Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001700.1 Hibiscus syriacus cultivar Beakdansim tig00003398_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: 2632955
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:19077 original size:75 final size:74
Alignment explanation
Indices: 18978--19198 Score: 281
Period size: 72 Copynumber: 3.0 Consensus size: 74
18968 TCTAGGAACA
* *
18978 ACCTTCCTAATAGGATGCTTTCCGCTTCTTAAAACCTTTGCATCATGCATGCTACAGTCATTTTG
1 ACCTTCCTAATAGGATGCTTTCCGCTTCTTAAAACCTTTGTATCAAGCATGCTACA-TCATTTTG
19043 ATCACCATCC
65 ATCACCATCC
* *
19053 ACC-TCTCTAATAGGACGCTTTCCGCTTCTTAAAACC-TTGATATAAAGCATGCTACTATCATTT
1 ACCTTC-CTAATAGGATGCTTTCCGCTTCTTAAAACCTTTG-TATCAAGCATGCTAC-ATCATTT
*
19116 TGAT---CATCT
63 TGATCACCATCC
* * * *
19125 ACCTTCCTAATAGGATGCTTTCTGCTTCTTAAAACCTTGGTATCAAGCATGCCACAATCATTCTG
1 ACCTTCCTAATAGGATGCTTTCCGCTTCTTAAAACCTTTGTATCAAGCATGCTAC-ATCATTTTG
19190 ATCACCATC
65 ATCACCATC
19199 TATATATGCT
Statistics
Matches: 126, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
72 58 0.46
73 4 0.03
74 5 0.04
75 58 0.46
76 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (74 bp):
ACCTTCCTAATAGGATGCTTTCCGCTTCTTAAAACCTTTGTATCAAGCATGCTACATCATTTTGA
TCACCATCC
Found at i:27422 original size:21 final size:21
Alignment explanation
Indices: 27398--27447 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
27388 GGAGGGAACT
27398 GATTCCCCCCAAGAGGGTATC
1 GATTCCCCCCAAGAGGGTATC
*
27419 GATTCCCCCCAAGGGGGTATC
1 GATTCCCCCCAAGAGGGTATC
27440 GATTCCCC
1 GATTCCCC
27448 ACTTGTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.36, G:0.24, T:0.20
Consensus pattern (21 bp):
GATTCCCCCCAAGAGGGTATC
Found at i:35063 original size:26 final size:26
Alignment explanation
Indices: 35033--35145 Score: 109
Period size: 26 Copynumber: 3.9 Consensus size: 26
35023 TTTTTTAAAT
35033 GATAAATGGGAGAAGTGTTAAAGAAC
1 GATAAATGGGAGAAGTGTTAAAGAAC
*
35059 GATAAATGGGAGAAGTGTTAAAGTAAGGGG
1 GATAAATGGGAGAAGTGTTAAAG-AA---C
35089 GATTAAATGATAAATGAGAGAAGTGTTAAAGAAC
1 GA-TAAATG------G-GAGAAGTGTTAAAGAAC
35123 GATAAATGGGAGAAGTGTTAAAG
1 GATAAATGGGAGAAGTGTTAAAG
35146 TAAGGGGGAG
Statistics
Matches: 73, Mismatches: 2, Indels: 24
0.74 0.02 0.24
Matches are distributed among these distances:
26 37 0.51
27 3 0.04
30 2 0.03
31 6 0.08
33 6 0.08
34 2 0.03
37 3 0.04
38 14 0.19
ACGTcount: A:0.45, C:0.02, G:0.32, T:0.21
Consensus pattern (26 bp):
GATAAATGGGAGAAGTGTTAAAGAAC
Found at i:35110 original size:64 final size:64
Alignment explanation
Indices: 35027--35159 Score: 248
Period size: 64 Copynumber: 2.1 Consensus size: 64
35017 AAAATGTTTT
*
35027 TTAAATGATAAATGGGAGAAGTGTTAAAGAACGATAAATGGGAGAAGTGTTAAAGTAAGGGGGA
1 TTAAATGATAAATGAGAGAAGTGTTAAAGAACGATAAATGGGAGAAGTGTTAAAGTAAGGGGGA
35091 TTAAATGATAAATGAGAGAAGTGTTAAAGAACGATAAATGGGAGAAGTGTTAAAGTAAGGGGGA
1 TTAAATGATAAATGAGAGAAGTGTTAAAGAACGATAAATGGGAGAAGTGTTAAAGTAAGGGGGA
*
35155 GTAAA
1 TTAAA
35160 ATCTTAAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.45, C:0.02, G:0.32, T:0.22
Consensus pattern (64 bp):
TTAAATGATAAATGAGAGAAGTGTTAAAGAACGATAAATGGGAGAAGTGTTAAAGTAAGGGGGA
Found at i:36515 original size:21 final size:21
Alignment explanation
Indices: 36475--36524 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
36465 CATGACAATC
*
36475 TACAATATTGGTGTGTCAGTT
1 TACAATATTGGTGTGTCAGTA
*
36496 TACAATATTGTTGTAG-CAGTA
1 TACAATATTGGTGT-GTCAGTA
*
36517 CACAATAT
1 TACAATAT
36525 ATGATGATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (21 bp):
TACAATATTGGTGTGTCAGTA
Found at i:45945 original size:2 final size:2
Alignment explanation
Indices: 45940--45972 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45930 TATATTATTA
45940 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45973 ACCTTAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53221 original size:21 final size:20
Alignment explanation
Indices: 53184--53225 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
53174 AACAAGAAGA
*
53184 AAAATAAAGATATAATATAAG
1 AAAATAAAGATACAATA-AAG
53205 AAAATAAA-ATAACAATAAAG
1 AAAATAAAGAT-ACAATAAAG
53225 A
1 A
53226 CTATTGCCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.19
Consensus pattern (20 bp):
AAAATAAAGATACAATAAAG
Found at i:58314 original size:17 final size:18
Alignment explanation
Indices: 58288--58330 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
58278 AACTTAAAAA
*
58288 TGAAAATAAT-TTGGTTT
1 TGAAAATAATATTGATTT
*
58305 TGAAAGTAATAGTTGATTT
1 TGAAAATAATA-TTGATTT
58324 TGAAAAT
1 TGAAAAT
58331 CAACATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 9 0.43
19 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (18 bp):
TGAAAATAATATTGATTT
Found at i:59827 original size:19 final size:19
Alignment explanation
Indices: 59799--59851 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
59789 AATGCAAAAT
*
59799 GGGTACCGATGCCATGCAA
1 GGGTATCGATGCCATGCAA
59818 GGGTATCGATGCCATGCAA
1 GGGTATCGATGCCATGCAA
*
59837 GGGTATCGATACCAT
1 GGGTATCGATGCCAT
59852 AGTGCAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (19 bp):
GGGTATCGATGCCATGCAA
Found at i:60503 original size:362 final size:366
Alignment explanation
Indices: 59818--60503 Score: 1076
Period size: 362 Copynumber: 1.9 Consensus size: 366
59808 TGCCATGCAA
* * * *
59818 GGGTATCGATGCCATGCAAGGGTATCGATACCATAGTGCAAAGTAGTATCGATACCCCTTAGGCA
1 GGGTACCGATACCATGCAAGGGTATCAATACCATAGTGCAAAGTAGTACCGATACCCCTTAGGCA
59883 GTATCGATACTACAAGGCTCCAACGACTAGCAACGACTAGTTAAATTTGAAATTAACAAAGGTAG
66 GTATCGATACTACAAGGCTCCAAC-AC-AG--A-GACTAGTTAAATTTGAAATTAACAAAGGTAG
* * * * * *
59948 TATCGATACCCTATAGAGGGTATCGATACTTCCTATTCTGGACAGCCTTATTTTGCAGAAAATTA
126 TACCAATACCCTATAGAGGGTACCGATACTTCCTATTCTAGACAACATTATTTTGCAGAAAATTA
* * * * *
60013 ATCCCCAACGGCTCTAAAACATTCCCAACGGCTAGATACGACTTCAAACTCATTTCAAGCTATAA
191 ATCCCCAACGACTCCAAAACATCCCCAACGGCTAGATACGACTTCAAACTCATTTCAACCTACAA
60078 AAACAAGCTGAAGACACTTGAAGAAGATAGAGAACAACTATCCAAGAAATCAAACACAAGAGAAG
256 AAACAAGCTGAAGACACTTGAAGAAGATAGAGAACAACTATCCAAGAAATCAAACACAAGAGAAG
60143 GTAGTACTGATACTACAATAAAGACCCAAAACATCGAATGCAAAAT
321 GTAGTACTGATACTACAATAAAGACCCAAAACATCGAATGCAAAAT
* *
60189 GGGTACCGATACCATGCAAGGGTATTAATATCATAGTGCAAAGTAGTACCGATACCCCTTAGGCA
1 GGGTACCGATACCATGCAAGGGTATCAATACCATAGTGCAAAGTAGTACCGATACCCCTTAGGCA
60254 GTATCGATACTACAAGGCTCC-A-AC-G-G-CTAGTTAAATTTGAAATTAACAAAGGTAGTACCA
66 GTATCGATACTACAAGGCTCCAACACAGAGACTAGTTAAATTTGAAATTAACAAAGGTAGTACCA
* *
60314 ATACCCTATAGAGGAGTACCGATACTTCCTATTCTAGACAATATTATTTTGCAGGAAATTAATCC
131 ATACCCTATAGAGG-GTACCGATACTTCCTATTCTAGACAACATTATTTTGCAGAAAATTAATCC
*
60379 CCAACGACTCCAAAACATCCCCAATGGCTAGATACGACTTCAAACTCATTTCAACCTACAAAAAC
195 CCAACGACTCCAAAACATCCCCAACGGCTAGATACGACTTCAAACTCATTTCAACCTACAAAAAC
* * *
60444 AAGCTGAGGACACTTGAAGAAGATATAGAACAACTATCCAAGTAATCAAACACAAGAGAA
260 AAGCTGAAGACACTTGAAGAAGATAGAGAACAACTATCCAAGAAATCAAACACAAGAGAA
60504 AAGCTTTTCA
Statistics
Matches: 291, Mismatches: 23, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
361 46 0.16
362 161 0.55
366 1 0.00
368 2 0.01
370 1 0.00
371 80 0.27
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.23
Consensus pattern (366 bp):
GGGTACCGATACCATGCAAGGGTATCAATACCATAGTGCAAAGTAGTACCGATACCCCTTAGGCA
GTATCGATACTACAAGGCTCCAACACAGAGACTAGTTAAATTTGAAATTAACAAAGGTAGTACCA
ATACCCTATAGAGGGTACCGATACTTCCTATTCTAGACAACATTATTTTGCAGAAAATTAATCCC
CAACGACTCCAAAACATCCCCAACGGCTAGATACGACTTCAAACTCATTTCAACCTACAAAAACA
AGCTGAAGACACTTGAAGAAGATAGAGAACAACTATCCAAGAAATCAAACACAAGAGAAGGTAGT
ACTGATACTACAATAAAGACCCAAAACATCGAATGCAAAAT
Found at i:60691 original size:33 final size:33
Alignment explanation
Indices: 60629--60692 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
60619 AAGGGGTTTT
**
60629 GGTTCTAGCTAAGCCCATGAAAAGTTAGGGAAA
1 GGTTCTAGCTAAGCCCATGAAAAACTAGGGAAA
* * *
60662 GGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
1 GGTTCTAGCTAAGCCCATGAAAAACTAGGGA
60693 GTTTGTAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (33 bp):
GGTTCTAGCTAAGCCCATGAAAAACTAGGGAAA
Found at i:62238 original size:13 final size:14
Alignment explanation
Indices: 62220--62254 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
62210 TAAGATTTTC
62220 TTTGAAAATC-ATT
1 TTTGAAAATCAATT
62233 TTTG-AAATCAATT
1 TTTGAAAATCAATT
62246 TTTGAAAAT
1 TTTGAAAAT
62255 TACTCCTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 11 0.55
14 4 0.20
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (14 bp):
TTTGAAAATCAATT
Found at i:64416 original size:44 final size:44
Alignment explanation
Indices: 64353--64456 Score: 147
Period size: 44 Copynumber: 2.4 Consensus size: 44
64343 AAACCCAACG
*
64353 AGTGTATCGATGCACATTCAAGGCATGCATCAGTGCA-TCTTCAT
1 AGTGTATCGATGCACATTCAAGGCATGCATCAGTACACT-TTCAT
* * *
64397 AGTGTATCGATGCATATTCAAGGGATGCATCGGTACACTTTCAT
1 AGTGTATCGATGCACATTCAAGGCATGCATCAGTACACTTTCAT
*
64441 AGTGTATCAATGCACA
1 AGTGTATCGATGCACA
64457 GTGCACAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 52 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (44 bp):
AGTGTATCGATGCACATTCAAGGCATGCATCAGTACACTTTCAT
Found at i:71497 original size:60 final size:60
Alignment explanation
Indices: 71385--71560 Score: 146
Period size: 60 Copynumber: 2.9 Consensus size: 60
71375 ATTATGACTC
* * *
71385 TCATTCTAAATTAATCCTTAAACTTTTGAACATTTCAAATTCATCCCTAAACTATAACAA
1 TCATTCTAAACTAATCCTCAAACTTTTGAACATTTCAAATTAATCCCTAAACTATAACAA
* * * ** * *
71445 TCATTCTAGACTAGTCCTCAAACTTTTGAGCATTTCATTTTAATACCC-AAACTATGATC-T
1 TCATTCTAAACTAATCCTCAAACTTTTGAACATTTCAAATTAAT-CCCTAAACTAT-AACAA
* * * *
71505 TCGTTCGAAA-TAAGT-CTCTAAACTTTTTGAACATTTCAATTTCAT-CCTAAACTATA
1 TCATTCTAAACTAA-TCCTC-AAAC-TTTTGAACATTTCAAATTAATCCCTAAACTATA
71561 TGTATATACT
Statistics
Matches: 93, Mismatches: 17, Indels: 13
0.76 0.14 0.11
Matches are distributed among these distances:
59 8 0.09
60 62 0.67
61 23 0.25
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.38
Consensus pattern (60 bp):
TCATTCTAAACTAATCCTCAAACTTTTGAACATTTCAAATTAATCCCTAAACTATAACAA
Found at i:78255 original size:26 final size:26
Alignment explanation
Indices: 78218--78271 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
