Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 69 of 126
Found at i:14086881 original size:1 final size:1
Alignment explanation
Indices: 14086870--14086901 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
14086860 ACATAGGTAA
*
14086870 TTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14086902 AAATTTGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:14086955 original size:196 final size:194
Alignment explanation
Indices: 14086610--14086968 Score: 517
Period size: 196 Copynumber: 1.8 Consensus size: 194
14086600 AATTTTGATC
* *
14086610 AAAGCTCCTCTAAGCAGAGGCTTAACGACTTTTGAGAAACATAAACAAAGCTCCTCTAAACAAAG
1 AAAGCTCCTCTAAGCAGAGACTCAACGACTTTTGAGAAACATAAACAAAGCTCCTCTAAACAAAG
* * * *
14086675 GTAATTTTTTTTATTTTTTTGTTTTTTTTTTAATTTTGATCAAAGCTCCTCTAAGCAAAGGCTCA
66 GTAATTTTTTTTATTTTTTTGTTTTTTTTTTAAATTTGATCAAAGCACCTCTAAACAAAGACTCA
14086740 ACGACTTCGAGAAACATAAACAAAGCTCCTCTATTCAGAGGCTTAACGACTTTGAAAAATAAAT
131 ACGACTTCGAGAAACATAAACAAAGCTCCTCTATTCAGAGGCTTAACGACTTTGAAAAATAAAT
* * * *
14086804 AAAGCTCCTCTAATCAGAGACTCAACGAC-TTTGA-AGA-TTAAACAAAGCTCCTCTAAACATAG
1 AAAGCTCCTCTAAGCAGAGACTCAACGACTTTTGAGAAACATAAACAAAGCTCCTCTAAACAAAG
* * *
14086866 GTAATTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTAAATTTGATCAAAGCACCTCTAAACAGAG
66 GTAA----TT-TTTTTTATTTTTTTGTTTTTTTTTTAAATTTGATCAAAGCACCTCTAAACAAAG
* *
14086931 ACTCAATGACTTTGAGAAACATAAACAAAGCTCCTCTA
126 ACTCAACGACTTCGAGAAACATAAACAAAGCTCCTCTA
14086969 AACAGAGGTA
Statistics
Matches: 145, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
191 27 0.19
192 2 0.01
193 5 0.03
194 26 0.18
195 2 0.01
196 83 0.57
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (194 bp):
AAAGCTCCTCTAAGCAGAGACTCAACGACTTTTGAGAAACATAAACAAAGCTCCTCTAAACAAAG
GTAATTTTTTTTATTTTTTTGTTTTTTTTTTAAATTTGATCAAAGCACCTCTAAACAAAGACTCA
ACGACTTCGAGAAACATAAACAAAGCTCCTCTATTCAGAGGCTTAACGACTTTGAAAAATAAAT
Found at i:14087066 original size:42 final size:42
Alignment explanation
Indices: 14087006--14087387 Score: 286
Period size: 42 Copynumber: 9.1 Consensus size: 42
14086996 TTTGATCAAA
*
14087006 GCTCCTCTAAGCAGAGGCTCAACGACTTTAGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATG
*
14087048 GCTCCTCTAATCAAAGGCTCAACGACTTTTA-AAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTAGAAAAATAAATG
14087090 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATG
* * ** *
14087132 GCTCCTCTAATTAGAGGCATC-ACAACTTT-GAAAAGCAAATT
1 GCTCCTCTAATCAGAGGC-TCAACGACTTTAGAAAAATAAATG
* * ** * * * *
14087173 GCTCCTCTAAACAGAGGCACCTCAACTTTTTGAAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTAGAAAAATAAATG
* * * * * * *
14087216 GCCCCTCTAAAT-ATAGGCACCACAACTTT-GGAAAATAAATT
1 GCTCCTCT-AATCAGAGGCTCAACGACTTTAGAAAAATAAATG
* * *
14087257 GCTCCTCTAAACAGAGG--CAACGAAACTTT-GAAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACG--ACTTTAGAAAAATAAATG
* * * * *
14087298 GCTCCTCTAAAT-AGAGGCAACCACGACTTT-GGAAATTAAATT
1 GCTCCTCT-AATCAGAGGC-TCAACGACTTTAGAAAAATAAATG
* *
14087340 GCTCCTCTAAACAGAGG--CAACGAAACTTT-GAAAAAATAAATT
1 GCTCCTCTAATCAGAGGCTCAACG--ACTTTAG-AAAAATAAATG
14087382 GCTCCT
1 GCTCCT
14087388 TGACCATCAT
Statistics
Matches: 288, Mismatches: 34, Indels: 36
0.80 0.09 0.10
Matches are distributed among these distances:
39 7 0.02
40 3 0.01
41 90 0.31
42 146 0.51
43 36 0.12
44 6 0.02
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (42 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATG
Found at i:14087099 original size:84 final size:81
Alignment explanation
Indices: 14087006--14087387 Score: 335
Period size: 84 Copynumber: 4.6 Consensus size: 81
14086996 TTTGATCAAA
*
14087006 GCTCCTCTAAGCAGAGGCTCAACGACTTTAGAAAAATAAATGGCTCCTCTAATCAAAGGCTCAAC
1 GCTCCTCTAAACAGAGGCTCAACGACTTTAGAAAAATAAATGGCTCCTCTAAT-AAAGGCTC-AC
* * *
14087071 GACTTTTAAAAAATAAATG
64 AAC-TTTGAAAAATAAATT
* *
14087090 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATGGCTCCTCTAATTAGAGGCATCAC
1 GCTCCTCTAAACAGAGGCTCAACGACTTTAGAAAAATAAATGGCTCCTCTAA-TAAAGGC-TCAC
**
14087155 AACTTTGAAAAGCAAATT
64 AACTTTGAAAAATAAATT
* ** * * * * * * *
14087173 GCTCCTCTAAACAGAGGCACCTCAACTTTTTGAAAAGTAAATTGCCCCTCTAAATATAGGCACCA
1 GCTCCTCTAAACAGAGGCTCAACGAC-TTTAGAAAAATAAATGGCTCCTCT-AATAAAGGC-TCA
*
14087238 CAACTTTGGAAAATAAATT
63 CAACTTTGAAAAATAAATT
* * * *
14087257 GCTCCTCTAAACAGAGG--CAACGAAACTTT-GAAAAGTAAATTGCTCCTCTAAATAGAGGCAAC
1 GCTCCTCTAAACAGAGGCTCAACG--ACTTTAGAAAAATAAATGGCTCCTCT-AATAAAGGC--T
* * *
14087319 CACGACTTTGGAAATTAAATT
61 CACAACTTTGAAAAATAAATT
*
14087340 GCTCCTCTAAACAGAGG--CAACGAAACTTT-GAAAAAATAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCTCAACG--ACTTTAG-AAAAATAAATGGCTCCT
