*
397507 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAA-AGTGAATGTTGTTGGTGAGCAC
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGA-TGAATGTTGCTGGTGAGCAC
* *
397571 GATTCCCTTCGTCGTGAAGTTGAAACAGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATT
130 GATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCTATTCGTTGTGAAGTTGAGCCTTGAATT
*
397636 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTGAGCACGATTCC
195 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTCC
* * *
397701 CTTCATCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATAT
260 CTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATAT
** * * * *
397766 CCTTCGTCGTGAAGTTGAAATCCGAGGGTTGCAT-TGCTTCTTATG
325 CCTTCGTCGTGAAGTTGAAATCCGAAAGATGAATAT--TGCTGATG
*
397811 GGCACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGACTCATTCGTTGTGAAGTTGAGCCTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACTCATTCGTTGTGAAGTTGAGCCTT
*
397876 GAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACG
* *
397941 ATTCCCTTCGTCGTGAAGCTGAAACCGTGGATGGCCTATTCGTTGTGAAGTTAAGCCTTGAATTG
131 ATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCTATTCGTTGTGAAGTTGAGCCTTGAATTG
* * * *
398006 GATATCATTCGTCGTAAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGAGAGCACGATTCTC
196 GATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTCCC
* * * * *
398071 TTCGTCGTAAAGTTGAAACCGTAGACGACCCCTTCGTTATGAAGTTGAGCCTTGAATTGGATATA
261 TTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATC
* * *
398136 CTTCGTCATGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTG
326 CTTCGTCGTGAAGTTGAAAT-C---CGAAAGATGAATATTGCTGATG
* * *
398183 AGCACGAT-TCCCTTCGTCGTGAAGTTGAAACCGTGGAT-AGCCCATTCGTTGTGAAGTTGAGCC
1 GGCACGATAT-CCTTCGTCGTGAAGTTGAAATCGTGGATGA-CTCATTCGTTGTGAAGTTGAGCC
* * * *
398246 TTGAATTGGATATCTTTCGTCGTGAAGTTAAAATTCAATCTAAAGATAAATGTTGCTGGTGAGCA
64 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCA
* * *
398311 CGATTCCCTTCGTCGTGAAGTTGAAATCATGGATGGTCCT-TTCGTTGTGAAATTGAGCCTTGAA
129 CGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGG-CCTATTCGTTGTGAAGTTGAGCCTTGAA
* *
398375 TTGGATATCCTTCGTCGTGAAGTTGAAATACAATCTAAAGATAAATGTTGCTGGTGAGCACGATT
193 TTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATT
* *
398440 CCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCATTGTGAAGTTGAGCCTTGAATTGAAT
258 CCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGAT
398505 ATCC-TCTGTCGTGAAGTTGAAATCC
323 ATCCTTC-GTCGTGAAGTTGAAATCC
398530 AATCTAAAGA
Statistics
Matches: 648, Mismatches: 61, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
368 1 0.00
369 318 0.49
370 2 0.00
371 5 0.01
372 311 0.48
373 10 0.02
374 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (368 bp):
GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACTCATTCGTTGTGAAGTTGAGCCTT
GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACG
ATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCTATTCGTTGTGAAGTTGAGCCTTGAATTG
GATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTCCC
TTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATC
CTTCGTCGTGAAGTTGAAATCCGAAAGATGAATATTGCTGATG
Found at i:401485 original size:16 final size:16
Alignment explanation
Indices: 401464--401507 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
401454 ATAAAAAAGC
401464 CTACCCCACATGATAT
1 CTACCCCACATGATAT
401480 CTACCCCACATGATAT
1 CTACCCCACATGATAT
401496 CTACCCCACATG
1 CTACCCCACATG
401508 CTTATTATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.30, C:0.41, G:0.07, T:0.23
Consensus pattern (16 bp):
CTACCCCACATGATAT
Found at i:402528 original size:25 final size:25
Alignment explanation
Indices: 402461--402531 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
402451 GATTGTAAAT
* *
402461 AAAAATAAATATGAAAAAAGAATTA
1 AAAAATAAATATTAAATAAGAATTA
*
402486 AAAAATATTAATA-T-AATAATAA-TA
1 AAAAATA--AATATTAAATAAGAATTA
402510 ATAAAATAAATATTAAATAAGA
1 A-AAAATAAATATTAAATAAGA
402532 TTGAGTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
23 4 0.11
24 4 0.11
25 25 0.68
27 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (25 bp):
AAAAATAAATATTAAATAAGAATTA
Found at i:403663 original size:8 final size:8
Alignment explanation
Indices: 403634--403689 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
403624 GGCCTGCAAA
403634 AAAATAATT
1 AAAATAA-T
*
403643 ATAATATAT
1 AAAATA-AT
403652 AAAATAAT
