Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011399.1 Kokia drynarioides strain JFW-HI SEQ_126381, 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: 481736
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 81 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:2248 original size:207 final size:207
Alignment explanation
Indices: 1890--2267 Score: 587
Period size: 207 Copynumber: 1.8 Consensus size: 207
1880 TTCATCATCC
** * *
1890 AATCTAAGCGAATTTGGTGATAATATGAACAATCTTCATTTAGAAGAATTGGAACTTATCATCCT
1 AATCTAAGCGAATTTGGTGATAATACAAACAATCTTCATTTAGAAAAAATGGAACTTATCATCCT
* * * *
1955 TGTGAAATAGATAATTAAAAATTGGTGACGACTCCATATTCTTTTAAAATTCATCTAGCCTACCT
66 TGTAAAAAAGATAATTAAAAATTGGTAACGACTCCATATTCTTTTAAAAGTCATCTAGCCTACCT
*
2020 AAAAAATGTTACTACATTTGGTGCCTTGTATTGATTCTTTCCAATGAAAATCAAATATCTTTTGA
131 AAAAAATGTTACTACATTTGGTGCCTTATATTGATTCTTTCCAATGAAAATCAAATATCTTTTGA
2085 ATAAATTCATTG
196 ATAAATTCATTG
* * *
2097 AATCTAAGTGATTTTGGTGATAATACAAACAATCTTCATTTAGAAAAAATGGAGCTTATCATCCT
1 AATCTAAGCGAATTTGGTGATAATACAAACAATCTTCATTTAGAAAAAATGGAACTTATCATCCT
* **
2162 TGTAAAAAAGATAATTAAATATTGGTAACGACTCCATATTCTTTTAAAAGTCATCTAGTGTACCT
66 TGTAAAAAAGATAATTAAAAATTGGTAACGACTCCATATTCTTTTAAAAGTCATCTAGCCTACCT
* *
2227 AAAAGAA-GTTACTATATTTGGTGGCTTATATTGATTCTTTC
131 AAAA-AATGTTACTACATTTGGTGCCTTATATTGATTCTTTC
2268 TAGTGAATAT
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
207 151 0.99
208 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (207 bp):
AATCTAAGCGAATTTGGTGATAATACAAACAATCTTCATTTAGAAAAAATGGAACTTATCATCCT
TGTAAAAAAGATAATTAAAAATTGGTAACGACTCCATATTCTTTTAAAAGTCATCTAGCCTACCT
AAAAAATGTTACTACATTTGGTGCCTTATATTGATTCTTTCCAATGAAAATCAAATATCTTTTGA
ATAAATTCATTG
Found at i:13917 original size:17 final size:18
Alignment explanation
Indices: 13892--13929 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13882 TGCTATAAAA
*
13892 ATTATATTT-TTTAATTT
1 ATTAAATTTATTTAATTT
*
13909 ATTAAATTTATTTATTTT
1 ATTAAATTTATTTAATTT
13927 ATT
1 ATT
13930 TCGTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTAAATTTATTTAATTT
Found at i:14321 original size:25 final size:25
Alignment explanation
Indices: 14265--14321 Score: 59
Period size: 25 Copynumber: 2.3 Consensus size: 25
14255 TTTTTATATG
14265 TTAGA-AATACATCATTTATAAAAA
1 TTAGATAATACATCATTTATAAAAA
14289 -TAGTATAATACAAT-ATTT-TAAAAA
1 TTAG-ATAATAC-ATCATTTATAAAAA
14313 TTTAGATAA
1 -TTAGATAA
14322 AAAGTTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 3 0.11
24 7 0.25
25 13 0.46
26 5 0.18
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (25 bp):
TTAGATAATACATCATTTATAAAAA
Found at i:17089 original size:29 final size:29
Alignment explanation
Indices: 17047--17105 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
17037 ATTGAAAATT
*
17047 TACTACTGGAAATAAGCATGTTTACTTTG
1 TACTACTGGAAATAAGCACGTTTACTTTG
*
17076 TACTATTGGAAATAAGCACGTTTACTTTG
1 TACTACTGGAAATAAGCACGTTTACTTTG
17105 T
1 T
17106 GCTGGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (29 bp):
TACTACTGGAAATAAGCACGTTTACTTTG
Found at i:17946 original size:17 final size:18
Alignment explanation
Indices: 17924--17957 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
17914 ATAACAATTA
17924 TGAAGATTTTGG-ATATG
1 TGAAGATTTTGGCATATG
17941 TGAAGATTTTGGCATAT
1 TGAAGATTTTGGCATAT
17958 TCCCTAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.41
Consensus pattern (18 bp):
TGAAGATTTTGGCATATG
Found at i:19994 original size:9 final size:9
Alignment explanation
Indices: 19980--20004 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19970 ATTCAAGATT
19980 GAATATGTA
1 GAATATGTA
19989 GAATATGTA
1 GAATATGTA
19998 GAATATG
1 GAATATG
20005 AGATTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (9 bp):
GAATATGTA
Found at i:21675 original size:2 final size:2
Alignment explanation
Indices: 21668--21703 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
21658 ATCAGTTTTG
21668 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
21704 GTACGATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:21881 original size:29 final size:32
Alignment explanation
Indices: 21827--21888 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 32
21817 TAATAAAAAT
21827 AAAATTACATTTTAACCCCTTTAAAA-TATAA
1 AAAATTACATTTTAACCCCTTTAAAATTATAA
21858 AAAATTA-A-TTTAA-CCCTTTAAAAATTATAA
1 AAAATTACATTTTAACCCCTTT-AAAATTATAA
21888 A
1 A
21889 GATATAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 6 0.21
29 9 0.31
30 7 0.24
31 7 0.24
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (32 bp):
AAAATTACATTTTAACCCCTTTAAAATTATAA
Found at i:23023 original size:28 final size:28
Alignment explanation
Indices: 22992--23092 Score: 75
Period size: 28 Copynumber: 3.6 Consensus size: 28
22982 ATTTTTCAGT
22992 TTTTAAGGAGCCCAAAAAAATTTTTAAC
1 TTTTAAGGAGCCCAAAAAAATTTTTAAC
* **
23020 TTTTAA-AAG-CCAAAAAAACTTTACCAAC
1 TTTTAAGGAGCCCAAAAAAA-TTT-TTAAC
****
23048 TTTTAAAGG-GCCCTAAATTTTTTTTTAAC
1 TTTT-AAGGAGCCC-AAAAAAATTTTTAAC
23077 TTTTAAGGA-CCCAAAA
1 TTTTAAGGAGCCCAAAA
23093 TTTTTTTACC
Statistics
Matches: 55, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
26 9 0.16
27 8 0.15
28 20 0.36
29 10 0.18
30 5 0.09
31 3 0.05
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.34
Consensus pattern (28 bp):
TTTTAAGGAGCCCAAAAAAATTTTTAAC
Found at i:23097 original size:29 final size:29
Alignment explanation
Indices: 23044--23142 Score: 101
Period size: 29 Copynumber: 3.3 Consensus size: 29
23034 AAAACTTTAC
* *
23044 CAACTTTTAAAGGGCCCTAAATTTTTTTTT
1 CAACTTTT-AAGGACCCAAAATTTTTTTTT
**
23074 -AACTTTTAAGGACCCAAAATTTTTTTAC
1 CAACTTTTAAGGACCCAAAATTTTTTTTT
** *
23102 CAACTTTTAAGGACTTAAAAATTCTTTTCTT
1 CAACTTTTAAGGAC-CCAAAATT-TTTTTTT
23133 CAACTTTTAA
1 CAACTTTTAA
23143 CTAAAACCCC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 17 0.30
29 20 0.35
30 6 0.11
31 14 0.25
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.43
Consensus pattern (29 bp):
CAACTTTTAAGGACCCAAAATTTTTTTTT
Found at i:26222 original size:151 final size:151
Alignment explanation
Indices: 25948--26249 Score: 523
Period size: 151 Copynumber: 2.0 Consensus size: 151
25938 TTGATTGAAT
* *
25948 GGTATTGGATCTGTTATTATGGATGTCAAAATCATATTCTCCCCTCTAAACAAAAAGGAGCATAA
1 GGTATTGGATCTGTCATTATGGATGTCAAAATCATATTCTCCCCTCTAAACAAAAAAGAGCATAA
*
26013 AAATAAGTTAATATAATTAAATTAAACAATTCAAATTTGAAATATATACTTAAAAGAAATTCATA
66 AAATAAGTTAATATAATTAAATTAAACAATTCAAATTTGAAATATATACTCAAAAGAAATTCATA
**
26078 CATACCTTAATTGTTTGTTAA
131 CATACCTTAATCATTTGTTAA
* * * *
26099 GGTATTGGATCTGTCATTATGGATGTGAAAATCATATTTTCCCCTCTAAATAAAAAAGAGCATAG
1 GGTATTGGATCTGTCATTATGGATGTCAAAATCATATTCTCCCCTCTAAACAAAAAAGAGCATAA
26164 AAATAAGTTAATATAATTAAATTAAACAATTCAAATTTGAAATATATACTCAAAAGAAATTCATA
66 AAATAAGTTAATATAATTAAATTAAACAATTCAAATTTGAAATATATACTCAAAAGAAATTCATA
26229 CATACCTTAATCATTTGTTAA
131 CATACCTTAATCATTTGTTAA
26250 CAAAACATAT
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
151 142 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (151 bp):
GGTATTGGATCTGTCATTATGGATGTCAAAATCATATTCTCCCCTCTAAACAAAAAAGAGCATAA
AAATAAGTTAATATAATTAAATTAAACAATTCAAATTTGAAATATATACTCAAAAGAAATTCATA
CATACCTTAATCATTTGTTAA
Found at i:30591 original size:28 final size:27
Alignment explanation
Indices: 30559--30627 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 27
30549 AGCACTAACC
30559 CAAAATCTCCAAAATCAGAAAC-CTTAAA
1 CAAAATC-CCAAAATCA-AAACTCTTAAA
* *
30587 CAAAAATCCCTAAATCAAAACTCTTAAC
1 C-AAAATCCCAAAATCAAAACTCTTAAA
30615 CAAAATCCTCAAA
1 CAAAATCC-CAAA
30628 TTAGACCACC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 11 0.31
28 18 0.51
29 6 0.17
ACGTcount: A:0.52, C:0.28, G:0.01, T:0.19
Consensus pattern (27 bp):
CAAAATCCCAAAATCAAAACTCTTAAA
Found at i:30619 original size:27 final size:28
Alignment explanation
Indices: 30558--30627 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
30548 CAGCACTAAC
30558 CCAAAATCTCCAAAATCAGAAACCTTAAA
1 CCAAAATC-CCAAAATCAGAAACCTTAAA
* *
30587 CAAAAATCCCTAAATCA-AAACTCTT-AA
1 CCAAAATCCCAAAATCAGAAAC-CTTAAA
30614 CCAAAATCCTCAAA
1 CCAAAATCC-CAAA
30628 TTAGACCACC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 14 0.40
28 14 0.40
29 7 0.20
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (28 bp):
CCAAAATCCCAAAATCAGAAACCTTAAA
Found at i:45253 original size:24 final size:24
Alignment explanation
Indices: 45225--45275 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
45215 AGAAATAAAT
* *
45225 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTAGTTG
*
45249 TTTCAATTAAACTCTGTTTAGTTG
1 TTTCAATTAAACTCTATTTAGTTG
45273 TTT
1 TTT
45276 GAGTCAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTAGTTG
Found at i:45687 original size:28 final size:28
Alignment explanation
Indices: 45655--45716 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
45645 AACAAGTAGC
45655 TTTCACAAAATCTAACAAGAAAGCCATA
1 TTTCACAAAATCTAACAAGAAAGCCATA
*
45683 TTTCATAAAATCTAACAAGAAAGCCATA
1 TTTCACAAAATCTAACAAGAAAGCCATA
45711 TGTTCA
1 T-TTCA
45717 TGCCACATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (28 bp):
TTTCACAAAATCTAACAAGAAAGCCATA
Found at i:53578 original size:14 final size:14
Alignment explanation
Indices: 53541--53570 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
53531 TTATATTTAA
53541 TTTAGATTTATCTT
1 TTTAGATTTATCTT
53555 TTTAGATTTATCTT
1 TTTAGATTTATCTT
53569 TT
1 TT
53571 AGAGTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTAGATTTATCTT
Found at i:63210 original size:17 final size:17
Alignment explanation
Indices: 63190--63249 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
63180 CACATTCCCG
63190 TTGTCATTGCATTTTAA
1 TTGTCATTGCATTTTAA
*
63207 TTGTCATTACA-TTTACA
1 TTGTCATTGCATTTTA-A
*
63224 TTGTCATTGCATTTTCAT
1 TTGTCATTGCATTTT-AA
63242 TTGTCATT
1 TTGTCATT
63250 AGAGTTTAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.11
17 21 0.57
18 11 0.30
19 1 0.03
ACGTcount: A:0.22, C:0.15, G:0.10, T:0.53
Consensus pattern (17 bp):
TTGTCATTGCATTTTAA
Found at i:63219 original size:34 final size:35
Alignment explanation
Indices: 63172--63250 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 35
63162 GTTAGTAAGC
* * * *
63172 ATTGTTATCACATTCCCGTTGTCATTGCATTTT-A
1 ATTGTCATTACATTCACATTGTCATTGCATTTTCA
*
63206 ATTGTCATTACATTTACATTGTCATTGCATTTTCA
1 ATTGTCATTACATTCACATTGTCATTGCATTTTCA
*
63241 TTTGTCATTA
1 ATTGTCATTA
63251 GAGTTTAGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
34 28 0.74
35 10 0.26