14087388 TGACCATCAT
Statistics
Matches: 261, Mismatches: 29, Indels: 16
0.85 0.09 0.05
Matches are distributed among these distances:
82 30 0.11
83 86 0.33
84 140 0.54
85 5 0.02
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTAGAAAAATAAATGGCTCCTCTAATAAAGGCTCACAA
CTTTGAAAAATAAATT
Found at i:14089142 original size:19 final size:17
Alignment explanation
Indices: 14089120--14089172 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 17
14089110 ATTTGAATCT
14089120 TTTTTTTTTCATTTTCTC
1 TTTTTTTTTC-TTTTCTC
*
14089138 ATTTTTTTCTTCTTTTTTTTC
1 -TTTTTTT-TTC--TTTTCTC
14089159 TTTTTTTTTCTTTT
1 TTTTTTTTTCTTTT
14089173 TTTTTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 4 0.13
19 10 0.33
20 10 0.33
21 6 0.20
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTTCTTTTCTC
Found at i:14089156 original size:12 final size:11
Alignment explanation
Indices: 14089139--14089177 Score: 62
Period size: 10 Copynumber: 3.5 Consensus size: 11
14089129 CATTTTCTCA
14089139 TTTTTTTCTTCT
1 TTTTTTTCTT-T
14089151 TTTTTTTC-TT
1 TTTTTTTCTTT
14089161 TTTTTTTCTTT
1 TTTTTTTCTTT
14089172 TTTTTT
1 TTTTTT
14089178 AATTTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.35
11 9 0.35
12 8 0.31
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:14089173 original size:19 final size:20
Alignment explanation
Indices: 14089120--14089186 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
14089110 ATTTGAATCT
* *
14089120 TTTTTTTTTC-ATTTTCTCA
1 TTTTTTTTTCTTTTTTTTCA
14089139 TTTTTTTCTTCTTTTTTTTC-
1 TTTTTTT-TTCTTTTTTTTCA
*
14089159 TTTTTTTTTCTTTTTTTTTAA
1 TTTTTTTTTC-TTTTTTTTCA
14089180 TTTTTTT
1 TTTTTTT
14089187 CATCATCTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.24
20 18 0.44
21 13 0.32
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTCTTTTTTTTCA
Found at i:14089187 original size:19 final size:19
Alignment explanation
Indices: 14089141--14089187 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
14089131 TTTTCTCATT
*
14089141 TTTTTCTTCTTTTTTTTCTT
1 TTTTT-TTCTTTTTTTTCTA
14089161 TTTTTTTCTTTTTTTT-TAA
1 TTTTTTTCTTTTTTTTCT-A
14089180 TTTTTTTC
1 TTTTTTTC
14089188 ATCATCTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 19 0.76
20 5 0.20
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTCTTTTTTTTCTA
Found at i:14090110 original size:22 final size:21
Alignment explanation
Indices: 14090062--14090113 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
14090052 AGTCATATTG
* * *
14090062 CAAAAAAAAAATCTAACATTA
1 CAAAAAAAAAATCGAAAATGA
14090083 CTAAAAAAAAAATCCGAAAATGA
1 C-AAAAAAAAAAT-CGAAAATGA
14090106 CAAAAAAA
1 CAAAAAAA
14090114 CCTTCAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 18 0.69
23 7 0.27
ACGTcount: A:0.69, C:0.13, G:0.04, T:0.13
Consensus pattern (21 bp):
CAAAAAAAAAATCGAAAATGA
Found at i:14090111 original size:23 final size:22
Alignment explanation
Indices: 14090063--14090113 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
14090053 GTCATATTGC
* * * *
14090063 AAAAAAAAAATCTAACATTACT
1 AAAAAAAAAATCGAAAATGACA
14090085 AAAAAAAAAATCCGAAAATGACA
1 AAAAAAAAAAT-CGAAAATGACA
14090108 AAAAAA
1 AAAAAA
14090114 CCTTCAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.71, C:0.12, G:0.04, T:0.14
Consensus pattern (22 bp):
AAAAAAAAAATCGAAAATGACA
Found at i:14093209 original size:57 final size:58
Alignment explanation
Indices: 14093119--14093252 Score: 202
Period size: 57 Copynumber: 2.3 Consensus size: 58
14093109 CTTTTGTACA
*
14093119 AGAAAAATTGATACTTTCAACTTTTCTCCAAAATATTTTTTTG-AAA-TTTTAATTTTG
1 AGAAAAATTGATACTTTCAACTTTTCTCCAAAATA-TTTTTTGAAAACTTTTAATTTCG
14093176 AGAAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTGAAAAACTTTTAATTTCG
1 AGAAAAATTGATACTTTCAACTTTTCTCC-AAAATATTTTTTG-AAAACTTTTAATTTCG
*
14093235 AGGAAAATTGATACTTTC
1 AGAAAAATTGATACTTTC
14093253 GAAGAAAATT
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
56 9 0.13
57 32 0.45
58 3 0.04
59 27 0.38
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (58 bp):
AGAAAAATTGATACTTTCAACTTTTCTCCAAAATATTTTTTGAAAACTTTTAATTTCG
Found at i:14093252 original size:19 final size:19
Alignment explanation
Indices: 14093230--14093271 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
14093220 AAACTTTTAA
*
14093230 TTTCGAGGAAAATTGATAC
1 TTTCGAAGAAAATTGATAC
14093249 TTTCGAAGAAAATTGATAC
1 TTTCGAAGAAAATTGATAC
14093268 TTTC
1 TTTC
14093272 AACTTTTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (19 bp):
TTTCGAAGAAAATTGATAC
Found at i:14093263 original size:78 final size:77
Alignment explanation
Indices: 14093179--14093329 Score: 232