78208 TAAATTATTT
78218 ATTTATTGTAGTTTACT-CTAATAATAA
1 ATTTATTGTAGTTTA-TACTAA-AATAA
78245 ATTT-TTGTAGTTTATACTAAAATAA
1 ATTTATTGTAGTTTATACTAAAATAA
78270 AT
1 AT
78272 AGTTTACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 8 0.31
26 14 0.54
27 4 0.15
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (26 bp):
ATTTATTGTAGTTTATACTAAAATAA
Found at i:78726 original size:31 final size:31
Alignment explanation
Indices: 78690--78749 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
78680 AACTTAAAAG
* *
78690 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
78721 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
78750 CATAAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:78799 original size:22 final size:22
Alignment explanation
Indices: 78773--78815 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
78763 TAATAAATTA
78773 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
78795 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
78816 CTAATAAAAT
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:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:78868 original size:80 final size:79
Alignment explanation
Indices: 78778--79575 Score: 585
Period size: 80 Copynumber: 9.9 Consensus size: 79
78768 AATTATTTAA
*
78778 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAATATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
78843 CCATACAACTACAAT
66 CCATACAA-TAAAAT
*
78858 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* ***
78923 TCATATTTTAAAAT
66 CCATACAATAAAAT
* * * * *
78937 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATAC-AACTACA--A--T--AAT
1 -AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAAT
* **
78995 AAATCAATCCAT--ATTTTAA-
58 AAATCAATCCATACAATAAAAT
* ** * *
79014 AATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAA
1 AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACTAATAAATTATTTAAAATAA
79073 ATCAATCCATACTAATAAATTATTT
60 ATCAATCCATAC-AATAAA--A--T
* ** * * * * *
79098 AAAATAAATCAATTCATACAATTACAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAAACC
1 --AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
79156 AATCCATACTAATAAATTATTT
63 AATCCATAC-AATAAA--A--T
** * * * * *
79178 AAAATAAATCAATCCATATAACTACAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAAACC
1 --AATAAATCAATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
*
79236 AATCTATACTAATAAATTATTT
63 AATCCATAC-AATAAA--A--T
79258 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
*
79323 ATCTATACTAATAAATTATTT
64 ATCCATAC-AATAAA--A--T
*
79344 AAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
*
79409 ATCCATACAACTACAAT
64 ATCCATACAA-TAAAAT
*
79426 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
79491 CCATACAACTACAAT
66 CCATACAA-TAAAAT
*
79506 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
79571 CCATA
66 CCATA
79576 TTTTAAAATA
Statistics
Matches: 630, Mismatches: 49, Indels: 78
0.83 0.06 0.10
Matches are distributed among these distances:
71 4 0.01
72 3 0.00
73 1 0.00
74 4 0.01
75 3 0.00
76 34 0.05
78 4 0.01
79 13 0.02
80 391 0.62
81 3 0.00
82 7 0.01
84 5 0.01
85 6 0.01
86 152 0.24
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (79 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAATAAAAT
Found at i:78914 original size:134 final size:134
Alignment explanation
Indices: 78763--79325 Score: 827
Period size: 134 Copynumber: 4.2 Consensus size: 134
78753 AAAACTACAA
78763 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAATAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAATAT
*
78828 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
78893 ATAC
131 ATAC
* *
78897 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAATAT
* *
78962 TTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
79027 ATAC
131 ATAC
* *
79031 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAATAT
* * *
79096 TTAAAATAAATCAATTCATACAATTACAATAATAAATCAATCCATATTTTAAAATAAACCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
79161 ATAC
131 ATAC
** * * * *
79165 TAATAAATTATTTAAAATAAATCAATCCATATAACTACAAT-AATAAATCAAT-C-CAT---AT-
1 TAATAAATTATTTAAAATAAATCAATCCATAT-TTTAAAATAAATCAATCCATACTAATAAAATA
* * *
79223 TTTAAAATAAACCAATCTATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
65 TTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAA
79287 ATCAATCCATAC
123 ATCAATCCATAC
79299 TAATAAATTATTTAAAATAAATCAATC
1 TAATAAATTATTTAAAATAAATCAATC
79326 TATACTAATA
Statistics
Matches: 398, Mismatches: 23, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
128 22 0.06
129 3 0.01
130 1 0.00
132 3 0.01
133 1 0.00
134 363 0.91
135 5 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (134 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAATAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATAC
Found at i:78933 original size:22 final size:22
Alignment explanation
Indices: 78907--78949 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
78897 TAATAAATTA
*
78907 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
78929 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
78950 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:78958 original size:22 final size:22
Alignment explanation
Indices: 78909--78957 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
78899 ATAAATTATT
* **
78909 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
78931 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
78954 TAAA
1 TAAA
78958 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:79092 original size:22 final size:22
Alignment explanation
Indices: 79043--79091 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
79033 ATAAATTATT
* **
79043 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
79065 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
79088 TAAA
1 TAAA
79092 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:79147 original size:214 final size:216
Alignment explanation
Indices: 78778--79700 Score: 1342
Period size: 214 Copynumber: 4.3 Consensus size: 216
78768 AATTATTTAA
*
78778 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAATATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*** * * * *
78843 CCATACAACTACAAT-AATAAATCAAT-C-CAT--AT-TTTAAAATAAATCAATTCATACTAATA
66 CCATA-TTTTAAAATAAATCAATCCATACTAATAAATATTTAAAATAAATCAATTCATACTAATA
*
78902 AATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
130 AA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
*
78967 ATAAATCAATCTATACAACTACAAT
192 ATAAATCAATCCATACAACTACAAT
*
78992 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
79057 CTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATAC-AATT
66 CCATATTTTAAAATAAATCAATCCATACTAATAAA-TATTTAAAATAAATCAATTCATACTAA-T
* *
79121 ACA-A-T-AATAAATCAATCCATATTTTAAAATAAACCAATCCATACTAATAAATTATTTAAAAT
129 AAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT
*
79183 AAATCAATCCATATAACTACAAT
194 AAATCAATCCATACAACTACAAT
* *
79206 AATAAATCAATCCATATTTTAAAATAAACCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
79271 CCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA-TCTATACTAAT
66 CCATATTTTAAAATAAATCAATCCATACTAATAAA-TATTTAAAATAAATCAATTC-ATACTAAT
*
79335 AAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
129 AAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
79400 AATAAATCAATCCATACAACTACAAT
191 AATAAATCAATCCATACAACTACAAT
*
79426 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*** * * * *
79491 CCATACAACTACAAT-AATAAATCAAT-C-CAT--AT-TTTAAAATAAATCAA-TCTATACTAAT
66 CCATA-TTTTAAAATAAATCAATCCATACTAATAAATATTTAAAATAAATCAATTC-ATACTAAT
79549 AAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
129 AAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
79614 AATAAATCAATCCATACAACTACAAT
191 AATAAATCAATCCATACAACTACAAT
79640 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
79701 TATTTAAAAA
Statistics
Matches: 657, Mismatches: 35, Indels: 34
0.90 0.05 0.05
Matches are distributed among these distances:
213 7 0.01
214 449 0.68
215 4 0.01
216 5 0.01
218 5 0.01
219 4 0.01
220 178 0.27
221 5 0.01
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (216 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTTAAAATAAATCAATCCATACTAATAAATATTTAAAATAAATCAATTCATACTAATAA
ATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
ATCAATCCATACAACTACAAT
Found at i:79231 original size:22 final size:23
Alignment explanation
Indices: 79173--79239 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 23
79163 ACTAATAAAT
79173 TATTTAAAATAAATCAATCCATA
1 TATTTAAAATAAATCAATCCATA
**
79196 TAACTACAATAATAAATCAATCCATA
1 T-A-TTTAA-AATAAATCAATCCATA
*
79222 T-TTTAAAATAAACCAATC
1 TATTTAAAATAAATCAATC
79240 TATACTAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
22 11 0.31
23 4 0.11
24 1 0.03
25 3 0.08
26 17 0.47
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.31
Consensus pattern (23 bp):
TATTTAAAATAAATCAATCCATA
Found at i:79281 original size:22 final size:22
Alignment explanation
Indices: 79255--79297 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
79245 TAATAAATTA
79255 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
79277 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
79298 CTAATAAATT
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:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:79306 original size:22 final size:22
Alignment explanation
Indices: 79257--79305 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
79247 ATAAATTATT
**
79257 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
79279 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
79302 TAAA
1 TAAA
79306 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:79319 original size:14 final size:14
Alignment explanation
Indices: 79300--79352 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
79290 AATCCATACT
79300 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
79314 AATAAATCAATCTATACT
1 AATAAAT-TAT-T-TA-A
79332 AATAAATTATTTAA
1 AATAAATTATTTAA
79346 AATAAAT
1 AATAAAT