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (35 bp):
ATTGTCATTACATTCACATTGTCATTGCATTTTCA
Found at i:63263 original size:34 final size:33
Alignment explanation
Indices: 63191--63270 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
63181 ACATTCCCGT
*
63191 TGTCATTGCATTTTAATTGTCATTACATTTACAT
1 TGTCATTGCATTTTAATTGTCATTACATTTA-AG
* *
63225 TGTCATTGCATTTTCATTTGTCATTAGAGTTT-AG
1 TGTCATTGCATTTT-AATTGTCATTACA-TTTAAG
*
63259 TGTCAGTGCATT
1 TGTCATTGCATT
63271 AGGGTCAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
34 26 0.65
35 11 0.28
36 3 0.08
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.49
Consensus pattern (33 bp):
TGTCATTGCATTTTAATTGTCATTACATTTAAG
Found at i:63813 original size:24 final size:24
Alignment explanation
Indices: 63781--63831 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
63771 ATAGTTGTAC
63781 AATAAATATTGTTTTGGTAGATAG
1 AATAAATATTGTTTTGGTAGATAG
*
63805 AATAAATATTGTTTTGGTATATAG
1 AATAAATATTGTTTTGGTAGATAG
63829 AAT
1 AAT
63832 TTAGGGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (24 bp):
AATAAATATTGTTTTGGTAGATAG
Found at i:65936 original size:42 final size:42
Alignment explanation
Indices: 65648--65917 Score: 396
Period size: 42 Copynumber: 6.4 Consensus size: 42
65638 GAATCACTTG
* *
65648 ATGTATAAATGGAAGACTCATGTCTCGAGATGAGCATGAGATT
1 ATGTTTAAA-GGAAGACTCATGTCTCGGGATGAGCATGAGATT
* * *
65691 AGGTTTAAAGAAAGACTCATGTCTTGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
* **
65733 ATGTTTAAAGGAAGACTCATGTTTCAAGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
*
65775 ATGTTTAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
* * *
65817 ATGTTTAAAGGAAGACTCGTGACTCGGGATGAGCATTAGATT
1 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
* * *
65859 ATGTTTAAAGGAAGACTCGTGACTCTGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
65901 ATGTTTAAAGGAAGACT
1 ATGTTTAAAGGAAGACT
65918 TATAACTCAG
Statistics
Matches: 206, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
42 199 0.97
43 7 0.03
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.29
Consensus pattern (42 bp):
ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
Found at i:66488 original size:37 final size:37
Alignment explanation
Indices: 66447--66529 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 37
66437 TCGCCACAAG
* *
66447 AATATTTTTGGAA-TGCACTCAAG-ACTGTCGCTGCATA
1 AATATTTTT-AAACTGCA-TCAAGAACTATCGCTGCATA
* *
66484 AATATCTTTAAACTGCATCTAGAACTATCGCTGCATA
1 AATATTTTTAAACTGCATCAAGAACTATCGCTGCATA
*
66521 AGTATTTTT
1 AATATTTTT
66530 CAATTGCACC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
36 6 0.16
37 32 0.84
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (37 bp):
AATATTTTTAAACTGCATCAAGAACTATCGCTGCATA
Found at i:66598 original size:26 final size:26
Alignment explanation
Indices: 66546--66599 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
66536 CACCTAGGAA
* *
66546 TGTCACTGCATGAACATGTATAGAAT
1 TGTCACTGCATGAACATGTACAAAAT
* * *
66572 TGTCGCTGCATGAACGTGTCCAAAAT
1 TGTCACTGCATGAACATGTACAAAAT
66598 TG
1 TG
66600 CACCTAGAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (26 bp):
TGTCACTGCATGAACATGTACAAAAT
Found at i:69717 original size:17 final size:17
Alignment explanation
Indices: 69695--69759 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
69685 CTGTAGTATA
*
69695 ATTGTCCCTGCATTTTT
1 ATTGTCACTGCATTTTT
*
69712 ATTGTCACTACA-TTTT
1 ATTGTCACTGCATTTTT
* * **
69728 ATTGTCGCTGCATCTAC
1 ATTGTCACTGCATTTTT
*
69745 ATTGTCATTGCATTT
1 ATTGTCACTGCATTT
69760 CCATATATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
16 14 0.38
17 23 0.62
ACGTcount: A:0.18, C:0.22, G:0.12, T:0.48
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:70934 original size:37 final size:37
Alignment explanation
Indices: 70892--70974 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
70882 CAAATTTACG
70892 CCCAAAACTATCGCCGCATGAGCACTTCCAAATTGCA
1 CCCAAAACTATCGCCGCATGAGCACTTCCAAATTGCA
* * *
70929 CCCAAAACTATCGTCGCATGAGTACTTCCAGATTGCA
1 CCCAAAACTATCGCCGCATGAGCACTTCCAAATTGCA
70966 CCCAAAACT
1 CCCAAAACT
70975 GTCTTCGTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.33, C:0.34, G:0.13, T:0.20
Consensus pattern (37 bp):
CCCAAAACTATCGCCGCATGAGCACTTCCAAATTGCA
Found at i:81624 original size:42 final size:42
Alignment explanation
Indices: 81432--81627 Score: 259
Period size: 42 Copynumber: 4.6 Consensus size: 42
81422 GAATCACTTG
* * *
81432 ATGTATAAATGGAAGACTCATGTCTTGGGATGAGCATGAGATT
1 ATGTTTAAA-GGAAGACTCATGACTCGGGATGAGCATGAGATT
* *
81475 ATGTTTAAAGGAAGACTCAT-ATCTCGAGATGAGAATGAGATT
1 ATGTTTAAAGGAAGACTCATGA-CTCGGGATGAGCATGAGATT
*
81517 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGACTCGGGATGAGCATGAGATT
* ** * *
81559 ATGTATATTGGAAGACTCGTGACTTGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGACTCGGGATGAGCATGAGATT
*
81601 ATGTTTAAAGGAAGACTTATGACTCGG
1 ATGTTTAAAGGAAGACTCATGACTCGG
81628 ATAGAGTATA
Statistics
Matches: 131, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 123 0.94
43 8 0.06
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (42 bp):
ATGTTTAAAGGAAGACTCATGACTCGGGATGAGCATGAGATT
Found at i:85766 original size:18 final size:18
Alignment explanation
Indices: 85738--85781 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
85728 AGTGAAATTT
*
85738 ATATGAAAATCCCTAAAGG
1 ATAT-AAAATCCCAAAAGG
*
85757 ATTTAAAATCCCAAAAGG
1 ATATAAAATCCCAAAAGG
85775 ATATAAA
1 ATATAAA
85782 GTTTCTTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.52, C:0.14, G:0.11, T:0.23
Consensus pattern (18 bp):
ATATAAAATCCCAAAAGG
Found at i:87459 original size:21 final size:21
Alignment explanation
Indices: 87433--87472 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
87423 AATACTCAAC
87433 TTTTAAAAAATAAAAATATTT
1 TTTTAAAAAATAAAAATATTT
**
87454 TTTTAAATTATAAAAATAT
1 TTTTAAAAAATAAAAATAT
87473 ATAAAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTTAAAAAATAAAAATATTT
Found at i:87778 original size:19 final size:19
Alignment explanation
Indices: 87723--87779 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
87713 ATTTTAACTA
* *
87723 AATTTATTATTTTTATTTTC
1 AATTT-TTATATTTATTTTT
87743 AATTTTTATATTT-TTTTT
1 AATTTTTATATTTATTTTT
87761 AA-TTTTATAATTTATTTTT
1 AATTTTTAT-ATTTATTTTT
87780 TTCTTATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 6 0.18
18 10 0.30
19 12 0.36
20 5 0.15
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
AATTTTTATATTTATTTTT
Found at i:88117 original size:21 final size:21
Alignment explanation
Indices: 88093--88133 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
88083 TCAAACAAAC
88093 AAAAAAAT-AAAAAAGAAAAGT
1 AAAAAAATCAAAAAA-AAAAGT
*
88114 AAAAAATTCAAAAAAAAAAG
1 AAAAAAATCAAAAAAAAAAG
88134 GACATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.10
Consensus pattern (21 bp):
AAAAAAATCAAAAAAAAAAGT
Found at i:88582 original size:25 final size:27
Alignment explanation
Indices: 88550--88601 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
88540 TATATATAAA
88550 ATTTAA-TTTAA-T-GTGTAATTATAT
1 ATTTAATTTTAATTGGTGTAATTATAT
88574 ATTTGAATTTTAATTTGGTGTAATTATA
1 ATTT-AATTTTAA-TTGGTGTAATTATA
88602 CACGTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
24 4 0.17
25 2 0.09
26 5 0.22
28 1 0.04
29 11 0.48
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (27 bp):
ATTTAATTTTAATTGGTGTAATTATAT
Found at i:88609 original size:29 final size:30
Alignment explanation
Indices: 88562--88618 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
88552 TTAATTTAAT
* ** *
88562 GTGTAATTATATATTTG-AATTTTAATTTG
1 GTGTAATTATACACGTGAAATTATAATTTG
88591 GTGTAATTATACACGTGAAATTATAATT
1 GTGTAATTATACACGTGAAATTATAATT
88619 GTGATTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 14 0.61
30 9 0.39
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (30 bp):
GTGTAATTATACACGTGAAATTATAATTTG
Found at i:89730 original size:24 final size:24
Alignment explanation
Indices: 89699--89748 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
89689 GTTTCTAAAG
89699 TTACTTTAAAGTTTCGTTAAGTAT
1 TTACTTTAAAGTTTCGTTAAGTAT
89723 TTACTTTAAAGTTTCGTTAAGTAT
1 TTACTTTAAAGTTTCGTTAAGTAT
89747 TT
1 TT
89749 CTCGAGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (24 bp):
TTACTTTAAAGTTTCGTTAAGTAT
Found at i:94668 original size:2 final size:2
Alignment explanation
Indices: 94663--94693 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
94653 ATGGATTCGT
94663 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94694 GAATATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:95073 original size:13 final size:13
Alignment explanation
Indices: 95055--95083 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
95045 TTAAAATGAA
95055 AAATTTTTCATTT
1 AAATTTTTCATTT
95068 AAA-TTTTCATTT
1 AAATTTTTCATTT
95080 AAAT
1 AAAT
95084 CTTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (13 bp):
AAATTTTTCATTT
Found at i:96696 original size:21 final size:22
Alignment explanation
Indices: 96660--96702 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
96650 CAACAAATGA
*
96660 TTTTAAAATTATTAAAATTATT
1 TTTTAAAAATATTAAAATTATT
96682 TTTTAAAAATA-TAAAATTATT
1 TTTTAAAAATATTAAAATTATT
96703 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAAATATTAAAATTATT
Found at i:96699 original size:30 final size:31
Alignment explanation
Indices: 96663--96736 Score: 123
Period size: 30 Copynumber: 2.4 Consensus size: 31
96653 CAAATGATTT
96663 TAAAATTATTAAAATTATTTTTTAAAAAT-A
1 TAAAATTATTAAAATTATTTTTTAAAAATAA
**
96693 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTAAAAATAA
96724 TAAAATTATTAAA
1 TAAAATTATTAAA
96737 TAATTTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 27 0.66
31 14 0.34
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (31 bp):
TAAAATTATTAAAATTATTTTTTAAAAATAA
Found at i:99022 original size:21 final size:22
Alignment explanation
Indices: 98996--99039 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
98986 ATTTAGGCTT
98996 TCTTACTTA-ACTTAATTAATC
1 TCTTACTTAGACTTAATTAATC
*
99017 TCTTACTTAGCCTTAATTAATC
1 TCTTACTTAGACTTAATTAATC
99039 T
1 T
99040 TTCTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.30, C:0.20, G:0.02, T:0.48
Consensus pattern (22 bp):
TCTTACTTAGACTTAATTAATC
Found at i:105301 original size:39 final size:39
Alignment explanation
Indices: 105244--105320 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
105234 GTTTGCGATT
*
105244 GTAATACAATACTGAATTGACAGTGACACTGTAAACACC
