Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008933.1 Hibiscus syriacus cultivar Beakdansim tig00112249_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: 2862162
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 14
Found at i:2203 original size:841 final size:842
Alignment explanation
Indices: 580--2264 Score: 3336
Period size: 841 Copynumber: 2.0 Consensus size: 842
570 AAGCTTTGAA
*
580 ATGAATGGGAAAACATTGAGCACCAAAATGCCCTTATAGACTATACTAAGTAAATGTCTTGGATT
1 ATGAATGGAAAAACATTGAGCACCAAAATGCCCTTATAGACTATACTAAGTAAATGTCTTGGATT
645 AATTAAGAAATTGTAATAAACATGAATGTTGTACTTTTTAATGTTATGAAACGCAATTTAAGCCG
66 AATTAAGAAATTGTAATAAACATGAATGTTGTACTTTTTAATGTTATGAAACGCAATTTAAGCCG
710 GTCAAACAATGATAGTGATATATCATTACTTGAATGGCATAGGTACCACTTGAATGCTAGTTCGT
131 GTCAAACAATGATAGTGATATATCATTACTTGAATGGCATAGGTACCACTTGAATGCTAGTTCGT
775 CTCCTCAAGTTTGGATTGATAATAATTATGGAAGTACTCAGCTCAGCTCAACGCTAGAGCGCATT
196 CTCCTCAAGTTTGGATTGATAATAATTATGGAAGTACTCAGCTCAGCTCAACGCTAGAGCGCATT
840 CGATATTAAGAAGTGGATATTCGTGAGATAAATCAATCACGAATACTAAAATGATTTAAGTATAT
261 CGATATTAAGAAGTGGATATTCGTGAGATAAATCAATCACGAATACTAAAATGATTTAAGTATAT
905 GATGAAAGTGAAATGAATGGAAGTACAACATGTACCTGAAACTTAGAAGTGTCTGAATTAATCTG
326 GATGAAAGTGAAATGAATGGAAGTACAACATGTACCTGAAACTTAGAAGTGTCTGAATTAATCTG
970 GAAAACTCTGAAGTAACCGGGATAGACTTGCGTGCTAAATGAACTAAGTAACCTCAATGACTGAG
391 GAAAACTCTGAAGTAACCGGGATAGACTTGCGTGCTAAATGAACTAAGTAACCTCAATGACTGAG
1035 GATTTAATAGGTGATTGGATGAGTTTGGAAACACTGATAAATATATATGATGAATTGTCTTTATG
456 GATTTAATAGGTGATTGGATGAGTTTGGAAACACTGATAAATATATATGATGAATTGTCTTTATG
1100 GGTCATGAACCATGAATTAAGTACGTCTGTATTTTCTGATATTGTTAAAACGTAGAAATGAAATA
521 GGTCATGAACCATGAATTAAGTACGTCTGTATTTTCTGATATTGTTAAAACGTAGAAATGAAATA
1165 AAGACCATAGGAAGATCTATTCAGCAATGGTTACGAAGATGATTTATGTACAAGAATTGTTAGTA
586 AAGACCATAGGAAGATCTATTCAGCAATGGTTACGAAGATGATTTATGTACAAGAATTGTTAGTA
1230 TTAAAGAGTGAATACTTGGAAAGGCAATAAATTGACGGGTCGACACGCATTAGTTCTGAGAGTTG
651 TTAAAGAGTGAATACTTGGAAAGGCAATAAATTGACGGGTCGACACGCATTAGTTCTGAGAGTTG
*
1295 TTCAGTTCAAATAGTACGATAAACCGATCGATCAACATGAATTGTAATGTCTGGAATCTCTGTTT
716 TTCAGTTCAAATAGTACGATAAACCGATCGATCAACATGAATTGTAATGTCTGGAATCTCCGTTT
1360 TTC-TTTTATTAGCTCAAATCACTCAGGTTATTCCTGAACACTTTCCTGATGTATATGAATC
781 TTCTTTTTATTAGCTCAAATCACTCAGGTTATTCCTGAACACTTTCCTGATGTATATGAATC
1421 ATGAATGGAAAAACATTGAGCACCAAAATGCCCTTATAGACTATACTAAGTAAATGTCTTGGATT
1 ATGAATGGAAAAACATTGAGCACCAAAATGCCCTTATAGACTATACTAAGTAAATGTCTTGGATT
1486 AATTAAGAAATTGTAATAAACATGAATGTTGTACTTTTTAATGTTATGAAACGCAATTTAAGCCG
66 AATTAAGAAATTGTAATAAACATGAATGTTGTACTTTTTAATGTTATGAAACGCAATTTAAGCCG
1551 GTCAAACAATGATAGTGATATATCATTACTTGAATGGCATAGGTACCACTTGAATGCTAGTTCGT
131 GTCAAACAATGATAGTGATATATCATTACTTGAATGGCATAGGTACCACTTGAATGCTAGTTCGT
1616 CTCCTCAAGTTTGGATTGATAATAATTATGGAAGTACTCAGCTCAGCTCAACGCTAGAGCGCATT
196 CTCCTCAAGTTTGGATTGATAATAATTATGGAAGTACTCAGCTCAGCTCAACGCTAGAGCGCATT
1681 CGATATTAAGAAGTGGATATTCGTGAGATAAATCAATCACGAATACTAAAATGATTTAAGTATAT
261 CGATATTAAGAAGTGGATATTCGTGAGATAAATCAATCACGAATACTAAAATGATTTAAGTATAT
1746 GATGAAAGTGAAATGAATGGAAGTACAACATGTACCTGAAACTTAGAAGTGTCTGAATTAATCTG
326 GATGAAAGTGAAATGAATGGAAGTACAACATGTACCTGAAACTTAGAAGTGTCTGAATTAATCTG
1811 GAAAACTCTGAAGTAACCGGGATAGACTTGCGTGCTAAATGAACTAAGTAACCTCAATGACTGAG
391 GAAAACTCTGAAGTAACCGGGATAGACTTGCGTGCTAAATGAACTAAGTAACCTCAATGACTGAG
1876 GATTTAATAGGTGATTGGATGAGTTTGGAAACACTGATAAATATATATGATGAATTGTCTTTATG
456 GATTTAATAGGTGATTGGATGAGTTTGGAAACACTGATAAATATATATGATGAATTGTCTTTATG
1941 GGTCATGAACCATGAATTAAGTACGTCTGTATTTTCTGATATTGTTAAAACGTAGAAATGAAATA
521 GGTCATGAACCATGAATTAAGTACGTCTGTATTTTCTGATATTGTTAAAACGTAGAAATGAAATA
2006 AAGACCATAGGAAGATCTATTCAGCAATGGTTACGAAGATGATTTATGTACAAGAATTGTTAGTA
586 AAGACCATAGGAAGATCTATTCAGCAATGGTTACGAAGATGATTTATGTACAAGAATTGTTAGTA
2071 TTAAAGAGTGAATACTTGGAAAGGCAATAAATTGACGGGTCGACACGCATTAGTTCTGAGAGTTG
651 TTAAAGAGTGAATACTTGGAAAGGCAATAAATTGACGGGTCGACACGCATTAGTTCTGAGAGTTG
2136 TTCAGTTCAAATAGTACGATAAACCGATCGATCAACATGAATTGTAATGTCTGGAATCTCCGTTT
716 TTCAGTTCAAATAGTACGATAAACCGATCGATCAACATGAATTGTAATGTCTGGAATCTCCGTTT
*
2201 TTCTTTTTATTAGCTCAAATCACTCAGGTTATTCCTGAACGCTTTCCTGATGTATATGAATC
781 TTCTTTTTATTAGCTCAAATCACTCAGGTTATTCCTGAACACTTTCCTGATGTATATGAATC
2263 AT
1 AT
2265 AGTGGAATTC
Statistics
Matches: 840, Mismatches: 3, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
841 781 0.93
842 59 0.07
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (842 bp):
ATGAATGGAAAAACATTGAGCACCAAAATGCCCTTATAGACTATACTAAGTAAATGTCTTGGATT
AATTAAGAAATTGTAATAAACATGAATGTTGTACTTTTTAATGTTATGAAACGCAATTTAAGCCG
GTCAAACAATGATAGTGATATATCATTACTTGAATGGCATAGGTACCACTTGAATGCTAGTTCGT
CTCCTCAAGTTTGGATTGATAATAATTATGGAAGTACTCAGCTCAGCTCAACGCTAGAGCGCATT
CGATATTAAGAAGTGGATATTCGTGAGATAAATCAATCACGAATACTAAAATGATTTAAGTATAT
GATGAAAGTGAAATGAATGGAAGTACAACATGTACCTGAAACTTAGAAGTGTCTGAATTAATCTG
GAAAACTCTGAAGTAACCGGGATAGACTTGCGTGCTAAATGAACTAAGTAACCTCAATGACTGAG
GATTTAATAGGTGATTGGATGAGTTTGGAAACACTGATAAATATATATGATGAATTGTCTTTATG
GGTCATGAACCATGAATTAAGTACGTCTGTATTTTCTGATATTGTTAAAACGTAGAAATGAAATA
AAGACCATAGGAAGATCTATTCAGCAATGGTTACGAAGATGATTTATGTACAAGAATTGTTAGTA
TTAAAGAGTGAATACTTGGAAAGGCAATAAATTGACGGGTCGACACGCATTAGTTCTGAGAGTTG
TTCAGTTCAAATAGTACGATAAACCGATCGATCAACATGAATTGTAATGTCTGGAATCTCCGTTT
TTCTTTTTATTAGCTCAAATCACTCAGGTTATTCCTGAACACTTTCCTGATGTATATGAATC
Found at i:8892 original size:21 final size:21
Alignment explanation
Indices: 8866--8909 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
8856 TGGATAGACT
8866 TGAACGTTGGTTGCATGTCGA
1 TGAACGTTGGTTGCATGTCGA
8887 TGAACGTTGGTTGCATGTCGA
1 TGAACGTTGGTTGCATGTCGA
8908 TG
1 TG
8910 GACTGAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.34
Consensus pattern (21 bp):
TGAACGTTGGTTGCATGTCGA
Found at i:8956 original size:17 final size:19
Alignment explanation
Indices: 8936--8970 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
8926 GTTTAAAATT
8936 TTTAAAT-TTTTA-TATAC
1 TTTAAATATTTTACTATAC
8953 TTTAAATATTTTACTATA
1 TTTAAATATTTTACTATA
8971 ATAATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAAATATTTTACTATAC
Found at i:9641 original size:71 final size:71
Alignment explanation
Indices: 9446--9641 Score: 237
Period size: 65 Copynumber: 2.8 Consensus size: 71
9436 TCCTAAAAAA
* * *
9446 AAGACTTGCCGACCCTATTAACT-GTGGCGATGTGTCAATGGCCAACCTGTACA-AGATACATCT
1 AAGACTTGCCAACCCTATTAACTAG-GGCGATGTATCAATGGCCAACCTGTA-ATAGATACATCC
9509 CAAAAACC
64 CAAAAACC
* * * * *
9517 AATACTTGCCAACCC-AATAACTA--G-G--GTATCAATGGCCAACCTATACTATATACATCCCA
1 AAGACTTGCCAACCCTATTAACTAGGGCGATGTATCAATGGCCAACCTGTAATAGATACATCCCA
*
9576 AAGACC
66 AAAACC
9582 AAGACTTGCCAACCCTATTAACTAGGGCGATGTATCAATGGCCAACCTGTAATAGATACA
1 AAGACTTGCCAACCCTATTAACTAGGGCGATGTATCAATGGCCAACCTGTAATAGATACA
9642 AGTGGTGGAT
Statistics
Matches: 103, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
65 47 0.46
66 7 0.07
67 1 0.01
68 2 0.02
69 1 0.01
70 6 0.06
71 39 0.38
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (71 bp):
AAGACTTGCCAACCCTATTAACTAGGGCGATGTATCAATGGCCAACCTGTAATAGATACATCCCA
AAAACC
Found at i:9922 original size:17 final size:17
Alignment explanation
Indices: 9885--9931 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
9875 TTCACGGAAT
*
9885 ATAAGATTATCAGCAGGA
1 ATAAGATTA-CTGCAGGA
*
9903 ATAAGATTACTGCGGGA
1 ATAAGATTACTGCAGGA
9920 ATAAGATTACTG
1 ATAAGATTACTG
9932 AGAATGTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (17 bp):
ATAAGATTACTGCAGGA
Found at i:12282 original size:20 final size:20
Alignment explanation
Indices: 12259--12345 Score: 156
Period size: 20 Copynumber: 4.3 Consensus size: 20
12249 CACAGAATGT
12259 AAGATTATCAGTAGGAATAA
1 AAGATTATCAGTAGGAATAA
12279 AAGATTATCAGTAGGAATAA
1 AAGATTATCAGTAGGAATAA
12299 AAGATTATCAGTAGGAATAA
1 AAGATTATCAGTAGGAATAA
* *
12319 AAGATTATCAGTGGGAATGA
1 AAGATTATCAGTAGGAATAA
12339 AAGATTA
1 AAGATTA
12346 CCAGGGAATA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.48, C:0.05, G:0.22, T:0.25
Consensus pattern (20 bp):
AAGATTATCAGTAGGAATAA
Found at i:15997 original size:21 final size:21
Alignment explanation
Indices: 15971--16026 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
15961 TTCTGGGTAG
15971 AGTGCACCGATGCACATTCCT
1 AGTGCACCGATGCACATTCCT
15992 AGTGCACCGATGCACATTCCT
1 AGTGCACCGATGCACATTCCT
*
16013 AGTGCATCGATGCA
1 AGTGCACCGATGCA
16027 TCAAGGTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.23
Consensus pattern (21 bp):
AGTGCACCGATGCACATTCCT
Found at i:16131 original size:64 final size:64
Alignment explanation
Indices: 16058--16281 Score: 208
Period size: 64 Copynumber: 3.5 Consensus size: 64
16048 TGTTTGAATG
* * **
16058 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AAT-ATATACATCGAATGCAATT
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATGA-A-ACATCGAATGCAATT
16120 CA
63 CA
* **
16122 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTCA
** ** * ** *
16186 TGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAGCAATAAT-ACTGCATCGAATACCTTTT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATGA-AACATCGAATGCAATTC
16249 A
64 A
*
16250 TGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
16282 ACCTTCATTA
Statistics
Matches: 135, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
63 2 0.01
64 125 0.93
65 7 0.05
66 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTCA
Found at i:16829 original size:31 final size:31
Alignment explanation
Indices: 16791--17043 Score: 443
Period size: 31 Copynumber: 8.2 Consensus size: 31
16781 AGAGTCGAGG
*
16791 GTTTACATATGTTTAAAGGCACATATAAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
16822 GTTTACATATGTTTAAAGGCACATATAAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
16853 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
16884 GTTTACATATGTTTAAAGGCATATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
16915 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
16946 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
16977 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
17008 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
17039 GTTTA
1 GTTTA
17044 TATTGTGACC
Statistics
Matches: 211, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 211 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:16955 original size:15 final size:15
Alignment explanation
Indices: 16935--17018 Score: 50
Period size: 15 Copynumber: 5.5 Consensus size: 15
16925 GTTTAAAGGC
16935 ACATATGAACAGTCT
1 ACATATGAACAGTCT
*
16950 ACATATGTTTAA-AGGC-
1 ACATATG---AACAGTCT
*
16966 ACATATGAACAGTTT
1 ACATATGAACAGTCT
* *
16981 ATATATGTTTAA-AGGC-
1 ACATATG---AACAGTCT
16997 ACATATGAACAGTCT
1 ACATATGAACAGTCT
17012 ACATATG
1 ACATATG
17019 TTTAAAGGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
13 4 0.08
14 5 0.10
15 20 0.39
16 13 0.25
17 5 0.10
18 4 0.08
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (15 bp):
ACATATGAACAGTCT
Found at i:18062 original size:40 final size:42
Alignment explanation
Indices: 17952--18262 Score: 136
Period size: 43 Copynumber: 7.3 Consensus size: 42