Period size: 77 Copynumber: 1.9 Consensus size: 77
14093169 AATTTTGAGA
* * * *
14093179 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAAAACTTTTAATTTCGAGGAAAAT
1 AAAATTGATACTTTCAACTTTTTCCAAAAAATATTGTTTG-AAAA-TCTTAATTTCAAGGAAAAT
14093243 TGATACTTTCGAAG
64 TGATACTTTCGAAG
*
14093257 AAAATTGATACTTTCAACTTTTTCCAAAAAATATTGTTTGAAAATCTTATTTTCAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTTCCAAAAAATATTGTTTGAAAATCTTAATTTCAAGGAAAATTG
14093322 ATACTTTC
66 ATACTTTC
14093330 AACTTTTCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
77 26 0.39
78 22 0.33
79 19 0.28
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (77 bp):
AAAATTGATACTTTCAACTTTTTCCAAAAAATATTGTTTGAAAATCTTAATTTCAAGGAAAATTG
ATACTTTCGAAG
Found at i:14095896 original size:15 final size:15
Alignment explanation
Indices: 14095878--14095907 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14095868 TTAGTACAAT
14095878 TCCACTTAGTCATCC
1 TCCACTTAGTCATCC
14095893 TCCACTTAGTCATCC
1 TCCACTTAGTCATCC
14095908 AATGCTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.07, T:0.33
Consensus pattern (15 bp):
TCCACTTAGTCATCC
Found at i:14096052 original size:13 final size:13
Alignment explanation
Indices: 14096034--14096073 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
14096024 TAAAAATGAT
14096034 AAATATGAAATAA
1 AAATATGAAATAA
14096047 AAATATGAAATAA
1 AAATATGAAATAA
14096060 AAA-AT-AAATAA
1 AAATATGAAATAA
14096071 AAA
1 AAA
14096074 ATTTATAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 9 0.33
12 2 0.07
13 16 0.59
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (13 bp):
AAATATGAAATAA
Found at i:14096064 original size:20 final size:20
Alignment explanation
Indices: 14095977--14096067 Score: 69
Period size: 20 Copynumber: 4.4 Consensus size: 20
14095967 TCAAATAATG
*
14095977 AAAATAGAAAAAGA-AAATAA
1 AAAATA-AAAATGATAAATAA
* *
14095997 ATAATAAATAGATAATAAGATAA
1 AAAATAAA-A-ATGATAA-ATAA
* *
14096020 AAATTAAAAATGATAAATAT
1 AAAATAAAAATGATAAATAA
*
14096040 GAAATAAAAAT-ATGAAATAA
1 AAAATAAAAATGAT-AAATAA
14096060 AAAATAAA
1 AAAATAAA
14096068 TAAAAAATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
19 4 0.07
20 30 0.55
21 8 0.15
22 3 0.05
23 10 0.18
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAATAAAAATGATAAATAA
Found at i:14096081 original size:11 final size:11
Alignment explanation
Indices: 14095991--14096075 Score: 53
Period size: 11 Copynumber: 7.0 Consensus size: 11
14095981 TAGAAAAAGA
*
14095991 AAATAAATAAT
1 AAATAAAAAAT
* *
14096002 AAATAGATAAT
1 AAATAAAAAAT
*
14096013 AAGATAAAAATTAA
1 AA-ATAAAAA--AT
*
14096027 AAATGATAAATAT
1 AAAT-A-AAAAAT
14096040 GAAATAAAAATAT
1 -AAATAAAAA-AT
14096053 GAAATAAAAAAT
1 -AAATAAAAAAT
14096065 AAATAAAAAAT
1 AAATAAAAAAT
14096076 TTATAATCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
11 23 0.38
12 10 0.17
13 16 0.27
14 8 0.13
15 3 0.05
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:14096205 original size:3 final size:3
Alignment explanation
Indices: 14096197--14096231 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14096187 TCATAAATGG
14096197 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14096232 CTATAAATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14096290 original size:43 final size:43
Alignment explanation
Indices: 14096189--14096317 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
14096179 GGTTGTGTTC
* *
14096189 ATAAATGGATAATAATAATAATAATAATAATAAT-AATAATAATCT
1 ATAAATGGATAATAATAATAAT-CTATTAATAATCAAT-A-AATCT
** * *
14096234 ATAAATGTTTAATAAAAATAATCTATTAATAATCTATAAATCT
1 ATAAATGGATAATAATAATAATCTATTAATAATCAATAAATCT
* * *
14096277 ATAAATGGATAATAATAACAA-CAAATTAATAATCGATAAAT
1 ATAAATGGATAATAATAATAATC-TATTAATAATCAATAAAT
14096318 GTTTACATCT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 38 0.54
44 10 0.14
45 21 0.30
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (43 bp):
ATAAATGGATAATAATAATAATCTATTAATAATCAATAAATCT
Found at i:14100947 original size:17 final size:19
Alignment explanation
Indices: 14100910--14100948 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
14100900 GAAATAAACT
14100910 CAAAAAGATAAAAAATTAAA
1 CAAAAAGATAAAAAA-TAAA
14100930 CAAAAAGA-AAAAAA-AAA
1 CAAAAAGATAAAAAATAAA
14100947 CA
1 CA
14100949 GTGATACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
19 6 0.32
20 8 0.42
ACGTcount: A:0.79, C:0.08, G:0.05, T:0.08
Consensus pattern (19 bp):
CAAAAAGATAAAAAATAAA
Found at i:14103105 original size:15 final size:15
Alignment explanation
Indices: 14103087--14103146 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