1 GTAATACAATACTAAATTGACAGTGACACTGTAAACACC
** **
105283 GTAATACTGTACTAAATTGGTAGTGACACTGTAAACAC
1 GTAATACAATACTAAATTGACAGTGACACTGTAAACAC
105321 TACAATACAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (39 bp):
GTAATACAATACTAAATTGACAGTGACACTGTAAACACC
Found at i:105452 original size:39 final size:39
Alignment explanation
Indices: 105256--105476 Score: 115
Period size: 39 Copynumber: 5.7 Consensus size: 39
105246 AATACAATAC
* *
105256 TGAATTGACAGTGACACTGTAAACACCGTAATACT-GTAC
1 TGAACTGACAGTGACACTGTAAACACCGTAATA-TAGTAT
* * ** *** * * *
105295 TAAATTGGTAGTGACACTGTAAACACTACAATACAGCAC
1 TGAACTGACAGTGACACTGTAAACACCGTAATATAGTAT
*** * *
105334 TGAACTGAC-GATGACACTGTAAATGTCGTATTATGGTAT
1 TGAACTGACAG-TGACACTGTAAACACCGTAATATAGTAT
* * * * * * * * *
105373 CGGACTGGCAATGACACTATAAACACTGCAATCTAATAT
1 TGAACTGACAGTGACACTGTAAACACCGTAATATAGTAT
* *
105412 TGAACTGACAGTGACACTATAAACACCGTAATATTGTAT
1 TGAACTGACAGTGACACTGTAAACACCGTAATATAGTAT
** *
105451 TGAGTTGGA-AATGACACTGTAAACAC
1 TGAACT-GACAGTGACACTGTAAACAC
105477 TGTGTAGCTA
Statistics
Matches: 128, Mismatches: 50, Indels: 8
0.69 0.27 0.04
Matches are distributed among these distances:
38 1 0.01
39 125 0.98
40 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (39 bp):
TGAACTGACAGTGACACTGTAAACACCGTAATATAGTAT
Found at i:105464 original size:78 final size:78
Alignment explanation
Indices: 105246--105478 Score: 229
Period size: 78 Copynumber: 3.0 Consensus size: 78
105236 TTGCGATTGT
* * * * * * *
105246 AATACAATACTGAATTGACAGTGACACTGTAAACACCGTAATACTGTACTAAATTGGTAGTGACA
1 AATACAATACTGAACTGACAGTGACACTGTAAACACCGTAATATTGTATTGAGTTGGAAATGACA
*
105311 CTGTAAACACTAC
66 CTGTAAACACTGC
** *** * * * * *
105324 AATACAGCACTGAACTGAC-GATGACACTGTAAATGTCGTATTATGGTATCG-GACTGGCAATGA
1 AATACAATACTGAACTGACAG-TGACACTGTAAACACCGTAATATTGTATTGAG-TTGGAAATGA
*
105387 CACTATAAACACTGC
64 CACTGTAAACACTGC
* *
105402 AAT-CTAATATTGAACTGACAGTGACACTATAAACACCGTAATATTGTATTGAGTTGGAAATGAC
1 AATAC-AATACTGAACTGACAGTGACACTGTAAACACCGTAATATTGTATTGAGTTGGAAATGAC
105466 ACTGTAAACACTG
65 ACTGTAAACACTG
105479 TGTAGCTATG
Statistics
Matches: 119, Mismatches: 31, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
77 2 0.02
78 115 0.97
79 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (78 bp):
AATACAATACTGAACTGACAGTGACACTGTAAACACCGTAATATTGTATTGAGTTGGAAATGACA
CTGTAAACACTGC
Found at i:107365 original size:17 final size:16
Alignment explanation
Indices: 107333--107366 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
107323 AATTCAAAAT
*
107333 ATTCAAAAATTAACAA
1 ATTCAAAAAGTAACAA
107349 ATTCAAAAAGTATACAA
1 ATTCAAAAAGTA-ACAA
107366 A
1 A
107367 AATTGCACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.24
Consensus pattern (16 bp):
ATTCAAAAAGTAACAA
Found at i:107924 original size:136 final size:133
Alignment explanation
Indices: 107626--107988 Score: 441
Period size: 136 Copynumber: 2.7 Consensus size: 133
107616 AATTTTAGTC
* * *
107626 ATTCAGATTATAAATTTTTTACATTTGGTATTAAAGTAAGTTGACACATG-TCGATACCTTTTTT
1 ATTCACATTAT-AATTTTTTACATTTGGCATTAAAGTAAGTTGACATATGTTC-ATACC-TTTTT
* * * * ** * *
107690 AATTTATTTGCTTCATAAATT-TTT--A-A-AAATATGATAAGTTTTATCTGGAAAAGGGAATAT
63 --TTTATTTGTTTCATAAATTCTTTAAATATAAATATGACAACTTTTATATAAAAAAGGAAATAA
*
107750 TATGCCAT
126 AATGCCAT
*
107758 ATTCACATTATAATTTTATTACATTTGGCATTAAAATAAGTTGACATATGTTCATACCTTTTTTG
1 ATTCACATTATAATTTT-TTACATTTGGCATTAAAGTAAGTTGACATATGTTCATACCTTTTTT-
107823 CTTATTTGTTTCATAAATTCTTTAAATATAAATATGACAACTTTTATATAAAAAAAGGAAATAAA
64 -TTATTTGTTTCATAAATTCTTTAAATATAAATATGACAACTTTTATAT-AAAAAAGGAAATAAA
107888 ATGCCAT
127 ATGCCAT
* *
107895 ATTCACATTATAGTTTTTTACATTTGGCATTAAAGTATGTTGACATATGTTCATACCATTTTTTT
1 ATTCACATTATAATTTTTTACATTTGGCATTAAAGTAAGTTGACATATGTTCATACC-TTTTTTT
*
107960 TACTTTGTTTCATAAATTCTTGAAATATA
65 TA-TTTGTTTCATAAATTCTTTAAATATA
107989 TGGATAAATC
Statistics
Matches: 202, Mismatches: 17, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
129 1 0.00
131 28 0.14
132 47 0.23
133 2 0.01
134 1 0.00
135 4 0.02
136 80 0.40
137 39 0.19
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.44
Consensus pattern (133 bp):
ATTCACATTATAATTTTTTACATTTGGCATTAAAGTAAGTTGACATATGTTCATACCTTTTTTTT
ATTTGTTTCATAAATTCTTTAAATATAAATATGACAACTTTTATATAAAAAAGGAAATAAAATGC
CAT
Found at i:108060 original size:29 final size:30
Alignment explanation
Indices: 108027--108085 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
108017 TATGGTTTAA
108027 TGTGTAATTGTATACAT-AAATTTTGATTT
1 TGTGTAATTGTATACATGAAATTTTGATTT
* *
108056 TGTGTAATTTTATATATGAAATTTTGATTT
1 TGTGTAATTGTATACATGAAATTTTGATTT
108086 GATCCAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.54
Consensus pattern (30 bp):
TGTGTAATTGTATACATGAAATTTTGATTT
Found at i:115309 original size:18 final size:18
Alignment explanation
Indices: 115286--115329 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
115276 GCAGCCTGAC
*
115286 CAGATGCAGTCACATACT
1 CAGATGCAGTCACATAAT
*
115304 CAGATGCAGTCATATAAT
1 CAGATGCAGTCACATAAT
*
115322 CATATGCA
1 CAGATGCA
115330 ACCACATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (18 bp):
CAGATGCAGTCACATAAT
Found at i:122504 original size:2 final size:2
Alignment explanation
Indices: 122497--122548 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
122487 ATAAAAAGAA
*
122497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
122539 GT AT GT AT AT
1 AT AT AT AT AT
122549 TATTATACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125763 original size:24 final size:24
Alignment explanation
Indices: 125729--125854 Score: 198
Period size: 24 Copynumber: 5.2 Consensus size: 24
125719 ACTCTATTAA
*
125729 GGGCTCATAAGAGCTAATCATCCT
1 GGGCTCATAAGAGCTAATCATTCT
* *
125753 GGGCTCGTAAGAGCTAATCATCCT
1 GGGCTCATAAGAGCTAATCATTCT
* *
125777 GGGCTCGTGAGAGCTAATCATTCT
1 GGGCTCATAAGAGCTAATCATTCT
125801 GGGCTCATAAGAGCTAATCATTCT
1 GGGCTCATAAGAGCTAATCATTCT
125825 GGGCTCATAAGAGCTAATCATTCT
1 GGGCTCATAAGAGCTAATCATTCT
*
125849 AGGCTC
1 GGGCTC
125855 GTGTTGGCTA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 96 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (24 bp):
GGGCTCATAAGAGCTAATCATTCT
Found at i:129742 original size:18 final size:19
Alignment explanation
Indices: 129697--129742 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
129687 TAAAAATGTT
129697 AATA-AAAT-AATATTTAA
1 AATATAAATCAATATTTAA
*
129714 AAGATATAATCAAT-TTTAA
1 AATATA-AATCAATATTTAA
129733 AATATAAATC
1 AATATAAATC
129743 TGATAAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 5 0.21
19 13 0.54
20 3 0.12
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
AATATAAATCAATATTTAA
Found at i:130768 original size:16 final size:17
Alignment explanation
Indices: 130739--130771 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
130729 AACTTTTTGC
*
130739 AAAATATTATAAATAAA
1 AAAATATTAAAAATAAA
130756 AAAAT-TTAAAAATAAA
1 AAAATATTAAAAATAAA
130772 TATTTTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATATTAAAAATAAA
Found at i:131464 original size:19 final size:19
Alignment explanation
Indices: 131437--131473 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
131427 TTTTCTTGTA
* *
131437 TTTATTTAACAGAAAATAG
1 TTTAGTTAACAAAAAATAG
131456 TTTAGTTAACAAAAAATA
1 TTTAGTTAACAAAAAATA
131474 ACTTACAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (19 bp):
TTTAGTTAACAAAAAATAG
Found at i:131525 original size:20 final size:20
Alignment explanation
Indices: 131487--131525 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
131477 TACAAGTCAA
*
131487 TGTAAAATAAGTTATTTTTC
1 TGTAAAATAAGTTACTTTTC
* *
131507 TGTAAAATGATTTACTTTT
1 TGTAAAATAAGTTACTTTT
131526 TTGAAGAGTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
TGTAAAATAAGTTACTTTTC
Found at i:131780 original size:15 final size:15
Alignment explanation
Indices: 131760--131816 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
131750 AATATAGTTT
131760 AATATTTTAATAATA
1 AATATTTTAATAATA
*
131775 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
* *
131794 AATATATTAATAATT
1 AATATTTTAATAATA
131809 AATATTTT
1 AATATTTT
131817 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:135304 original size:29 final size:28
Alignment explanation
Indices: 135272--135625 Score: 191
Period size: 29 Copynumber: 12.1 Consensus size: 28
135262 TGACATTCGG
**
135272 GGGGTAAAATGGTAAATTTTGGAAGGTTT
1 GGGGTAAAAT-GTAAATTTTGGAAAATTT
*
135301 GGGGGTAAAAATGTAATTTTTGGAAAATTT
1 -GGGGT-AAAATGTAAATTTTGGAAAATTT
* * *
135331 GGAACG-AAAATG-AAATTTTGGAAAGTTC
1 GG--GGTAAAATGTAAATTTTGGAAAATTT
** *
135359 GGGGTAAAAATGTATTTTTTGTAAAATTT
1 GGGGT-AAAATGTAAATTTTGGAAAATTT
* * * *
135388 AGGGTTAAAATGGAATTTTTGGAAATTTT
1 -GGGGTAAAATGTAAATTTTGGAAAATTT
** * *
135417 GGGGTAAAAAATAAAATTTTTGGAAAGTTC
1 GGGGTAAAATGT-AAA-TTTTGGAAAATTT
*
135447 GAGGGTAAACATGT-AATTTTGGAAAATTC
1 G-GGGTAAA-ATGTAAATTTTGGAAAATTT
*
135476 GGGGTGAAAATGTAATTTTTGGAAAATTT
1 GGGGT-AAAATGTAAATTTTGGAAAATTT
** * *
135505 AAGGTCAAAAATG---ATTTTGGAAAGTTC
1 GGGGT--AAAATGTAAATTTTGGAAAATTT
* *
135532 GAGGGTAAACATGTAATTTTTGAAAAATTT
1 G-GGGTAAA-ATGTAAATTTTGGAAAATTT
* * *
135562 AGGGTAAAAAATGTAATTTTTAGAAAATTT
1 GGGGT--AAAATGTAAATTTTGGAAAATTT
* * *
135592 AGGGTCAAAAATG-GAATTTTGGAAAGTTT
1 GGGGT--AAAATGTAAATTTTGGAAAATTT
135621 AGGGG
1 -GGGG
135626 GTCAAAATAT
Statistics
Matches: 251, Mismatches: 51, Indels: 44
0.73 0.15 0.13
Matches are distributed among these distances:
26 4 0.02
27 14 0.06
28 40 0.16
29 88 0.35
30 87 0.35
31 16 0.06
32 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (28 bp):
GGGGTAAAATGTAAATTTTGGAAAATTT
Found at i:135311 original size:58 final size:58
Alignment explanation
Indices: 135160--135313 Score: 143
Period size: 58 Copynumber: 2.6 Consensus size: 58
135150 CTTCGAGAAC
* * * * *
135160 AAAATGGTAATTTTTCGAAGGTTCAAGGTTAAAAATGGAATTTTTAGACTTTCGGGAGT
1 AAAATGGTAATTTTTGGAAGGTTTAGGGGTAAAAATGG-ATTTTTAGACATTCGGGAGT
** * * *
135219 AAAATGGTAATTTTTGGAA-GACTCGGAGTAAAAAATGG-TGTTTT-GACATTCGGGGGGT
1 AAAATGGTAATTTTTGGAAGGTTTAGGGGT-AAAAATGGAT-TTTTAGACATTC-GGGAGT
* *
135277 AAAATGGTAAATTTTGGAAGGTTTGGGGGTAAAAATG
1 AAAATGGTAATTTTTGGAAGGTTTAGGGGTAAAAATG
135314 TAATTTTTGG
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
57 7 0.09
58 37 0.49
59 32 0.42
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGAAGGTTTAGGGGTAAAAATGGATTTTTAGACATTCGGGAGT
Found at i:135332 original size:30 final size:30
Alignment explanation
Indices: 135271--135645 Score: 242