79353 CAATCTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 4 0.13
16 2 0.06
17 4 0.13
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:79392 original size:22 final size:22
Alignment explanation
Indices: 79343--79391 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
79333 ATAAATTATT
* **
79343 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
79365 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
79388 TAAA
1 TAAA
79392 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:79472 original size:22 final size:23
Alignment explanation
Indices: 79397--79471 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
79387 ATAAATTATT
79397 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
79419 CTACAATAATAAATCAATCTATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
79445 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
79468 TAAA
1 TAAA
79472 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:79564 original size:134 final size:134
Alignment explanation
Indices: 79309--79700 Score: 548
Period size: 134 Copynumber: 2.9 Consensus size: 134
79299 TAATAAATTA
* * *** *
79309 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCTATA-TTTTAAAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-A
* * * *
79373 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAA
65 ATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAA
*
79431 ATCAATCTATAT
123 ATCAATCCATAT
79443 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
79508 TAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCC
66 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
79573 ATAT
131 ATAT
79577 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
79642 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
66 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
79701 TATTTAAAAA
Statistics
Matches: 237, Mismatches: 13, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
128 24 0.10
129 3 0.01
130 2 0.01
132 3 0.01
133 1 0.00
134 199 0.84
135 5 0.02
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (134 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
ATAT
Found at i:79581 original size:22 final size:22
Alignment explanation
Indices: 79555--79597 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
79545 TAATAAATTA
79555 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
79577 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
79598 CTAATAAATT
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:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:79606 original size:22 final size:22
Alignment explanation
Indices: 79557--79605 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
79547 ATAAATTATT
**
79557 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
79579 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
79602 TAAA
1 TAAA
79606 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:79665 original size:22 final size:22
Alignment explanation
Indices: 79640--79737 Score: 79
Period size: 22 Copynumber: 4.3 Consensus size: 22
79630 CAACTACAAT
79640 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
**
79662 AATAAATCAATCCATACTAATAA
1 AATAAATCAATCCATA-TTTTAA
* ** * ** *
79685 ATTATTTAAAATAAATTATTTAAA
1 AATAAAT-CAATCCA-TATTTTAA
*
79709 AATAAATCAATCCATATTTTAT
1 AATAAATCAATCCATATTTTAA
79731 AATAAAT
1 AATAAAT
79738 TATTTTAAAA
Statistics
Matches: 54, Mismatches: 19, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
22 29 0.54
23 12 0.22
24 11 0.20
25 2 0.04
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:79712 original size:15 final size:15
Alignment explanation
Indices: 79680--79782 Score: 109
Period size: 15 Copynumber: 6.5 Consensus size: 15
79670 AATCCATACT
79680 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
*
79694 AATAAATTATTTAAA
1 AATAAATTATTTTAA
*
79709 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
79731 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
79746 AATAAATTATTTTAT
1 AATAAATTATTTTAA
79761 AATAAATTATTTTAA
1 AATAAATTATTTTAA
79776 AATAAAT
1 AATAAAT
79783 AATCTTATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.12
15 49 0.65
17 1 0.01
18 3 0.04
19 3 0.04
20 1 0.01
22 9 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:79722 original size:69 final size:67
Alignment explanation
Indices: 79640--79786 Score: 190
Period size: 69 Copynumber: 2.2 Consensus size: 67
79630 CAACTACAAT
*
79640 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAATTAT
1 AATAAATCAATCCATATTTTAAAATAAAT-AAT-CATA-AAATAAATTATTTTAAAATAAATTAT
79704 TTAAA
63 TTAAA
* * ** * *
79709 AATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAATTATTTT
1 AATAAATCAATCCATATTTTAAAATAAATAATCATAAAATAAATTATTTTAAAATAAATTATTTA
79774 AA
66 AA
79776 AATAAAT-AATC
1 AATAAATCAATC
79787 TTATTAAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
66 13 0.19
67 27 0.39
68 2 0.03
69 28 0.40
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (67 bp):
AATAAATCAATCCATATTTTAAAATAAATAATCATAAAATAAATTATTTTAAAATAAATTATTTA
AA
Found at i:79757 original size:30 final size:30
Alignment explanation
Indices: 79723--79805 Score: 127
Period size: 30 Copynumber: 2.9 Consensus size: 30
79713 AATCAATCCA
79723 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
79753 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
* *
79783 AATCTTAT--TAAATTA-TTTAAAAT
1 TATTTTATAATAAATTATTTTAAAAT
79806 TATTTTAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
27 8 0.16
28 7 0.14
30 36 0.71
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAAAATAAAT
Found at i:81599 original size:57 final size:57
Alignment explanation
Indices: 81520--81634 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
81510 AAGAACCATA
* * * *
81520 CAACCCCGTCACGAACAATAAGGCCCTGAGCACAAAGTCGAGGAACCTGTAAGTATT
1 CAACCCCGTCACAAACAATAAGGCCCTGAGCACAAAGCCGAGAAACCTGCAAGTATT
* * *
81577 CAACCCCGTCACAAATAGTAAGGCCCTGAGCACAAAGCCGAGAAACTTGCAAGTATT
1 CAACCCCGTCACAAACAATAAGGCCCTGAGCACAAAGCCGAGAAACCTGCAAGTATT
81634 C
1 C
81635 TTCCTCCAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.36, C:0.29, G:0.20, T:0.16
Consensus pattern (57 bp):
CAACCCCGTCACAAACAATAAGGCCCTGAGCACAAAGCCGAGAAACCTGCAAGTATT
Found at i:81720 original size:24 final size:24
Alignment explanation
Indices: 81693--81803 Score: 127
Period size: 24 Copynumber: 4.7 Consensus size: 24
81683 TATTTTAAAA
* *
81693 ATCAAAACATAATTCAGGTCAAGT
1 ATCAAATCAGAATTCAGGTCAAGT
*
81717 ATCAAATCAGAATTCAGGTCATGT
1 ATCAAATCAGAATTCAGGTCAAGT
* *
81741 ATCAGATCAGAATTCATGTCAA-T
1 ATCAAATCAGAATTCAGGTCAAGT
* * *
81764 ATCAGATCAGAATCCAGGTCAGGT
1 ATCAAATCAGAATTCAGGTCAAGT
81788 ATCATAA-CAGAATTCA
1 ATCA-AATCAGAATTCA
81804 AATAGGAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
23 20 0.27
24 53 0.72
25 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAATCAGAATTCAGGTCAAGT
Found at i:81774 original size:47 final size:48
Alignment explanation
Indices: 81693--81803 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 48
81683 TATTTTAAAA
* * * *
81693 ATCAAAACATAATTCAGGTCAAGTATCAAATCAGAATTCAGGTCATGT
1 ATCAGAACAGAATTCAGGTCAAGTATCAAATCAGAATCCAGGTCAGGT
* * *
81741 ATCAGATCAGAATTCATGTCAA-TATCAGATCAGAATCCAGGTCAGGT
1 ATCAGAACAGAATTCAGGTCAAGTATCAAATCAGAATCCAGGTCAGGT
*
81788 ATCATAACAGAATTCA
1 ATCAGAACAGAATTCA
81804 AATAGGAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 36 0.67
48 18 0.33
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (48 bp):
ATCAGAACAGAATTCAGGTCAAGTATCAAATCAGAATCCAGGTCAGGT
Found at i:86028 original size:30 final size:30
Alignment explanation
Indices: 85970--86028 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
85960 TTAATTCTTG
*
85970 AACTTTAAATAAAATATTAAATTGACCCTA
1 AACTTTAAATAAAATATTAAATTAACCCTA
* **
86000 AACTTTTAATAAAATATTATTTTAACCCT
1 AACTTTAAATAAAATATTAAATTAACCCT
86029 TAAATTTGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.39
Consensus pattern (30 bp):
AACTTTAAATAAAATATTAAATTAACCCTA
Found at i:87758 original size:3 final size:3
Alignment explanation
Indices: 87750--87842 Score: 125
Period size: 3 Copynumber: 30.7 Consensus size: 3
87740 TCATTTCGTT
** **
87750 TTA TTA TTA TTA TTA AAA TTA AAA TTA TTA TTA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
87795 TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
87841 TT
1 TT
87843 TAATAAATAA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.03
3 71 0.89
4 7 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:92171 original size:43 final size:44
Alignment explanation
Indices: 92120--92206 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
92110 TGGCTTTAGA
* * *
92120 GAAGTTAGGAGGGAAGGTTATCCCCTATATGT-AAAGTTTTGTT
1 GAAGTTAGGACGGAAAGTTATCCCCTACATGTAAAAGTTTTGTT
* * *
92163 GAAGTTAGGACTGAAAGTTGTCTCCTACATGTAAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGTTATCCCCTACATGTAAAAGTTTTGTT
92207 TGTTGCACGT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 26 0.70
44 11 0.30
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (44 bp):
GAAGTTAGGACGGAAAGTTATCCCCTACATGTAAAAGTTTTGTT
Found at i:94494 original size:14 final size:15
Alignment explanation
Indices: 94470--94510 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
94460 CTCATTCATA
94470 AAAAAAG-AAAAAGG
1 AAAAAAGAAAAAAGG
94484 -AAAAAGAAAAAAGG
1 AAAAAAGAAAAAAGG
94498 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
94511 TTGAATCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.24
14 7 0.28
15 12 0.48
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAGG
Found at i:94495 original size:21 final size:21
Alignment explanation
Indices: 94469--94509 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94459 ACTCATTCAT
*
94469 AAAAAAAGAAAAAGGAAAAAG
1 AAAAAAAGAAAAAAGAAAAAG
*
94490 AAAAAAGGAAAAAAGAAAAA
1 AAAAAAAGAAAAAAGAAAAA
94510 ATTGAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAAAAAAGAAAAAG
Found at i:94510 original size:7 final size:7
Alignment explanation
Indices: 94470--94510 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
94460 CTCATTCATA
94470 AAAAAAG
1 AAAAAAG
94477 -AAAAAG
1 AAAAAAG
*
94483 GAAAAAG
1 AAAAAAG