17942 GGACTTAAAC
* * *
17952 TATAAAAGTAAAAAGT-ATGATTAAAAAAATTAGGGACCA-CAA
1 TATAAAAATAAAAAGTGA-GATTGAAAAAATTA-GGAACATCAA
** * * *
17994 TTATAAAGCTAAAAAGTGATATT-AAAAAAATAGGAGCATCAA
1 -TATAAAAATAAAAAGTGAGATTGAAAAAATTAGGAACATCAA
* ** * *
18036 -ATTAAGGTAAAAGGTGAGATTGAAAAAATTAGGAACCTCAA
1 TATAAAAATAAAAAGTGAGATTGAAAAAATTAGGAACATCAA
** * ** *
18077 TTATAAAAATAAAAAGTGAGATTGAAAAAAGCA-GTAGTTTAA
1 -TATAAAAATAAAAAGTGAGATTGAAAAAATTAGGAACATCAA
** * * * *
18119 TTATAAAGGTACAAGGTGAGATTGAAAAACTTAGGATCATCAA
1 -TATAAAAATAAAAAGTGAGATTGAAAAAATTAGGAACATCAA
* * ** *
18162 TTATAAATGAA-AAAAAATGGGATTGAAAAAATTAAGGGTC-TCTAT
1 -TATAAA--AATAAAAAGTGAGATTGAAAAAATT-AGGAACATC-AA
* * *
18207 TATAAAGATAAAAAGT-AGGATT-ACAAAAATTAAGAACATCAT
1 TATAAAAATAAAAAGTGA-GATTGA-AAAAATTAGGAACATCAA
**
18249 TATAAGGATAAAAA
1 TATAAAAATAAAAA
18263 ATTAAAATTA
Statistics
Matches: 204, Mismatches: 50, Indels: 29
0.72 0.18 0.10
Matches are distributed among these distances:
40 17 0.08
41 21 0.10
42 62 0.30
43 72 0.35
44 26 0.13
45 6 0.03
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.24
Consensus pattern (42 bp):
TATAAAAATAAAAAGTGAGATTGAAAAAATTAGGAACATCAA
Found at i:18145 original size:85 final size:84
Alignment explanation
Indices: 17953--18192 Score: 227
Period size: 83 Copynumber: 2.8 Consensus size: 84
17943 GACTTAAACT
* * * * * ** *
17953 ATAAAAGTAAAAAGT-ATGATTAAAAAAATTAGGGACCACAATTATAAAGCTAAAAAGTGATATT
1 ATAAAGGTAAAAGGTGA-GATTGAAAAAATTAGGAACCTCAATTATAAAAATAAAAAGTGAGATT
*
18017 -AAAAAAATAGGAGCATCAA
65 GAAAAAAACAGGAGCATCAA
*
18036 ATTAAGGTAAAAGGTGAGATTGAAAAAATTAGGAACCTCAATTATAAAAATAAAAAGTGAGATTG
1 ATAAAGGTAAAAGGTGAGATTGAAAAAATTAGGAACCTCAATTATAAAAATAAAAAGTGAGATTG
* * * *
18101 AAAAAAGCAGTAG-TTTAA
66 AAAAAAACAGGAGCATCAA
* * * * * *
18119 TTATAAAGGTACAAGGTGAGATTGAAAAACTTAGGATCATCAATTATAAATGAA-AAAAAATGGG
1 --ATAAAGGTAAAAGGTGAGATTGAAAAAATTAGGAACCTCAATTATAAA--AATAAAAAGTGAG
18183 ATTGAAAAAA
62 ATTGAAAAAA
18193 TTAAGGGTCT
Statistics
Matches: 130, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
83 56 0.43
84 11 0.08
85 43 0.33
86 18 0.14
87 2 0.02
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.23
Consensus pattern (84 bp):
ATAAAGGTAAAAGGTGAGATTGAAAAAATTAGGAACCTCAATTATAAAAATAAAAAGTGAGATTG
AAAAAAACAGGAGCATCAA
Found at i:21215 original size:2 final size:2
Alignment explanation
Indices: 21208--21237 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21198 GTTTCACGAC
21208 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
21238 TTGCATTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26032 original size:139 final size:138
Alignment explanation
Indices: 25792--26156 Score: 515
Period size: 139 Copynumber: 2.6 Consensus size: 138
25782 GGGGTGAACA
* * * *
25792 TTCCATTATTTTGTTAGAGAATATGTTATAATTGCCCTATTA-TGACTCATGTCCCCCGAAGGCA
1 TTCCATTATTTTGTCAGAGAATAGGTTATAATTGTCCTATTAGTGACTCATGTCCCCCG-GGGCA
* *
25856 CTATTCATCTCAT-TACCTATCATGTTTGAGGGGACGCAACAAAGTGGTGAAAACACATTTCAAA
65 CTATTCATATCATGTACCTATCATGTTTGAGGAGACGCAACAAAGTGGTGAAAACACATTTCAAA
25920 GGGCGTGCC
130 GGGCGTGCC
* *
25929 TTCCATTATTTTGTCAGATAATAGGTTATAATTGTCCTATTATGTGACTCATGTCCCTCGGGGTC
1 TTCCATTATTTTGTCAGAGAATAGGTTATAATTGTCCTATTA-GTGACTCATGTCCCCCGGGG-C
* * *
25994 ACTATTCATAT-ATGTACCTATCATGTTTGAGGAGACGCAACAAAGTGGTGAAAGCGCATTTCAG
64 ACTATTCATATCATGTACCTATCATGTTTGAGGAGACGCAACAAAGTGGTGAAAACACATTTCAA
*
26058 GGGGCGTGCC
129 AGGGCGTGCC
* *
26068 TTCTATTATTTTTTCAGAGAATAGGTTATAATT-TCCCTATTAAGTGACTCATGTCCCCCGGGGA
1 TTCCATTATTTTGTCAGAGAATAGGTTATAATTGT-CCTATT-AGTGACTCATGTCCCCCGGGG-
26132 CACTATTCATATCA-GTACCTATCAT
63 CACTATTCATATCATGTACCTATCAT
26157 TTAAATTTTA
Statistics
Matches: 204, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
137 38 0.19
138 5 0.02
139 159 0.78
140 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (138 bp):
TTCCATTATTTTGTCAGAGAATAGGTTATAATTGTCCTATTAGTGACTCATGTCCCCCGGGGCAC
TATTCATATCATGTACCTATCATGTTTGAGGAGACGCAACAAAGTGGTGAAAACACATTTCAAAG
GGCGTGCC
Found at i:26705 original size:21 final size:22
Alignment explanation
Indices: 26676--26716 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
26666 AGGCATATAA
* *
26676 CCTGATGGGCTGGGTATGTACC
1 CCTGATGGGCTAGGAATGTACC
26698 CCTG-TGGGCTAGGAATGTA
1 CCTGATGGGCTAGGAATGTA
26717 ACACTGCGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.17, C:0.20, G:0.37, T:0.27
Consensus pattern (22 bp):
CCTGATGGGCTAGGAATGTACC
Found at i:27382 original size:17 final size:17
Alignment explanation
Indices: 27360--27395 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
27350 AAACTGAAAC
27360 ATAAATATACA-ATTCTA
1 ATAAATATA-ATATTCTA
27377 ATAAATATAATATTCTA
1 ATAAATATAATATTCTA
27394 AT
1 AT
27396 TATATTAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.06
17 17 0.94
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAAATATAATATTCTA
Found at i:28520 original size:30 final size:30
Alignment explanation
Indices: 28458--28549 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
28448 TAGCACAAAT
* * *
28458 AATAATTA-ATAAATA-AATTTAAATAAAT
1 AATAATTATATAAATATTATTTTAATAAAA
28486 AATAATTATATAAATATTATTTTAATAAAA
1 AATAATTATATAAATATTATTTTAATAAAA
* * *
28516 AATAA-TATTTATATAATTATATTAATAAAA
1 AATAATTATATAAAT-ATTATTTTAATAAAA
28546 AATA
1 AATA
28550 TGGTAACTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 8 0.15
29 14 0.25
30 33 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
AATAATTATATAAATATTATTTTAATAAAA
Found at i:28894 original size:60 final size:60
Alignment explanation
Indices: 28801--28921 Score: 172
Period size: 60 Copynumber: 2.0 Consensus size: 60
28791 TGTAACCAAT
* * * *
28801 CCCCGCGAAAGCCCCCCCAGAGGATGCGTCTTACCCTCGTGGCATCCCAGTCAGCTAAAA
1 CCCCGCGAAAGCCCCCCCAGAGGATGCGCCTTACCCGCGTGACATCACAGTCAGCTAAAA
* *
28861 CCCCGTGAAAGCGCGCCCCAG-GGATGCGCCTTACCCGCGTGACATCACAGTCAGCTAAAA
1 CCCCGCGAAAGC-CCCCCCAGAGGATGCGCCTTACCCGCGTGACATCACAGTCAGCTAAAA
28921 C
1 C
28922 TTCGGTAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 47 0.87
61 7 0.13
ACGTcount: A:0.24, C:0.39, G:0.23, T:0.14
Consensus pattern (60 bp):
CCCCGCGAAAGCCCCCCCAGAGGATGCGCCTTACCCGCGTGACATCACAGTCAGCTAAAA
Found at i:29324 original size:57 final size:56
Alignment explanation
Indices: 29263--29411 Score: 151
Period size: 56 Copynumber: 2.6 Consensus size: 56
29253 ATTAATTCAA
29263 AAAAATATTATGAACAGTGAAGACGAAG-GAAAAGTATAT-TGTCTTTAA-TTTTTAAT
1 AAAAA-ATTATGAACAGTGAAGACGAAGTG-AAAGTAT-TCTGTCTTTAATTTTTTAAT
* * * * * *
29319 CAAAAAATAATAAACAGTAAATATGATGTGAAAGTATTCTGTCTTTAATTTTTTAAT
1 -AAAAAATTATGAACAGTGAAGACGAAGTGAAAGTATTCTGTCTTTAATTTTTTAAT
* * *
29376 AAAAAAATAGTGAACAATGAAGACGATGTGAAAGTA
1 AAAAAATTA-TGAACAGTGAAGACGAAGTGAAAGTA
29412 ACGTCAGTTG
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
55 1 0.01
56 39 0.52
57 35 0.47
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (56 bp):
AAAAAATTATGAACAGTGAAGACGAAGTGAAAGTATTCTGTCTTTAATTTTTTAAT
Found at i:29353 original size:56 final size:57
Alignment explanation
Indices: 29293--29411 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 57
29283 AGACGAAGGA
* * * *
29293 AAAGTATAT-TGTCTTTAA-TTTTTAATCAAAAAATAATAAACAGTAAATATGATGTG
1 AAAGTAT-TCTGTCTTTAATTTTTTAATAAAAAAATAATAAACAATAAAGACGATGTG
* * *
29349 AAAGTATTCTGTCTTTAATTTTTTAATAAAAAAATAGTGAACAATGAAGACGATGTG
1 AAAGTATTCTGTCTTTAATTTTTTAATAAAAAAATAATAAACAATAAAGACGATGTG
29406 AAAGTA
1 AAAGTA
29412 ACGTCAGTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 1 0.02
56 16 0.30
57 37 0.69
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (57 bp):
AAAGTATTCTGTCTTTAATTTTTTAATAAAAAAATAATAAACAATAAAGACGATGTG
Found at i:35588 original size:15 final size:15
Alignment explanation
Indices: 35566--35606 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
35556 TTTAAATTAA
35566 AAATATATATAATAT
1 AAATATATATAATAT
* * *
35581 ATATATATTTAATTT
1 AAATATATATAATAT
35596 AAATATATATA
1 AAATATATATA
35607 TACCCGGCCC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATATATATAATAT
Found at i:36729 original size:22 final size:22
Alignment explanation
Indices: 36686--36729 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36676 TAAAAAAATA
* *
36686 TTATCTAAAATATTATTATTTT
1 TTATCTAAAACATAATTATTTT
36708 TTATCTAAAACATCAATT-TTTT
1 TTATCTAAAACAT-AATTATTTT
36730 AACATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATCTAAAACATAATTATTTT
Found at i:39010 original size:99 final size:100
Alignment explanation
Indices: 38815--39011 Score: 301
Period size: 99 Copynumber: 2.0 Consensus size: 100
38805 GATATATAAT
*
38815 AATAGCCTAACATAGGGTATATAAATGTACATAAAAAAATAAAATTGACTTGACACAGTATCATA
1 AATAGCCTAACATAGGATATATAAATGTACATAAAAAAATAAAATTGACTTGACACAGTATCATA
* *
38880 ATGAAAATACAATGACGAAACATCTCTAATGCAAA
66 ATGAAAAGACAATGACGAAAAATCTCTAATGCAAA
*
38915 AATAGCCTAACATAGGATATATAAATGTCCATAAAAAAAT-AAATTGACTTGACACA-TGATCAT
1 AATAGCCTAACATAGGATATATAAATGTACATAAAAAAATAAAATTGACTTGACACAGT-ATCAT
* *
38978 AATGAAAAGACAGTGAC-AACAAATCTGTAATGCA
65 AATGAAAAGACAATGACGAA-AAATCTCTAATGCA
39012 GAGAAAATCC
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
98 3 0.03
99 48 0.54
100 38 0.43
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.24
Consensus pattern (100 bp):
AATAGCCTAACATAGGATATATAAATGTACATAAAAAAATAAAATTGACTTGACACAGTATCATA
ATGAAAAGACAATGACGAAAAATCTCTAATGCAAA
Found at i:39665 original size:21 final size:21
Alignment explanation
Indices: 39639--39693 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
39629 GATTTACATA
39639 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
39660 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
39681 TTCGCGTTGCGAT
1 TTCGCATTGCGAT
39694 TTTCCAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:39705 original size:21 final size:21
Alignment explanation
Indices: 39620--39705 Score: 84
Period size: 21 Copynumber: 4.1 Consensus size: 21
39610 ACTTCGAGTA
* * *
39620 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGTCCAAAT
*
39640 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAAT
* *
39661 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAAT
* **
39682 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATAGTCCAAAT
39703 TCG
1 TCG
39706 ACTATCGCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 12 0.22
21 43 0.78
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAAT
Found at i:39795 original size:21 final size:21
Alignment explanation
Indices: 39754--39804 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
39744 TACATATTCA
*
39754 CATTGCGATAGTCCAAGTTCG
1 CATTGCGATAGTCCAACTTCG
*
39775 CATTGCGATAGTCGAACTTCG
1 CATTGCGATAGTCCAACTTCG
**
39796 TGTTGCGAT
1 CATTGCGAT
39805 TTTCCAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (21 bp):
CATTGCGATAGTCCAACTTCG
Found at i:39801 original size:111 final size:111
Alignment explanation
Indices: 39599--39894 Score: 511
Period size: 111 Copynumber: 2.7 Consensus size: 111
39589 GTTTCCAGAT
*
39599 TCGCAACGCGAACTTCGAGTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