Period size: 30 Copynumber: 12.8 Consensus size: 30
135261 TTGACATTCG
* **
135271 GGGGGT-AAAATGGTAAATTTTGGAAGGTTT
1 GGGGGTAAAAAT-GTAATTTTTGGAAAATTT
135301 GGGGGTAAAAATGTAATTTTTGGAAAATTT
1 GGGGGTAAAAATGTAATTTTTGGAAAATTT
** * *
135331 GGAACG--AAAATG-AAATTTTGG-AAAGTT
1 GG-GGGTAAAAATGTAATTTTTGGAAAATTT
* * *
135358 CGGGGTAAAAATGTATTTTTTGTAAAATTT
1 GGGGGTAAAAATGTAATTTTTGGAAAATTT
* * *
135388 -AGGGTTAAAATGGAATTTTTGG-AAATTT
1 GGGGGTAAAAATGTAATTTTTGGAAAATTT
* ** * *
135416 TGGGGTAAAAAATAAAATTTTTGGAAAGTTC
1 GGGGGT-AAAAATGTAATTTTTGGAAAATTT
* *
135447 GAGGGTAAACATGTAA-TTTTGGAAAA-TT
1 GGGGGTAAAAATGTAATTTTTGGAAAATTT
* *
135475 CGGGGTGAAAATGTAATTTTTGGAAAATTT
1 GGGGGTAAAAATGTAATTTTTGGAAAATTT
** * *
135505 -AAGGTCAAAAATG--A-TTTTGGAAAGTTC
1 GGGGGT-AAAAATGTAATTTTTGGAAAATTT
* * *
135532 GAGGGTAAACATGTAATTTTTGAAAAATTT
1 GGGGGTAAAAATGTAATTTTTGGAAAATTT
* *
135562 -AGGGTAAAAAATGTAATTTTTAGAAAATTT
1 GGGGGT-AAAAATGTAATTTTTGGAAAATTT
* * *
135592 -AGGGTCAAAAATGGAA-TTTTGGAAAGTTT
1 GGGGGT-AAAAATGTAATTTTTGGAAAATTT
* * *
135621 AGGGGGTCAAAATATGATTTTTGGA
1 -GGGGGTAAAAATGTAATTTTTGGA
135646 TAGTTTAGGG
Statistics
Matches: 267, Mismatches: 58, Indels: 39
0.73 0.16 0.11
Matches are distributed among these distances:
26 1 0.00
27 23 0.09
28 38 0.14
29 72 0.27
30 108 0.40
31 25 0.09
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (30 bp):
GGGGGTAAAAATGTAATTTTTGGAAAATTT
Found at i:135371 original size:57 final size:57
Alignment explanation
Indices: 135285--135624 Score: 267
Period size: 57 Copynumber: 5.9 Consensus size: 57
135275 GTAAAATGGT
* * *
135285 AAATTTTGGAAGGTTTGGGGGTAAAAATGTAATTTTTGGAAAATTT-GGAACGAAAATG
1 AAATTTTGGAAAG-TTCGGGGTAAAAATGTAATTTTTGGAAAATTTAGG-GCGAAAATG
* * **
135343 AAATTTTGGAAAGTTCGGGGTAAAAATGTATTTTTTGTAAAATTTAGGGTTAAAATGG
1 AAATTTTGGAAAGTTCGGGGTAAAAATGTAATTTTTGGAAAATTTAGGGCGAAAAT-G
* * * ** * * *
135401 AATTTTTGGAAATTTTGGGGTAAAAAATAAAATTTTTGGAAAGTTCGAGGG-TAAACATG
1 AAATTTTGGAAAGTTCGGGGT-AAAAATGTAATTTTTGGAAAATT-TAGGGCGAAA-ATG
* * * * *
135460 TAATTTTGGAAAATTCGGGGTGAAAATGTAATTTTTGGAAAATTTAAGGTCAAAAATG
1 AAATTTTGGAAAGTTCGGGGTAAAAATGTAATTTTTGGAAAATTT-AGGGCGAAAATG
* * **
135518 --ATTTTGGAAAGTTCGAGGGTAAACATGTAATTTTTGAAAAATTTAGGGTAAAAAATG
1 AAATTTTGGAAAGTTCG-GGGTAAAAATGTAATTTTTGGAAAATTTAGGG-CGAAAATG
* * * ** * *
135575 TAATTTTTAGAAAATTTAGGGTCAAAAATGGAA-TTTTGGAAAGTTTAGGG
1 -AAATTTTGGAAAGTTCGGGGT-AAAAATGTAATTTTTGGAAAATTTAGGG
135625 GGTCAAAATA
Statistics
Matches: 227, Mismatches: 42, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
56 17 0.07
57 66 0.29
58 58 0.26
59 62 0.27
60 24 0.11
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.35
Consensus pattern (57 bp):
AAATTTTGGAAAGTTCGGGGTAAAAATGTAATTTTTGGAAAATTTAGGGCGAAAATG
Found at i:136751 original size:21 final size:22
Alignment explanation
Indices: 136687--136752 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
136677 TTATTACCGT
*
136687 TATTAATATTAATATT-AT-TA
1 TATTTATATTAATATTAATGTA
*
136707 TATTTATTATTATTATTATGATGTA
1 TATTTA-TATTAATATTA--ATGTA
136732 TATTTA-ATTAATATTAATGTA
1 TATTTATATTAATATTAATGTA
136753 AATTAAAGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.13
21 14 0.37
23 9 0.24
24 2 0.05
25 8 0.21
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
TATTTATATTAATATTAATGTA
Found at i:137431 original size:17 final size:17
Alignment explanation
Indices: 137409--137467 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
137399 GTTCAAAACC
*
137409 ATTTAAAATTTAATTAA
1 ATTTAAAATTTAAATAA
*
137426 ATTT-AAATTTAAAACAA
1 ATTTAAAATTT-AAATAA
*
137443 ATTTAAAATTAAAAATAA
1 ATTTAAAATT-TAAATAA
137461 ATTTAAA
1 ATTTAAA
137468 TCCAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 6 0.17
17 12 0.34
18 17 0.49
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTAAAATTTAAATAA
Found at i:137461 original size:29 final size:29
Alignment explanation
Indices: 137420--137483 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
137410 TTTAAAATTT
**
137420 AATTAAATTTAAATTTAAAACAAATTTAA
1 AATTAAAAATAAATTTAAAACAAATTTAA
* *
137449 AATTAAAAATAAATTTAAATCCAATTTAA
1 AATTAAAAATAAATTTAAAACAAATTTAA
*
137478 ACTTAA
1 AATTAA
137484 TTAAAATTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (29 bp):
AATTAAAAATAAATTTAAAACAAATTTAA
Found at i:137999 original size:49 final size:50
Alignment explanation
Indices: 137905--138284 Score: 386
Period size: 49 Copynumber: 7.7 Consensus size: 50
137895 TGGTACTAAA
* * *
137905 TTCGCCATTGCGGCTTAAAATTTTTCCTTTCATG-CTTCTGAGGTATAAGG
1 TTCGCCATTGCGACTT-AAATCTTTCCCTTCATGTCTTCTGAGGTATAAGG
* * * * * * *
137955 TTCGCCATTGCGACCTAAACCTTTCCTTTCTTGTCTTC-GTGGTATTAGA
1 TTCGCCATTGCGACTTAAATCTTTCCCTTCATGTCTTCTGAGGTATAAGG
* * *
138004 TTCGTCGTTGCGGCTTAAATCTTTCCCTTTCATGTC-TCTGAGGTATAAGG
1 TTCGCCATTGCGACTTAAATCTTTCCC-TTCATGTCTTCTGAGGTATAAGG
* * *
138054 TTCGCCATTGCGACTTAAATCTTTCCCTTCGTGTCTTC-GTGGTAT-TGG
1 TTCGCCATTGCGACTTAAATCTTTCCCTTCATGTCTTCTGAGGTATAAGG
* *
138102 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTTCATGTC-TCTGAGGTATAAGG
1 -TTCGCCATTGCGACTTAAATCTTTCCC-TTCATGTCTTCTGAGGTATAAGG
* * *
138153 TTCGCCATTGCGACTTAAACCTTTCCCTTCTTGTCTTCCT--GGTAT-TGG
1 TTCGCCATTGCGACTTAAATCTTTCCCTTCATGTCTT-CTGAGGTATAAGG
*
138201 ATTCGCCATTGC-ATCTTAAATCTTTCCCTTCATG-CTTCTGAGGTACAAGG
1 -TTCGCCATTGCGA-CTTAAATCTTTCCCTTCATGTCTTCTGAGGTATAAGG
* * * *
138251 TTTGTCGTTGCGACTTAAACCTTTCCCTTCATGT
1 TTCGCCATTGCGACTTAAATCTTTCCCTTCATGT
138285 TTCGCGGTAC
Statistics
Matches: 271, Mismatches: 42, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
47 2 0.01
48 8 0.03
49 157 0.58
50 100 0.37
51 4 0.01
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.40
Consensus pattern (50 bp):
TTCGCCATTGCGACTTAAATCTTTCCCTTCATGTCTTCTGAGGTATAAGG
Found at i:138066 original size:99 final size:99
Alignment explanation
Indices: 137904--138293 Score: 556
Period size: 99 Copynumber: 4.0 Consensus size: 99
137894 ATGGTACTAA
* *
137904 ATTCGCCATTGCGGCTTAAAAT-TTTTCCTTTCATGCTTCTGAGGTATAAGGTTCGCCATTGCGA
1 ATTCGCCGTTGCGGCTT-AAATCTTTCCCTTTCATGCTTCTGAGGTATAAGGTTCGCCATTGCGA
* * *
137968 CCTAAACCTTTCCTTTCTTGTCTTCGTGGTATTAG
65 CTTAAACCTTTCCCTTCTTGTCTTCGTGGTATTGG
*
138003 ATTCGTCGTTGCGGCTTAAATCTTTCCCTTTCATG-TCTCTGAGGTATAAGGTTCGCCATTGCGA
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTTCATGCT-TCTGAGGTATAAGGTTCGCCATTGCGA
* *
138067 CTTAAATCTTTCCCTTCGTGTCTTCGTGGTATTGG
65 CTTAAACCTTTCCCTTCTTGTCTTCGTGGTATTGG
138102 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTTCATG-TCTCTGAGGTATAAGGTTCGCCATTGCGA
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTTCATGCT-TCTGAGGTATAAGGTTCGCCATTGCGA
*
138166 CTTAAACCTTTCCCTTCTTGTCTTCCTGGTATTGG
65 CTTAAACCTTTCCCTTCTTGTCTTCGTGGTATTGG
* ** * * * *
138201 ATTCGCCATTGCATCTTAAATCTTTCCC-TTCATGCTTCTGAGGTACAAGGTTTGTCGTTGCGAC
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTTCATGCTTCTGAGGTATAAGGTTCGCCATTGCGAC
* *
138265 TTAAACCTTTCCCTTCATGT-TTCGCGGTA
66 TTAAACCTTTCCCTTCTTGTCTTCGTGGTA
138294 CTAAGACCTG
Statistics
Matches: 266, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
97 7 0.03
98 54 0.20
99 205 0.77
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.40
Consensus pattern (99 bp):
ATTCGCCGTTGCGGCTTAAATCTTTCCCTTTCATGCTTCTGAGGTATAAGGTTCGCCATTGCGAC
TTAAACCTTTCCCTTCTTGTCTTCGTGGTATTGG
Found at i:149951 original size:29 final size:29
Alignment explanation
Indices: 149918--150101 Score: 119
Period size: 29 Copynumber: 6.3 Consensus size: 29
149908 CAAAAATATG
149918 ATTTTTGGATGCTCGAGGGTAAAATGGTA
1 ATTTTTGGATGCTCGAGGGTAAAATGGTA
* *
149947 A-TTTTGGATGCTTG-GGAGCAAAATGGTA
1 ATTTTTGGATGCTCGAGG-GTAAAATGGTA
* * *
149975 ATTTTTGGAAGGTTCGAGGTTAAAAATGG-A
1 ATTTTTGG-ATGCTCGAGGGT-AAAATGGTA
* * *
150005 ATTTTTAGACT-TTTGAGGGTAAAATGGTA
1 ATTTTTGGA-TGCTCGAGGGTAAAATGGTA
**
150034 ATTTTTGGAAAACTCGA-GGTAAAAAATGGT-
1 ATTTTTGG-ATGCTCGAGGGT--AAAATGGTA
* * *** *
150064 GTTTTTAGACATTCGAGGGTAAAATGATA
1 ATTTTTGGATGCTCGAGGGTAAAATGGTA
150093 ATTTTTGGA
1 ATTTTTGGA
150102 AGGTTTGGGG
Statistics
Matches: 120, Mismatches: 22, Indels: 26
0.71 0.13 0.15
Matches are distributed among these distances:
27 2 0.02
28 37 0.31
29 39 0.32
30 25 0.21
31 17 0.14
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (29 bp):
ATTTTTGGATGCTCGAGGGTAAAATGGTA
Found at i:150010 original size:30 final size:30
Alignment explanation
Indices: 149966--150468 Score: 268
Period size: 29 Copynumber: 17.1 Consensus size: 30
149956 GCTTGGGAGC
**
149966 AAAATGGTAATTTTTGGAAGGTTCGAGGTTA
1 AAAATGG-AATTTTTGGAAAATTCGAGGTTA
* ** * *
149997 AAAATGGAATTTTTAG-ACTTTTGAGGGT-
1 AAAATGGAATTTTTGGAAAATTCGAGGTTA
* *
150025 AAAATGGTAATTTTTGGAAAACTCGAGGTAA
1 AAAATGG-AATTTTTGGAAAATTCGAGGTTA
** * * *
150056 AAAATGGTGTTTTTAG-ACATTCGAGGGT-
1 AAAATGGAATTTTTGGAAAATTCGAGGTTA
* ** * * *
150084 AAAATGATAATTTTTGGAAGGTTTGGGGGTA
1 AAAATG-GAATTTTTGGAAAATTCGAGGTTA
* * *
150115 AAAATGTAATTTTTGGAAAATTCGAGCTTG
1 AAAATGGAATTTTTGGAAAATTCGAGGTTA
* * *
150145 AAAATTGAA-TTTTGGAAAGATTAG-GGGTA
1 AAAATGGAATTTTTGGAAA-ATTCGAGGTTA
* ** *
150174 AAAATGTAATTTTTGG-AAATTTAAGGTCA
1 AAAATGGAATTTTTGGAAAATTCGAGGTTA
* * * * *
150203 AAAATGGAA-TTTTAG-AAAGTCAAGGGTG
1 AAAATGGAATTTTTGGAAAATTCGAGGTTA
* * * *
150231 AAAATGTAATTTTTGGAAATTTAG-GGTCA
1 AAAATGGAATTTTTGGAAAATTCGAGGTTA
* *
150260 AAAATGGAATTTTT-GAAAGTT-TAGGGTT-
1 AAAATGGAATTTTTGGAAAATTCGA-GGTTA
* *
150288 AAAATGGAATTTTTGGAAAATTCGATGTCA
1 AAAATGGAATTTTTGGAAAATTCGAGGTTA
* * * *
150318 AAAATGGAA-TTTTAGAAAGTTCGAGGGTG
1 AAAATGGAATTTTTGGAAAATTCGAGGTTA
* **
150347 AAATTTTAATTTTTGGAAAATTCG-GGATTA
1 AAAATGGAATTTTTGGAAAATTCGAGG-TTA
* * *
150377 AAAATGGAA--TTTCGAAAAGTTCAAGGGTA
1 AAAATGGAATTTTTGGAAAA-TTCGAGGTTA
* * * *
150406 AACATGTAATTTGTTGGAAAATT-TAGGGTA
1 AAAATGGAATTT-TTGGAAAATTCGAGGTTA
** *
150436 AAAATATAATTTTTGGAAAATTCGAGGTCA
1 AAAATGGAATTTTTGGAAAATTCGAGGTTA
150466 AAA
1 AAA
150469 TATGATTTCT
Statistics
Matches: 350, Mismatches: 98, Indels: 49
0.70 0.20 0.10
Matches are distributed among these distances:
28 65 0.19
29 136 0.39
30 119 0.34
31 23 0.07
32 7 0.02
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAAATTCGAGGTTA
Found at i:150034 original size:59 final size:59
Alignment explanation
Indices: 149966--150128 Score: 209
Period size: 59 Copynumber: 2.8 Consensus size: 59
149956 GCTTGGGAGC
* *
149966 AAAATGGTAATTTTTGGAAGGTTCGAGGTTAAAAATGGAATTTTTAGACTTTTGAGGGT
1 AAAATGGTAATTTTTGGAAGGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGAGGGT
*** * **
150025 AAAATGGTAATTTTTGGAAAACTCGAGGTAAAAAATGGTGTTTTTAGACATTCGAGGGT
1 AAAATGGTAATTTTTGGAAGGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGAGGGT
* * * * *
150084 AAAATGATAATTTTTGGAAGGTTTGGGGGTAAAAATGTAATTTTT
1 AAAATGGTAATTTTTGGAAGGTTCGAGGTTAAAAATGGAATTTTT
150129 GGAAAATTCG
Statistics
Matches: 85, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
59 85 1.00
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGAAGGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGAGGGT
Found at i:150158 original size:59 final size:59
Alignment explanation
Indices: 150110--150428 Score: 344
Period size: 59 Copynumber: 5.5 Consensus size: 59
150100 GAAGGTTTGG
* ** * *
150110 GGGTAAAAATGTAATTTTTGGAAAATTCGAGCTTGAAAATTGAATTTTGGAAAGATT-AG
1 GGGTAAAAATGTAATTTTTGGAAAATTCGAGGTCAAAAATGGAATTTTGGAAAG-TTCAA
** *
150169 GGGTAAAAATGTAATTTTTGG-AAATTTAAGGTCAAAAATGGAATTTTAGAAAG-TCAA
1 GGGTAAAAATGTAATTTTTGGAAAATTCGAGGTCAAAAATGGAATTTTGGAAAGTTCAA
* * * * *
150226 GGGTGAAAATGTAATTTTTGGAAATTTAG-GGTCAAAAATGGAATTTTTGAAAGTT-TA
1 GGGTAAAAATGTAATTTTTGGAAAATTCGAGGTCAAAAATGGAATTTTGGAAAGTTCAA
* * * * *
150283 GGGTTAAAATGGAATTTTTGGAAAATTCGATGTCAAAAATGGAATTTTAGAAAGTTCGA
1 GGGTAAAAATGTAATTTTTGGAAAATTCGAGGTCAAAAATGGAATTTTGGAAAGTTCAA
* * * * * *
150342 GGGTGAAATTTTAATTTTTGGAAAATTCG-GGATTAAAAATGGAATTTCGAAAAGTTCAA
1 GGGTAAAAATGTAATTTTTGGAAAATTCGAGG-TCAAAAATGGAATTTTGGAAAGTTCAA
*
150401 GGGTAAACATGTAATTTGTTGGAAAATT
1 GGGTAAAAATGTAATTT-TTGGAAAATT
150429 TAGGGTAAAA
Statistics
Matches: 218, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
56 1 0.00
57 70 0.32
58 55 0.25
59 82 0.38
60 10 0.05
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (59 bp):
GGGTAAAAATGTAATTTTTGGAAAATTCGAGGTCAAAAATGGAATTTTGGAAAGTTCAA
Found at i:151502 original size:3 final size:3
Alignment explanation
Indices: 151494--151554 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
151484 TTTTATTTAT
*** * *
151494 TTA TTA TTA TTA CCG TTA TTA ATA TTA ATA TTA TTA -TA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
151539 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
151555 GTATATTTAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:152245 original size:19 final size:19
Alignment explanation
Indices: 152228--152301 Score: 60
Period size: 18 Copynumber: 4.4 Consensus size: 19
152218 GTTCAAAATC
152228 ATTTCAAATTTAACAAATAA
1 ATTT-AAATTTAACAAATAA
152248 ATTTAAATTT-------AA
1 ATTTAAATTTAACAAATAA
*
152260 ATTTAAATTT-A-AAACAA
1 ATTTAAATTTAACAAATAA
152277 ATTTAAATTTAA-AAATAA
1 ATTTAAATTTAACAAATAA
152295 ATTTAAA
1 ATTTAAA
152302 ACCAATTTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
12 12 0.26
17 12 0.26
18 13 0.28
19 6 0.13
20 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTAAATTTAACAAATAA
Found at i:152256 original size:6 final size:6
Alignment explanation
Indices: 152245--152301 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
152235 ATTTAACAAA
* * **
152245 TAAATT TAAATT TAAATT TAAATT TAAA-A CAAATT TAAATT TAAAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
152292 TAAATT TAAA
1 TAAATT TAAA
152302 ACCAATTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
5 3 0.07
6 39 0.93
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (6 bp):
TAAATT
Found at i:152278 original size:29 final size:29
Alignment explanation
Indices: 152228--152326 Score: 110
Period size: 29 Copynumber: 3.3 Consensus size: 29
152218 GTTCAAAATC
*
152228 ATTTCAAATTTAACAAATAAATTTAAATTTAA
1 ATTT-AAATTT-A-AAACAAATTTAAATTTAA
152260 ATTTAAATTTAAAACAAATTTAAATTTAA
1 ATTTAAATTTAAAACAAATTTAAATTTAA
** * *
152289 AAATAAATTTAAAACCAATTTAAACTT-A
1 ATTTAAATTTAAAACAAATTTAAATTTAA
*
152317 ATTAAAATTT
1 ATTTAAATTT
152327 GAACCAAAGC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.14
29 40 0.68
30 1 0.02
31 6 0.10
32 4 0.07
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (29 bp):
ATTTAAATTTAAAACAAATTTAAATTTAA
Found at i:152302 original size:12 final size:12
Alignment explanation
Indices: 152233--152302 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
152223 AAATCATTTC
*
152233 AAATTTAACAAAT
1 AAATTTAA-AATT
*
152246 AAATTTAAATTT
1 AAATTTAAAATT
*
152258 AAATTTAAATTT
1 AAATTTAAAATT
** *
152270 AAA-ACAAATTT
1 AAATTTAAAATT
*
152281 AAATTTAAAAAT
1 AAATTTAAAATT
152293 AAATTTAAAA
1 AAATTTAAAA
152303 CCAATTTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
11 9 0.19
12 31 0.65
13 8 0.17
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATTTAAAATT
Found at i:152317 original size:17 final size:16
Alignment explanation
Indices: 152259--152317 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
152249 TTTAAATTTA
152259 AATTTAAATTTAAAAC
1 AATTTAAATTTAAAAC
152275 AAATTTAAATTT-AAA-
1 -AATTTAAATTTAAAAC
152290 AA--TAAATTTAAAACC
1 AATTTAAATTTAAAA-C
*
152305 AATTTAAACTTAA
1 AATTTAAATTTAA
152318 TTAAAATTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
12 7 0.19
13 3 0.08
14 2 0.06
15 2 0.06
16 3 0.08
17 19 0.53
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTTAAATTTAAAAC
Found at i:152967 original size:9 final size:9
Alignment explanation
Indices: 152953--152986 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
152943 TTATATATAT
152953 AAATAAATA
1 AAATAAATA
152962 AAATAAATA
1 AAATAAATA
152971 AAAT-AATA
1 AAATAAATA
152979 AAATAAAT
1 AAATAAAT
152987 TTTATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATAAATA
Found at i:152978 original size:17 final size:18
Alignment explanation
Indices: 152953--152986 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
152943 TTATATATAT
152953 AAATAAATAAAATAAATA
1 AAATAAATAAAATAAATA
152971 AAAT-AATAAAATAAAT
1 AAATAAATAAAATAAAT
152987 TTTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAATAAAATAAATA
Found at i:154290 original size:29 final size:29
Alignment explanation
Indices: 154258--154401 Score: 105
Period size: 30 Copynumber: 4.9 Consensus size: 29
154248 AAAATTATTT
*
154258 TTTGACCTCTAAATTTTTC-AAAATTCAAA
1 TTTGACCTCTAAA-CTTTCAAAAATTCAAA
*
154287 TTTGACC-CTCAAACTTTCGAAAAATTTAAA
1 TTTGACCTCT-AAACTTTC-AAAAATTCAAA
* * * *
154317 TTTAACCACTAAACTTTCTAGAAATTCAAT
1 TTTGACCTCTAAACTTTC-AAAAATTCAAA
* * *
154347 TTTGACCTC-GAATTTTCCAAAAATTCCAA
1 TTTGACCTCTAAACTTT-CAAAAATTCAAA
* * *
154376 TTTGACCCCAAAAATTTCCAAAAATT
1 TTTGACCTCTAAACTTT-CAAAAATT
154402 TTGTTTGACC
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
28 6 0.07
29 31 0.34
30 53 0.58
31 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (29 bp):
TTTGACCTCTAAACTTTCAAAAATTCAAA
Found at i:154318 original size:30 final size:30
Alignment explanation
Indices: 154277--154401 Score: 121
Period size: 30 Copynumber: 4.2 Consensus size: 30
154267 TAAATTTTTC
*
154277 AAAATTCAAATTTGACCCTCAAACTTTCGA
1 AAAATTCAAATTTGACCCTCAAACTTTCCA
* * *
154307 AAAATTTAAATTTAACCACT-AAACTTTCTA
1 AAAATTCAAATTTGACC-CTCAAACTTTCCA
* * * *
154337 GAAATTCAATTTTGA-CCTCGAATTTTCCA
1 AAAATTCAAATTTGACCCTCAAACTTTCCA
* *
154366 AAAATTCCAATTTGACCC-CAAAAATTTCCA
1 AAAATTCAAATTTGACCCTC-AAACTTTCCA
154396 AAAATT
1 AAAATT
154402 TTGTTTGACC
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
28 2 0.03
29 21 0.28
30 51 0.67
31 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (30 bp):
AAAATTCAAATTTGACCCTCAAACTTTCCA
Found at i:154401 original size:59 final size:60
Alignment explanation
Indices: 154277--154401 Score: 135
Period size: 59 Copynumber: 2.1 Consensus size: 60
154267 TAAATTTTTC
* * * * *
154277 AAAATTCAAATTTGACCCTCAAACTTTCGAAAAATTTAAATTTAACCACTAAACTTTCTA
1 AAAATTCAAATTTGACCCTCAAACTTTCCAAAAATTCAAATTTAACCACAAAAATTTCCA
* * * * * * *
154337 GAAATTCAATTTTGA-CCTCGAATTTTCCAAAAATTCCAATTTGACCCCAAAAATTTCCA
1 AAAATTCAAATTTGACCCTCAAACTTTCCAAAAATTCAAATTTAACCACAAAAATTTCCA
154396 AAAATT
1 AAAATT
154402 TTGTTTGACC
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
59 39 0.75
60 13 0.25
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (60 bp):
AAAATTCAAATTTGACCCTCAAACTTTCCAAAAATTCAAATTTAACCACAAAAATTTCCA
Found at i:154408 original size:29 final size:29
Alignment explanation
Indices: 154376--154431 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
154366 AAAATTCCAA
154376 TTTGACCCCAAAAATTTCCAAAAATTTTG
1 TTTGACCCCAAAAATTTCCAAAAATTTTG
** * *
154405 TTTGACCCCTGAAGTTTTCAAAAATTT
1 TTTGACCCCAAAAATTTCCAAAAATTT
154432 AAATTTGACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.38
Consensus pattern (29 bp):
TTTGACCCCAAAAATTTCCAAAAATTTTG
Found at i:154598 original size:19 final size:20
Alignment explanation
Indices: 154563--154603 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
154553 TTTTCTTTTC
154563 TTTTTTTTATGTATATATTG
1 TTTTTTTTATGTATATATTG
*
154583 TTTTTTATTATTTATAT-TTG
1 TTTTTT-TTATGTATATATTG
154603 T
1 T
154604 AAATCATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (20 bp):
TTTTTTTTATGTATATATTG
Found at i:168088 original size:60 final size:59
Alignment explanation
Indices: 167960--168096 Score: 177
Period size: 60 Copynumber: 2.3 Consensus size: 59
167950 ACACTTAAAC
* *
167960 TTCCAAAAATTCAAATTTGACCCTTAAACTTTTCAAAAATTCAAATTTGACCCCAAAGTT
1 TTCC-AAAATTCAAATTTAACCCTTAAAATTTTCAAAAATTCAAATTTGACCCCAAAGTT
* * ***
168020 TTCAAAAATTCCAATTTAACCCTTAAAATTTTACAAAAATTTTGATTTGACCCCTAAAG-T
1 TTCCAAAATTCAAATTTAACCCTTAAAATTTT-CAAAAATTCAAATTTGACCCC-AAAGTT
168080 TTCCAAAATTCAAATTT
1 TTCCAAAATTCAAATTT
168097 GACCAGTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 25 0.38
60 37 0.56
61 4 0.06
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (59 bp):
TTCCAAAATTCAAATTTAACCCTTAAAATTTTCAAAAATTCAAATTTGACCCCAAAGTT
Found at i:168097 original size:29 final size:29
Alignment explanation
Indices: 167921--168100 Score: 164
Period size: 29 Copynumber: 6.0 Consensus size: 29
167911 TCATGTTTCA
* *
167921 CCCTCAAATTTTCCAAATATTCAAATTTAAC
1 CCCT-AAATTTT-CAAAAATTCAAATTTGAC
* * * *
167952 ACTTAAACTTCCAAAAATTCAAATTTGAC
1 CCCTAAATTTTCAAAAATTCAAATTTGAC
*
167981 CCTTAAACTTTTCAAAAATTCAAATTTGAC
1 CCCTAAA-TTTTCAAAAATTCAAATTTGAC
* *
168011 CCC-AAAGTTTTCAAAAATTCCAATTTAAC
1 CCCTAAA-TTTTCAAAAATTCAAATTTGAC
* ***
168040 CCTTAAAATTTTACAAAAATTTTGATTTGAC
1 CCCT-AAATTTT-CAAAAATTCAAATTTGAC
* *
168071 CCCTAAAGTTTCCAAAATTCAAATTTGAC
1 CCCTAAATTTTCAAAAATTCAAATTTGAC
168100 C
1 C
168101 AGTTTTAATG
Statistics
Matches: 121, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
29 62 0.51
30 37 0.31
31 22 0.18
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (29 bp):
CCCTAAATTTTCAAAAATTCAAATTTGAC
Found at i:169214 original size:23 final size:23