14103077 GTTAAATAAT
14103087 TATAATAATTTATTA
1 TATAATAATTTATTA
* *
14103102 TATAATTATTTA-AA
1 TATAATAATTTATTA
14103116 TAATAATAATTT-TTA
1 T-ATAATAATTTATTA
*
14103131 TTCTAATAAATTTATT
1 -TATAAT-AATTTATT
14103147 CAAAATACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 2 0.06
15 25 0.71
16 6 0.17
17 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TATAATAATTTATTA
Found at i:14105162 original size:17 final size:17
Alignment explanation
Indices: 14105133--14105176 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
14105123 TAACATATTT
14105133 AATT-TTTTCAATAATTC
1 AATTATTTT-AATAATTC
14105150 AATTATTTTAATAATTC
1 AATTATTTTAATAATTC
*
14105167 AATCATTTTA
1 AATTATTTTA
14105177 TTTAATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTATTTTAATAATTC
Found at i:14105250 original size:21 final size:19
Alignment explanation
Indices: 14105229--14105298 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
14105219 AATACGTAAT
*
14105229 AAAAAATATAAAATATGAA
1 AAAAAATATAAAATATAAA
* * * *
14105248 ATACAATAAAAAATATTAA
1 AAAAAATATAAAATATAAA
* *
14105267 AAATAATACAAAATATAAA
1 AAAAAATATAAAATATAAA
*
14105286 AAAATATATAAAA
1 AAAAAATATAAAA
14105299 AAATGAACAG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (19 bp):
AAAAAATATAAAATATAAA
Found at i:14105269 original size:10 final size:10
Alignment explanation
Indices: 14105254--14105300 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
14105244 TGAAATACAA
14105254 TAAAAAATAT
1 TAAAAAATAT
*
14105264 T-AAAAATAA
1 TAAAAAATAT
*
14105273 TACAAAATAT
1 TAAAAAATAT
*
14105283 AAAAAAATAT
1 TAAAAAATAT
14105293 ATAAAAAA
1 -TAAAAAA
14105301 ATGAACAGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
9 8 0.28
10 15 0.52
11 6 0.21
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:14105281 original size:26 final size:25
Alignment explanation
Indices: 14105226--14105277 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
14105216 AAAAATACGT
14105226 AATAAAAAATATAAAATATGAAATAC
1 AATAAAAAATATAAAATAT-AAATAC
14105252 AATAAAAAATATTAAAA-AT-AATAC
1 AATAAAAAATA-TAAAATATAAATAC
14105276 AA
1 AA
14105278 AATATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.28
26 13 0.52
27 5 0.20
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (25 bp):
AATAAAAAATATAAAATATAAATAC
Found at i:14105318 original size:31 final size:29
Alignment explanation
Indices: 14105255--14105318 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
14105245 GAAATACAAT
*
14105255 AAAAAATATTAAAAATAATACAAAATATA
1 AAAAAATATTAAAAATAATACAAAATAGA
*
14105284 AAAAAATATATAAAAA-AATGAACAGAATAGA
1 AAAAAATAT-TAAAAATAAT--ACAAAATAGA
14105315 AAAA
1 AAAA
14105319 TCGAGGATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 12 0.40
30 6 0.20
31 12 0.40
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (29 bp):
AAAAAATATTAAAAATAATACAAAATAGA
Found at i:14106565 original size:20 final size:18
Alignment explanation
Indices: 14106521--14106568 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
14106511 CTTTTTTTTA
14106521 AAGTAATAAATAAAAATT
1 AAGTAATAAATAAAAATT
* * *
14106539 GATTAATATATTAAAAATAT
1 AAGTAATA-AATAAAAAT-T
14106559 AAGTAATAAA
1 AAGTAATAAA
14106569 AATGAGAAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AAGTAATAAATAAAAATT
Found at i:14106745 original size:212 final size:208
Alignment explanation
Indices: 14106377--14106756 Score: 485
Period size: 212 Copynumber: 1.8 Consensus size: 208
14106367 AAATAAAATT
* * * *
14106377 TTTATCCGACGATGACATTCAAAGGTATTCCGAGTAGTGATGCTTACGAAATCTTTAGGTGAGAA
1 TTTATCCGACGATGACATTCAAAAGTATTCCGAGTAGAGATGCTTAAGAAATCTCTAGGTGAGAA
* * * * * **
14106442 GATTTTTTTTAAAATACTACTAGTGTATTGGAGTATTTATAAAAAAATTTTCAATACGGTAAAGA
66 GATTTTTTGTAAAATACTACCAGTGTATTGAAATATTTATAAAAAAATCTTCAATACAATAAAGA
* *
14106507 TTTTCTTTTTTTTAAAGTAATAAATAAAAATTGATTAATATATTAAAAATATAAGTAATAAAAAT
131 TTTTCTTTTTTTCAAAATAATAAATAAAAA-T-ATTAATATATTAAAAATATAAGTAATAAAAAT
14106572 GAGAAGAAAAAAAAA
194 GAGAAGAAAAAAAAA
* ** *
14106587 TTTATCCGATGATGGGATTCTAAAAGTATTTCGAGTAGAGATGCTTTAAGAAATCTCTAGGTGAG
1 TTTATCCGACGATGACATTC-AAAAGTATTCCGAGTAGAGATGC-TTAAGAAATCTCTAGGTGAG
* * * *
14106652 AAGATTTTTTGTAAAATATTACCAGTGTATTGAAATATTTAT-AGAAAATCTTCAATATAATGAA
64 AAGATTTTTTGTAAAATACTACCAGTGTATTGAAATATTTATAAAAAAATCTTCAATACAATAAA
**
14106716 -ATTTTCATTTTTCTTCAAAATTTTAAATAAAAATATTAATA
129 GATTTTC-TTTTT-TTCAAAATAATAAATAAAAATATTAATA
14106757 AAATAATTAA
Statistics
Matches: 143, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
210 30 0.21
211 42 0.29
212 71 0.50
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (208 bp):