*
39664 CATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGACTA
66 CATTGCGATAGTCGAACTTCGCGTTGCGATTTTCCAAATTCGACTA
*
39710 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCACATTGCGATAGTCCAAGTTCG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
* *
39775 CATTGCGATAGTCGAACTTCGTGTTGCGATTTTCCAAATTTGACTA
66 CATTGCGATAGTCGAACTTCGCGTTGCGATTTTCCAAATTCGACTA
* * *
39821 TCGCAACGCGAACTTCGATTATCTCATTGCGATTTACATATTCGCATTGCGATAGTCCAGGTTCG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
*
39886 CGTTGCGAT
66 CATTGCGAT
39895 TTTCCAAATT
Statistics
Matches: 175, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 175 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (111 bp):
TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
CATTGCGATAGTCGAACTTCGCGTTGCGATTTTCCAAATTCGACTA
Found at i:39891 original size:21 final size:21
Alignment explanation
Indices: 39861--40004 Score: 93
Period size: 21 Copynumber: 7.0 Consensus size: 21
39851 GATTTACATA
* *
39861 TTCGCATTGCGATAGTCCAGG
1 TTCGCGTTGCGATAGTCCAAG
** *
39882 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
39903 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
39922 TTTGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
39945 TT--CGTTGCGGTAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
39964 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
39987 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
40005 AATCGCAACG
Statistics
Matches: 94, Mismatches: 21, Indels: 18
0.71 0.16 0.14
Matches are distributed among these distances:
19 30 0.32
21 48 0.51
23 16 0.17
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:39943 original size:42 final size:42
Alignment explanation
Indices: 39867--40001 Score: 220
Period size: 42 Copynumber: 3.3 Consensus size: 42
39857 CATATTCGCA
* *
39867 TTGCGATAGTCCAGGTTCGCGTTGCGA-TT-TTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
39907 TTGCGATAGTCGAAGTTTGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
39949 TTGCGGTAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
39991 TTGCGATAGTC
1 TTGCGATAGTC
40002 CAAAATCGCA
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 24 0.28
41 2 0.02
42 61 0.70
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:40748 original size:21 final size:21
Alignment explanation
Indices: 40722--40856 Score: 145
Period size: 21 Copynumber: 6.4 Consensus size: 21
40712 ATTTTGGACT
40722 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
40743 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
40764 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
40785 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
*
40806 ATCGCAACGCGAACTTT-GACT--
1 ATCGCAA--CGAA-TTTGGAATAA
* *
40827 ATCGCAACAAACTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
40848 ATCGCAACG
1 ATCGCAACG
40857 CGAACTTGGA
Statistics
Matches: 95, Mismatches: 9, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
18 2 0.02
19 16 0.17
21 57 0.60
23 17 0.18
24 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:40821 original size:63 final size:63
Alignment explanation
Indices: 40722--40856 Score: 243
Period size: 63 Copynumber: 2.1 Consensus size: 63
40712 ATTTTGGACT
* *
40722 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACAAACTTGGAATAA
*
40785 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTTGACTATCGCAACAAACTTGGAATAA
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACAAACTTGGAATAA
40848 ATCGCAACG
1 ATCGCAACG
40857 CGAACTTGGA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (63 bp):
ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACAAACTTGGAATAA
Found at i:40857 original size:42 final size:42
Alignment explanation
Indices: 40785--40875 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
40775 TTTGGAATAA
* * *
40785 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTTGACT
1 ATCGCAACAAACTTGGAATAAATCGCAACGCGAACTTGGACT
40827 ATCGCAACAAACTTGGAATAAATCGCAACGCGAACTTGGACT
1 ATCGCAACAAACTTGGAATAAATCGCAACGCGAACTTGGACT
40869 ATCGCAA
1 ATCGCAA
40876 TGCGAATATG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
ATCGCAACAAACTTGGAATAAATCGCAACGCGAACTTGGACT
Found at i:40873 original size:63 final size:62
Alignment explanation
Indices: 40722--40881 Score: 214
Period size: 63 Copynumber: 2.5 Consensus size: 62
40712 ATTTTGGACT
* * *
40722 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAAT-AATCGCAACGCGAACTTGGACTATCGCAACAAACTTGGAATAA
* *
40785 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTTGACTATCGCAACAAACTTGGAATAA
1 ATCGCAACGAACTTGGAAT-AATCGCAACGCGAACTTGGACTATCGCAACAAACTTGGAATAA
* *
40848 ATCGCAACGCGAACTTGGACT-ATCGCAATGCGAA
1 ATCGCAA--CGAACTTGGAATAATCGCAACGCGAA
40882 TATGTAAATC
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
63 79 0.89
65 10 0.11
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (62 bp):
ATCGCAACGAACTTGGAATAATCGCAACGCGAACTTGGACTATCGCAACAAACTTGGAATAA
Found at i:40881 original size:21 final size:20
Alignment explanation
Indices: 40722--40875 Score: 125
Period size: 21 Copynumber: 7.3 Consensus size: 20
40712 ATTTTGGACT
*
40722 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAAT-A
*
40743 ATCGCAACGCGAACTTGGACT-
1 ATCGCAA--CGAACTTGGAATA
*
40764 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAAT-A
*
40785 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAAT-A
* *
40806 ATCGCAACGCGAACTTTGACT-
1 ATCGCAA--CGAACTTGGAATA
*
40827 ATCGCAACAAACTTGGAATAA
1 ATCGCAACGAACTTGGAAT-A
*
40848 ATCGCAACGCGAACTTGGACT-
1 ATCGCAA--CGAACTTGGAATA
40869 ATCGCAA
1 ATCGCAA
40876 TGCGAATATG
Statistics
Matches: 111, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
19 19 0.17
21 63 0.57
23 29 0.26
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAACTTGGAATA
Found at i:43709 original size:16 final size:16
Alignment explanation
Indices: 43688--43754 Score: 93
Period size: 16 Copynumber: 4.3 Consensus size: 16
43678 GTCTCCAACG
43688 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
* *
43704 TTTATGTTCTTGTTCG
1 TTTATGTTCGTGTTCA
*
43720 TTTATTTTCGTGTTCA
1 TTTATGTTCGTGTTCA
43736 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
43750 TTTAT
1 TTTAT
43755 TAAATGAACG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 6 0.13
15 2 0.04
16 37 0.82
ACGTcount: A:0.12, C:0.10, G:0.15, T:0.63
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:44831 original size:35 final size:37
Alignment explanation
Indices: 44757--44831 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 37
44747 TTTCGTCCTA
44757 CTAGGATTCAAACTCTCAAAAATAAGATAAAATTCTG
1 CTAGGATTCAAACTCTCAAAAATAAGATAAAATTCTG
* * * *
44794 CTAGGATTC-AACTCT-TAAAATAGGATAGAATTTTG
1 CTAGGATTCAAACTCTCAAAAATAAGATAAAATTCTG
44829 CTA
1 CTA
44832 TGTTTTAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 19 0.56
36 6 0.18
37 9 0.26
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTAGGATTCAAACTCTCAAAAATAAGATAAAATTCTG
Found at i:45171 original size:24 final size:23
Alignment explanation
Indices: 45128--45173 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
45118 ATGTAATATT
*
45128 TTTTTTACATTTTATGTATTTTC
1 TTTTTTACATTTTATATATTTTC
45151 TTTTTTAC-TTTAGTATATATTTT
1 TTTTTTACATTT--TATATATTTT
45174 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 8 0.40
24 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTACATTTTATATATTTTC
Found at i:45278 original size:37 final size:37
Alignment explanation
Indices: 45170--45304 Score: 123
Period size: 37 Copynumber: 3.5 Consensus size: 37
45160 TTAGTATATA
** *
45170 TTTTTATTTTTTTAGATTATATATATAAATATATTA-T
1 TTTTTATTTTTTTATTTTATATATATATATAT-TTACT
45207 TTTTTATTATCAGTTTTATTAATTTATATATATATATATTTACT
1 TTTTTATT-T---TTTTA-T--TTTATATATATATATATTTACT
45251 TTTTTATTTTTTTATTTTATATATATAT-T-TTTACTT
1 TTTTTATTTTTTTATTTTATATATATATATATTTAC-T
*
45287 TTTATTATTATTTTATTT
1 TTT-TTATTTTTTTATTT
45305 ATTTGTTTTA
Statistics
Matches: 84, Mismatches: 4, Indels: 20
0.78 0.04 0.19
Matches are distributed among these distances:
35 5 0.06
36 5 0.06
37 34 0.40
38 1 0.01
39 1 0.01
40 5 0.06
41 5 0.06
43 4 0.05
44 24 0.29
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.67
Consensus pattern (37 bp):
TTTTTATTTTTTTATTTTATATATATATATATTTACT
Found at i:45279 original size:21 final size:19
Alignment explanation
Indices: 45254--45308 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
45244 ATTTACTTTT
45254 TTATTTTTTTATTTTA-TA
1 TTATTTTTTTATTTTATTA
*
45272 TATATATTTTTACTTTTTATTA
1 T-TATTTTTTTA--TTTTATTA
45294 TTATTTTATTTATTT
1 TTATTTT-TTTATTT
45309 GTTTTATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 1 0.03
19 9 0.30
20 3 0.10
21 10 0.33
22 7 0.23
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (19 bp):
TTATTTTTTTATTTTATTA
Found at i:45340 original size:9 final size:9
Alignment explanation
Indices: 45326--45351 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
45316 TTCTATATTT
45326 TTTTTCTTC
1 TTTTTCTTC
45335 TTTTTCTTC
1 TTTTTCTTC
45344 TTTTTCTT
1 TTTTTCTT
45352 TATTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:45476 original size:15 final size:15
Alignment explanation
Indices: 45458--45487 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45448 TATTTATTTC
45458 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
45473 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
45488 ACATGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (15 bp):
TTACCTTTTTATCTA
Found at i:48497 original size:22 final size:22
Alignment explanation
Indices: 48474--48535 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
48464 AAAAAAGGGC
48474 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
* *
48497 AAAAAGGAAAAAACAAGAA-CA
1 AAAAAGAAAAAAAAAAGAAGCA
48518 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
48536 TAAAAAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:48526 original size:20 final size:20
Alignment explanation
Indices: 48474--48543 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
48464 AAAAAAGGGC
*
48474 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAG-AAAAA-ACAAGAA-CA
48497 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
48518 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
48538 AAAAAG
1 AAAAAG
48544 GGAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 18 0.43
21 7 0.17
22 6 0.14
23 10 0.24
24 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:49180 original size:22 final size:22
Alignment explanation
Indices: 49152--49202 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
49142 CCCCATCAAT
49152 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
49174 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
49196 CCTTTGA
1 CCTTTGA
49203 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:49622 original size:18 final size:18
Alignment explanation
Indices: 49599--49634 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
49589 TCAACATCAA