1 AAAATAAT
403660 AAAATAA-
1 AAAATAAT
403667 AATAATAAT
1 AA-AATAAT
*
403676 AATATAAT
1 AAAATAAT
*
403684 ATAATA
1 AAAATA
403690 TTTTCATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 2 0.05
8 23 0.59
9 13 0.33
10 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAATAAT
Found at i:403666 original size:13 final size:14
Alignment explanation
Indices: 403643--403689 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
403633 AAAAATAATT
403643 ATAATATATAAAATA
1 ATAATA-ATAAAATA
403658 ATAA-AATAAAATA
1 ATAATAATAAAATA
*
403671 ATAATAATATAAT-
1 ATAATAATAAAATA
403684 ATAATA
1 ATAATA
403690 TTTTCATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 18 0.60
14 8 0.27
15 4 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAATAAAATA
Found at i:403673 original size:3 final size:3
Alignment explanation
Indices: 403636--403689 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
403626 CCTGCAAAAA
*
403636 AAT AAT TAT AAT ATAT AA- AAT AAT AA- AAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
403679 -AT AAT -AT AAT A
1 AAT AAT AAT AAT A
403690 TTTTCATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
2 10 0.23
3 30 0.70
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:403731 original size:2 final size:2
Alignment explanation
Indices: 403724--403748 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
403714 AGTCTCTACA
403724 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
403749 ATTAAACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:403830 original size:3 final size:3
Alignment explanation
Indices: 403822--403853 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
403812 TCCAACGCAT
403822 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
403854 TCATCATCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:404979 original size:3 final size:3
Alignment explanation
Indices: 404973--404999 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
404963 TGTCATGATG
404973 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
405000 GCCTGCAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:410577 original size:2 final size:2
Alignment explanation
Indices: 410570--410607 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
410560 CAGAAAATCA
410570 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
410608 GCTTAAATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:422461 original size:19 final size:19
Alignment explanation
Indices: 422407--422461 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
422397 AACCAATAAT
422407 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
422426 GATTAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
422445 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
422462 GAAGATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 18 0.62
20 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.25
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:422624 original size:22 final size:21
Alignment explanation
Indices: 422545--422678 Score: 74
Period size: 22 Copynumber: 6.0 Consensus size: 21
422535 CAAAGAAACT
*
422545 AAAA-ATATA-ATGAAAATAA
1 AAAATATATATATAAAAATAA
*
422564 ATAAATAGTATAAATAAAATAATAA
1 A-AAATA-TATATAT-AAA-AATAA
422589 AAAATATATATATAAAAATATA
1 AAAATATATATATAAAAATA-A
* *
422611 AAAATGTATGTATAATATAATAA
1 AAAATATATATATAA-A-AATAA
* *
422634 AATAATAAATAGTAATAATAATAA
1 AA-AATATATA-T-ATAAAAATAA
* * *
422658 TAAATAAATAAATAATAAATA
1 AAAATATATATATAA-AAATA
422679 TACATATAAT
Statistics
Matches: 91, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
19 1 0.01
20 3 0.03
21 9 0.10
22 25 0.27
23 20 0.22
24 22 0.24
25 7 0.08
26 4 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATATATATATAAAAATAA
Found at i:422640 original size:3 final size:3
Alignment explanation
Indices: 422622--422712 Score: 50
Period size: 3 Copynumber: 30.0 Consensus size: 3
422612 AAATGTATGT
*
422622 ATA AT- ATA ATA A-A ATA ATAA ATA GTA ATA ATA ATA ATAA ATAA ATAA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT-A AT-A AT-A
* *
422669 ATA ATA A-A TATA CAT- ATA ATA TTA ACTA A-A A-A ATA GTA ATA ATA
1 ATA ATA ATA -ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
422713 GAAATATAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
2 11 0.15
3 41 0.57
4 20 0.28
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:422779 original size:14 final size:14