TTTATCCGACGATGACATTCAAAAGTATTCCGAGTAGAGATGCTTAAGAAATCTCTAGGTGAGAA
GATTTTTTGTAAAATACTACCAGTGTATTGAAATATTTATAAAAAAATCTTCAATACAATAAAGA
TTTTCTTTTTTTCAAAATAATAAATAAAAATATTAATATATTAAAAATATAAGTAATAAAAATGA
GAAGAAAAAAAAA
Found at i:14106778 original size:12 final size:12
Alignment explanation
Indices: 14106732--14106778 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
14106722 ATTTTTCTTC
14106732 AAAATT-TTAAAT
1 AAAATTATT-AAT
*
14106744 AAAAATATTAAT
1 AAAATTATTAAT
*
14106756 AAAATAATTAAT
1 AAAATTATTAAT
*
14106768 AAAATTTTTAA
1 AAAATTATTAA
14106779 CAAAGGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 27 0.93
13 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATTATTAAT
Found at i:14107525 original size:23 final size:22
Alignment explanation
Indices: 14107485--14107536 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
14107475 CATTTTCAAT
*
14107485 AAAAATGGTAAAAAAAAAAACAA
1 AAAAATCG-AAAAAAAAAAACAA
* *
14107508 AACAAATCGAAAATAAAAAGCAA
1 AA-AAATCGAAAAAAAAAAACAA
14107531 AAAAAT
1 AAAAAT
14107537 TCACACACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 4 0.16
23 16 0.64
24 5 0.20
ACGTcount: A:0.75, C:0.08, G:0.08, T:0.10
Consensus pattern (22 bp):
AAAAATCGAAAAAAAAAAACAA
Found at i:14110436 original size:21 final size:21
Alignment explanation
Indices: 14110412--14110480 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
14110402 ATTTTTTGTT
*
14110412 TAAATAAATTTATTTAATATA
1 TAAATAAATTTATTAAATATA
* *
14110433 TAAATAAAAATT-TTAAAAATTA
1 TAAAT-AAATTTATTAAATA-TA
* *
14110455 AAAATAAATTTATTGAATATA
1 TAAATAAATTTATTAAATATA
14110476 TAAAT
1 TAAAT
14110481 TAAAAATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
21 21 0.57
22 16 0.43
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (21 bp):
TAAATAAATTTATTAAATATA
Found at i:14110505 original size:24 final size:26
Alignment explanation
Indices: 14110449--14110501 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
14110439 AAAATTTTAA
14110449 AAATTAAAAATAAATTTATTGAATATAT
1 AAATTAAAAATAAATTTATTG-A-ATAT
*
14110477 AAATTAAAAATTAATTTATTGAATA
1 AAATTAAAAATAAATTTATTGAATA
14110502 AATTTGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.12
27 1 0.04
28 20 0.83
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (26 bp):
AAATTAAAAATAAATTTATTGAATAT
Found at i:14110788 original size:91 final size:90
Alignment explanation
Indices: 14110637--14110819 Score: 330
Period size: 91 Copynumber: 2.0 Consensus size: 90
14110627 GACACTGGAA
14110637 AAGGACACGTCGTAACGATGTGTACAGATAACGACGCAGATTAAAACAAACGGTGGAAAAAAAAA
1 AAGGACACGTCGTAACGATGTGTACAGATAACGACGCAGATTAAAACAAACGGTGG-AAAAAAAA
**
14110702 AGGGGTTTGACCAACGACTGGAGCAC
65 AGGCCTTTGACCAACGACTGGAGCAC
*
14110728 AAGGACACGTCGTAACGATGTGTACAGATAACGACGCAGATTAAAACAAACGGTGGAAAAAAAAT
1 AAGGACACGTCGTAACGATGTGTACAGATAACGACGCAGATTAAAACAAACGGTGGAAAAAAAAA
14110793 GGCCTTTGACCAACGACTGGAGCAC
66 GGCCTTTGACCAACGACTGGAGCAC
14110818 AA
1 AA
14110820 TCGTCTTGTC
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 33 0.37
91 56 0.63
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.15
Consensus pattern (90 bp):
AAGGACACGTCGTAACGATGTGTACAGATAACGACGCAGATTAAAACAAACGGTGGAAAAAAAAA
GGCCTTTGACCAACGACTGGAGCAC
Found at i:14111124 original size:22 final size:22
Alignment explanation
Indices: 14111080--14111125 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
14111070 TAATTATTTA
*
14111080 TTTATTTATTTATATTTTGTGT
1 TTTATTTATTTATATTTTATGT
14111102 TTTATTTTATTTATA-TTTATGT
1 TTTA-TTTATTTATATTTTATGT
14111124 TT
1 TT
14111126 AATATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.74
Consensus pattern (22 bp):
TTTATTTATTTATATTTTATGT
Found at i:14111133 original size:23 final size:24
Alignment explanation
Indices: 14111082--14111133 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
14111072 ATTATTTATT
* *
14111082 TATTTATTTATATTTTGTGTTTTA
1 TATTTATTTATATTTTATGTTTAA
14111106 T-TTTATTTATA-TTTATGTTTAA
1 TATTTATTTATATTTTATGTTTAA
14111128 TATTTA
1 TATTTA
14111134 ATATATGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.40
23 14 0.56
24 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (24 bp):
TATTTATTTATATTTTATGTTTAA
Found at i:14115051 original size:112 final size:111
Alignment explanation
Indices: 14114853--14115077 Score: 283
Period size: 112 Copynumber: 2.0 Consensus size: 111
14114843 AATTTTGAAG
* *
14114853 AAATTATTTAATATATTACCAAAATTTTTTTTAATTTTACAAATGAAATTAACAAAATGACATTT
1 AAATTATTTAATATATTACCAAAATATTTTTTAATTTTACAAATGAAATTAACAAAATGACATTG
* * *
14114918 ATCTTTTTTATAAAAATTGTTTTGTTATTTTTTTAAATGCACGAAA