*
49599 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
49617 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
49635 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:50296 original size:36 final size:36
Alignment explanation
Indices: 50198--50355 Score: 271
Period size: 36 Copynumber: 4.3 Consensus size: 36
50188 ATTGAAAACA
* *
50198 TTTCCCTTGAAATAAATTTTCGTCTCTCTTGAGATAT
1 TTTCCCTTGAAATAAATTTT-GTCTCTCTTGAGACAG
*
50235 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGACAG
50272 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
50308 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
50344 TTTCCCTTGAAA
1 TTTCCCTTGAAA
50356 CAAAATATTT
Statistics
Matches: 116, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
36 71 0.61
37 38 0.33
38 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
Found at i:50435 original size:67 final size:66
Alignment explanation
Indices: 50308--50492 Score: 196
Period size: 67 Copynumber: 2.8 Consensus size: 66
50298 CTTGAGACAG
* ** *
50308 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATG
1 TTTCCCTTGAAAAAAATTCCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAATATG
50373 T
66 T
*
50374 TTTCCCTTGAAACAAAATTCCGTCTC-CATTGAGACAGTTTCTCTTGAAACATAAACA-TTGAA-
1 TTTCCCTTGAAA-AAAATTCCGTCTCTC-TTGAGACAGTTTCCCTTGAAACA-AAACATTTGAAT
***
50436 AACA
63 ATGT
** ** * *
50440 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATATTTTCCCTTGAAACAAAA
1 TTTCCCTTGAAAAAAATTCCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA
50493 TTTTGTCTCC
Statistics
Matches: 100, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
64 3 0.03
65 29 0.29
66 27 0.27
67 37 0.37
68 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.37
Consensus pattern (66 bp):
TTTCCCTTGAAAAAAATTCCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAATATG
T
Found at i:50485 original size:65 final size:66
Alignment explanation
Indices: 50235--50492 Score: 234
Period size: 72 Copynumber: 3.8 Consensus size: 66
50225 CTTGAGATAT
* * *** ***
50235 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCT
1 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACAT-T-T-GAA
50300 TGAGACA
62 T-A-ACA
* *
50307 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 -TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAATAA
**
50372 GT
65 CA
* ** *
50374 TTTCCCTTGAAACAAAATTCCGTCTC-CATTGAGACAGTTTCTCTTGAAACATAAACA-TTGAA-
1 TTTCCCTTGAAA-TAAATTTTGTCTCTC-TTGAGACAGTTTCCCTTGAAACA-AAACATTTGAAT
50436 AACA
63 AACA
* * *
50440 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATATTTTCCCTTGAAACAAAA
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA
50493 TTTTGTCTCC
Statistics
Matches: 156, Mismatches: 25, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
64 3 0.02
65 29 0.19
66 27 0.17
67 37 0.24
68 5 0.03
69 1 0.01
70 1 0.01
71 1 0.01
72 40 0.26
73 12 0.08
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (66 bp):
TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACATTTGAATAAC
A
Found at i:50501 original size:102 final size:102
Alignment explanation
Indices: 50373--50591 Score: 384
Period size: 102 Copynumber: 2.1 Consensus size: 102
50363 TTTGAATATG
50373 TTTTCCCTTGAAACAAAATTCCGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
1 TTTTCCCTTGAAACAAAATTCCGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
*
50438 CATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
66 CATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATA
** *
50475 TTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
1 TTTTCCCTTGAAACAAAATTCCGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
50540 CATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATA
66 CATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATA
* *
50577 GTTTCTCTTGAAACA
1 TTTTCCCTTGAAACA
50592 TAAACATTGA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 111 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (102 bp):
TTTTCCCTTGAAACAAAATTCCGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
CATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATA
Found at i:50507 original size:37 final size:37
Alignment explanation
Indices: 50440--50526 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
50430 ATTGAAAACA
** * * *
50440 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAT
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
50476 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
50513 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
50527 TAAACATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 12 0.27
37 32 0.73
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:50581 original size:65 final size:65
Alignment explanation
Indices: 50476--50656 Score: 308
Period size: 65 Copynumber: 2.8 Consensus size: 65
50466 CTTGAGATAT
** * *
50476 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAA-TGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
50541 A
65 A
*
50542 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACA
1 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
50607 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA
50657 AAATGTTGTC
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 97 0.89
66 12 0.11
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (65 bp):
TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:50620 original size:167 final size:167
Alignment explanation
Indices: 50115--50691 Score: 756
Period size: 167 Copynumber: 3.4 Consensus size: 167
50105 ACTAGAAGAG
*
50115 TTTTGTCTTTCTTGAGACAGTTTCCCTTGAAAC-AAA--TTGTCTCCCTTGAGACAGTTTCTCTT
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
* *
50177 GAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTCGTCTCTCTTGAGATATTTTCCCT
66 GAAACATAAACATTGAAAACATTTCCCTTGAAATAAA-TTTCGTCTCTCTTGAGATAGTTTCTCT
* * *
50242 TGAAACA-AAATTTTGTCTCTCTTG-AGACAGTTTCCCTTGAAATAAA
130 TGAAACATAAA--------C-ATTGAAAACA-TTTCCCTTGAAATGAA
* * *
50288 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
* *** * * *
50352 GAAACA-AAATATTTGAATATGTTTTCCCTTGAAACAAAATTCCGTCTC-CATTGAGACAGTTTC
66 GAAACATAAACA-TTGAA-AACATTTCCCTTGAAA-TAAATTTCGTCTCTC-TTGAGATAGTTTC
50415 TCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
127 TCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
* *
50456 TTTTGTCTCTCTTGAGATATTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
*
50521 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTT
66 GAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCTCTT
50586 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
131 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
* * *
50623 TTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATGTTGTCTCCCTTGAGACAGTTTTCTCT
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG-TTTCTCT
50688 TGAA
65 TGAA
50692 GCATCATCTT
Statistics
Matches: 358, Mismatches: 33, Indels: 31
0.85 0.08 0.07
Matches are distributed among these distances:
167 115 0.32
168 73 0.20
169 45 0.13
170 4 0.01
173 34 0.09
174 4 0.01
175 36 0.10
176 41 0.11
177 6 0.02
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (167 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
GAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCTCTT
GAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
Found at i:50718 original size:103 final size:104
Alignment explanation
Indices: 50562--50797 Score: 237
Period size: 104 Copynumber: 2.3 Consensus size: 104
50552 AATGAATTTC
*
50562 GTCTCTCTTGAGATAG-TTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT-GAAATGAATT
1 GTCTCTCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGGAAAT-AATT
* * * *
50625 TCGTCT-CTCTTGAGACAGTTTCTCTTGAAACAAAATGTT
65 TCATCTCCCCGTGAGACAATTTCTCTTGAAACAAAATGTT
* * * * * * ** * *
50664 GTCTCCCTTGAGACAGTTTTCTCTTGAAGCATCATCTTTGAATATGTTTTCCTTGGAACTAATTT
1 GTCTCTCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGGAAATAATTT
* * * * * *
50729 CATCTCCCCGTGAGATAATTTCTTTTGGAACTAAGTTTT
66 CATCTCCCCGTGAGACAATTTCTCTTGAAACAAAATGTT
*
50768 GTCTCTCTTGAGACAGTTTT-TCTTAAAACA
1 GTCTCTCTTGAGACAGTTTTCTCTTGAAACA
50798 AAATTTTGTC
Statistics
Matches: 107, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
102 14 0.13
103 46 0.43
104 47 0.44
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (104 bp):
GTCTCTCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGGAAATAATTT
CATCTCCCCGTGAGACAATTTCTCTTGAAACAAAATGTT
Found at i:50834 original size:37 final size:37
Alignment explanation
Indices: 50764--50835 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
50754 TGGAACTAAG
* * **
50764 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
* *
50801 TTTTGTCTCCCTTAAGACCGTTTCCCTTGAAACAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAA
50836 CAAATATCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.40
Consensus pattern (37 bp):
TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
Found at i:51467 original size:203 final size:204
Alignment explanation
Indices: 51118--52077 Score: 1072
Period size: 203 Copynumber: 4.6 Consensus size: 204
51108 GTCAATTTCG
*
51118 ACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
1 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * * *
51183 GGTTGTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTAACTTCACAGTGAAGGATATTGGACC
66 GGTTGTCAACAACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
* * * * **
51248 CAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGTTGACTGTTGACAAACAATTTCG-GAG
131 CAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAATTTCGTGAG
51312 CCAATCTCA
196 CCAATCTCA
51321 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
1 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * *
51386 GGTTGTCAACAATAATTTCCTAGTTTCAGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
66 GGTTGTCAACAACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
* * * * *
51451 CAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCGACAAGCAATTTCG-GAG
131 CAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAATTTCGTGAG
51515 CCAATCTCA
196 CCAATCTCA
* *
51524 ACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAGCGAAGGGACGGCT
1 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * * * *
51589 GGTTATCAACAAACAATTTCCCAATTCCAGAGCCGATTTCAACTCCAC-GAC-AGAGGATATCGT
66 GGTTGTCAAC-AACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAG-CGA-AGGATAT--T
* * * * ** *
51652 GCTACCCGAGACAACACAAGTTCAACTTCACAACGAAAGGACGGCTGGTTGTCAACGAACAACTT
126 G-GACCCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAA--T
* * * * *
51717 TTCAGTTTCATCCGCGATTTTA
188 TTC-G--TGA-GC-CAATCTCA
* * *
51739 ACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC
1 ACTTCACAG-CGAAGGATAT--TG-AACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC
* * * * *
51803 GGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCAATTTCAACTTCGCAGCGAAGGATATT