94490 AAAAAAGG
1 AAAAAA-G
94498 AAAAAAG
1 AAAAAAG
94505 AAAAAA
1 AAAAAA
94511 TTGAATCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
8 7 0.23
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:94691 original size:3 final size:3
Alignment explanation
Indices: 94683--94767 Score: 161
Period size: 3 Copynumber: 28.3 Consensus size: 3
94673 TACCCATATC
94683 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
94731 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
94768 AATATATATT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:95273 original size:13 final size:13
Alignment explanation
Indices: 95255--95279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95245 CTGGAGAGAA
95255 AGAAAAAAAAAAC
1 AGAAAAAAAAAAC
95268 AGAAAAAAAAAA
1 AGAAAAAAAAAA
95280 AACAACTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAC
Found at i:107556 original size:1 final size:1
Alignment explanation
Indices: 107550--107585 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
107540 ATGCTTGAAG
* *
107550 AAAAAAAAAAGAAAAAAAAAAAGAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
107586 GGGGGTCAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:107563 original size:11 final size:11
Alignment explanation
Indices: 107547--107582 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
107537 ATTATGCTTG
107547 AAGAAAAAAAA
1 AAGAAAAAAAA
107558 AAGAAAAAAAAA
1 AAG-AAAAAAAA
107570 AAGAAAAAAAA
1 AAGAAAAAAAA
107581 AA
1 AA
107583 AAAGGGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:107584 original size:13 final size:12
Alignment explanation
Indices: 107550--107583 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
107540 ATGCTTGAAG
107550 AAAAAAAAAAGA
1 AAAAAAAAAAGA
107562 AAAAAAAAAAGA
1 AAAAAAAAAAGA
107574 AAAAAAAAAA
1 AAAAAAAAAA
107584 AAGGGGGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:107940 original size:18 final size:18
Alignment explanation
Indices: 107909--107951 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
107899 TTCAAGTTCA
*
107909 ATTTATTGAGATTCAATTT
1 ATTT-TTGAAATTCAATTT
107928 ATTTTTGAAATTCAATTT
1 ATTTTTGAAATTCAATTT
107946 ATTTTT
1 ATTTTT
107952 ATATGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (18 bp):
ATTTTTGAAATTCAATTT
Found at i:109288 original size:83 final size:84
Alignment explanation
Indices: 108671--109290 Score: 928
Period size: 84 Copynumber: 7.5 Consensus size: 84
108661 AAAGAGACTC
* *
108671 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACCAATCA-TGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
*
108735 TAGAAGATGAATGTGC-CA
66 TAGAAGATGAATTTGCTCA
* *
108753 ATAGCA--TTCTGGAAATGTTCTTTGAGTTATCTGATCT-GATTGGCAGAACCAA-CATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
*
108814 TGGAA-ATGAA-TTGCTC-
66 TAGAAGATGAATTTGCTCA
* *
108830 ATAGCATCTT-TGGAAGTGTTC-TTGAGTTATCTGATCT-GATTGGCAGAACCAATCATCGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
*
108892 TAGAAGATGAATGTGCTCA
66 TAGAAGATGAATTTGCTCA
* *
108911 ATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
*
108976 TGGAAGATGAATTTGCTCA
66 TAGAAGATGAATTTGCTCA
* *
108995 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAATCATCGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
*
109060 TAGAAGATGAATGTGCTCA
66 TAGAAGATGAATTTGCTCA
* * *
109079 ATATCATCTTCTGGAAATGTTATTTGAGTTATCTGATCTGG-TTGGACAGAACCAATCATTGAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAACCAATCATTGAAT
*
109143 TTAGAAGATGAATTTGTTC-
65 TTAGAAGATGAATTTGCTCA
*
109162 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
**
109227 GGGAAGATGAATTTGC-CA
66 TAGAAGATGAATTTGCTCA
109245 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
109291 TAAGAACTAC
Statistics
Matches: 489, Mismatches: 35, Indels: 27
0.89 0.06 0.05
Matches are distributed among these distances:
77 40 0.08
78 30 0.06
79 29 0.06
80 35 0.07
81 10 0.02
82 17 0.03
83 135 0.28
84 193 0.39
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (84 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
TAGAAGATGAATTTGCTCA
Found at i:110485 original size:115 final size:114
Alignment explanation
Indices: 110014--110710 Score: 902
Period size: 114 Copynumber: 6.1 Consensus size: 114
110004 ATTCAAATCT
** * * *
110014 ATCATTTGAAAGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA--CTCATCTGAAGAAGG
1 ATCATTTGATGGATTATCTTTGCCAG-GAGAGTTCATAATGAGAAGAACTCTCATCTGAAGAAGG
* * *
110077 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCCTGAATTC
* * *
110127 ATCAAATTGATGGATTATCTTTTCC-GGAGAAGGTTCATAATGAGAAGAA--CTCATTTGAAGAA
1 ATC-ATTTGATGGATTATCTTTGCCAGGAG-A-GTTCATAATGAGAAGAACTCTCATCTGAAGAA
* * *
110189 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAATCTTTTACC-GAATCC
63 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCCTGAATTC
* ** *
110240 ATCATTTGATGGATCAGTCTTTTTTCAGAGAAAGTTCATAATGAGAAGAACT-T-ATCTGAAGAA
1 ATCATTTGATGGATTA-TC-TTTGCCAG-GAGAGTTCATAATGAGAAGAACTCTCATCTGAAGAA
* **
110303 GGAAGAAGAAGTTCATAATGAG-AGAA-TTGTTC-ACCTTTTTTCTGAA-TC
63 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCCTGAATTC
*
110351 ATCAAGTTGATGGATTATCTTTGCCAGGTAGAG-TCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATC-ATTTGATGGATTATCTTTGCCAGG-AGAGTTCATAATGAGAAGAACTC-TCATCTGAAGAA
110415 GG-AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCCTGAATTC
63 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCCTGAATTC
*
110466 ATCAAGTTGATGGATTATCTTTGCCAGGAGAGTTCATAATGAGAAGAAACTCGTCATCTGAAGAA
1 ATC-ATTTGATGGATTATCTTTGCCAGGAGAGTTCATAATGAGAAG-AACTC-TCATCTGAAGAA
*
110531 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
63 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCCTGAATTC
* * *
110583 ATCATTTGATGGATCAACATTG-CAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 ATCATTTGATGGATTATCTTTGCCAGG-AGAGTTCATAATGAGAAGAACTC-TCATCTGAAGAAG
*
110647 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
64 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCCTGAATTC
110698 ATCATTTGATGGA
1 ATCATTTGATGGA
110711 GCATCATCCC
Statistics
Matches: 531, Mismatches: 30, Indels: 44
0.88 0.05 0.07
Matches are distributed among these distances:
109 18 0.03
110 9 0.02
111 33 0.06
112 49 0.09
113 25 0.05
114 158 0.30
115 133 0.25
116 55 0.10
117 51 0.10
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (114 bp):
ATCATTTGATGGATTATCTTTGCCAGGAGAGTTCATAATGAGAAGAACTCTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCCTGAATTC
Found at i:110920 original size:3 final size:3
Alignment explanation
Indices: 110905--110979 Score: 100
Period size: 3 Copynumber: 25.3 Consensus size: 3
110895 TACCCATATC
* *
110905 ATT ATT ATG ATT ATT A-T ATAT ATT ATT ATT ATT ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
*
110950 ATT ATT ATT ATC ATT A-T ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
110980 AATATATATT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 56 0.89
4 3 0.05
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:111758 original size:29 final size:30
Alignment explanation
Indices: 111710--111769 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
111700 AAAAATAATT
111710 TTTCCAGCCAACGGATGCGGTGGCCGGCGG
1 TTTCCAGCCAACGGATGCGGTGGCCGGCGG
111740 TTTCCAGCC-ACGGATGCGGTGGCCGGCGG
1 TTTCCAGCCAACGGATGCGGTGGCCGGCGG
111769 T
1 T
111770 GATAATCACG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.12, C:0.30, G:0.40, T:0.18
Consensus pattern (30 bp):
TTTCCAGCCAACGGATGCGGTGGCCGGCGG
Found at i:112639 original size:18 final size:18
Alignment explanation
Indices: 112616--112652 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
112606 TTCTTTTCAG
112616 TATTTTTA-AATAAATAAA
1 TATTTTTATAAT-AATAAA
112634 TATTTTTATAATAATAAA
1 TATTTTTATAATAATAAA
112652 T
1 T
112653 TATAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTTTTATAATAATAAA
Found at i:117570 original size:22 final size:22
Alignment explanation
Indices: 117544--117601 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
117534 TACATCTACA
117544 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
117566 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
117588 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
117602 AAGCTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:118426 original size:45 final size:45
Alignment explanation
Indices: 118375--118482 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
118365 TTTTTGATAT
** * * *
118375 TTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGC
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGC
* *
118420 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGTAGGATGT
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGC
118465 TTTCAAAAATCCTTCGGG
1 TTTC-AAAA-CCTTCGGG
118483 AGCTTTTTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 42 0.78
46 4 0.07
47 8 0.15
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGC
Found at i:118485 original size:121 final size:121
Alignment explanation
Indices: 118271--118790 Score: 842
Period size: 121 Copynumber: 4.3 Consensus size: 121
118261 CTATTTCTCA
* *
118271 CATCTGTAAGTCCTTCAGTGTATGACGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
1 CATCTGTAAGTCCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
* *
118336 TAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTTTCAAAACCTTCGGGT
118392 CATCTGTAAGTCCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
1 CATCTGTAAGTCCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
* * *
118457 TAGGATGTTTTCAAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTTTCAAAACCTTCGGGT
* *
118513 TATCTGTAAGTCCTTCAGTGCATGATGATTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
1 CATCTGTAAGTCCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
* *
118578 CAGGATGTTTTCAAAAAGCCTTTGGGAACTTTTGGATATTTTCAAAACCTTCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTTTCAAAACCTTCGGGT
* *
118634 CATCTGTAAGTCCTCCAATGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
1 CATCTGTAAGTCCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
* *
118699 CAGGATGTTTTCAAAAAGCCTTCTGGAACTTTTTGATGTTTTCAAAACCTTCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTTTCAAAACCTTCGGGT
** * * * * *
118755 CATCCATAAGACCTGCAATGCAAGATGTTTTCAAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGCTTTCAAAA
118791 AGACTTCGGG
Statistics
Matches: 375, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 375 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (121 bp):
CATCTGTAAGTCCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
CAGGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTTTCAAAACCTTCGGGT
Found at i:118546 original size:45 final size:45
Alignment explanation
Indices: 118496--118593 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
118486 TTTTTGATAT
* ** * * *
118496 TTTCAAAACCTTCGGGTTATCTGTAAGTCCTTCAGTGCATGATGA
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGA
*
118541 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGT
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGA
118586 TTTCAAAA
1 TTTCAAAA
118594 AGCCTTTGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGA
Found at i:118681 original size:45 final size:45
Alignment explanation
Indices: 118617--118714 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
118607 TTTTGGATAT
** * *
118617 TTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAATGCATGATGC
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTCCAATGCAGGATGC
* * *
118662 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGT
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTCCAATGCAGGATGC
118707 TTTCAAAA
1 TTTCAAAA
118715 AGCCTTCTGG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCATAAGACCTCCAATGCAGGATGC
Found at i:118744 original size:197 final size:197
Alignment explanation
Indices: 118535--118902 Score: 592
Period size: 197 Copynumber: 1.9 Consensus size: 197
118525 CTTCAGTGCA
* * *
118535 TGATGATTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGATTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGCAAGATGTTTTCAAAAAGACTT
* * *
118600 TGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAATGCATGATGCTTT
66 CGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTCCAATGCATGATACTTT
* *
118665 CAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCTGGAACTT
131 CAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCTGGAACTT
118730 TT
196 TT
*
118732 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGCAAGATGTTTTCAAAAAGACTT
1 TGATGATTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGCAAGATGTTTTCAAAAAGACTT
* * * * *
118797 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTT
66 CGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTCCAATGCATGATACTTT
**
118862 CAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATG
131 CAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAAGATG
118903 ATAGGACATC
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
197 155 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (197 bp):
TGATGATTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGCAAGATGTTTTCAAAAAGACTT
CGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTCCAATGCATGATACTTT
CAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCTGGAACTT
TT
Found at i:118782 original size:76 final size:76
Alignment explanation
Indices: 118656--118866 Score: 305
Period size: 76 Copynumber: 2.8 Consensus size: 76
118646 CTCCAATGCA
* * *
118656 TGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGACTT
*
118721 CTGGAACTTTT
66 CGGGAACTTTT
*
118732 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGCAAGATGTTTTCAAAAAGACTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGACTT
*
118797 CGGGAGCTTTT
66 CGGGAACTTTT
* ** * * * *
118808 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAA
118867 CCTTCGGGTC
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 121 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (76 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGACTT
CGGGAACTTTT
Found at i:118872 original size:45 final size:45
Alignment explanation
Indices: 118808--118897 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
118798 GGGAGCTTTT
* *
118808 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
118853 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
118898 AGATGATAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (45 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
Found at i:119065 original size:3 final size:3
Alignment explanation
Indices: 119057--119114 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
119047 TCATTTCGTT
** **
119057 TTA TTA TTA TTA TTA AAA TTA TTA AAA TTA TATA TTA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA TTA TTA
119104 TTA TTA TTA TT
1 TTA TTA TTA TT
119115 TAATAAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:120606 original size:27 final size:27
Alignment explanation
Indices: 120555--120607 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
120545 TGATCATATT
*
120555 ATTTACAATTTAATATGTATTATTATC
1 ATTTACAATTTAATATGTATAATTATC
120582 ATTT-CAATTTCAATATGT-TAAATTAT
1 ATTTACAATTT-AATATGTAT-AATTAT
120608 TAATTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.51
Consensus pattern (27 bp):
ATTTACAATTTAATATGTATAATTATC
Found at i:124165 original size:24 final size:23
Alignment explanation
Indices: 124131--124177 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
124121 ATTTTATATT
124131 AAGGATGAACTTATAAAATTTTA
1 AAGGATGAACTTATAAAATTTTA
*
124154 AAGGAGTGAACTTGTAAAATTTTA
1 AAGGA-TGAACTTATAAAATTTTA
124178 GGAAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (23 bp):
AAGGATGAACTTATAAAATTTTA
Found at i:125924 original size:17 final size:17
Alignment explanation
Indices: 125902--125935 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
125892 GCGGTCATCC
125902 TCTCATA-AATTTCAAAT
1 TCTCATATAATTT-AAAT
125919 TCTCATATAATTTAAAT
1 TCTCATATAATTTAAAT
125936 ATTTTCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (17 bp):
TCTCATATAATTTAAAT
Found at i:136713 original size:2 final size:2
Alignment explanation
Indices: 136706--136744 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
136696 TTTAATGACA
136706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
136745 CCAACCAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:141527 original size:23 final size:23
Alignment explanation
Indices: 141471--141528 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
141461 TTCTCATGTC
141471 ACTTTTCAACCATTATTGGTGCCA
1 ACTTTT-AACCATTATTGGTGCCA
* * * * *
141495 AGTATAAACCATTATTGTTGCTA
1 ACTTTTAACCATTATTGGTGCCA
141518 ACTTTTAACCA
1 ACTTTTAACCA
141529 CCTAAAGTAT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (23 bp):
ACTTTTAACCATTATTGGTGCCA
Found at i:146467 original size:47 final size:47
Alignment explanation
Indices: 146413--146505 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
146403 TCGATGGAAC
*
146413 CCTATAGGAACATTAATTGAGTTACTTTATAATAAGTCATAAGGTTT
1 CCTATAGGAACATTAATTGAGTTACTTGATAATAAGTCATAAGGTTT
146460 CCTATAGGAACATTAATTGAGTTACTTGATAATAAGTCATAAGGTT
1 CCTATAGGAACATTAATTGAGTTACTTGATAATAAGTCATAAGGTT
146506 ATATGCATAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (47 bp):
CCTATAGGAACATTAATTGAGTTACTTGATAATAAGTCATAAGGTTT
Found at i:146680 original size:19 final size:19
Alignment explanation
Indices: 146643--146681 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
146633 ATATGTTATT
* * *
146643 TATATGCTATGGGATATGA
1 TATAAGCTATGAGACATGA
146662 TATAAGCTATGAGACATGA
1 TATAAGCTATGAGACATGA
146681 T
1 T
146682 CTACGTGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (19 bp):
TATAAGCTATGAGACATGA
Found at i:146933 original size:32 final size:31
Alignment explanation
Indices: 146859--146983 Score: 117
Period size: 32 Copynumber: 4.0 Consensus size: 31
146849 AGAGTCGAGG
* * *
146859 GTTACCTATGACTTTCGAGACATATGGACAGT
1 GTTACCTATGTCCTTCGGGACATATGGACA-T
146891 GTTACCTATGTCCTTCGGGACATATGGACAT
1 GTTACCTATGTCCTTCGGGACATATGGACAT
* ** *
146922 GATTACCTATGTTCTAAGGAACATATGGACA-
1 G-TTACCTATGTCCTTCGGGACATATGGACAT
* * * *
146953 GTTTACCTAGGTTCTTTGGGACCTATGGACA
1 G-TTACCTATGTCCTTCGGGACATATGGACA
146984 GTTGCCGAGG
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
31 27 0.34
32 52 0.66
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (31 bp):
GTTACCTATGTCCTTCGGGACATATGGACAT
Found at i:146967 original size:31 final size:31
Alignment explanation
Indices: 146877--146986 Score: 130
Period size: 32 Copynumber: 3.5 Consensus size: 31
146867 TGACTTTCGA
* *
146877 GACATATGGACAGTGTTACCTATGTCCTTCGG
1 GACATATGGACAGT-TTACCTATGTTCTTAGG
* *
146909 GACATATGGACATGATTACCTATGTTCTAAGG
1 GACATATGGACA-GTTTACCTATGTTCTTAGG
* * *
146941 AACATATGGACAGTTTACCTAGGTTCTTTGG
1 GACATATGGACAGTTTACCTATGTTCTTAGG
*
146972 GACCTATGGACAGTT
1 GACATATGGACAGTT
146987 GCCGAGGTTC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
31 28 0.42
32 37 0.56
33 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (31 bp):
GACATATGGACAGTTTACCTATGTTCTTAGG
Found at i:147006 original size:30 final size:31
Alignment explanation
Indices: 146945--147011 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
146935 CTAAGGAACA
* *
146945 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTTACCGAGGTTCTTTAGGACC
* *
146976 TATGGACAG-TTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTTACCGAGGTTCTTTAGGACC
*
147006 TCTGGA
1 TATGGA
147012 TAGGTCATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (31 bp):
TATGGACAGTTTACCGAGGTTCTTTAGGACC
Found at i:151202 original size:30 final size:31
Alignment explanation
Indices: 151144--151202 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
151134 ATGACTTTCG
* *
151144 AGACAGTTTACCTAGGTTCTTTGGGACCTAT
1 AGACAGTTTACCAAGGTTCTTTAGGACCTAT
*
151175 AGACAGTTT-CCAAGGTTCTTTATGACCT
1 AGACAGTTTACCAAGGTTCTTTAGGACCT
151203 CTGGATAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (31 bp):
AGACAGTTTACCAAGGTTCTTTAGGACCTAT
Found at i:154900 original size:179 final size:180
Alignment explanation
Indices: 154600--154958 Score: 695
Period size: 179 Copynumber: 2.0 Consensus size: 180
154590 GAGGATACAG
154600 GGAGTCACACCTTAGATGACGACACCTACAAAGGCAACATGAAAAAGCAAGCGCATCTGCTACAA