66 ATCTTTTTTATAAAAACTGTTTTGTTATATTTTTAAATACACGAAA
** * *
14114964 AAATTATTTAATATATTGTCAGTAAA-ATTTTTTAATTTTATAAATGAAATTAACAAGATGACAT
1 AAATTATTTAATATATTACCA--AAATATTTTTTAATTTTACAAATGAAATTAACAAAATGACAT
** * * *
14115028 TGATCTTATTTT-TGTAAACTGTTTTTTTATATTTTTGAATACACTAAA
64 TGATCTT-TTTTATAAAAACTGTTTTGTTATATTTTTAAATACACGAAA
14115076 AA
1 AA
14115078 TACGTGTCAA
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
111 19 0.20
112 71 0.73
113 7 0.07
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (111 bp):
AAATTATTTAATATATTACCAAAATATTTTTTAATTTTACAAATGAAATTAACAAAATGACATTG
ATCTTTTTTATAAAAACTGTTTTGTTATATTTTTAAATACACGAAA
Found at i:14115230 original size:1 final size:1
Alignment explanation
Indices: 14115224--14115257 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
14115214 TCTTGTCTTG
*
14115224 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14115258 ATTGAGTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:14115930 original size:22 final size:22
Alignment explanation
Indices: 14115904--14115946 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14115894 AATATAAATT
14115904 ATATTTTAATTATA-TTAATATA
1 ATATTTTAATTA-AGTTAATATA
*
14115926 ATATTTTTATTAAGTTAATAT
1 ATATTTTAATTAAGTTAATAT
14115947 CTTAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATTTTAATTAAGTTAATATA
Found at i:14116034 original size:2 final size:2
Alignment explanation
Indices: 14116023--14116052 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14116013 ACAAATAAAA
14116023 AT AT -T 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 A
14116053 GATTTATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14117192 original size:64 final size:64
Alignment explanation
Indices: 14117105--14117294 Score: 249
Period size: 65 Copynumber: 3.0 Consensus size: 64
14117095 CTTTTGAGAC
* * *
14117105 TTCAATAATT-ATCTTTTGCAACTACTACTATAAAATTTTGTGGGTTGGATATTAATTCATCCAT
1 TTCAATAATTGTTC-TTTGCAACTACTACTATAAAATTTTGAGGGTTGGATATTAATTCATCCAA
* * *
14117169 TTCAATAATTGTTCTTGGCAACTACTACTATTAAAA-TTTGAAGGTTGGGATATTAATTCGTCCA
1 TTCAATAATTGTTCTTTGCAACTACTACTA-TAAAATTTTGAGGGTT-GGATATTAATTCATCCA
14117233 A
64 A
* ** *
14117234 TTCAATAATTGTCCTTTGCAACTACTACTATTCAATTTTGAGAGTTGGATATTAATTCATC
1 TTCAATAATTGTTCTTTGCAACTACTACTATAAAATTTTGAGGGTTGGATATTAATTCATC
14117295 GATAGTGTAG
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
64 50 0.46
65 59 0.54
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (64 bp):
TTCAATAATTGTTCTTTGCAACTACTACTATAAAATTTTGAGGGTTGGATATTAATTCATCCAA
Found at i:14117422 original size:17 final size:17
Alignment explanation
Indices: 14117402--14117481 Score: 61
Period size: 17 Copynumber: 4.3 Consensus size: 17
14117392 AAAATTAAAC
**
14117402 AAAAATATGGAATATAA
1 AAAAATATAAAATATAA
14117419 AAAAATATAAAATATAAAAA
1 AAAAATATAAAATAT---AA
*
14117439 TACTAAAATACAAAATATCAA
1 -A--AAAATATAAAATAT-AA
*
14117460 AAAAATATAAAATACAA
1 AAAAATATAAAATATAA
14117477 AAAAA
1 AAAAA
14117482 AGAACAGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
17 20 0.39
18 12 0.24
20 3 0.06
21 3 0.06
23 13 0.25
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (17 bp):
AAAAATATAAAATATAA
Found at i:14117430 original size:7 final size:7
Alignment explanation
Indices: 14117420--14117478 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
14117410 GGAATATAAA
14117420 AAAATAT
1 AAAATAT
14117427 AAAATAT
1 AAAATAT
14117434 AAAAATACT
1 -AAAATA-T
*
14117443 AAAATAC
1 AAAATAT
14117450 AAAATAT
1 AAAATAT
*
14117457 -CAA-A-
1 AAAATAT
14117461 AAAATAT
1 AAAATAT
*
14117468 AAAATAC
1 AAAATAT
14117475 AAAA
1 AAAA
14117479 AAAAGAACAG
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
5 3 0.07
6 3 0.07
7 23 0.55
8 12 0.29
9 1 0.02
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (7 bp):
AAAATAT
Found at i:14117445 original size:9 final size:8
Alignment explanation
Indices: 14117412--14117471 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
14117402 AAAAATATGG
14117412 AATATAAA
1 AATATAAA
*
14117420 AAAATATAA
1 AATATA-AA
14117429 AATATAAA
1 AATATAAA
14117437 AATACT-AA
1 AATA-TAAA
*
14117445 AATACAAA
1 AATATAAA
*
14117453 ATATCAAAAA
1 A-AT-ATAAA
14117463 AATATAAA
1 AATATAAA
14117471 A
1 A
14117472 TACAAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
8 25 0.60
9 12 0.29
10 5 0.12
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (8 bp):
AATATAAA
Found at i:14117478 original size:16 final size:16
Alignment explanation
Indices: 14117427--14117480 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
14117417 AAAAAAATAT
*
14117427 AAAATATAAAAATAC-T
1 AAAATAT-AAAATACAA
*