62 GGCTGGTTGTCAAC-AACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT
*** * * * *
51868 GGACTTGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGATTGTCAAC-AA-GATTTC
126 GGACCCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAATTTC
* *
51931 GTTCAGAGTCAATTTCA
191 G-T--GAGCCAATCTCA
* * * * *
51948 TCTTCACAGCGAAGGATATT-AGACTCGAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGC
1 ACTTCACAGCGAAGGATATTGA-ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGC
** * * *
52012 TGACTGTCAACAAACAATTTCCCAGTTCCAGAACCAATTTCAACTTCACAGCGGAGGATATTGGA
65 TGGTTGTCAAC-AACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
52077 C
129 C
52078 TCGGAACAAT
Statistics
Matches: 657, Mismatches: 76, Indels: 45
0.84 0.10 0.06
Matches are distributed among these distances:
203 270 0.41
204 38 0.06
206 96 0.15
207 49 0.07
209 26 0.04
210 3 0.00
211 5 0.01
213 2 0.00
214 4 0.01
215 68 0.10
216 2 0.00
217 2 0.00
218 90 0.14
219 2 0.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (204 bp):
ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
GGTTGTCAACAACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
CAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAATTTCGTGAG
CCAATCTCA
Found at i:51906 original size:106 final size:105
Alignment explanation
Indices: 51105--52080 Score: 940
Period size: 109 Copynumber: 9.4 Consensus size: 105
51095 CGTTTTATCT
* *
51105 AGAGTCAATTTCGACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * *
51170 CGAAGGGACGGCTGGTTGTCAAC-AATAATTTCCCAGTTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTT-TCAATTTC
* * * * * * * *
51210 AGGGCCAATTTTAACTTCACAGTGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * ** **
51275 CGAAGGGGCGGTTGACTGTTGAC--A-AA----CAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTTCAATTTC
* * *
51308 GGAGCCAATCTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * *
51373 CGAAGGGACGGCTGGTTGTCAAC-AATAATTTCCTAGTTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTTC-AATTTC
* * * * * *
51413 AGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* ** * *
51478 CGAAGGGGCGGCTGACTGT---C-GACAA---GCAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTTCAATTTC
* * *
51511 GGAGCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * *
51576 CGAAGGGACGGCTGGTTATCAACAAACAATTTCCCAATTCC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTT-TCAATTTC
* * * *
51617 AGAGCCGATTTCAACTCCAC-GAC-AGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTT
1 AGAGCCAATTTCAACTTCACAG-CGA-AGGATAT--TG-GACTCGAGACAACACAAGTTCAACTT
* * *
51680 CACAACGAAAGGACGGCTGGTTGTCAACGAACAACTTTTCAGTTTC
61 CACAACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTTCAATTTC
** * * * * *
51726 A-TCCGCGATTTTAACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTT
1 AGAGC-CAATTTCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTT
*
51789 CACAACGAAGGGACGGCTGGTTGTCAACAAACATTTTTCAAATTTC
61 CACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTC-AATTTC
* *
51835 AGAGCCAATTTCAACTTCGCAGCGAAGGATATTGGACTTGAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * * *
51900 CGAAGGGACGGTTGATTGTCAAC-AA-GA-TTTC--GTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTTCAATTTC
* * * * * *
51935 AGAGTCAATTTCATCTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* ** * * *
52000 CGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAGTTCC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTT-TCAATTTC
* *
52041 AGAACCAATTTCAACTTCACAGCGGAGGATATTGGACTCG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
52081 GAACAATATT
Statistics
Matches: 717, Mismatches: 122, Indels: 63
0.79 0.14 0.07
Matches are distributed among these distances:
98 155 0.22
99 2 0.00
100 82 0.11
101 3 0.00
102 9 0.01
103 8 0.01
104 3 0.00
105 153 0.21
106 117 0.16
107 2 0.00
108 8 0.01
109 170 0.24
110 5 0.01
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (105 bp):
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
CGAAGGGACGGCTGGTTGTCAACAAACAATTTTCAATTTC
Found at i:52597 original size:35 final size:36
Alignment explanation
Indices: 52541--52614 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 36
52531 TTTCGTCCTA
52541 CTAGGATTCAAACTCTCAAAATAAGATAGAATTCTG
1 CTAGGATTCAAACTCTCAAAATAAGATAGAATTCTG
* * *
52577 CTAGGATTC-AACTCTTAAAATAGGATAGAATTTTG
1 CTAGGATTCAAACTCTCAAAATAAGATAGAATTCTG
52612 CTA
1 CTA
52615 TGTTTTAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
35 26 0.74
36 9 0.26
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (36 bp):
CTAGGATTCAAACTCTCAAAATAAGATAGAATTCTG
Found at i:52936 original size:22 final size:21
Alignment explanation
Indices: 52911--52970 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
52901 TCTTTTTTTC
52911 ATGTAATATTTTTTTTACATTT
1 ATGTAATATTTTTTTTAC-TTT
*
52933 ATGT-ATTTTCTTTTTTACTTT
1 ATGTAATATT-TTTTTTACTTT
52954 A-GTATATATTTTATTTT
1 ATGTA-ATATTTT-TTTT
52971 TTAGATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
20 2 0.06
21 10 0.31
22 20 0.62
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (21 bp):
ATGTAATATTTTTTTTACTTT
Found at i:52982 original size:23 final size:23
Alignment explanation
Indices: 52921--52984 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 23
52911 ATGTAATATT
* *
52921 TTTTTTACATT-TATGTATTTTC
1 TTTTTTACATTATATATATTTTA
*
52943 TTTTTTACTTTAGTATATATTTTA
1 TTTTTTACATTA-TATATATTTTA
*
52967 TTTTTTAGATTATATATA
1 TTTTTTACATTATATATA
52985 AATATATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 10 0.29
23 6 0.17
24 19 0.54
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (23 bp):
TTTTTTACATTATATATATTTTA
Found at i:53050 original size:40 final size:39
Alignment explanation
Indices: 52976--53094 Score: 104
Period size: 37 Copynumber: 3.0 Consensus size: 39
52966 ATTTTTTAGA
* *
52976 TTATATATAAATATATA-TTTTTTATTATCATTTTATTAATTT
1 TTATATATATATATTTACTTTTTTATT-T--TTTTATT-ATTT
53018 TTATATATATATATTTACTTTTTTATTTTTTTA-T-TTT
1 TTATATATATATATTTACTTTTTTATTTTTTTATTATTT
* *
53055 ATATATAT-TAT-TTTACTTTTTATTATTATTTTATTTATTT
1 TTATATATATATATTTAC-TTTT-TTATTTTTTTA-TTATTT
53095 GTTTTATTTC
Statistics
Matches: 67, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
35 5 0.07
36 7 0.10
37 20 0.30
39 2 0.03
40 8 0.12
42 16 0.24
43 9 0.13
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (39 bp):
TTATATATATATATTTACTTTTTTATTTTTTTATTATTT
Found at i:53057 original size:27 final size:27
Alignment explanation
Indices: 52991--53145 Score: 80
Period size: 27 Copynumber: 5.8 Consensus size: 27
52981 TATAAATATA
* *
52991 TATTTTTTA-TTATCATTTTATTAATTTT
1 TATTTTATATTTATTATTTTATT--TTTT
53019 TATATATATATATTTACTT-TTTTATTTTTT
1 TAT-T-T-TATATTTA-TTATTTTATTTTTT
* *
53049 TATTTTATATATATTATTTTA-CTTTT
1 TATTTTATATTTATTATTTTATTTTTT
*
53075 TATTAT-TA-TT-TTA-TTTATTTGTTT
1 TATTTTATATTTATTATTTTATTT-TTT
*
53099 TATTTCTATATTT-TT-TTCTTCTTTTCTT
1 TATTT-TATATTTATTATT-TTATTTT-TT
*
53127 TATTTT-T-TATATTATTTTA
1 TATTTTATATTTATTATTTTA
53146 CTTACTATTT
Statistics
Matches: 100, Mismatches: 11, Indels: 34
0.69 0.08 0.23
Matches are distributed among these distances:
22 4 0.04
23 4 0.04
24 8 0.08
25 5 0.05
26 18 0.18
27 21 0.21
28 16 0.16
29 2 0.02
30 8 0.08
31 3 0.03
32 10 0.10
33 1 0.01
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.72
Consensus pattern (27 bp):
TATTTTATATTTATTATTTTATTTTTT
Found at i:53062 original size:35 final size:37
Alignment explanation
Indices: 53016--53090 Score: 111
Period size: 35 Copynumber: 2.1 Consensus size: 37
53006 TTTTATTAAT
*
53016 TTTTATATATA-TATATTTAC-TTTT-TTATTTTTTTA
1 TTTTATATATATTAT-TTTACTTTTTATTATTATTTTA
53051 TTTTATATATATTATTTTACTTTTTATTATTATTTTA
1 TTTTATATATATTATTTTACTTTTTATTATTATTTTA
53088 TTT
1 TTT
53091 ATTTGTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
35 16 0.44
36 7 0.19
37 13 0.36
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (37 bp):
TTTTATATATATTATTTTACTTTTTATTATTATTTTA
Found at i:53103 original size:18 final size:18
Alignment explanation
Indices: 53015--53087 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 18
53005 ATTTTATTAA
53015 TTTTTATATATATATATTTAC
1 TTTTTAT-TAT-TAT-TTTAC
*
53036 -TTTT-TTATTTTTTTA-
1 TTTTTATTATTATTTTAC
53051 TTTTATATATATTATTTTAC
1 TTTT-TAT-TATTATTTTAC
53071 TTTTTATTATTATTTTA
1 TTTTTATTATTATTTTA
53088 TTTATTTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
16 7 0.16
17 3 0.07
18 14 0.31
19 13 0.29
20 8 0.18
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTATTATTATTTTAC
Found at i:53123 original size:49 final size:48
Alignment explanation
Indices: 53039--53144 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 48
53029 TATTTACTTT
53039 TTTATTTTTTTATTTTATATATATTATTTTACTTTT-TATTATTATTTTA
1 TTTATTTTTTTATTTTATATATATTATTTTACTTTTCT-TTATT-TTTTA
*
53088 TTTATTTGTTTTATTTCTATAT-T-TT-TTTCTTCTTTTCTTTATTTTTTA
1 TTTATTT-TTTTATTT-TATATATATTATTT-TACTTTTCTTTATTTTTTA
53136 TATTATTTT
1 T-TTATTTT
53145 ACTTACTATT
Statistics
Matches: 51, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
48 10 0.20
49 26 0.51
50 10 0.20
51 5 0.10
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (48 bp):
TTTATTTTTTTATTTTATATATATTATTTTACTTTTCTTTATTTTTTA
Found at i:53157 original size:29 final size:29
Alignment explanation
Indices: 53015--53158 Score: 77
Period size: 29 Copynumber: 5.0 Consensus size: 29
53005 ATTTTATTAA
* * *
53015 TTTTTATA-TATATATATTTACTTTTTTAT
1 TTTTTATATTAT-TTTACTTACTATTTTAT
* * *
53044 TTTTT-TATT-TTATA-TATATTATTTTAC
1 TTTTTATATTATTTTACT-TACTATTTTAT
* * *
53071 TTTTTATTATTATTTTATTTATTTGTTTTA-
1 TTTTTA-TATTATTTTACTTA-CTATTTTAT
* * *
53101 TTTCTATATT-TTTTTCTT-CTTTTCTTTAT
1 TTTTTATATTATTTTACTTAC-TAT-TTTAT
53130 TTTTTATATTATTTTACTTACTATTTTAT
1 TTTTTATATTATTTTACTTACTATTTTAT
53159 CTTTGTTTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
26 1 0.01
27 19 0.21
28 13 0.14
29 28 0.31
30 20 0.22
31 9 0.10
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.72
Consensus pattern (29 bp):
TTTTTATATTATTTTACTTACTATTTTAT
Found at i:53172 original size:15 final size:15
Alignment explanation
Indices: 53154--53197 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
53144 TACTTACTAT
53154 TTTATCTTTGTTTTA
1 TTTATCTTTGTTTTA
*
53169 TTTATCTTATCTTTTA
1 TTTATCTT-TGTTTTA
*
53185 TTTA-ATTTGTTTT
1 TTTATCTTTGTTTT
53198 CTCTTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.73
Consensus pattern (15 bp):
TTTATCTTTGTTTTA
Found at i:53250 original size:15 final size:15
Alignment explanation
Indices: 53232--53261 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53222 AATTTATTTC
53232 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
*
53247 TTACCTTTTTTTCTA
1 TTACCTTTTTATCTA
53262 ACATGGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (15 bp):
TTACCTTTTTATCTA
Found at i:53659 original size:42 final size:42
Alignment explanation
Indices: 53600--53692 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
53590 GGTTACGACA
* * *
53600 CCTGTGCTTGTTTCACGTAATTCATTTTTCGAAAAATGTTTT