Alignment explanation
Indices: 422760--422811 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 14
422750 TAATGTTAGG
422760 AAAATATAGTAAAA
1 AAAATATAGTAAAA
422774 AAAATATAGTAAATA
1 AAAATATAGTAAA-A
*
422789 AGTAAACATAGATAAAA
1 A--AAATATAG-TAAAA
422806 AAAATA
1 AAAATA
422812 ATAATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 13 0.41
15 6 0.19
17 9 0.28
18 4 0.12
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (14 bp):
AAAATATAGTAAAA
Found at i:423383 original size:37 final size:37
Alignment explanation
Indices: 423342--423433 Score: 103
Period size: 37 Copynumber: 2.5 Consensus size: 37
423332 ATGCTTGTGG
** *
423342 ATCCTATCTTTAGGAGTTCAAATAATAGTAGAACTCT
1 ATCCTATCTTTAGGAGTTCAAATAATAACAAAACTCT
* ** ** *
423379 ATCCTATTTTTAGGAGTTTGAATCCTAACAAAATTCT
1 ATCCTATCTTTAGGAGTTCAAATAATAACAAAACTCT
423416 ATCCTATCTTTAGGAGTT
1 ATCCTATCTTTAGGAGTT
423434 TGAATCCTAG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (37 bp):
ATCCTATCTTTAGGAGTTCAAATAATAACAAAACTCT
Found at i:424377 original size:106 final size:106
Alignment explanation
Indices: 424196--425330 Score: 1777
Period size: 106 Copynumber: 10.7 Consensus size: 106
424186 GCATTGTTTC
* * * * * *
424196 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
* * * *
424261 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTTTC
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
424302 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAGTTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
*
424367 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
424408 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGATAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
* *
424473 TCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
424514 GAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
424579 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
424620 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAACTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
*
424685 CCAGCTGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** *
424726 GAGTCCAATATCTTTCACTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
* * *
424791 CCATCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
424832 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
*
424897 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
424938 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
*
425003 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
425044 GAGTCCAGTATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
* *
425109 CCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
425150 GAGTCCAATATTCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
425215 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
425256 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
425321 CCAGCGGTCC
66 CCAGCGGTCC
425331 TTGCGTTGTC
Statistics
Matches: 956, Mismatches: 72, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
105 1 0.00
106 955 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:424571 original size:212 final size:212
Alignment explanation
Indices: 424196--426192 Score: 2931
Period size: 212 Copynumber: 9.5 Consensus size: 212
424186 GCATTGTTTC
* * * * *
424196 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * * * *
424261 CCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTTTCGAGTCCAATATCCTTTGTTGTGAA
66 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* * *
424326 GTTGAAATTGGCTCCGAAGTTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
424391 TGAACTTGCGTTGTCTC
196 TGAACTTGCGTTGTCTG
* *
424408 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGATAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
424473 TCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTGTGAA
66 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
*
424538 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
424603 TGAACTTGCGTTGTCTG
196 TGAACTTGCGTTGTCTG
* *
424620 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAACTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
424685 CCAGCT-GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCTTTCACTGTGA
66 CCAG-TGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
* * * * *
424749 AGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAACCATCGGTCCCTTTGTCGTGAAG