Alignment explanation
Indices: 169184--169252 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
169174 CCTTAAATCG
169184 AGAACAAGAACAAGAAATGGGAA
1 AGAACAAGAACAAGAAATGGGAA
* ***
169207 AGAACAAGAAGAAGAAA-GGTCT
1 AGAACAAGAACAAGAAATGGGAA
*
169229 GGAACAAGAACAAGAAATGGGAA
1 AGAACAAGAACAAGAAATGGGAA
169252 A
1 A
169253 AGATAAAAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
22 17 0.49
23 18 0.51
ACGTcount: A:0.58, C:0.09, G:0.28, T:0.06
Consensus pattern (23 bp):
AGAACAAGAACAAGAAATGGGAA
Found at i:171808 original size:12 final size:12
Alignment explanation
Indices: 171791--171815 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
171781 CTATTTGGTT
171791 TAATTGATTTCC
1 TAATTGATTTCC
171803 TAATTGATTTCC
1 TAATTGATTTCC
171815 T
1 T
171816 CATATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TAATTGATTTCC
Found at i:174439 original size:16 final size:19
Alignment explanation
Indices: 174404--174440 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
174394 AATTAAGTTA
174404 AATACAATATACATTTTAT
1 AATACAATATACATTTTAT
174423 AATAC-ATA-ACA-TTTAT
1 AATACAATATACATTTTAT
174439 AA
1 AA
174441 ATAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 3 0.17
19 5 0.28
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (19 bp):
AATACAATATACATTTTAT
Found at i:174443 original size:17 final size:18
Alignment explanation
Indices: 174401--174443 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
174391 ATGAATTAAG
174401 TTAAATACAATATACATT
1 TTAAATACAATATACATT
174419 TTATAATAC-ATA-ACATT
1 TTA-AATACAATATACATT
174436 TATAAATA
1 T-TAAATA
174444 AAATTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 8 0.35
19 5 0.22
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAATACAATATACATT
Found at i:177562 original size:23 final size:23
Alignment explanation
Indices: 177517--177560 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
177507 TTTAAATCTG
177517 ATTTTTAGTTGATATTATTTTTA
1 ATTTTTAGTTGATATTATTTTTA
*
177540 ATTTTTAGTTTATA-TATTTTT
1 ATTTTTAGTTGATATTATTTTT
177561 TAGCAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (23 bp):
ATTTTTAGTTGATATTATTTTTA
Found at i:177684 original size:16 final size:16
Alignment explanation
Indices: 177631--177684 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
177621 TGAATAGGAC
*
177631 TGTAATGGAATAAGAT
1 TGTAATGGAATAAAAT
* * *
177647 TGTAATGCAATAGAGT
1 TGTAATGGAATAAAAT
177663 TGTAATGGAATAAAAT
1 TGTAATGGAATAAAAT
*
177679 TATAAT
1 TGTAAT
177685 CAATAATTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAAAAT
Found at i:178295 original size:30 final size:30
Alignment explanation
Indices: 178250--178308 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
178240 GTGCATTATG
* *
178250 TTCAATCAAACAAATAAATGATTTACCATA
1 TTCAACCAAACAAATAAATAATTTACCATA
* *
178280 TTCAACCAAATAAATAAATAATTTCCCAT
1 TTCAACCAAACAAATAAATAATTTACCAT
178309 TCTATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.31
Consensus pattern (30 bp):
TTCAACCAAACAAATAAATAATTTACCATA
Found at i:179590 original size:33 final size:33
Alignment explanation
Indices: 179553--179618 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
179543 ATTATGTTGG
*
179553 GTTACAGTGGTTACAAGGACCTAAAGTCATTTT
1 GTTACAGTGGTTACAAGGACCCAAAGTCATTTT
179586 GTTACAGTGGTTACAAGGACCCAAAGTCATTTT
1 GTTACAGTGGTTACAAGGACCCAAAGTCATTTT
179619 TTTAAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (33 bp):
GTTACAGTGGTTACAAGGACCCAAAGTCATTTT
Found at i:180361 original size:3 final size:3
Alignment explanation
Indices: 180353--180377 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
180343 TATATTTGTT
180353 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
180378 CAACTAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:187093 original size:20 final size:19
Alignment explanation
Indices: 187055--187091 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
187045 ACTTGACCCA
187055 TTGACCATTGACTTTTTTG
1 TTGACCATTGACTTTTTTG
187074 TTGACCATTGACTTTTTT
1 TTGACCATTGACTTTTTT
187092 TGGGAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.54
Consensus pattern (19 bp):
TTGACCATTGACTTTTTTG
Found at i:189038 original size:6 final size:6
Alignment explanation
Indices: 189023--189123 Score: 77
Period size: 6 Copynumber: 17.3 Consensus size: 6
189013 CAAGCCAGTC
* * * * *
189023 TTTAAT TTTAAA TTT-AT TTTAAA TTAAAA TTT-AT TTTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
189069 TTTAAAA TTT-AT TTTTAA TTTAAA TTTAAA TTT--A TTCTAAA TTTAAT
1 TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
189116 TTTAAA TT
1 TTTAAA TT
189124 GAGTTTAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
4 3 0.04
5 13 0.17
6 50 0.67
7 9 0.12
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:189043 original size:17 final size:17
Alignment explanation
Indices: 189023--189119 Score: 94
Period size: 17 Copynumber: 5.9 Consensus size: 17
189013 CAAGCCAGTC
*
189023 TTTAATTTTAAATTTAT
1 TTTAAATTTAAATTTAT
*
189040 TTTAAATTAAAATTTAT
1 TTTAAATTTAAATTTAT
*
189057 TTTAAGTTTAAATTTA-
1 TTTAAATTTAAATTTAT
** *
189073 ---AAATTTATTTTTAA
1 TTTAAATTTAAATTTAT
189087 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
* *
189104 TCTAAATTTAATTTTA
1 TTTAAATTTAAATTTA
189120 AATTGAGTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
13 10 0.16
17 54 0.84
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:189055 original size:23 final size:23
Alignment explanation
Indices: 189040--189132 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
189030 TTAAATTTAT
* *
189040 TTTAAATTAAAATTTATTTTAAG
1 TTTAAATTTAAATTTATTTTAAA
*
189063 TTTAAATTTAAAATTTATTTTTAA
1 TTTAAATTT-AAATTTATTTTAAA
*
189087 TTTAAATTTAAATTTATTCTAAA
1 TTTAAATTTAAATTTATTTTAAA
* * *
189110 TTTAATTTTAAATTGAGTTTAAA
1 TTTAAATTTAAATTTATTTTAAA
189133 AAAAATCCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
23 39 0.65
24 21 0.35
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (23 bp):
TTTAAATTTAAATTTATTTTAAA
Found at i:189110 original size:41 final size:41
Alignment explanation
Indices: 189026--189114 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
189016 GCCAGTCTTT
* *
189026 AATTTTAAATTTATTTTAAATTAAAATTTATTTTAAGTTTA
1 AATTTAAAATTTATTTTAAATTAAAATTTAATTTAAGTTTA
* *
189067 AATTTAAAATTTATTTTTAATTTAAATTTAAATTT-A-TTCTA
1 AATTTAAAATTTATTTTAAATTAAAATTT-AATTTAAGTT-TA
189108 AATTTAA
1 AATTTAA
189115 TTTTAAATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 2 0.05
41 36 0.86
42 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (41 bp):
AATTTAAAATTTATTTTAAATTAAAATTTAATTTAAGTTTA
Found at i:190040 original size:19 final size:20
Alignment explanation
Indices: 190018--190060 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
190008 TTAAAAGATG
* *
190018 AAAATAAAACAGATTTAA-A
1 AAAACAAAACAGATCTAAGA
*
190037 AAAACGAAACAGATCTAAGA
1 AAAACAAAACAGATCTAAGA
190057 AAAA
1 AAAA
190061 AAGGGTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.14
Consensus pattern (20 bp):
AAAACAAAACAGATCTAAGA
Found at i:190968 original size:30 final size:30
Alignment explanation
Indices: 190771--191149 Score: 193
Period size: 30 Copynumber: 12.8 Consensus size: 30
190761 GTCCTTGAAT
* * * *
190771 TTTCTAAAAATCACGTTTTGACCCTCAAAC
1 TTTCCAAAAATTACATTTTTACCCTCAAAC
* * *
190801 TTTCCAAAAATTATA-TTTTAACCTCTAAAA
1 TTTCCAAAAATTACATTTTTACCCTC-AAAC
* * *
190831 TTTCCAAAAATCATATTTTGACCC-CTAAAC
1 TTTCCAAAAATTACATTTTTACCCTC-AAAC
* * *
190861 TTTTCC-AAAATCACATTTTAACCCTAAAAC
1 -TTTCCAAAAATTACATTTTTACCCTCAAAC
* *
190891 -TT-CATACAA-TACATTTTT-GCCTCAAGAC
1 TTTCCA-AAAATTACATTTTTACCCTCAA-AC
*
190919 -TTCACAAAAATTACATTTTTACCCCCAAAC
1 TTTC-CAAAAATTACATTTTTACCCTCAAAC
* * **
190949 TTTCCAAAAATTACATTTTTTTCCTTTGAAC
1 TTTCCAAAAATTACA-TTTTTACCCTCAAAC
*
190980 -TTCCAAAAATTACCA-ATTTACCCTCAAAC
1 TTTCCAAAAATTA-CATTTTTACCCTCAAAC
* * *
191009 -TTCCAAAAAATCACATTTTTACCCTC-GAG
1 TTTCC-AAAAATTACATTTTTACCCTCAAAC
* * * *
191038 TGTCCAAAAAGTACCA-TTTTACCCCCAAAG
1 TTTCCAAAAATTA-CATTTTTACCCTCAAAC
* *
191068 TGTCC-AAAATTATCA-TTTTACCCTCGAA-
1 TTTCCAAAAATTA-CATTTTTACCCTCAAAC
* *
191096 TATCCAAAAATTACCA-TTTTACCC-CTAAAG
1 TTTCCAAAAATTA-CATTTTTACCCTC-AAAC
* **
191126 TGTCC-AAAATTACCGTTTTACCCT
1 TTTCCAAAAATTACATTTTTACCCT
191150 AGGGCATCGA
Statistics
Matches: 275, Mismatches: 50, Indels: 48
0.74 0.13 0.13
Matches are distributed among these distances:
27 6 0.02
28 19 0.07
29 98 0.36
30 121 0.44
31 31 0.11
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (30 bp):
TTTCCAAAAATTACATTTTTACCCTCAAAC
Found at i:191105 original size:58 final size:58
Alignment explanation
Indices: 190923--191149 Score: 212
Period size: 58 Copynumber: 3.9 Consensus size: 58
190913 CAAGACTTCA
* * * * *
190923 CAAAAATTA-CATTTTTACCCCCAAACTTTCCAAAAATTA-CATTTTTTTCCTTTGAACT-TC
1 CAAAAATTACCA-TTTTACCCCCAAAGTGTCC-AAAATTATCA--TTTTACCCTCGAA-TATC
* * * * * *
190983 CAAAAATTACCAATTTACCCTCAAACT-TCCAAAA-AATCACATTTTTACCCTCGAGTGTC
1 CAAAAATTACCATTTTACCCCCAAAGTGTCCAAAATTAT--CA-TTTTACCCTCGAATATC
*
191042 CAAAAAGTACCATTTTACCCCCAAAGTGTCCAAAATTATCATTTTACCCTCGAATATC
1 CAAAAATTACCATTTTACCCCCAAAGTGTCCAAAATTATCATTTTACCCTCGAATATC
* * *
191100 CAAAAATTACCATTTTACCCCTAAAGTGTCCAAAATTACCGTTTTACCCT
1 CAAAAATTACCATTTTACCCCCAAAGTGTCCAAAATTATCATTTTACCCT
191150 AGGGCATCGA
Statistics
Matches: 142, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
57 1 0.01
58 66 0.46
59 40 0.28
60 31 0.22
61 4 0.03
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCAAAGTGTCCAAAATTATCATTTTACCCTCGAATATC
Found at i:200968 original size:210 final size:207
Alignment explanation
Indices: 200539--201113 Score: 783
Period size: 210 Copynumber: 2.7 Consensus size: 207
200529 AAACAACGAG
* * * * * *
200539 GCGGTCATCTTCCTGATGTGATAC-ATAGAAGTATACCAACTCAATGAAACAAAGCTCAATGTGA
1 GCGGTCATCTTCCTGATGAGATACTA-AGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGA
* * *
200603 GCAAATCTTCGATTCCCAGCTTCTTGATGAGATACTGAGAAGTAGGTCGAAGTAATAAAGCGCTT
65 GCAAATCTTCGA-ACCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGTAATAAAGAG-TT
* * *
200668 ACCTTCTTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGGCACAGAGAAGTGG
128 ACCTTCATGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGG
200733 ATCAAAACAAGTGAT
193 ATCAAAACAAGTGAT
* *
200748 ACGATCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAG
1 GCGGTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAG
* *
200813 CAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAGTAGTT
66 CAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGTAAT-AAAG-AGTT
* *
200878 ACCTTCCTGATAAGATATAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGG
128 ACCTTCATGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGG
200943 ATCAAAACAAGTGAT
193 ATCAAAACAAGTGAT
* * * * * * * *
200958 GCGGTCATCTTTCTGATGAGATACTGAGAAGTAGACTAAACCGATAAAACCAGGTTCAAAATGAG
1 GCGGTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAG
* * *
201023 CAAATCTTCAAACCCCAGCTTCCTGATGAGATATTGAGAAGTAGGTTGAAGTAATAAAGCAGTTA
66 CAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGTAATAAAG-AGTTA
* * *
201088 CCTTCATGATGAGACACTGAGAAGTG
129 CCTTCATGATAAGATACAGAGAAGTG
201114 GATCAAAACA
Statistics
Matches: 323, Mismatches: 38, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
208 3 0.01
209 132 0.41
210 184 0.57
211 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (207 bp):
GCGGTCATCTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAG
CAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGTAATAAAGAGTTACC
TTCATGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATC
AAAACAAGTGAT
Found at i:201211 original size:172 final size:172
Alignment explanation
Indices: 200917--201285 Score: 560
Period size: 172 Copynumber: 2.1 Consensus size: 172
200907 CCAGATCCGT
* * *
200917 CTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTTCTGATGAGATAC
1 CTTCATGATGAGACACAGAGAAGTGGATCAAAACAAGTGATACGGTAATCTTTCTGATGAGATAC
* * *
200982 TGAGAAGTAGACTAAACCGATAAAACCAGGTTCAAAATGAGCAAATCTTCAAACCCCAGCTTCCT
66 TGAGAAGTAGACCAAACCAATAAAACCAAGTTCAAAATGAGCAAATCTTCAAACCCCAGCTTCCT
* * **
201047 GATGAGATATTGAGAAGTAGGTTGAAGTAATAAAGCAGTTAC
131 GATGAGATACTGAGAAGCAGGTCAAAGTAATAAAGCAGTTAC
*
201089 CTTCATGATGAGACACTGAGAAGTGGATCAAAACAAGTGATACGGTAATC-TTCTTGATGAGATA
1 CTTCATGATGAGACACAGAGAAGTGGATCAAAACAAGTGATACGGTAATCTTTC-TGATGAGATA
* * *
201153 CTGAGAAGTAGACCAAATCAATAAAACCAAGTTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCC
65 CTGAGAAGTAGACCAAACCAATAAAACCAAGTTCAAAATGAGCAAATCTTCAAACCCCAGCTTCC
* *
201218 TGATGAGATACTGAGAAGCAGGTCAAAGTAATATAGCGGTTAC
130 TGATGAGATACTGAGAAGCAGGTCAAAGTAATAAAGCAGTTAC
* *
201261 CTTCTTGATGAGATACAGAGAAGTG
1 CTTCATGATGAGACACAGAGAAGTG
201286 AACCAGATCC
Statistics
Matches: 177, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
171 3 0.02
172 174 0.98
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (172 bp):
CTTCATGATGAGACACAGAGAAGTGGATCAAAACAAGTGATACGGTAATCTTTCTGATGAGATAC
TGAGAAGTAGACCAAACCAATAAAACCAAGTTCAAAATGAGCAAATCTTCAAACCCCAGCTTCCT
GATGAGATACTGAGAAGCAGGTCAAAGTAATAAAGCAGTTAC
Found at i:201431 original size:381 final size:382
Alignment explanation
Indices: 200707--201493 Score: 1209
Period size: 381 Copynumber: 2.1 Consensus size: 382
200697 CCAGATCCGT
* * *
200707 CTTCCTGATGAGGCACAGAGAAGTGGATCAAAACAAGTGATACGATCATCTTCCTGATGAGATAC
1 CTTCATGATGAGACACAGAGAAGTGGATCAAAACAAGTGATACGATAATCTTCCTGATGAGATAC
* * *
200772 TAAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCT
66 TAAGAAGTAGACCAAATCAATAAAACCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCT
* * *
200837 GATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAGTAGTTACCTTCCTGATAAGATATAGAGAA
131 GATGAGATACTGAGAAGCAGGTCAAAGCAATAAAAGCAGTTACCTTCCTGATAAGATACAGAGAA
* * *
200902 GTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATC
196 GTGAACCAGATCCGTCTTCCTAATGAGACACAAAGAAGTGGATCAAAACAAGTGATGCGGCCATC
* * * * ** *
200967 TTTCTGATGAGATACTGAGAAGTAGACTAAACCGATAAAACCAGGTTCAAAATGAGCAAATCTTC
261 TTTCTGATGACATACTAAGAAGTAGACCAAACCAATAAAACCAGACTCAAAATGAGCAAATCCTC
* * *
201032 AAACCCCAGCTTCCTGATGAGATATTGAGAAGTAGGTTGAAGTAATAAAGCAGTTAC
326 AAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAGCAGTTAC
* * *
201089 CTTCATGATGAGACACTGAGAAGTGGATCAAAACAAGTGATACGGTAATCTTCTTGATGAGATAC
1 CTTCATGATGAGACACAGAGAAGTGGATCAAAACAAGTGATACGATAATCTTCCTGATGAGATAC
* *
201154 TGAGAAGTAGACCAAATCAATAAAACCAAGTTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCT
66 TAAGAAGTAGACCAAATCAATAAAACCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCT
* * * * *
201219 GATGAGATACTGAGAAGCAGGTCAAAGTAAT-ATAGCGGTTACCTTCTTGATGAGATACAGAGAA
131 GATGAGATACTGAGAAGCAGGTCAAAGCAATAAAAGCAGTTACCTTCCTGATAAGATACAGAGAA
201283 GTGAACCAGATCCGTCTTCCTAATGAGACACAAAGAAGTGGATCAAAACAAGTGATGCGGCCATC
196 GTGAACCAGATCCGTCTTCCTAATGAGACACAAAGAAGTGGATCAAAACAAGTGATGCGGCCATC
* * * *
201348 -TTCTTGATGACATACTAAGAAGTAGACCAGATCAATGAAACCAGACTCAAAGTGAGCAAATCCT
261 TTTC-TGATGACATACTAAGAAGTAGACCAAACCAATAAAACCAGACTCAAAATGAGCAAATCCT
*
201412 CAAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAGCGGTTAC
325 CAAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAGCAGTTAC
*
201470 CTTCATGATGAGATACAGAGAAGT
1 CTTCATGATGAGACACAGAGAAGT
201494 AAACCGAGAG
Statistics
Matches: 365, Mismatches: 39, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
380 3 0.01
381 214 0.59
382 148 0.41
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (382 bp):
CTTCATGATGAGACACAGAGAAGTGGATCAAAACAAGTGATACGATAATCTTCCTGATGAGATAC
TAAGAAGTAGACCAAATCAATAAAACCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCT
GATGAGATACTGAGAAGCAGGTCAAAGCAATAAAAGCAGTTACCTTCCTGATAAGATACAGAGAA
GTGAACCAGATCCGTCTTCCTAATGAGACACAAAGAAGTGGATCAAAACAAGTGATGCGGCCATC
TTTCTGATGACATACTAAGAAGTAGACCAAACCAATAAAACCAGACTCAAAATGAGCAAATCCTC
AAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAGCAGTTAC
Found at i:201458 original size:209 final size:209
Alignment explanation
Indices: 201096--201498 Score: 646
Period size: 209 Copynumber: 1.9 Consensus size: 209
201086 TACCTTCATG
** * * *
201096 ATGAGACACTGAGAAGTGGATCAAAACAAGTGATACGGTAATCTTCTTGATGAGATACTGAGAAG
1 ATGAGACACAAAGAAGTGGATCAAAACAAGTGATACGGCAATCTTCTTGATGACATACTAAGAAG
* * *
201161 TAGACCAAATCAATAAAACCAAGTTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGA
66 TAGACCAAATCAATAAAACCAAGCTCAAAGTGAGCAAATCCTCAAACCCCAGCTTCCTGATGAGA
* * *
201226 TACTGAGAAGCAGGTCAAAGTAATATAGCGGTTACCTTCTTGATGAGATACAGAGAAGTGAACCA
131 TACTGAGAAGCAGGTCAAAGTAATAAAGCGGTTACCTTCATGATGAGATACAGAGAAGTAAACCA
201291 GATCCGTCTTCCTA
196 GATCCGTCTTCCTA
* *
201305 ATGAGACACAAAGAAGTGGATCAAAACAAGTGATGCGGCCATCTTCTTGATGACATACTAAGAAG
1 ATGAGACACAAAGAAGTGGATCAAAACAAGTGATACGGCAATCTTCTTGATGACATACTAAGAAG
* *
201370 TAGACCAGATCAATGAAACC-AGACTCAAAGTGAGCAAATCCTCAAACCCCAGCTTCCTGATGAG
66 TAGACCAAATCAATAAAACCAAG-CTCAAAGTGAGCAAATCCTCAAACCCCAGCTTCCTGATGAG
*
201434 ATACTGAGAAGCAGGTCGAAGTAATAAAGCGGTTACCTTCATGATGAGATACAGAGAAGTAAACC
130 ATACTGAGAAGCAGGTCAAAGTAATAAAGCGGTTACCTTCATGATGAGATACAGAGAAGTAAACC
201499 GAGAGATGAA
Statistics
Matches: 177, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
208 2 0.01
209 175 0.99
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (209 bp):
ATGAGACACAAAGAAGTGGATCAAAACAAGTGATACGGCAATCTTCTTGATGACATACTAAGAAG
TAGACCAAATCAATAAAACCAAGCTCAAAGTGAGCAAATCCTCAAACCCCAGCTTCCTGATGAGA
TACTGAGAAGCAGGTCAAAGTAATAAAGCGGTTACCTTCATGATGAGATACAGAGAAGTAAACCA
GATCCGTCTTCCTA
Found at i:201894 original size:17 final size:17
Alignment explanation
Indices: 201874--201923 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
201864 CAAACCAATC
201874 TTTAATTTAAAATTTAT
1 TTTAATTTAAAATTTAT
*
201891 TTTAAATTAAAATTTAT
1 TTTAATTTAAAATTTAT
201908 TTTAAGTTT-AAATTTA
1 TTTAA-TTTAAAATTTA
201924 AAATTTATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 28 0.93
18 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTAATTTAAAATTTAT
Found at i:201906 original size:24 final size:24
Alignment explanation
Indices: 201891--201949 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
201881 TAAAATTTAT
* *
201891 TTTAAA-TTAAAATTTATTTTAAG
1 TTTAAATTTAAAATTTATTCTAAA
201914 TTTAAATTTAAAATTTATTCTAAA
1 TTTAAATTTAAAATTTATTCTAAA
*
201938 TTTAATTTTAAA
1 TTTAAATTTAAA
201950 TTGAGTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 6 0.19
24 26 0.81
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTAAATTTAAAATTTATTCTAAA
Found at i:201917 original size:6 final size:6
Alignment explanation
Indices: 201877--201951 Score: 50
Period size: 6 Copynumber: 12.7 Consensus size: 6
201867 ACCAATCTTT
* * * *
201877 AATTTAA AATTT- ATTTTA AATTAA AATTT- ATTTTA AGTTTA AATTTAA
1 AATTT-A AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A
*
201925 AATTT- -ATTCTA AATTTA ATTTTA AATT
1 AATTTA AATT-TA AATTTA AATTTA AATT
201952 GAGTTTAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
4 3 0.06
5 9 0.17
6 27 0.51
7 14 0.26
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (6 bp):
AATTTA
Found at i:201950 original size:12 final size:11
Alignment explanation
Indices: 201900--201951 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
201890 TTTTAAATTA
201900 AAATTTATTTT
1 AAATTTATTTT
* *
201911 AAGTTTAAATTTA
1 AAATTT--ATTTT
*
201924 AAATTTATTCT
1 AAATTTATTTT
201935 AAATTTAATTTT
1 AAATTT-ATTTT
201947 AAATT
1 AAATT
201952 GAGTTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
11 14 0.44
12 9 0.28
13 9 0.28
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (11 bp):
AAATTTATTTT
Found at i:201957 original size:41 final size:41
Alignment explanation
Indices: 201877--201960 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
201867 ACCAATCTTT
* **
201877 AATTTAAAATTTATTTTAAATTAAAATTTATTTTAAGTTTA
1 AATTTAAAATTTATTCTAAATTAAAATTTAAATTAAGTTTA
* * *
201918 AATTTAAAATTTATTCTAAATTTAATTTTAAATTGAGTTTA
1 AATTTAAAATTTATTCTAAATTAAAATTTAAATTAAGTTTA
201959 AA
1 AA
201961 AAAGTACAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (41 bp):
AATTTAAAATTTATTCTAAATTAAAATTTAAATTAAGTTTA
Found at i:202885 original size:20 final size:21
Alignment explanation
Indices: 202862--202900 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
202852 GACTAAAATA
*
202862 AAACAGATTTAA-AAAAAACG
1 AAACAGATCTAAGAAAAAACG
202882 AAACAGATCTAAGAAAAAA
1 AAACAGATCTAAGAAAAAA
202901 AGGGTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (21 bp):
AAACAGATCTAAGAAAAAACG
Found at i:203697 original size:30 final size:29
Alignment explanation
Indices: 203654--203721 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 29
203644 TTATAATTTA
203654 ACCCTCGAATTTTCCAAAAATCATATTTTG
1 ACCCTC-AATTTTCCAAAAATCATATTTTG
203684 ACCCTCAAGTTTTCCAAAAATCATATTTTG
1 ACCCTCAA-TTTTCCAAAAATCATATTTTG
203714 ACCCTCAA
1 ACCCTCAA
203722 ACCACAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (29 bp):
ACCCTCAATTTTCCAAAAATCATATTTTG
Found at i:203739 original size:28 final size:27
Alignment explanation