14117443 AAAATACAAAATATCAAA
1 AAAATATAAAATA-C-AA
14117461 AAAATATAAAATACAA
1 AAAATATAAAATACAA
14117477 AAAA
1 AAAA
14117481 AAGAACAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 6 0.19
16 13 0.41
17 1 0.03
18 12 0.38
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATATAAAATACAA
Found at i:14118472 original size:21 final size:23
Alignment explanation
Indices: 14118429--14118474 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
14118419 ATTTAGGTAA
*
14118429 AAAAAATTTTTTTAGATTTTTTT
1 AAAAAATTTTTTTAGATTATTTT
*
14118452 AAAATATTTTTTT-G-TTATTTT
1 AAAAAATTTTTTTAGATTATTTT
14118473 AA
1 AA
14118475 TTATTATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 1 0.05
23 12 0.57
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
AAAAAATTTTTTTAGATTATTTT
Found at i:14126510 original size:13 final size:13
Alignment explanation
Indices: 14126492--14126517 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14126482 TTCATTTTCA
14126492 TTTTGCTTTCCAT
1 TTTTGCTTTCCAT
14126505 TTTTGCTTTCCAT
1 TTTTGCTTTCCAT
14126518 CATTTTCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.08, T:0.62
Consensus pattern (13 bp):
TTTTGCTTTCCAT
Found at i:14130931 original size:51 final size:51
Alignment explanation
Indices: 14130813--14131540 Score: 574
Period size: 50 Copynumber: 14.8 Consensus size: 51
14130803 TCAAGAACAA
* *
14130813 ATGAGAATTTTTAAAGTTGTTGAGCCTCTACTGAAAGGAA-CTTTTTC-A-
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* * * *
14130861 ATGAG-ATTTTTAAAATTGTTGAGCTTATGCTAAGAGGAACCTTTTTCAAG
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* ** *
14130911 ATGAGAATTTTTAAAGTTGTTGAGCCTCTACTGAGA-GAAGTTTTTTCAAA
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* * * * *
14130961 ATGAG-ATTTTTAAAGTTGTTGAACATCTGCTGAGATGAGCCCTTTTCAAG
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* * * * **
14131011 AT-AAAGATTTTTAAAGTTGTTGAGCTTCTGCTAAGATGAGTCTTTTTCAAG
1 ATGAGA-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* * * *
14131062 ATGAG-ATTTTTAATGTTGTTGAGCCTCTACTAAGA-GAAGCTTTTTC-AG
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* * ** * * * **
14131110 ATGAG-A-TTTTAAAGTCGTTAAGCCTCTATTGAGAAGAGCTTTTTTTTAG
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* * * *
14131159 ATGA-AATTTTTAAAGTTGTTGAACCTTTGCTGAGAGGAGCTTTTTTC---
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* *
14131206 A-GAGAATTTTTAAAGTTGTTGAGCCGCTGCTGAGAGAAACCTTTTTCAAG
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* * * * * * *
14131256 ATGAAAATTTTTAAAGTTATCGAGCCTCTTCTGAGAAG-AGCATTTTCAAG
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* *
14131306 ATTAGAATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAACCTTTTTCAAG
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* ** * ** * *
14131357 ATAAGAATTTTTAAAGTTGTCAAGCCTCTACTGAGAATAGCCTTCTTCAAG
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
* * * * ** * * *
14131408 AT-AGAATTTTAAAAGTTATTGAGCCTCTACTAAGA-TTAGC-TTTCCCAG
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
** * * * * *
14131456 ATGAG-A-TTTTAAAGTCATTAAGCCTCTGTTGAGATG-AGC-TTTTCTAAT
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTC-AAG
* *
14131504 ATGAG-A-TTTTAAAGTTGTTGAACCTCTGCTAAGAGGA
1 ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA
14131541 GCCCCTTTTT
Statistics
Matches: 546, Mismatches: 112, Indels: 43
0.78 0.16 0.06
Matches are distributed among these distances:
46 2 0.00
47 118 0.22
48 65 0.12
49 49 0.09
50 161 0.29
51 150 0.27
52 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.37
Consensus pattern (51 bp):
ATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCTTTTTCAAG
Found at i:14131082 original size:101 final size:98
Alignment explanation
Indices: 14130819--14131538 Score: 530
Period size: 101 Copynumber: 7.3 Consensus size: 98
14130809 ACAAATGAGA
* *
14130819 ATTTTTAAAGTTGTTGAGCCTCTACTGAA-AGGAACTTTTTC-A-ATGAGATTTTTAAAATTGTT
1 ATTTTTAAAGTTGTTGAGCCTCTACT-AAGA-GAGCTTTTTCAAGATGAGATTTTTAAAGTTGTT
* * * * * *
14130881 GAGCTTATGCTAAGAGGAACCTTTTTCAAGAT-GAG
64 GAACCTCTGCTGAGATGAGCC-TTTTCAAGATAGAG
* * *
14130916 AATTTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGTTTTTTCAAAATGAGATTTTTAAAGTTGTT
1 -ATTTTTAAAGTTGTTGAGCCTCTACTAAGAG-AGCTTTTTCAAGATGAGATTTTTAAAGTTGTT
* *
14130981 GAACATCTGCTGAGATGAGCCCTTTTCAAGATAAAG
64 GAACCTCTGCTGAGATGAG-CCTTTTCAAGATAGAG
* * *
14131017 ATTTTTAAAGTTGTTGAGCTTCTGCTAAGATGAGTCTTTTTCAAGATGAGATTTTTAATGTTGTT
1 ATTTTTAAAGTTGTTGAGCCTCTACTAAGA-GAG-CTTTTTCAAGATGAGATTTTTAAAGTTGTT
* * * *
14131082 GAGCCTCTACTAAGA-GAAGCTTTTTC-AGAT-GAG