130 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
*
424814 TTGAACTTGCGTTGTCTC
195 TTGAACTTGCGTTGTCTG
* * *
424832 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
424897 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAA
66 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* * *
424962 GTTAAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
425027 TGAACTTGCATTGTCTG
196 TGAACTTGCGTTGTCTG
* * * *
425044 GAGTCCAGTATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * *
425109 CCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATTCTTTGCTGTGAA
66 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
*
425174 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
425239 TGAACTTGCGTTGTCTG
196 TGAACTTGCGTTGTCTG
* *
425256 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
425321 CCA-----------G-C--G--G-T--CCTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* * * *
425367 GTTAAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
425432 TGAACTTGCGTTGTCTG
196 TGAACTTGCGTTGTCTG
* * *
425449 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
425514 CTAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
66 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* *
425579 GTTGAAATTGGCTCTAAAATT-GGAAGTTGTTTGTTGACAACCAGCTGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
425643 TGAACTTGCGTTGTATG
196 TGAACTTGCGTTGTCTG
* * * *
425660 GGGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
425725 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* * * * *
425790 GTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAAAACCAGCGGTCCCTTCATCATGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
425855 TGAACTTGCGTTGTCTT
196 TGAACTTGCGTTGTCTG
* * *
425872 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATT-TGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * * *
425936 CCAGCGGTCCCTTCGTCGTGAAATTGAACTTCCGTTGTCTGGAGTCCATTATCCTTCGTTGTAAA
66 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* * *
426001 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTTCTTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
426066 TAAACTTGTGTTGTCTG
196 TGAACTTGCGTTGTCTG
* * *
426083 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * *
426148 CCAGTCGTCCTTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
66 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
426193 GGCACGATAT
Statistics
Matches: 1611, Mismatches: 151, Indels: 46
0.89 0.08 0.03
Matches are distributed among these distances:
193 173 0.11
195 1 0.00
196 1 0.00
198 1 0.00
200 1 0.00
201 1 0.00
204 1 0.00
205 1 0.00
207 1 0.00
209 1 0.00
210 1 0.00
211 384 0.24
212 1043 0.65
213 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (212 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTG
Found at i:424786 original size:318 final size:318
Alignment explanation
Indices: 424196--426192 Score: 2998
Period size: 318 Copynumber: 6.3 Consensus size: 318
424186 GCATTGTTTC
* * * * *
424196 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
424260 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTTTCGAGTCCAATATCCTTTGTTGTG
65 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTG
*
424324 AAGTTGAAATTGGCTCCGAAGTTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAA
129 AAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAA
* * *
424389 GTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG
194 GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTG
* * * *
424454 GGAAGTTGTTTGTTGATAATCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
259 GGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
424514 GAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
424579 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
* *
424644 GTTGAAATTGGCTCCGAAATTGGGAAACTGTTTGTTGACAACCAGCTGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
424709 TGAACTTGCGTTGTCTGGAGTCCAATATCTTTCACTGTGAAGTTGAAATTGGCTCCGAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
* * * *
424774 AAATTATTTGTTGACAACCATCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTC
261 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
424832 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
424897 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
*
424962 GTTAAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * *
425027 TGAACTTGCATTGTCTGGAGTCCAGTATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
* *
425092 AAATTGTTTGTTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
261 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
425150 GAGTCCAATATTCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
425215 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
* * *
425280 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC-G-------GTC-------
131 GTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
425330 ----CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
*
425391 AAATTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
261 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
425449 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
425514 CTAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
** * *
425579 GTTGAAATTGGCTCTAAAATT-GGAAGTTGTTTGTTGACAACCAGCTGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * * * * *
425643 TGAACTTGCGTTGTATGGGGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
*
425708 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
261 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
425766 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
425831 CCAGCGGTCCCTTCATCATGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
* * * * *
425896 GTTGAAATTGACTCTGAAATT-TGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAAT
131 GTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * * * * *
425960 TGAACTTCCGTTGTCTGGAGTCCATTATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
* * * * *
426025 AAGTTGTTTGTTGACAACCAGCGGTTCTTTCGTCGTGAAGTTAAACTTGTGTTGTCTG
261 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
426083 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
426148 CCAGTC-GTCCTTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGT
426193 GGCACGATAT
Statistics
Matches: 1543, Mismatches: 114, Indels: 45
0.91 0.07 0.03
Matches are distributed among these distances:
298 23 0.01
299 254 0.16
306 3 0.00
310 3 0.00
317 501 0.32
318 758 0.49
319 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (318 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:425398 original size:87 final size:87
Alignment explanation
Indices: 425243--425417 Score: 296
Period size: 87 Copynumber: 2.0 Consensus size: 87
425233 TGAAGTTGAA
* * * *
425243 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGAGAAAT
*
425308 TGTTTGTTGACAACCAGCGGTC
66 TGTTTGTTGACAACCAGCAGTC
*
425330 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAAT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGAGAAAT
425395 TGTTTGTTGACAACCAGCAGTC
66 TGTTTGTTGACAACCAGCAGTC
425417 C
1 C
425418 CTTCGTCGTG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (87 bp):
CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGAGAAAT
TGTTTGTTGACAACCAGCAGTC
Found at i:425524 original size:106 final size:106
Alignment explanation
Indices: 425330--426192 Score: 1300
Period size: 106 Copynumber: 8.2 Consensus size: 106
425320 ACCAGCGGTC
* * *
425330 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAAT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
*
425395 TGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* *
425436 CTTGCGTTGTCTGGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* * *
425501 TATTTGTTGACAACTAGTGGTCCCTTCGTCGTGAAGTTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * *
425542 CTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATT-GGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
*
425606 TGTTTGTTGACAACCAGCTGTCCCTTCGTCGTGAAGTTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * * * *
425647 CTTGCGTTGTATGGGGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
425712 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
425753 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* * * *
425818 TGTTTATTGAAAACCAGCGGTCCCTTCATCATGAAGTTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * * * *
425859 CTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATT-TGAAAT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* *
425923 TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * * * *
425964 CTTCCGTTGTCTGGAGTCCATTATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* * *
426029 TGTTTGTTGACAACCAGCGGTTCTTTCGTCGTGAAGTTAAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* *