1 CCTGTGTTTATTTCACGTAATTCATTTTTCGAAAAATATTTT
53642 CCTGTGTTTATTTCACGTAATTCATTTTTCGAAAAATATTTT
1 CCTGTGTTTATTTCACGTAATTCATTTTTCGAAAAATATTTT
*
53684 CCAGTGTTT
1 CCTGTGTTT
53693 GGTTGGAGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (42 bp):
CCTGTGTTTATTTCACGTAATTCATTTTTCGAAAAATATTTT
Found at i:53952 original size:26 final size:25
Alignment explanation
Indices: 53893--53952 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 25
53883 TTCAATCAAA
53893 ATAATAATTATTAAGATATTTAAAAT
1 ATAAT-ATTATTAAGATATTTAAAAT
*
53919 AT-AT-TTATTAATAT-TTCTAATAAT
1 ATAATATTATTAAGATATT-TAA-AAT
53943 ATAATATTAT
1 ATAATATTAT
53953 ATTTTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
22 2 0.07
23 12 0.41
24 5 0.17
25 4 0.14
26 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
ATAATATTATTAAGATATTTAAAAT
Found at i:53970 original size:22 final size:23
Alignment explanation
Indices: 53924--53970 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
53914 AAAATATATT
*
53924 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATACAA
* *
53947 TATT-ATATTTTTAATATTACAA
1 TATTAATATTTCTAATAATACAA
53969 TA
1 TA
53971 AAATATCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTAATATTTCTAATAATACAA
Found at i:53976 original size:22 final size:22
Alignment explanation
Indices: 53928--53976 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
53918 TATATTTATT
* *
53928 AATATTTCTAATAATATAATAT
1 AATATTTCTAATAATACAATAA
* * *
53950 TATATTTTTAATATTACAATAA
1 AATATTTCTAATAATACAATAA
53972 AATAT
1 AATAT
53977 CAATTATATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATTTCTAATAATACAATAA
Found at i:54079 original size:27 final size:26
Alignment explanation
Indices: 54049--54136 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 26
54039 AATAGAATTT
*
54049 ATATTATTTATTAATTTCATAA-AAATA
1 ATATTATTTATT-A-TTAATAATAAATA
* *
54076 ATATTATTAAATTATTAATAATGAATA
1 ATATTATT-TATTATTAATAATAAATA
*
54103 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTAT-TA-TTAATAATAA-ATA
54132 ATATT
1 ATATT
54137 CTAATAATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
26 8 0.16
27 23 0.46
28 11 0.22
29 8 0.16
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (26 bp):
ATATTATTTATTATTAATAATAAATA
Found at i:54523 original size:15 final size:14
Alignment explanation
Indices: 54496--54529 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
54486 AAATATAATT
54496 CATTTTACGAAAAA
1 CATTTTACGAAAAA
*
54510 CATTTTTCGAAAAA
1 CATTTTACGAAAAA
*
54524 TATTTT
1 CATTTT
54530 CCAGAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (14 bp):
CATTTTACGAAAAA
Found at i:55859 original size:2 final size:2
Alignment explanation
Indices: 55852--55901 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
55842 TAATACATAC
55852 AT AT 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 AT AT
55894 AT AT AT AT
1 AT AT AT AT
55902 GTTTTGTGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57636 original size:22 final size:22
Alignment explanation
Indices: 57624--57672 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
57614 TAATTAGTAC
57624 ATATAAATAAATTCAACTTTAA
1 ATATAAATAAATTCAACTTTAA
57646 ATATAAATAAATTCAACTTATAA
1 ATATAAATAAATTCAACTT-TAA
57669 ATAT
1 ATAT
57673 TTAAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (22 bp):
ATATAAATAAATTCAACTTTAA
Found at i:57792 original size:27 final size:27
Alignment explanation
Indices: 57739--57792 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
57729 GAAATTAATT
* ** *
57739 TAATTATTATAATTAAGATCTATAATA
1 TAATAATTATAATTAAGATAGAAAATA
*
57766 TAATAATTATAATTAATATAGAAAATA
1 TAATAATTATAATTAAGATAGAAAATA
57793 AATTTATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (27 bp):
TAATAATTATAATTAAGATAGAAAATA
Found at i:57851 original size:37 final size:36
Alignment explanation
Indices: 57810--57930 Score: 111
Period size: 37 Copynumber: 3.2 Consensus size: 36
57800 TAATTTAATT
*
57810 ATCATAACTAACAATTTGTTTTAACTTTTAAAGAGTA
1 ATCATAA-TAACAATTTGTTTTAACTTTTAAAAAGTA
* *
57847 ATCATAATAACTATCATAATT-TATTTAA-TTGTTAAAAAATT
1 ATCATAATAAC-A--AT--TTGT-TTTAACTT-TTAAAAAGTA
*
57888 ATCTTAATTAACAATTTGTTTTAACTTTTAAAAAGTA
1 ATCATAA-TAACAATTTGTTTTAACTTTTAAAAAGTA
57925 ATCATA
1 ATCATA
57931 TTAATTATCA
Statistics
Matches: 67, Mismatches: 7, Indels: 20
0.71 0.07 0.21
Matches are distributed among these distances:
36 4 0.06
37 28 0.42
38 3 0.04
39 4 0.06
40 3 0.04
41 21 0.31
42 4 0.06
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (36 bp):
ATCATAATAACAATTTGTTTTAACTTTTAAAAAGTA
Found at i:57901 original size:78 final size:79
Alignment explanation
Indices: 57806--57955 Score: 239
Period size: 78 Copynumber: 1.9 Consensus size: 79
57796 TTATTAATTT
*
57806 AATTATCATAACTAACAATTTGTTTTAACTTTTAAAGAGTAATCATAATAACTATCATAATTTAT
1 AATTATCATAACTAACAATTTGTTTTAACTTTTAAAAAGTAATCATAATAACTATCATAATTTAT
57871 T-TAATTGTTAAAA
66 TATAATTGTTAAAA
* * * * *
57884 AATTATCTTAATTAACAATTTGTTTTAACTTTTAAAAAGTAATCATATTAATTATCATAGTTTAT
1 AATTATCATAACTAACAATTTGTTTTAACTTTTAAAAAGTAATCATAATAACTATCATAATTTAT
57949 TATAATT
66 TATAATT
57956 TCAAAATCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
78 60 0.92
79 5 0.08
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (79 bp):
AATTATCATAACTAACAATTTGTTTTAACTTTTAAAAAGTAATCATAATAACTATCATAATTTAT
TATAATTGTTAAAA
Found at i:65432 original size:2 final size:2
Alignment explanation
Indices: 65425--65452 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
65415 GTGCTTTTAT
65425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65453 AATCATTTTT
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):
TA
Found at i:65664 original size:2 final size:2
Alignment explanation
Indices: 65657--65724 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
65647 CAATCATGGA
65657 AT AT 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 AT AT
65699 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
65725 TGCGTAATAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70292 original size:32 final size:32
Alignment explanation
Indices: 70251--70384 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 32
70241 GATAATATCA
*
70251 AACACTTTATAGCTCAATATTCAAATATTCAAC
1 AACA-TTTATAGCTCAATATTCGAATATTCAAC
*
70284 AACATTTATAGCTCAATGTTCGAATATTCAAC
1 AACATTTATAGCTCAATATTCGAATATTCAAC
* * *
70316 AACATTTATAACTCAATATTCGAATATCCGAC
1 AACATTTATAGCTCAATATTCGAATATTCAAC
* * *
70348 AACACTTACAGCTCAATCTTCGAATATTCAAC
1 AACATTTATAGCTCAATATTCGAATATTCAAC
*
70380 GACAT
1 AACAT
70385 ACATGGACCT
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
32 83 0.95
33 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (32 bp):
AACATTTATAGCTCAATATTCGAATATTCAAC
Found at i:71066 original size:22 final size:22
Alignment explanation
Indices: 71040--71082 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
71030 CCTAAACTTT
71040 TAACTTTTTTAAAGTTTTAACG
1 TAACTTTTTTAAAGTTTTAACG
71062 TAACTTTTTTAAAGTTTTAAC
1 TAACTTTTTTAAAGTTTTAAC
71083 ATTAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (22 bp):
TAACTTTTTTAAAGTTTTAACG
Found at i:71092 original size:23 final size:22
Alignment explanation
Indices: 71039--71092 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
71029 ACCTAAACTT
71039 TTAACTTTTTTAAAGTTTTAAC
1 TTAACTTTTTTAAAGTTTTAAC
*
71061 GTAACTTTTTTAAAGTTTTAAC
1 TTAACTTTTTTAAAGTTTTAAC
*
71083 ATTAAATTTT
1 -TTAACTTTT
71093 GAACAGATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (22 bp):
TTAACTTTTTTAAAGTTTTAAC
Found at i:92310 original size:20 final size:20
Alignment explanation
Indices: 92287--92329 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
92277 AATCCACCAC
*
92287 ATGCAACTAAATGCTTCTAA
1 ATGCAACTAAATGATTCTAA
* *
92307 ATGCATCTATATGATTCTAA
1 ATGCAACTAAATGATTCTAA
92327 ATG
1 ATG
92330 GTCTTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGCAACTAAATGATTCTAA
Found at i:95121 original size:27 final size:25
Alignment explanation
Indices: 95091--95199 Score: 67
Period size: 27 Copynumber: 4.0 Consensus size: 25
95081 ATTCATAATG
95091 TTTTATATATATTAATTTAAGAAATAT
1 TTTTAT-TATATTAATTTAA-AAATAT
* *
95118 TTTTTTGTATATTAACTGATTAAATATA-
1 TTTTAT-TATATTAA-T--TTAAAAATAT
95146 TTTTATTATTAACTTAATTTAAAAATAT
1 TTTTATTA-T-A-TTAATTTAAAAATAT
* * *
95174 TTTATTTGTGTTTTAATTTAAAAATA
1 TTT-TAT-TATATTAATTTAAAAATA
95200 AAAAATTTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
27 37 0.57
28 10 0.15
29 9 0.14
30 9 0.14
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (25 bp):
TTTTATTATATTAATTTAAAAATAT
Found at i:95260 original size:37 final size:38
Alignment explanation
Indices: 95205--95276 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
95195 AAATAAAAAA
*
95205 TTTATTCTTATCTAAACTTTTAAAA-AATATATTTATT
1 TTTATTATTATCTAAACTTTTAAAAGAATATATTTATT
* * *
95242 TTTATTATTATTTTAACTTTTAAAAGTATATATTT
1 TTTATTATTATCTAAACTTTTAAAAGAATATATTT
95277 CATCTTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 22 0.73
38 8 0.27
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (38 bp):
TTTATTATTATCTAAACTTTTAAAAGAATATATTTATT
Found at i:95325 original size:30 final size:30
Alignment explanation
Indices: 95244--95344 Score: 84
Period size: 30 Copynumber: 3.5 Consensus size: 30
95234 TATTTATTTT
* *
95244 TATTATTATTTTAACTT-TTAAA-AGTA-TA
1 TATTATTATCTTAAATTATTAAATA-TATTA
* * *
95272 TATT-TCATCTTAATTTACTAAATATATTA
1 TATTATTATCTTAAATTATTAAATATATTA
* * *
95301 TATTATTATTTTAAATTATTAAATATGTTT
1 TATTATTATCTTAAATTATTAAATATATTA
*
95331 TATTTTTATCTTAA
1 TATTATTATCTTAA
95345 CTTCAAAATA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
27 9 0.16
28 10 0.18
29 7 0.12
30 31 0.54
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (30 bp):
TATTATTATCTTAAATTATTAAATATATTA
Found at i:95380 original size:20 final size:21
Alignment explanation
Indices: 95349--95403 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
95339 TCTTAACTTC
95349 AAAATA-TTTTAACAT-AAAAT
1 AAAATATTTTTAA-ATAAAAAT
*
95369 -ATATATTTTTAAATAAAAAT
1 AAAATATTTTTAAATAAAAAT
95389 AAAATATTTTTAAAT
1 AAAATATTTTTAAAT
95404 TAATTTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 6 0.20
20 11 0.37
21 13 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATATTTTTAAATAAAAAT
Found at i:95420 original size:27 final size:26
Alignment explanation
Indices: 95387--95475 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 26
95377 TTAAATAAAA
95387 ATAAAATATTTTTAAATTAATTTAAT
1 ATAAAATATTTTTAAATTAATTTAAT
* *
95413 AATAAAATATATTT-AA-TAAGTTAAT
1 -ATAAAATATTTTTAAATTAATTTAAT
*
95438 ATAAAAATATTTTTTAAACTTAATAT-AT
1 AT-AAAATA-TTTTTAAA-TTAATTTAAT
95466 ATAAAATATT
1 ATAAAATATT
95476 GTGAATTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
24 2 0.04
25 14 0.27
26 8 0.15
27 20 0.38
28 4 0.08
29 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (26 bp):
ATAAAATATTTTTAAATTAATTTAAT
Found at i:97607 original size:16 final size:16
Alignment explanation
Indices: 97586--97731 Score: 84