Indices: 203697--203770 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 27
203687 CTCAAGTTTT
* *
203697 CCAAAAATCATATTTTGACCCTCAAAC-
1 CCAAAAATTACATTTTG-CCCTCAAACA
*
203724 CACAAAAATTACATTTTTGCCCTCGAACA
1 C-CAAAAATTACA-TTTTGCCCTCAAACA
203753 TGCCAAAAATTACATTTT
1 --CCAAAAATTACATTTT
203771 TGTCCCTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 1 0.03
28 17 0.44
29 9 0.23
30 11 0.28
31 1 0.03
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (27 bp):
CCAAAAATTACATTTTGCCCTCAAACA
Found at i:203742 original size:29 final size:29
Alignment explanation
Indices: 203697--203781 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 29
203687 CTCAAGTTTT
203697 CCAAAAA-T-CATATTTTGACCCTCAAACCA
1 CCAAAAATTACAT-TTTTG-CCCTCAAACCA
*
203726 -CAAAAATTACATTTTTGCCCTCGAA-CA
1 CCAAAAATTACATTTTTGCCCTCAAACCA
203753 TGCCAAAAATTACATTTTTGTCCCT-AAAC
1 --CCAAAAATTACATTTTTG-CCCTCAAAC
203782 TTCTAAAACT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
27 2 0.04
28 13 0.28
29 6 0.13
30 22 0.47
31 4 0.09
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.29
Consensus pattern (29 bp):
CCAAAAATTACATTTTTGCCCTCAAACCA
Found at i:203762 original size:30 final size:29
Alignment explanation
Indices: 203726--203887 Score: 134
Period size: 29 Copynumber: 5.6 Consensus size: 29
203716 CCTCAAACCA
*
203726 CAAAAATTACATTTTTGCCCTCGAACATGC
1 CAAAAATTACATTTTTGCCCTCGAAC-TTC
*
203756 CAAAAATTACATTTTTGTCCCT-AAACTTC
1 CAAAAATTACATTTTTG-CCCTCGAACTTC
* * *
203785 TAAAACTTACCATTTTT-CCCTTGAGA-TTC
1 CAAAAATTA-CATTTTTGCCCTCGA-ACTTC
* * * *
203814 CAACAATTGCATTTTAGCCCCCGAACTTC
1 CAAAAATTACATTTTTGCCCTCGAACTTC
* *
203843 CAAAAATTACCA-TTTTACCCCCGAACTTC
1 CAAAAATTA-CATTTTTGCCCTCGAACTTC
* *
203872 TAAAAATTTCATTTTT
1 CAAAAATTACATTTTT
203888 ACCCCTGAGT
Statistics
Matches: 106, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
28 13 0.12
29 59 0.56
30 30 0.28
31 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (29 bp):
CAAAAATTACATTTTTGCCCTCGAACTTC
Found at i:203845 original size:29 final size:28
Alignment explanation
Indices: 203811--204036 Score: 120
Period size: 29 Copynumber: 7.8 Consensus size: 28
203801 TCCCTTGAGA
* *
203811 TTCCAACAATTGCATTTTAGCCCCCGAAC
1 TTCCAAAAATTCCATTTTA-CCCCCGAAC
203840 TTCCAAAAATTACCATTTTACCCCCGAAC
1 TTCCAAAAATT-CCATTTTACCCCCGAAC
* * * *
203869 TTCTAAAAATTTCATTTTTACCCCTG-AG
1 TTCCAAAAATTCCA-TTTTACCCCCGAAC
* * **
203897 TGTCTAAAAATTACCATCTTACCCCCGATG
1 T-TCCAAAAATT-CCATTTTACCCCCGAAC
* *
203927 TGTCC-AAAATTATCGTTTTACCCCCGAA-
1 T-TCCAAAAATT-CCATTTTACCCCCGAAC
* * * * *
203955 TATCTAAAACTAACCATTTTGCCCCCG-AG
1 T-TCCAAAAAT-TCCATTTTACCCCCGAAC
* *
203984 TGTCCAAAAATTACCATTTTGCCCCCGAAG
1 T-TCCAAAAATT-CCATTTTACCCCCGAAC
*
204014 TGTCC-AAAATTATCATTTTACCC
1 T-TCCAAAAATT-CCATTTTACCC
204037 TCGGGCATCC
Statistics
Matches: 159, Mismatches: 28, Indels: 20
0.77 0.14 0.10
Matches are distributed among these distances:
28 8 0.05
29 130 0.82
30 21 0.13
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (28 bp):
TTCCAAAAATTCCATTTTACCCCCGAAC
Found at i:203876 original size:87 final size:88
Alignment explanation
Indices: 203726--204036 Score: 300
Period size: 87 Copynumber: 3.6 Consensus size: 88
203716 CCTCAAACCA
* * ** **
203726 CAAAAATTA-CATTTTTGCCCTCGAACATG-CCAAAAATTA-CATTTTTGTCCCTAAACTTCTAA
1 CAAAAATTACCATTTTAGCCCCCGAAC-TGTCC-AAAATTATCA-TTTTACCCCCGAACTTCTAA
*
203788 AACTTACCATTTTTCCCTTGAGAT-TC
63 AACTTACCATTTTTCCCCTGAG-TGTC
* * *
203814 CAACAATT-GCATTTTAGCCCCCGAACT-TCCAAAAATTACCATTTTACCCCCGAACTTCTAAAA
1 CAAAAATTACCATTTTAGCCCCCGAACTGTCC-AAAATTATCATTTTACCCCCGAACTTCTAAAA
* *
203877 ATT-TCATTTTTACCCCTGAGTGTC
65 CTTACCATTTTT-CCCCTGAGTGTC
* * ** *
203901 TAAAAATTACCATCTTA-CCCCCGATGTGTCCAAAATTATCGTTTTACCCCCGAA-TATCTAAAA
1 CAAAAATTACCATTTTAGCCCCCGAACTGTCCAAAATTATCATTTTACCCCCGAACT-TCTAAAA
* * *
203964 CTAACCATTTTGCCCCCGAGTGTC
65 CTTACCATTTTTCCCCTGAGTGTC
*
203988 CAAAAATTACCATTTT-GCCCCCGAAGTGTCCAAAATTATCATTTTACCC
1 CAAAAATTACCATTTTAGCCCCCGAACTGTCCAAAATTATCATTTTACCC
204037 TCGGGCATCC
Statistics
Matches: 186, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
86 9 0.05
87 138 0.74
88 39 0.21
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (88 bp):
CAAAAATTACCATTTTAGCCCCCGAACTGTCCAAAATTATCATTTTACCCCCGAACTTCTAAAAC
TTACCATTTTTCCCCTGAGTGTC
Found at i:203885 original size:58 final size:59
Alignment explanation
Indices: 203823--204036 Score: 199
Period size: 58 Copynumber: 3.7 Consensus size: 59
203813 CCAACAATTG
* *
203823 CATTTTAGCCCCCGAACT-TCCAAAAATTACCATTTTACCCCCGAACT-TCTAAAAATT-T
1 CATTTTA-CCCCCGAAGTGTCCAAAAATTACCATTTTACCCCCGAAGTGTC-AAAAATTAT
* * * * *
203881 CATTTTTACCCCTG-AGTGTCTAAAAATTACCATCTTACCCCCGATGTGTCCAAAATTAT
1 CA-TTTTACCCCCGAAGTGTCCAAAAATTACCATTTTACCCCCGAAGTGTCAAAAATTAT
* * * * * * *
203940 CGTTTTACCCCCGAA-TATCTAAAACTAACCATTTTGCCCCCG-AGTGTCCAAAAATTAC
1 CATTTTACCCCCGAAGTGTCCAAAAATTACCATTTTACCCCCGAAGTGT-CAAAAATTAT
* *
203998 CATTTTGCCCCCGAAGTGTCC-AAAATTATCATTTTACCC
1 CATTTTACCCCCGAAGTGTCCAAAAATTACCATTTTACCC
204037 TCGGGCATCC
Statistics
Matches: 124, Mismatches: 25, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
57 6 0.05
58 105 0.85
59 13 0.10
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (59 bp):
CATTTTACCCCCGAAGTGTCCAAAAATTACCATTTTACCCCCGAAGTGTCAAAAATTAT
Found at i:204062 original size:87 final size:86
Alignment explanation
Indices: 203823--204062 Score: 259
Period size: 87 Copynumber: 2.7 Consensus size: 86
203813 CCAACAATTG
* * * *
203823 CATTTTAGCCCCCGAACT-TCCAAAAATTACCATTTTACCCCCGAACTTCTAAAAATTTCATTTT
1 CATTTT-GCCCCCGAAGTGTCC-AAAATTATCATTTTACCCCCGAACATCTAAAAA-TCCATTTT
* * *
203887 TACCCCTGAGTGTCTAAAAATTAC
63 TGCCCCCGAGTGTCCAAAAATTAC
* * * * * *
203911 CATCTTACCCCCGATGTGTCCAAAATTATCGTTTTACCCCCGAATATCTAAAACTAACCA-TTTT
1 CATTTTGCCCCCGAAGTGTCCAAAATTATCATTTTACCCCCGAACATCTAAAA--ATCCATTTTT
203975 GCCCCCGAGTGTCCAAAAATTAC
64 GCCCCCGAGTGTCCAAAAATTAC
* ** *
203998 CATTTTGCCCCCGAAGTGTCCAAAATTATCATTTTACCCTCGGGCATCCAAAAATCGCATTTTTG
1 CATTTTGCCCCCGAAGTGTCCAAAATTATCATTTTACCCCCGAACATCTAAAAATC-CATTTTTG
204063 ACTCCGTTTG
Statistics
Matches: 124, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
85 2 0.02
86 2 0.02
87 109 0.88
88 10 0.08
89 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (86 bp):
CATTTTGCCCCCGAAGTGTCCAAAATTATCATTTTACCCCCGAACATCTAAAAATCCATTTTTGC
CCCCGAGTGTCCAAAAATTAC
Found at i:207088 original size:7 final size:7
Alignment explanation
Indices: 207076--207152 Score: 50
Period size: 7 Copynumber: 11.0 Consensus size: 7
207066 ATAAAAAAAT
207076 AATTGAG
1 AATTGAG
207083 AATTGAG
1 AATTGAG
*
207090 AATCGAG
1 AATTGAG
*
207097 GATTGAG
1 AATTGAG
*
207104 GATTGAG
1 AATTGAG
* *
207111 AGTTCA-
1 AATTGAG
207117 AGATTGAG
1 A-ATTGAG
207125 AATTTG-G
1 AA-TTGAG
*
207132 GATTGAG
1 AATTGAG
*
207139 TATTGAG
1 AATTGAG
*
207146 TATTGAG
1 AATTGAG
207153 TTGAAAAGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
6 4 0.07
7 48 0.86
8 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.32, T:0.31
Consensus pattern (7 bp):
AATTGAG
Found at i:207101 original size:21 final size:21
Alignment explanation
Indices: 207077--207128 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
207067 TAAAAAAATA
*
207077 ATTGAGAATTGAGA-ATCGAGG
1 ATTGAGAATTGAGAGATC-AAG
* *
207098 ATTGAGGATTGAGAGTTCAAG
1 ATTGAGAATTGAGAGATCAAG
207119 ATTGAGAATT
1 ATTGAGAATT
207129 TGGGATTGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.29
Consensus pattern (21 bp):
ATTGAGAATTGAGAGATCAAG
Found at i:210542 original size:159 final size:158
Alignment explanation
Indices: 210140--210559 Score: 466
Period size: 160 Copynumber: 2.6 Consensus size: 158
210130 CCAGATTGAG
* * *
210140 AAAAAAATCAGAACCCAAATTAGATTTAAATAATTTGGAATTGACATTAAAAAAGTGTTTACGAT
1 AAAAAAATCAAAACCCAAATTAGATTTAAATATTTTGGAATTGACAATAAAAAAGTGTTTACGAT
* ** * * * * *
210205 ATAACTGTGATCCAATTGTGTTAGCCTGAATGCATGGTGTTCTATTGTTCTTTTTTTGGCTTTTA
66 AT-ACTGTGATCCAGTTGTGTTAGGTTGAATGCATGGTGCTATATTGTTATTTTTTGGGCTTCTA
*
210270 GTTTCCGTACTCATACCAAACTAAGACCA
130 ATTTCCGTACTCATACCAAACTAAGACCA
* * * * * * * * *
210299 AAAAAAATCAAAACCCCAAATTATATTAAAATGTTTTTGAATTGACATTAGAATAGTGTATACAA
1 AAAAAAATCAAAA-CCCAAATTAGATTTAAATATTTTGGAATTGACAATAAAAAAGTGTTTACGA
* * * *
210364 TATACCTGTGATCCAGTTGTATTAGGTTGAATGCATGGTGCTATGTTTTTATTTTTTGGGGTTCT
65 TATA-CTGTGATCCAGTTGTGTTAGGTTGAATGCATGGTGCTATATTGTTATTTTTTGGGCTTCT
*
210429 AA-TTCTCGTACTCGTACCAAACTAAGACC-
129 AATTTC-CGTACTCATACCAAACTAAGACCA
* ** * *
210458 AAAAAAATCATAACCCAAATTAGATTTTTTATATTTTGGAATTGACAATGAAAAATTGTTTACGA
1 AAAAAAATCAAAACCCAAATTAGA-TTTAAATATTTTGGAATTGACAATAAAAAAGTGTTTACGA
* **
210523 TATACTTGTGTTCTTGTTGTGTTAGGTTGAATGCATG
65 TATAC-TGTGATCCAGTTGTGTTAGGTTGAATGCATG
210560 ATGTTTTGTT
Statistics
Matches: 214, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
158 11 0.05
159 87 0.41
160 116 0.54
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (158 bp):
AAAAAAATCAAAACCCAAATTAGATTTAAATATTTTGGAATTGACAATAAAAAAGTGTTTACGAT
ATACTGTGATCCAGTTGTGTTAGGTTGAATGCATGGTGCTATATTGTTATTTTTTGGGCTTCTAA
TTTCCGTACTCATACCAAACTAAGACCA
Found at i:212253 original size:24 final size:24
Alignment explanation
Indices: 212188--212278 Score: 92
Period size: 24 Copynumber: 3.7 Consensus size: 24
212178 GGGGAACCTA
* * *
212188 CTTCATCACCCTCACCTTCACCAC
1 CTTCATTACCATCACCCTCACCAC
* *
212212 CCTCATCCTCACCCTCACCCTCACCAC
1 CTTCAT--T-ACCATCACCCTCACCAC
* *
212239 CTTTATTAGCATCACCCTCACCAC
1 CTTCATTACCATCACCCTCACCAC
212263 CTTCATTACCATCACC
1 CTTCATTACCATCACC
212279 ATAATATTAC
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
24 34 0.62
25 1 0.02
27 20 0.36
ACGTcount: A:0.22, C:0.52, G:0.01, T:0.25
Consensus pattern (24 bp):
CTTCATTACCATCACCCTCACCAC
Found at i:216243 original size:42 final size:42
Alignment explanation
Indices: 216197--216328 Score: 133
Period size: 42 Copynumber: 3.2 Consensus size: 42
216187 TCCATTTGTA
* ** * **
216197 AATAATCCTATGCTCTTGCTGAGACATTGGTCTTCAATTTAT
1 AATAATCTTATGCTCTACCCGAGACATAAGTCTTCAATTTAT
* *
216239 AATAATTTTATGCTCTACCCGAGACATAAGTCTTCCATTTAT
1 AATAATCTTATGCTCTACCCGAGACATAAGTCTTCAATTTAT
* ** *
216281 AGACAATCTTATGCTCTACCTAAGACATAAGTCTTCCA-TTA-
1 A-ATAATCTTATGCTCTACCCGAGACATAAGTCTTCAATTTAT
216322 AATAATC
1 AATAATC
216329 ACCAAGTCTT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 5 0.07
41 1 0.01
42 38 0.50
43 32 0.42
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (42 bp):
AATAATCTTATGCTCTACCCGAGACATAAGTCTTCAATTTAT
Done.