426070 CTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* *
426135 TGTTTGTTGACAACCAGTC-GTCCTTTCGTTGTGAAGTTGAA
66 TGTTTGTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAA
* *
426176 CTTGTGTTGTCTCGAGT
1 CTTGCGTTGTCTGGAGT
426193 GGCACGATAT
Statistics
Matches: 690, Mismatches: 64, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
105 189 0.27
106 500 0.72
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
Found at i:425695 original size:211 final size:212
Alignment explanation
Indices: 425330--426192 Score: 1300
Period size: 211 Copynumber: 4.1 Consensus size: 212
425320 ACCAGCGGTC
* *
425330 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAAT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGT
*
425395 TGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * *
425460 CTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACTAGTGGTCCC
131 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCC
425525 TTCGTCGTGAAGTTGAA
196 TTCGTCGTGAAGTTGAA
* * * *
425542 CTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATT-GGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGT
* * *
425606 TGTTTGTTGACAACCAGCTGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGGGTCCAATAT
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * *
425671 CCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCC
131 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCC
425736 TTCGTCGTGAAGTTGAA
196 TTCGTCGTGAAGTTGAA
425753 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGT
* * * * *
425818 TGTTTATTGAAAACCAGCGGTCCCTTCATCATGAAGTTGAACTTGCGTTGTCTTGAGTCCAATAT
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * *
425883 CCTTCGTTGTGAAGTTGAAATTGACTCTGAAATT-TGAAATTGTTTATTGACAACCAGCGGTCCC
131 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCC
*
425947 TTCGTCGTGAAATTGAA
196 TTCGTCGTGAAGTTGAA
* * * * * *
425964 CTTCCGTTGTCTGGAGTCCATTATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGT
* * * *
426029 TGTTTGTTGACAACCAGCGGTTCTTTCGTCGTGAAGTTAAACTTGTGTTGTCTGGAGTCCAATAT
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* *
426094 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAACCAGTC-GTCC
131 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAG-CGGTCC
* *
426158 TTTCGTTGTGAAGTTGAA
195 CTTCGTCGTGAAGTTGAA
* *
426176 CTTGTGTTGTCTCGAGT
1 CTTGCGTTGTCTGGAGT
426193 GGCACGATAT
Statistics
Matches: 586, Mismatches: 62, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
211 384 0.66
212 201 0.34
213 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (212 bp):
CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGT
TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCC
TTCGTCGTGAAGTTGAA
Found at i:425905 original size:317 final size:317
Alignment explanation
Indices: 425330--426192 Score: 1377
Period size: 317 Copynumber: 2.7 Consensus size: 317
425320 ACCAGCGGTC
* * * *
425330 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAAT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGT
*
425395 TGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * *
425460 CTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACTAGTGGTCCC
131 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCC
*
425525 TTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
196 TTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGA
* * * *
425590 CTCTAAAATTGGAAGTTGTTTGTTGACAACCAGCTGTCCCTTCGTCGTGAAGTTGAA
261 CTCTAAAATTGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAA
* *
425647 CTTGCGTTGTATGGGGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGT
425712 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * *
425777 CCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAAAACCAGCGGTCCC
131 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCC
* * *
425842 TTCATCATGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGA
196 TTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGA
* *
425907 CTCTGAAATTTGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAA
261 CTCTAAAATTGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAA
* * * *
425964 CTTCCGTTGTCTGGAGTCCATTATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGT
* * * *
426029 TGTTTGTTGACAACCAGCGGTTCTTTCGTCGTGAAGTTAAACTTGTGTTGTCTGGAGTCCAATAT
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
426094 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAACCAGTC-GTCC