1 GGAGTCACACCTTAGATGACGACACCTACAAAGGCAACATGAAAAAGCAAGCGCATCTGCTACAA
154665 ACGATCCTCCTAAGGCTCATGAGCATCGACAATCCTCGCCTACAGGCAGATAACAACGATTATAA
66 ACGATCCTCCTAAGGCTCATGAGCATCGACAATCCTCGCCTACAGGCAGATAACAACGATTATAA
154730 ACTAACTCA-TTCTGATAGGAACACTCCTCACGAGAAATTATCAAACTAC
131 ACTAACTCATTTCTGATAGGAACACTCCTCACGAGAAATTATCAAACTAC
154779 GGAGTCACACCTTAGATGACGACACCTACAAAGGCAACATGAAAAAGCAAGCGCATCTGCTAC-A
1 GGAGTCACACCTTAGATGACGACACCTACAAAGGCAACATGAAAAAGCAAGCGCATCTGCTACAA
154843 ACGATCCTCCTAACGGCTCATGAGCATCGACAATCCTCGCCTACAGGCAGATAACAACGATTATA
66 ACGATCCTCCTAA-GGCTCATGAGCATCGACAATCCTCGCCTACAGGCAGATAACAACGATTATA
154908 AACTAACTCATTTCTGATAGGAACACTCCTCACGAGAAATTATCAAACTAC
130 AACTAACTCATTTCTGATAGGAACACTCCTCACGAGAAATTATCAAACTAC
154959 TCCCAACTCA
Statistics
Matches: 178, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
178 14 0.08
179 124 0.70
180 40 0.22
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (180 bp):
GGAGTCACACCTTAGATGACGACACCTACAAAGGCAACATGAAAAAGCAAGCGCATCTGCTACAA
ACGATCCTCCTAAGGCTCATGAGCATCGACAATCCTCGCCTACAGGCAGATAACAACGATTATAA
ACTAACTCATTTCTGATAGGAACACTCCTCACGAGAAATTATCAAACTAC
Found at i:158999 original size:21 final size:22
Alignment explanation
Indices: 158973--159013 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
158963 CTAGGATAGG
158973 GAGTATCGGTACTT-CTTTAAT
1 GAGTATCGGTACTTCCTTTAAT
158994 GAGTATCGGTACTTCCTTTA
1 GAGTATCGGTACTTCCTTTA
159014 TATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (22 bp):
GAGTATCGGTACTTCCTTTAAT
Found at i:160178 original size:31 final size:31
Alignment explanation
Indices: 160140--160233 Score: 127
Period size: 31 Copynumber: 3.0 Consensus size: 31
160130 CCCGAAGGAC
* *
160140 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
* *
160171 CAGTCCATATGTCCCGAATAATATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
160202 CAGCCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
160233 C
1 C
160234 CCTCGACCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
31 54 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:172539 original size:2 final size:2
Alignment explanation
Indices: 172532--172564 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
172522 TAATTAGTAT
172532 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
172565 TAGTTGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:174577 original size:28 final size:28
Alignment explanation
Indices: 174523--174577 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
174513 TCATCATTAC
* * *
174523 TTTCAAGCACTGGCCCGATGACATAATG
1 TTTCAAGCACTAGCCCAACGACATAATG
* *
174551 TTTCAAGCACTAGCTCAACGACTTAAT
1 TTTCAAGCACTAGCCCAACGACATAAT
174578 CTAAATGAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (28 bp):
TTTCAAGCACTAGCCCAACGACATAATG
Found at i:178211 original size:14 final size:15
Alignment explanation
Indices: 178192--178220 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
178182 ACGTTCAGGA
178192 TAATATTTT-TTCTG
1 TAATATTTTCTTCTG
178206 TAATATTTTCTTCTG
1 TAATATTTTCTTCTG
178221 GTTTGGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (15 bp):
TAATATTTTCTTCTG
Found at i:180859 original size:21 final size:21
Alignment explanation
Indices: 180835--180876 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
180825 TTATTTAATT
180835 TTTACTTTTTTTAAAAAAAAA
1 TTTACTTTTTTTAAAAAAAAA
180856 TTTACTTTTTTTAAAAAAAAA
1 TTTACTTTTTTTAAAAAAAAA
180877 ATCAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTACTTTTTTTAAAAAAAAA
Found at i:180865 original size:22 final size:21
Alignment explanation
Indices: 180835--180878 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
180825 TTATTTAATT
*
180835 TTTACTTTTTTTAAAAAAAAA
1 TTTACTTTTTTAAAAAAAAAA
180856 TTTACTTTTTTTAAAAAAAAAA
1 TTTAC-TTTTTTAAAAAAAAAA
180878 T
1 T
180879 CAAAATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTACTTTTTTAAAAAAAAAA
Found at i:181383 original size:18 final size:17
Alignment explanation
Indices: 181360--181394 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
181350 AAAACGTTAG
181360 ACACTTAAATTAAAAAAA
1 ACACTTAAA-TAAAAAAA
*
181378 ACACTTCAATAAAAAAA
1 ACACTTAAATAAAAAAA
181395 TTGTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (17 bp):
ACACTTAAATAAAAAAA
Found at i:184905 original size:18 final size:17
Alignment explanation
Indices: 184883--184915 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
184873 CTTTTAATTT
184883 TTTTTTTGAGTTCAAGC
1 TTTTTTTGAGTTCAAGC
184900 TTTTTTTGAGTTCAAG
1 TTTTTTTGAGTTCAAG
184916 TTTCAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (17 bp):
TTTTTTTGAGTTCAAGC
Found at i:185117 original size:11 final size:11
Alignment explanation
Indices: 185103--185140 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
185093 ACAAAAATCT
185103 CGGTTTTTTTC
1 CGGTTTTTTTC
185114 CGG-TTTTTTC
1 CGGTTTTTTTC
*
185124 CGATTTTTTT-
1 CGGTTTTTTTC
185134 CGGTTTT
1 CGGTTTT
185141 CAGCCGGTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.03, C:0.16, G:0.18, T:0.63
Consensus pattern (11 bp):
CGGTTTTTTTC
Found at i:186872 original size:26 final size:25
Alignment explanation
Indices: 186834--186920 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 25
186824 TAACTTACAC
* *
186834 ACCACTCTCACCTTAAAAATCCCTAA
1 ACCACTTTAACCTTAAAAAT-CCTAA
* **
186860 ACCACTTTAACC-TACAAAATTCTTC
1 ACCACTTTAACCTTA-AAAATCCTAA
* *
186885 ACCACTTTCACCTTAACAAATCCTAT
1 ACCACTTTAACCTTAA-AAATCCTAA
*
186911 ACCATTTTAA
1 ACCACTTTAA
186921 TCTAAAATCA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
25 16 0.34
26 31 0.66
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (25 bp):
ACCACTTTAACCTTAAAAATCCTAA
Found at i:202485 original size:19 final size:18
Alignment explanation
Indices: 202461--202599 Score: 75
Period size: 18 Copynumber: 7.8 Consensus size: 18
202451 ATTTTGCTTG
202461 AAGAAGAAATAAAAGAGAA
1 AAGAAGAAA-AAAAGAGAA
*
202480 AAGAAGAAAAAATGAGAA
1 AAGAAGAAAAAAAGAGAA
*
202498 AA-AAG-AAAAATGATGGAA
1 AAGAAGAAAAAAAGA--GAA
202516 AA-AACGAAAAAGGAA-A-AA
1 AAGAA-GAAAAA--AAGAGAA
*
202534 AAGAAGAAAAAATG-GAA
1 AAGAAGAAAAAAAGAGAA
*
202551 AAGGGAAGAAAAAAA-TGAA
1 AA--GAAGAAAAAAAGAGAA
*
202570 AA-ATG-AAAAAAGAGAA
1 AAGAAGAAAAAAAGAGAA
202586 AA-AA-AAAGAAAAGA
1 AAGAAGAAA-AAAAGA
202600 AATAAAAGGA
Statistics
Matches: 98, Mismatches: 7, Indels: 32
0.72 0.05 0.23
Matches are distributed among these distances:
15 6 0.06
16 19 0.19
17 13 0.13
18 27 0.28
19 27 0.28
20 4 0.04
21 1 0.01
22 1 0.01
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.05
Consensus pattern (18 bp):
AAGAAGAAAAAAAGAGAA
Found at i:202507 original size:26 final size:25
Alignment explanation
Indices: 202466--202597 Score: 90
Period size: 27 Copynumber: 4.9 Consensus size: 25
202456 GCTTGAAGAA
202466 GAAATAAAAGAGAAAAGAAGAAAAAAT
1 GAAA-AAAAGA-AAAAGAAGAAAAAAT
* *
202493 GAGAAAAAAGAAAAATGATGGAAAAAAC
1 GA-AAAAAAGAAAAA-GA-AGAAAAAAT
202521 GAAAAAGGAA-AAAAAGAAGAAAAAAT
1 GAAAAA--AAGAAAAAGAAGAAAAAAT
*
202547 GGAAAAGGGAAGAAAAA-AATG-AAAAAT
1 -GAAAA--AAAGAAAAAGAA-GAAAAAAT
*
202574 GAAAAAAGAGAAAAAAAAAGAAAA
1 GAAAAAA-AG-AAAAAGAAGAAAA
202598 GAAATAAAAG
Statistics
Matches: 85, Mismatches: 6, Indels: 28
0.71 0.05 0.24
Matches are distributed among these distances:
24 1 0.01
25 2 0.02
26 22 0.26
27 36 0.42
28 22 0.26
29 2 0.02
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.05
Consensus pattern (25 bp):
GAAAAAAAGAAAAAGAAGAAAAAAT
Found at i:202571 original size:54 final size:55
Alignment explanation
Indices: 202478--202597 Score: 144
Period size: 54 Copynumber: 2.2 Consensus size: 55
202468 AATAAAAGAG
*
202478 AAAAGAAGAAAAAATGAGAAAAAAGAAAAATGATGGAAAAAACG-AAAAAG-GAAA
1 AAAAGAAGAAAAAATGAGAAAAAAGAAAAATAATGG-AAAAACGAAAAAAGAGAAA
*
202532 AAAAGAAGAAAAAATG-GAAAAGGGAAGAAAAA-AAT-GAAAAATGAAAAAAGAGAAA
1 AAAAGAAGAAAAAATGAGAAAA---AAGAAAAATAATGGAAAAACGAAAAAAGAGAAA
202587 AAAA-AAGAAAA
1 AAAAGAAGAAAA
202598 GAAATAAAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
53 11 0.19
54 30 0.51
55 10 0.17
56 8 0.14
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.05
Consensus pattern (55 bp):
AAAAGAAGAAAAAATGAGAAAAAAGAAAAATAATGGAAAAACGAAAAAAGAGAAA
Found at i:202572 original size:20 final size:19
Alignment explanation
Indices: 202478--202597 Score: 76
Period size: 19 Copynumber: 6.6 Consensus size: 19
202468 AATAAAAGAG
202478 AAAAGAAGAAAAAATGAGAA
1 AAAAGAAGAAAAAATGA-AA
** *
202498 AAAAGAA-AAATGATG-GA
1 AAAAGAAGAAAAAATGAAA
* *
202515 AAAA-ACG-AAAAAGGAAA
1 AAAAGAAGAAAAAATGAAA
*
202532 AAAAGAAGAAAAAATGGAA
1 AAAAGAAGAAAAAATGAAA
**
202551 AAGGGAAGAAAAAAATG-AA
1 AAAAGAAG-AAAAAATGAAA
* *
202570 AAATGAA-AAAAGA-GAAA
1 AAAAGAAGAAAAAATGAAA
202587 AAAA-AAGAAAA
1 AAAAGAAGAAAA
202598 GAAATAAAAG
Statistics
Matches: 76, Mismatches: 17, Indels: 17
0.69 0.15 0.15
Matches are distributed among these distances:
16 8 0.11
17 24 0.32
18 2 0.03
19 27 0.36
20 15 0.20
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAAGAAGAAAAAATGAAA
Found at i:202606 original size:9 final size:8
Alignment explanation
Indices: 202464--202607 Score: 60
Period size: 9 Copynumber: 16.4 Consensus size: 8
202454 TTGCTTGAAG
202464 AAGAAATAA
1 AAGAAA-AA
202473 AAGAGAAAA
1 AAGA-AAAA
202482 GAAGAAAAA
1 -AAGAAAAA
*
202491 ATGAGAAAA
1 AAGA-AAAA
202500 AAGAAAAA
1 AAGAAAAA
*
202508 TGATGGAAAAA
1 --A-AGAAAAA
*
202519 ACGAAAAA
1 AAGAAAAA
202527 GGAA-AAAAA
1 --AAGAAAAA
202536 GAAGAAAAA
1 -AAGAAAAA
* *
202545 ATGGAAAAGGG
1 A-AGAAAA--A
202556 AAGAAAAA
1 AAGAAAAA
202564 AATG-AAAA
1 AA-GAAAAA
*
202572 ATGAAAAA
1 AAGAAAAA
202580 AGAGAAAAA
1 A-AGAAAAA
*
202589 AA-AAGAA
1 AAGAAAAA
202596 AAGAAATAA
1 AAGAAA-AA
202605 AAG
1 AAG
202608 GAGGGTTCAA
Statistics
Matches: 105, Mismatches: 13, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
7 7 0.07
8 32 0.30
9 46 0.44
10 13 0.12
11 7 0.07
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.06
Consensus pattern (8 bp):
AAGAAAAA
Found at i:203975 original size:55 final size:55
Alignment explanation
Indices: 203920--204341 Score: 321
Period size: 51 Copynumber: 7.8 Consensus size: 55
203910 AGCAAATTCG
* *
203920 TTTGTTGAAGA-TT-GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAAG--