Period size: 16 Copynumber: 9.1 Consensus size: 16
97576 ATTATAATTT
*
97586 AACCGAAATCAACCCG
1 AACCGAAATCAACCCA
* *
97602 AACCGAAATGAACACA
1 AACCGAAATCAACCCA
*
97618 AACCGAAAGCAACCCA
1 AACCGAAATCAACCCA
*
97634 AACTGAAAGT-AA-CCA
1 AACCGAAA-TCAACCCA
* **
97649 AACCGAAAGCAATCTGA
1 AACCGAAATCAA-CCCA
* *
97666 AA-CGAAAATTAACCCG
1 AACCG-AAATCAACCCA
*
97682 AACCGAAATCAATCCA
1 AACCGAAATCAACCCA
** *
97698 AACAAAAAAT-AAACCA
1 AAC-CGAAATCAACCCA
* *
97714 AATCGAAAGCAACCCA
1 AACCGAAATCAACCCA
97730 AA
1 AA
97732 TTTAATTTAC
Statistics
Matches: 94, Mismatches: 28, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
15 15 0.16
16 65 0.69
17 14 0.15
ACGTcount: A:0.53, C:0.27, G:0.11, T:0.08
Consensus pattern (16 bp):
AACCGAAATCAACCCA
Found at i:97631 original size:32 final size:31
Alignment explanation
Indices: 97586--97731 Score: 107
Period size: 32 Copynumber: 4.6 Consensus size: 31
97576 ATTATAATTT
* *
97586 AACCGAAATCAACCCGAACCGAAA-TGAACACA
1 AACCGAAAGCAACCCAAACCGAAAGT-AAC-CA
*
97618 AACCGAAAGCAACCCAAACTGAAAGTAACCA
1 AACCGAAAGCAACCCAAACCGAAAGTAACCA
** * *
97649 AACCGAAAGCAATCTGAAA-CGAAAATTAACCCG
1 AACCGAAAGCAA-CCCAAACCG-AAAGTAA-CCA
* * ** *
97682 AACCGAAATCAATCCAAACAAAAAATAAACCA
1 AACCGAAAGCAACCCAAACCGAAAGT-AACCA
*
97714 AATCGAAAGCAACCCAAA
1 AACCGAAAGCAACCCAAA
97732 TTTAATTTAC
Statistics
Matches: 89, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
31 15 0.17
32 58 0.65
33 16 0.18
ACGTcount: A:0.53, C:0.27, G:0.11, T:0.08
Consensus pattern (31 bp):
AACCGAAAGCAACCCAAACCGAAAGTAACCA
Found at i:98248 original size:46 final size:46
Alignment explanation
Indices: 98196--98292 Score: 140
Period size: 46 Copynumber: 2.1 Consensus size: 46
98186 TAAACAGAAA
* * * *
98196 CAACCCGAATTAACTCGAAAATCTAAAGGTTGATCTGAACCAAAAC
1 CAACCCGAATTAACTCAAAAATCTAAAGCTTGACCCGAACCAAAAC
* *
98242 CAACCCGAATTGACTCAAAAATCTAAAGCTTGACCCGAACCGAAAC
1 CAACCCGAATTAACTCAAAAATCTAAAGCTTGACCCGAACCAAAAC
98288 CAACC
1 CAACC
98293 GATCTGATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.42, C:0.29, G:0.12, T:0.16
Consensus pattern (46 bp):
CAACCCGAATTAACTCAAAAATCTAAAGCTTGACCCGAACCAAAAC
Found at i:100276 original size:21 final size:20
Alignment explanation
Indices: 100190--100347 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
100180 AAATGACCAA
**
100190 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
100209 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
100229 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
100249 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
100270 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
100291 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
100311 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
100332 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
100348 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:100340 original size:20 final size:20
Alignment explanation
Indices: 100315--100625 Score: 79
Period size: 20 Copynumber: 15.5 Consensus size: 20
100305 GATTTTCAAT
* *
100315 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
100335 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
100355 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
100375 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
100395 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
100415 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
100435 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
100455 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
100476 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
100496 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
100516 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
100536 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
100556 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
100576 AATCGCAACGATAATC-CGTA
1 AATCGCAACGCGAA-CACATA
* *
100596 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
100616 AATCGCAACG
1 AATCGCAACG
100626 ATAATCCGTA
Statistics
Matches: 244, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
19 3 0.01
20 224 0.92
21 16 0.07
22 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:100360 original size:40 final size:40
Alignment explanation
Indices: 100315--100704 Score: 439
Period size: 40 Copynumber: 9.7 Consensus size: 40
100305 GATTTTCAAT
* ** * * *
100315 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAAC-CGTA
* *
100355 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
** * * *
100395 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
* * *
100435 TATCGCAACGCGTATCCGTAAATCGCAACGA-TAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGT-A
* *
100476 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
* * *
100516 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
100556 AATCGCAACGCGTATCCGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
100596 AATCGCAACGCGTATCCGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
* * *
100636 AATCGCAACGAGAATCTGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
* * * *
100676 AATCGCAACGAGAATCTGTAAATCACAAC
1 AATCGCAACGCGTATCCGTAAATCGCAAC
100705 ACTGAAATTT
Statistics
Matches: 312, Mismatches: 33, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
39 4 0.01
40 272 0.87
41 34 0.11
42 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
Found at i:100632 original size:20 final size:19
Alignment explanation
Indices: 100353--100704 Score: 398
Period size: 20 Copynumber: 17.6 Consensus size: 19
100343 CGCGAACACA
100353 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
100373 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
**
100393 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACG-GTATCCG
*
100413 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
100433 TATATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
* * *
100453 TAAATCGCAACGATAATACA
1 TAAATCGCAACGGT-ATCCG
100473 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACG-GTATCCG
100494 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
100514 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
100534 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
100554 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
100574 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
100594 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
100614 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
100634 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
100654 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
100674 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
100694 TAAATCACAAC
1 TAAATCGCAAC
100705 ACTGAAATTT
Statistics
Matches: 290, Mismatches: 33, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.01
20 270 0.93
21 16 0.06
22 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (19 bp):
TAAATCGCAACGGTATCCG
Found at i:101419 original size:24 final size:24
Alignment explanation
Indices: 101380--101426 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
101370 AAATTTGGTC
101380 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
101404 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
101427 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:101618 original size:12 final size:12
Alignment explanation
Indices: 101601--101625 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101591 ATATAATCCT
101601 GAAGAAGAAAAA
1 GAAGAAGAAAAA
101613 GAAGAAGAAAAA
1 GAAGAAGAAAAA
101625 G
1 G
101626 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:103916 original size:19 final size:19
Alignment explanation
Indices: 103894--104166 Score: 345
Period size: 19 Copynumber: 15.4 Consensus size: 19
103884 CGGAAAATAC
*
103894 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
103913 AATCCCAA--C---ATG-A
1 AATCGCAATGCGAAATGAA
103926 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
103946 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
103960 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
103979 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
103998 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
104012 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104031 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
104050 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
104069 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104088 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104107 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
104121 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104140 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
104159 AATCGCAA
1 AATCGCAA
104167 CGAGATAATC
Statistics
Matches: 224, Mismatches: 8, Indels: 44
0.81 0.03 0.16
Matches are distributed among these distances:
13 8 0.04
14 31 0.14
15 3 0.01
16 10 0.04
17 10 0.04
18 3 0.01
19 150 0.67
20 9 0.04
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:103945 original size:33 final size:33
Alignment explanation
Indices: 103894--104188 Score: 133
Period size: 33 Copynumber: 8.5 Consensus size: 33
103884 CGGAAAATAC
*
103894 AATCGCAACGCGAAATGAAAATCCCAAC-ATGA-
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAG
*
103926 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCCCAACGAGAG
* * *
103960 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAG
* * * * *
103992 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCCCAA--CG--A-GAG
* *
104031 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGG
1 AATCGCAATGCGAAATGAAAATCCCAA--CGAGA--G
* *
104068 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCCCAA--CG--A-GAG
* *
104107 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--CG--A-GAG
* *
104140 AATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAG
104173 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
104189 TATAAACGCA
Statistics
Matches: 221, Mismatches: 17, Indels: 49
0.77 0.06 0.17
Matches are distributed among these distances:
31 7 0.03
32 17 0.08
33 90 0.41
34 13 0.06
35 8 0.04
36 9 0.04
38 61 0.28
39 7 0.03
40 8 0.04
41 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAG
Found at i:104094 original size:109 final size:105
Alignment explanation
Indices: 103925--104188 Score: 451
Period size: 109 Copynumber: 2.5 Consensus size: 105
103915 TCCCAACATG
103925 AAATCGCAATGCGGAAATGAAAATCGCAACGAGA-GAATCGCAATGCGAAATGAAAATCGCAATG
1 AAATCGCAATGC-GAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAATGAAAATCGCAATG
*
103989 CGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
65 CGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGA
*
104030 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAAAATCGCA
1 AAATCGCAATGCGAAATGAAAATCGCAA--CGAGAT-G-AATCGCAATGCGAAATGAAAATCGCA
104095 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGA
62 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGA
104139 AAATCGCAATGCGAAATGAAAATCGCAACGAGAT-AATCGCAATGCGAAAT
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAAT
104189 TATAAACGCA
Statistics
Matches: 151, Mismatches: 3, Indels: 11
0.92 0.02 0.07
Matches are distributed among these distances:
104 32 0.21
105 12 0.08
106 4 0.03
107 5 0.03
108 1 0.01
109 97 0.64
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (105 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAATGAAAATCGCAATGC
GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGA
Found at i:104204 original size:52 final size:52
Alignment explanation
Indices: 103925--104188 Score: 447
Period size: 52 Copynumber: 5.0 Consensus size: 52
103915 TCCCAACATG
103925 AAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 AAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
103978 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
*
104030 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAA--CGAGA--G-AATCGCAATGCGAAATGA
*
104087 AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
*
104139 AAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
104189 TATAAACGCA
Statistics
Matches: 203, Mismatches: 3, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
52 134 0.66
53 13 0.06
54 4 0.02
55 5 0.02
56 1 0.00
57 46 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
Found at i:104285 original size:19 final size:19
Alignment explanation
Indices: 104195--104277 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
104185 AAATTATAAA
104195 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
104214 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
104234 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
104250 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
104267 CGCATTGCGAT
1 CGCATTGCGAT
104278 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:104403 original size:14 final size:14
Alignment explanation
Indices: 104384--104420 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
104374 CATCAATTAC
104384 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
104398 ACAAATCATCTTTT
1 ACAAATCAACTTTT
104412 ACAAATCAA
1 ACAAATCAA
104421 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:106382 original size:14 final size:14
Alignment explanation
Indices: 106363--106419 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
106353 GCGAAATGAA
*
106363 AATCGCAACGACAG
1 AATCGCAACGAAAG
106377 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
106394 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
106410 AATCGCAACG
1 AATCGCAACG
106420 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:106390 original size:33 final size:33
Alignment explanation
Indices: 106344--106436 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
106334 GCGAAACCAA
*
106344 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
106377 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
106410 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
106437 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:106401 original size:19 final size:19
Alignment explanation
Indices: 106307--106441 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
106297 TAGTTTACTT
* *
106307 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
106327 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
106346 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
106365 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
106379 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
106398 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
106412 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
106431 TCGCAATGCGA
1 TCGCAACGCGA
106442 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:106503 original size:33 final size:33
Alignment explanation
Indices: 106437--106527 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
106427 AAAATCGCAA
106437 TGCGATTTTGGTTTCGCGTTGCGA-TCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
106469 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
106502 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
106528 TGGTTTCGCG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 24 0.43
33 32 0.57
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:106504 original size:14 final size:14
Alignment explanation
Indices: 106453--106508 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
106443 TTTGGTTTCG
106453 CGTTGCGA-TCTGT
1 CGTTGCGATTCTGT
*
106466 CGTTGCGATTTTGGTTT
1 CGTTGCGATTCT-G--T
106483 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTGT
106499 CGTTGCGATT
1 CGTTGCGATT
106509 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
13 8 0.23
14 12 0.34
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.31
ACGTcount: A:0.07, C:0.20, G:0.30, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTGT
Found at i:106777 original size:92 final size:93
Alignment explanation
Indices: 106607--106981 Score: 699
Period size: 92 Copynumber: 4.1 Consensus size: 93
106597 TTGAATGGAT
106607 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
106672 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
106700 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
106764 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
106792 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
106854 AGTTTAGCAGAA-TGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
106881 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTG-TAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
106945 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
106973 AAATTTACT
1 AAATTTACT
106982 AAGCAATCTA
Statistics
Matches: 277, Mismatches: 1, Indels: 9
0.97 0.00 0.03
Matches are distributed among these distances:
89 49 0.18
90 40 0.14
91 27 0.10
92 122 0.44
93 39 0.14
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:106915 original size:181 final size:185
Alignment explanation
Indices: 106607--106981 Score: 697
Period size: 181 Copynumber: 2.0 Consensus size: 185
106597 TTGAATGGAT
106607 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
106672 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
106737 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTG-TAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
106792 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
106854 AGTTTAGCAGAA-TGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
106918 TACTATTTCACAGTGTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
106973 AAATTTACT
1 AAATTTACT
106982 AAGCAATCTA
Statistics
Matches: 188, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
181 102 0.54
182 49 0.26
183 1 0.01
184 2 0.01
185 34 0.18
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:108702 original size:14 final size:14
Alignment explanation
Indices: 108683--108772 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
108673 TTGAAATGAA
108683 AATCGCAACGAGAG
1 AATCGCAACGAGAG
108697 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
108714 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
108730 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
108749 AATCGCAACGAGAG
1 AATCGCAACGAGAG
108763 AATCGCAACG
1 AATCGCAACG
108773 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:108720 original size:33 final size:33
Alignment explanation
Indices: 108675--108789 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
108665 TCTTTTGGTT
108675 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
108708 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
108741 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
108774 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
108790 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:108721 original size:19 final size:18
Alignment explanation
Indices: 108682--108794 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
108672 GTTGAAATGA
108682 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
108697 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
108714 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
108730 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
108747 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
108763 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
108780 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
108795 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:108825 original size:14 final size:14
Alignment explanation
Indices: 108806--108860 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
108796 TTTGGTTTCG
108806 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
108820 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
108839 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
108853 CGTTGCGA
1 CGTTGCGA
108861 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:108838 original size:33 final size:33
Alignment explanation
Indices: 108790--108860 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
108780 AAAATCGCAA
**
108790 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
108823 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
108856 TGCGA
1 TGCGA
108861 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:108868 original size:33 final size:33
Alignment explanation
Indices: 108801--108882 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
108791 GCGATTTTGG
***
108801 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
108834 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
108867 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
108883 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:108887 original size:20 final size:20
Alignment explanation
Indices: 108813--108901 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
108803 TCGCGTTGCG
108813 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
108833 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
108846 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
108866 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
108886 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
108902 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:109021 original size:33 final size:33
Alignment explanation
Indices: 108979--109049 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
108969 AAATACTACT
*
108979 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
109012 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
109045 TGAAA
1 TGAAA
109050 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:109283 original size:22 final size:22
Alignment explanation
Indices: 109231--109285 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
109221 TGGTTGTGAG
**
109231 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
109253 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
109275 GGATTTCTTCG
1 GGATTTCTTCG
109286 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Done.