131 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG-CGGTCC
* * *
426158 TTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
195 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGT
426193 GGCACGATAT
Statistics
Matches: 500, Mismatches: 45, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
317 499 1.00
318 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (317 bp):
CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGT
TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCC
TTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGA
CTCTAAAATTGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAA
Found at i:427809 original size:33 final size:34
Alignment explanation
Indices: 427771--427844 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 34
427761 TTGCATGTGT
427771 TTTTTTGTCCTTTT-TTC-TTTTTGATTT-TTGTTC
1 TTTTTTGTCCTTTTCTTCTTTTTTG-TTTCTT-TTC
**
427804 TTTTTT-TTGTTTTCTTCTTTTTTGTTTCTTTTC
1 TTTTTTGTCCTTTTCTTCTTTTTTGTTTCTTTTC
427837 TTTTTTGT
1 TTTTTTGT
427845 TTTTGCCCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
32 5 0.14
33 21 0.60
34 9 0.26
ACGTcount: A:0.01, C:0.11, G:0.08, T:0.80
Consensus pattern (34 bp):
TTTTTTGTCCTTTTCTTCTTTTTTGTTTCTTTTC
Found at i:427824 original size:16 final size:16
Alignment explanation
Indices: 427805--427847 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
427795 TTTTTGTTCT
427805 TTTTTTTGTTTTCTTC
1 TTTTTTTGTTTTCTTC
*
427821 -TTTTTTG-TTTCTTT
1 TTTTTTTGTTTTCTTC
427835 TCTTTTTTGTTTT
1 T-TTTTTTGTTTT
427848 TGCCCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 6 0.26
15 7 0.30
16 7 0.30
17 3 0.13
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (16 bp):
TTTTTTTGTTTTCTTC
Found at i:427835 original size:19 final size:17
Alignment explanation
Indices: 427804--427848 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
427794 ATTTTTGTTC
*
427804 TTTTTTTTGTTTTCTTCT
1 TTTTTTTTCTTTTCTT-T
427822 TTTTTGTTTCTTTTCTTT
1 TTTTT-TTTCTTTTCTTT
427840 TTTGTTTTT
1 TTT-TTTTT
427849 GCCCTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (17 bp):
TTTTTTTTCTTTTCTTT
Found at i:432196 original size:19 final size:20
Alignment explanation
Indices: 432141--432196 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
432131 AACCAATAAT
432141 AATAAACATAAAAT-AATTGG
1 AATAAA-ATAAAATAAATTGG
*
432161 ATTAAAA-AAAATGAAATT-G
1 AATAAAATAAAAT-AAATTGG
432180 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
432197 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 5 0.16
19 12 0.39
20 14 0.45
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (20 bp):
AATAAAATAAAATAAATTGG
Found at i:432298 original size:21 final size:19
Alignment explanation
Indices: 432274--432352 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 19
432264 TAATAAGAGC
432274 AAAAAAACTAAAAATATAAT
1 AAAAAAA-TAAAAATATAAT
*
432294 GAAAATAAATAAATAGTATAAAT
1 -AAAA-AAATAAA-AATAT-AAT
*
432317 AAAATAATAAAAAATATATAT
1 AAAAAAAT-AAAAATATA-AT
432338 AAAAAATATAAAAAT
1 AAAAAA-ATAAAAAT
432353 GTATGTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 1 0.02
21 28 0.58
22 16 0.33
23 3 0.06
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAAAAATAAAAATATAAT
Found at i:432341 original size:13 final size:13
Alignment explanation
Indices: 432310--432347 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
432300 AAATAAATAG
432310 TATAAATAAA-ATA
1 TATAAA-AAATATA
432323 -ATAAAAAATATA
1 TATAAAAAATATA
432335 TATAAAAAATATA
1 TATAAAAAATATA
432348 AAAATGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.13
12 8 0.35
13 12 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
TATAAAAAATATA
Found at i:432350 original size:22 final size:22
Alignment explanation
Indices: 432283--432351 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
432273 CAAAAAAACT
*
432283 AAAAATATA-AT-GAAAATA-A
1 AAAAATATATATAAAAAATATA
*
432302 ATAAATAGTATA-AATAAAATAATA
1 AAAAATA-TATATAA-AAAAT-ATA
432326 AAAAATATATATAAAAAATATA
1 AAAAATATATATAAAAAATATA
432348 AAAA
1 AAAA
432352 TGTATGTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 1 0.03
22 12 0.30
23 10 0.25
24 9 0.22
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAATATATATAAAAAATATA
Found at i:432362 original size:23 final size:23
Alignment explanation
Indices: 432297--432351 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 23
432287 ATATAATGAA