1 TTTGTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACAAGTT
* *
203971 TTCGTTGAAGA-TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAG--
1 TTTGTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACAAGTT
* **
204022 TTCGTTGAAGA-TT-GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCG-T
1 TTTGTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACAAGTT
* * * *
204074 TTTGTTGAAGATTGTTCGAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCA--T
1 TTTGTTGAAGA-T-TTCGAGTCCTATACTCTCTGAA-GGAATAGAGAGCGGA-CAAGTT
* * * *
204130 TTT-ATGAAGATTTCCGAGTCCTATACTCTCTGAAAGAATAGAGAGCGGAC--CTG
1 TTTGTTGAAGATTT-CGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACAAGTT
* * ** *
204183 TTTATTGAAGATTTTCCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCG-C
1 TTTGTTGAAGA-TTT-CGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACAAGTT
* * * * *
204239 TTTATTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGAC-A-TAT
1 TTTGTTGAAGA-T-TTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACAAGT-T
* * *
204295 TTTATT-AAGATTGTTCGAGTCTTATACT-TCCTGAAGGAATAGGGAGC
1 TTTGTTGAAGA-T-TTCGAGTCCTATACTCT-CTGAAGGAATAGAGAGC
204342 AGGCTCGTCA
Statistics
Matches: 321, Mismatches: 31, Indels: 34
0.83 0.08 0.09
Matches are distributed among these distances:
51 97 0.30
52 10 0.03
53 7 0.02
54 37 0.12
55 82 0.26
56 82 0.26
57 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (55 bp):
TTTGTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACAAGTT
Found at i:203984 original size:51 final size:53
Alignment explanation
Indices: 203923--204286 Score: 359
Period size: 51 Copynumber: 6.8 Consensus size: 53
203913 AAATTCGTTT
* * *
203923 GTTGAAGA-TT-GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCAGTTC
* *
203974 GTTGAAGA-TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCAGTTC
* *
204025 GTTGAAGA-TT-GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTT
1 GTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCAG-TTC
* * *
204077 GTTGAAGATTGTTCGAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCA-TT-
1 GTTGAAGA-T-TTCGAGTCCTATACTCTCTGAA-GGAATAGAGAGCGGA-CCAGTTC
* * * *
204131 TTATGAAGATTTCCGAGTCCTATACTCTCTGAAAGAATAGAGAGCGGACCTGTTT
1 GT-TGAAGATTT-CGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCAGTTC
* * * *
204186 ATTGAAGATTTTCCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGCTTT
1 GTTGAAGA-TTT-CGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCAG-TTC
* * * *
204242 ATTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGC
1 GTTGAAGA-T-TTCGAGTCCTATACTCTCTGAAGGAATAGAGAGC
204287 AGACATATTT
Statistics
Matches: 275, Mismatches: 23, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
51 95 0.35
52 10 0.04
53 5 0.02
54 39 0.14
55 51 0.19
56 69 0.25
57 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (53 bp):
GTTGAAGATTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCAGTTC
Found at i:204049 original size:102 final size:102
Alignment explanation
Indices: 203921--204341 Score: 386
Period size: 111 Copynumber: 3.9 Consensus size: 102
203911 GCAAATTCGT
* * *
203921 TTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAAGTTCGTTGAAGA-TT-
1 TTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGAGAGCGGACCAGTTTGTTGAAGATTTC
*
203984 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
66 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAA
* *
204021 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTGTTGAAGAT
1 -TT-GTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGAGAGCGGACCAG-TTTGTTGAAGA-
* *
204086 TGTTCGAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCA
62 T-TTCGAGTTCTATACTCTCTGAA-GGAATAGGGAGCGGA-CAA
* * *
204129 TTTTATGAAGATTTCCGAGTCCTATACTCTCTGAAAGAATAGAGAGCGGACCTGTTTATTGAAGA
1 TTGT-TGAAGA-TT--GAGTCCTATACTCTCTGAAAGAATAGAGAGCGGACCAGTTTGTTGAAGA
* **
204194 TTTTCCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGCT
62 -TTT-CGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGA--C-AA
* * * * * * *
204240 TTATTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACATATTTTATT-AAG
1 TTGTTGAAGATTG----AGTCCTATACTCTCTGAAAGAATAGAGAGCGGAC-CAGTTTGTTGAAG
204304 ATTGTTCGAG-TCTTATACT-TCCTGAAGGAATAGGGAGC
61 A-T-TTCGAGTTC-TATACTCT-CTGAAGGAATAGGGAGC
204342 AGGCTCGTCA
Statistics
Matches: 273, Mismatches: 23, Indels: 38
0.82 0.07 0.11
Matches are distributed among these distances:
101 2 0.01
102 44 0.16
103 10 0.04
106 3 0.01
107 38 0.14
108 10 0.04
109 44 0.16
110 47 0.17
111 67 0.25
112 8 0.03
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (102 bp):
TTGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGAGAGCGGACCAGTTTGTTGAAGATTTC
GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAA
Found at i:204249 original size:165 final size:162
Alignment explanation
Indices: 203984--204341 Score: 461
Period size: 165 Copynumber: 2.2 Consensus size: 162
203974 GTTGAAGATT
*
203984 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATACTCT
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCATTGAAGATTGAGTCCTATACTCT
* * * *
204049 CTGAAGGAATAGAGAGCGGACCCGTTTTGTTGAAGATTGTTCGAGT-TCTATACTCCCTGAACGG
66 CTGAAGGAATAGAGAGCGGACCCGCTTTATTGAAGATTGTTCAAGTCT-TATACTCCCTGAACGA
* * *
204113 ATAGGGAGCGGACCCATTTTATGAAGATT-TCC
130 ATAGAGAGCAGACACATTTTATGAAGATTGTCC
* * ** * *
204145 GAGTCCTATACTCTCTGAAAGAATAGAGAGCGGACCTGTTTATTGAAGATTTTCCGAGTTCTATA
1 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCATTGAAGA--TT--GAGTCCTATA
*
204210 CTCTCTGAAGGAATAGAGAGCGGACCCGCTTTATTGAAGATTGTTCAAGTCTTATACTCTCTGAA
62 CTCTCTGAAGGAATAGAGAGCGGACCCGCTTTATTGAAGATTGTTCAAGTCTTATACTCCCTGAA
* * * *
204275 TGAATAGAGAGCAGACATATTTTATTAAGATTGTTC
127 CGAATAGAGAGCAGACACATTTTATGAAGATTGTCC
*
204311 GAGTCTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTCCTATACTCT-CTGAAGGAATAGGGAGC
204342 AGGCTCGTCA
Statistics
Matches: 168, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
161 43 0.26
163 2 0.01
165 94 0.56
166 29 0.17
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (162 bp):
GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCATTGAAGATTGAGTCCTATACTCT
CTGAAGGAATAGAGAGCGGACCCGCTTTATTGAAGATTGTTCAAGTCTTATACTCCCTGAACGAA
TAGAGAGCAGACACATTTTATGAAGATTGTCC
Found at i:204343 original size:55 final size:56
Alignment explanation
Indices: 203933--204341 Score: 363
Period size: 56 Copynumber: 7.6 Consensus size: 56
203923 GTTGAAGATT
* * * * * **
203933 GAGTCCTATACTCTCTGAAAGAATAGGGAGCGGA-CAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCATTTTATTGAAGATTGTTC
* * * * **
203984 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGA-CAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCATTTTATTGAAGATTGTTC
* * *
204035 GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTGTTGAAGATTGTTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCATTTTATTGAAGATTGTTC
* * *
204091 GAGT-TCTATACTCCCTGAACGG-ATAGGGAGCGGACCCATTTTA-TGAAGATT-TCC
1 GAGTCT-TATACTCTCTGAA-GGAATAGAGAGCGGACCCATTTTATTGAAGATTGTTC
* *
204145 GAGTCCTATACTCTCTGAAAGAATAGAGAGCGGA-CC-TGTTTATTGAAGATT-TTCC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCAT-TTTATTGAAGATTGTT-C
**
204200 GAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACCCGCTTTATTGAAGATTGTTC
1 GAGTCT-TATACTCTCTGAAGGAATAGAGAGCGGACCCATTTTATTGAAGATTGTTC
* * * **
204256 AAGTCTTATACTCTCTGAATGAATAGAGAGCAGACATATTTTATT-AAGATTGTTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCATTTTATTGAAGATTGTTC
*
204311 GAGTCTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTCTTATACTCT-CTGAAGGAATAGAGAGC
204342 AGGCTCGTCA
Statistics
Matches: 310, Mismatches: 30, Indels: 32
0.83 0.08 0.09
Matches are distributed among these distances:
51 83 0.27
52 12 0.04
53 7 0.02
54 39 0.13
55 78 0.25
56 86 0.28
57 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (56 bp):
GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCATTTTATTGAAGATTGTTC
Found at i:204360 original size:55 final size:54
Alignment explanation
Indices: 203985--204374 Score: 198
Period size: 55 Copynumber: 7.1 Consensus size: 54
203975 TTGAAGATTG
* * *
203985 AGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA-AGT-TCGTTGAAGATTG----
1 AGTCTTATACTCTCTGAAGGAATAGAGAGCAGACATA-TAT--TTGAAGATTGTTCA
* * * * *
204036 AGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGT-TTTGTTGAAGATTGTTCG
1 AGTCTTATACTCTCTGAAGGAATAGAGAGCAGA--CATATAT-TTGAAGATTGTTCA
* * * ** * * *
204092 AGT-TCTATACTCCCTGAACGG-ATAGGGAGCGGACCCATTTTATGAAGATT-TCCG
1 AGTCT-TATACTCTCTGAA-GGAATAGAGAGCAGACATATATT-TGAAGATTGTTCA
* * * * * * *
204146 AGTCCTATACTCTCTGAAAGAATAGAGAGCGGACCTGTTTATTGAAGATT-TTCCG
1 AGTCTTATACTCTCTGAAGGAATAGAGAGCAGACATATAT-TTGAAGATTGTT-CA
* * *
204201 AGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACCCGCTTTA-TTGAAGATTGTTCA
1 AGTCT-TATACTCTCTGAAGGAATAGAGAGCAGA--C-ATATATTTGAAGATTGTTCA
* * * *
204257 AGTCTTATACTCTCTGAATGAATAGAGAGCAGACATATTTTATTAAGATTGTTCG
1 AGTCTTATACTCTCTGAAGGAATAGAGAGCAGACATATATT-TGAAGATTGTTCA
* * * *
204312 AGTCTTATACT-TCCTGAAGGAATAGGGAGCAGGC-TCGTCATTTGAAGATTTTTCA
1 AGTCTTATACTCT-CTGAAGGAATAGAGAGCAGACAT-AT-ATTTGAAGATTGTTCA
204367 AGTCTTAT
1 AGTCTTAT
204375 TTATCCCGAT
Statistics
Matches: 277, Mismatches: 35, Indels: 50
0.77 0.10 0.14
Matches are distributed among these distances:
51 32 0.12
52 12 0.04
53 5 0.02
54 49 0.18
55 103 0.37
56 67 0.24
57 6 0.02
58 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (54 bp):
AGTCTTATACTCTCTGAAGGAATAGAGAGCAGACATATATTTGAAGATTGTTCA
Found at i:211798 original size:22 final size:22
Alignment explanation
Indices: 211773--211819 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
211763 TTATGGAGTT
211773 CACGGGAAAATTTTACGTTATA
1 CACGGGAAAATTTTACGTTATA
211795 CACGGGAAAATTTTACGTTATA
1 CACGGGAAAATTTTACGTTATA
211817 CAC
1 CAC
211820 TTTCCATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (22 bp):
CACGGGAAAATTTTACGTTATA
Found at i:213870 original size:20 final size:21
Alignment explanation
Indices: 213845--213935 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
213835 TTCCCAATTT
*
213845 GCAATGCGAA-TAAGTAAATC
1 GCAATGCGAATTAAGAAAATC
**
213865 GCAATGCGAATTGGGAAAATC
1 GCAATGCGAATTAAGAAAATC
*
213886 GCAATGCGAA-TAAGTAAATC
1 GCAATGCGAATTAAGAAAATC
* **
213906 GCAACGCGAATTGGGAAAATC
1 GCAATGCGAATTAAGAAAATC
213927 GCAATGCGA
1 GCAATGCGA
213936 TACTTACTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 26 0.45
21 32 0.55
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (21 bp):
GCAATGCGAATTAAGAAAATC
Found at i:213886 original size:21 final size:21
Alignment explanation
Indices: 213860--213935 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
213850 GCGAATAAGT
213860 AAATCGCAATGCGAATTGGGA
1 AAATCGCAATGCGAATTGGGA
** *
213881 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAATGCGAATTGGGA
*
213901 AAATCGCAACGCGAATTGGGA
1 AAATCGCAATGCGAATTGGGA
213922 AAATCGCAATGCGA
1 AAATCGCAATGCGA
213936 TACTTACTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
AAATCGCAATGCGAATTGGGA
Found at i:213890 original size:41 final size:41
Alignment explanation
Indices: 213845--213935 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
213835 TTCCCAATTT
*
213845 GCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAATC
1 GCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATC
213886 GCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATC
1 GCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATC
213927 GCAATGCGA
1 GCAATGCGA
213936 TACTTACTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (41 bp):
GCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATC
Found at i:213948 original size:41 final size:41
Alignment explanation
Indices: 213862--213996 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
213852 GAATAAGTAA
* ** *
213862 ATCGCAATGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
213903 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
213944 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
213985 TTCGCAACGCGA
1 ATCGCAACGCGA
213997 TACTGACTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 5 0.06
41 73 0.91
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:213949 original size:20 final size:20
Alignment explanation
Indices: 213924--214017 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
213914 AATTGGGAAA
*
213924 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
213944 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
213965 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
213985 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
214005 TTCGCAACGCGAT
1 ATCGCAACGCGAT
214018 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:214570 original size:19 final size:19
Alignment explanation
Indices: 214532--214598 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
214522 TTCGAGAATG
* *
214532 AAAATCACAACACGGAAATA
1 AAAATCGCAACGC-GAAATA
**
214552 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
214571 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
214590 AAAATCGCA
1 AAAATCGCA
214599 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 30 0.77
20 9 0.23
ACGTcount: A:0.51, C:0.25, G:0.13, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:214616 original size:19 final size:19
Alignment explanation
Indices: 214594--214776 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
214584 GAAACCAAAA
*
214594 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
214613 TCGCGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
214631 TCGCGTTGCGATTTT-ATT
1 TCGCGTTGCGATTTTCATT
214649 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
* *
214669 TTGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
214685 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
214702 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
214716 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
214735 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
214755 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
214775 TC
1 TC
214777 AACCAAAAGA
Statistics
Matches: 135, Mismatches: 14, Indels: 30
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 26 0.19
19 44 0.33
20 37 0.27
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:214694 original size:33 final size:33
Alignment explanation
Indices: 214664--214751 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
214654 GTTGCGATTT
* * *
214664 TCATTTTGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
214697 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
214730 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
214752 ATTATCTCGT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 35 0.70
34 15 0.30
ACGTcount: A:0.11, C:0.24, G:0.25, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:214753 original size:20 final size:20
Alignment explanation
Indices: 214719--214776 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
214709 GCGATTCTCT
**
214719 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
214739 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
214759 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
214777 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:216830 original size:42 final size:42
Alignment explanation
Indices: 216770--216892 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
216760 GCCCGACTCG
* * *
216770 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
216812 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
216854 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
216893 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:216850 original size:21 final size:21
Alignment explanation
Indices: 216826--216892 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
216816 TCATTCCTCG
216826 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
216847 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
216868 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
216889 AGAG
1 AGAG
216893 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:218278 original size:14 final size:13
Alignment explanation
Indices: 218244--218279 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
218234 TTTATTGTTT
218244 AATTGATTTGTAA
1 AATTGATTTGTAA
218257 AATGTGATTTGTAA
1 AAT-TGATTTGTAA
218271 AAGTTGATT
1 AA-TTGATT
218280 GTTTAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 17 0.81
15 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.44
Consensus pattern (13 bp):
AATTGATTTGTAA
Found at i:218483 original size:19 final size:19
Alignment explanation
Indices: 218461--218578 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
218451 CGAAATTAAA
218461 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
218480 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
218495 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
218513 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
218528 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
218546 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
218565 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
218579 GGACATTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 34 0.47
20 10 0.14
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:218507 original size:33 final size:33
Alignment explanation
Indices: 218465--218558 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
218455 ATTAAATTCG
218465 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
218498 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
218531 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
218559 AGTAATTTCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:220864 original size:12 final size:12
Alignment explanation
Indices: 220847--220871 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
220837 TCTTCGGGGA
220847 CTTTTTCTTCTT
1 CTTTTTCTTCTT
220859 CTTTTTCTTCTT
1 CTTTTTCTTCTT
220871 C
1 C
220872 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:221080 original size:24 final size:24
Alignment explanation
Indices: 221046--221099 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
221036 CTGAAACATC
* *
221046 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
221070 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
221094 ATCAAA
1 ATCAAA
221100 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:222184 original size:20 final size:20
Alignment explanation
Indices: 222159--222216 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
222149 ATTCATTTGA
222159 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
222179 CTATCGCAACGCAAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
222199 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
222217 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:224301 original size:20 final size:19
Alignment explanation
Indices: 224266--224317 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
224256 GAAACTTAAA
224266 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
224285 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
*
224305 ATCGCAATGCGAA
1 ATCGCAACGCGAA
224318 GTGAAAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:224340 original size:14 final size:14
Alignment explanation
Indices: 224321--224378 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
224311 ATGCGAAGTG
*
224321 AAAATCACAACGAC
1 AAAATCGCAACGAC
*
224335 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
224351 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
224367 AAAATCGCAACG
1 AAAATCGCAACG
224379 CGAAACACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.50, C:0.26, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:224364 original size:32 final size:33
Alignment explanation
Indices: 224305--224383 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
224295 GGAAATGGCT
* *
224305 ATCGCAATGCGAAGTGAAAATCACAACGACAAA
1 ATCGCAACGCGAAATGAAAATCACAACGACAAA
*
224338 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCACAACGACAAA
224370 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
224384 CACAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 29 0.67
33 14 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCACAACGACAAA
Done.