432297 AATAAATAAATAGTATA-AATAAAAT
1 AATAAA-AAATA-TATATAA-AAAAT
432322 AATAAAAAATATATATAAAAAAT
1 AATAAAAAATATATATAAAAAAT
432345 -ATAAAAA
1 AATAAAAA
432352 TGTATGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.24
23 9 0.31
24 7 0.24
25 6 0.21
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (23 bp):
AATAAAAAATATATATAAAAAAT
Found at i:432552 original size:2 final size:2
Alignment explanation
Indices: 432547--432575 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
432537 ATAAAAAATA
432547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
432576 ATAACAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:433165 original size:37 final size:37
Alignment explanation
Indices: 433072--433169 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 37
433062 ATGCTTGTGG
* * ** * *
433072 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATCTTTAGGAGTTTGAATCATAACAAAACTAT
* *
433109 ATCCTATTTTTAGGAGTTTGAATCATAACAAAATTAT
1 ATCCTATCTTTAGGAGTTTGAATCATAACAAAACTAT
433146 ATCCTATCTTTAGGAGTTTGAATC
1 ATCCTATCTTTAGGAGTTTGAATC
433170 CTAGTAGGAT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (37 bp):
ATCCTATCTTTAGGAGTTTGAATCATAACAAAACTAT
Found at i:437023 original size:16 final size:16
Alignment explanation
Indices: 436999--437029 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
436989 CTATTTCTAT
*
436999 TTCTTCGATTCTCTTC
1 TTCTCCGATTCTCTTC
437015 TTCTCCGATTCTCTT
1 TTCTCCGATTCTCTT
437030 GGTTCATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.32, G:0.06, T:0.55
Consensus pattern (16 bp):
TTCTCCGATTCTCTTC
Found at i:440141 original size:16 final size:16
Alignment explanation
Indices: 440129--440175 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
440119 TAATCTCTAT
*
440129 TTCTTCGATTCTCTTC
1 TTCTCCGATTCTCTTC
440145 TTCTCCGATTCTCTTC
1 TTCTCCGATTCTCTTC
*
440161 TTCTCCTATTCTCTT
1 TTCTCCGATTCTCTT
440176 GGGTCATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.06, C:0.34, G:0.04, T:0.55
Consensus pattern (16 bp):
TTCTCCGATTCTCTTC
Found at i:440148 original size:8 final size:8
Alignment explanation
Indices: 440108--440175 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
440098 CTTCTCTAAA
440108 TCTTATTC
1 TCTTATTC
*
440116 TCTTAATC
1 TCTTATTC
440124 TC-TATT-
1 TCTTATTC
440130 TCTTCGATTC
1 TCTT--ATTC
*
440140 TCTTCTTC
1 TCTTATTC
**
440148 TCCGATTC
1 TCTTATTC
*
440156 TCTTCTTC
1 TCTTATTC
*
440164 TCCTATTC
1 TCTTATTC
440172 TCTT
1 TCTT
440176 GGGTCATTAC
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
6 2 0.05
7 4 0.09
8 31 0.70
9 3 0.07
10 4 0.09
ACGTcount: A:0.10, C:0.31, G:0.03, T:0.56
Consensus pattern (8 bp):
TCTTATTC
Found at i:440695 original size:22 final size:21
Alignment explanation
Indices: 440661--440701 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
440651 ATAATTATTT
440661 AAAAAATTAAATAAAAATACC
1 AAAAAATTAAATAAAAATACC
*
440682 AAAAATATTTAATAAAAATA
1 AAAAA-ATTAAATAAAAATA
440702 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACC
Found at i:440915 original size:14 final size:14
Alignment explanation
Indices: 440898--440925 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
440888 ATTATAACAA
440898 AATTATATAACTAT
1 AATTATATAACTAT
440912 AATTATATAACTAT
1 AATTATATAACTAT
440926 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:446513 original size:37 final size:37
Alignment explanation
Indices: 446463--446535 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
446453 TTGTTGGACT
446463 GTCACTACCAACAGGAAGGACAAGTAGATGGAGAACC
1 GTCACTACCAACAGGAAGGACAAGTAGATGGAGAACC
*
446500 GTCACTACGAACAGGAAGGACAAGTAGATGGAGAAC
1 GTCACTACCAACAGGAAGGACAAGTAGATGGAGAAC
446536 TTGTAAATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.19, G:0.29, T:0.11
Consensus pattern (37 bp):
GTCACTACCAACAGGAAGGACAAGTAGATGGAGAACC
Found at i:449301 original size:28 final size:28
Alignment explanation
Indices: 449258--449339 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
449248 GAGATGTCTA
*
449258 TATTGAGTCTTAAAGATGTATTGTGGAG
1 TATTGAGACTTAAAGATGTATTGTGGAG
* *
449286 TATTGAGACTTGAAGACGTATTGTGGAG
1 TATTGAGACTTAAAGATGTATTGTGGAG
* *
449314 TA-TCACAACTTAAAGATGTATTGTGG
1 TATTGA-GACTTAAAGATGTATTGTGG
449340 TGTTGGTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 2 0.04
28 44 0.96
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (28 bp):
TATTGAGACTTAAAGATGTATTGTGGAG
Done.