64 GAACCTCTGCTGAGATG-AGCCTTTTCAAGATAGAG
* * * * ** *
14131115 A-TTTTAAAGTCGTTAAGCCTCTATTGAGAAGAGCTTTTTTTTAGATGAAATTTTTAAAGTTGTT
1 ATTTTTAAAGTTGTTGAGCCTCTACTAAG-AGAGC-TTTTTCAAGATGAGATTTTTAAAGTTGTT
* * *
14131179 GAACCTTTGCTGAGAGGAGCTTTTTTC-AG--AGA-
64 GAACCTCTGCTGAGATGAGC-CTTTTCAAGATAGAG
* * * * * *
14131211 ATTTTTAAAGTTGTTGAGCCGCTGCTGAGAGAAACCTTTTTCAAGATGAAAATTTTTAAAGTTAT
1 ATTTTTAAAGTTGTTGAGCCTCTACT-A-AGAGAGCTTTTTCAAGATG-AGATTTTTAAAGTTGT
* * * * *
14131276 CGAGCCTCTTCTGAGAAGAGCATTTTCAAGATTAGA-
63 TGAACCTCTGCTGAGATGAGCCTTTTCAAGA-TAGAG
* * * * *
14131312 ATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAACCTTTTTCAAGATAAGAATTTTTAAAGTTG-
1 ATTTTTAAAGTTGTTGAGCCTCTACTAAGA-G-AGCTTTTTCAAGATGAG-ATTTTTAAAGTTGT
* *
14131376 TCAAGCCTCTACTGAGAAT-AGCCTTCTTCAAGATAGA-
63 TGAA-CCTCTGCTGAG-ATGAGCCTT-TTCAAGATAGAG
* * * * * **
14131413 ATTTTAAAAGTTATTGAGCCTCTACTAAGATTAGC-TTTCCCAGATGAGA-TTTTAAAGTCATT-
1 ATTTTTAAAGTTGTTGAGCCTCTACTAAGA-GAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTG
* *
14131475 AAGCCTCTGTTGAGATGAG-CTTTTCTA-ATATGAG
65 AA-CCTCTGCTGAGATGAGCCTTTTCAAGATA-GAG
* *
14131509 A-TTTTAAAGTTGTTGAACCTCTGCTAAGAG
1 ATTTTTAAAGTTGTTGAGCCTCTACTAAGAG
14131539 GAGCCCCTTT
Statistics
Matches: 502, Mismatches: 88, Indels: 68
0.76 0.13 0.10
Matches are distributed among these distances:
94 3 0.01
95 30 0.06
96 8 0.02
97 124 0.25
98 85 0.17
99 20 0.04
100 82 0.16
101 142 0.28
102 8 0.02
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.38
Consensus pattern (98 bp):
ATTTTTAAAGTTGTTGAGCCTCTACTAAGAGAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTGA
ACCTCTGCTGAGATGAGCCTTTTCAAGATAGAG
Found at i:14131459 original size:346 final size:344
Alignment explanation
Indices: 14130813--14131542 Score: 907
Period size: 346 Copynumber: 2.1 Consensus size: 344
14130803 TCAAGAACAA
* * * *
14130813 ATGAGAATTTTTAAAGTTGTTGAGCCTCTACTGAAAGGAACTTTTTCAATGAGATTTTTAAAATT
1 ATGA-AATTTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAATGAGATTTTTAAAATT
** * * * *
14130878 GTTGAGCTTATGCTAAGAGGAACCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGAGCCTCTACT
65 GTTGAGCCGATGCTAAGAGAAACCTTTTTCAAGATGAAAATTTTTAAAGTTATCGAGCCTCTACT
** * *
14130943 GAGAGAAGTTTTTTCAAAATGAGATTTTTAAAGTTGTTGAACATCTGCTGAGATGAGCCCTTTTC
130 GAGAGAAGCATTTTCAAAATGAGATTTTTAAAGTTGTTGAACATCTGCTGAGAGGAACCCTTTTC
** * * * * *
14131008 AAGATAAAGATTTTTAAAGTTGTTGAGCTTCTGCTAAGATGAGTCTTTTTCAAGATGAGATTTTT
195 AAGATAAAGATTTTTAAAGTTGTCAAGCCTCTACTAAGATGAGCCTTCTTCAAGATGAGATTTTA
* * ** *
14131073 AATGTTGTTGAGCCTCTACTAAGAGAAGCTTTTTCAGATGAGATTTTAAAGTCGTTAAGCCTCTA
260 AAAGTTATTGAGCCTCTACTAAGAGAAGCTTTCCCAGATGAGATTTTAAAGTCATTAAGCCTCTA
* *
14131138 TTGAGAAGAGCTTTTTTTTAG
325 TTGAGAAGAGC-TTTTCTAAG
* *
14131159 ATGAAATTTTTAAAGTTGTTGAACCTTTGCTGAGAGGAGCTTTTTTC-A-GAGAATTTTTAAAGT
1 ATGAAATTTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGC-TTTTTCAATGAG-ATTTTTAAAAT
* * *
14131222 TGTTGAGCCGCTGCTGAGAGAAACCTTTTTCAAGATGAAAATTTTTAAAGTTATCGAGCCTCTTC
64 TGTTGAGCCGATGCTAAGAGAAACCTTTTTCAAGATGAAAATTTTTAAAGTTATCGAGCCTCTAC
* * * * * *
14131287 TGAGA-AGAGCATTTTCAAGATTAGAATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAACCTTT
129 TGAGAGA-AGCATTTTCAAAATGAG-ATTTTTAAAGTTGTTGAACATCTGCTGAGAGGAACCCTT
*
14131351 TTCAAGAT-AAGAATTTTTAAAGTTGTCAAGCCTCTACTGAGAAT-AGCCTTCTTCAAGAT-AGA
192 TTCAAGATAAAG-ATTTTTAAAGTTGTCAAGCCTCTACTAAG-ATGAGCCTTCTTCAAGATGAG-
**
14131413 ATTTTAAAAGTTATTGAGCCTCTACTAAGATTAGCTTTCCCAGATGAGATTTTAAAGTCATTAAG
254 ATTTTAAAAGTTATTGAGCCTCTACTAAGAGAAGCTTTCCCAGATGAGATTTTAAAGTCATTAAG
* * *
14131478 CCTCTGTTGAGATGAGCTTTTCTAAT
319 CCTCTATTGAGAAGAGCTTTTCTAAG
* *
14131504 ATGAGA-TTTTAAAGTTGTTGAACCTCTGCTAAGAGGAGC
1 ATGAAATTTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGC
14131543 CCCTTTTTTT
Statistics
Matches: 329, Mismatches: 48, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
344 35 0.11
345 132 0.40
346 160 0.49
347 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (344 bp):
ATGAAATTTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAATGAGATTTTTAAAATTG
TTGAGCCGATGCTAAGAGAAACCTTTTTCAAGATGAAAATTTTTAAAGTTATCGAGCCTCTACTG
AGAGAAGCATTTTCAAAATGAGATTTTTAAAGTTGTTGAACATCTGCTGAGAGGAACCCTTTTCA
AGATAAAGATTTTTAAAGTTGTCAAGCCTCTACTAAGATGAGCCTTCTTCAAGATGAGATTTTAA
AAGTTATTGAGCCTCTACTAAGAGAAGCTTTCCCAGATGAGATTTTAAAGTCATTAAGCCTCTAT
TGAGAAGAGCTTTTCTAAG
Found at i:14131480 original size:47 final size:47
Alignment explanation
Indices: 14131378--14131518 Score: 131
Period size: 48 Copynumber: 2.9 Consensus size: 47
14131368 TAAAGTTGTC
* * *
14131378 AAGCCTCTACTGAGAATAGCCTTCTTCAAGAT-AGAATTTTAAAAGTTATT
1 AAGCCTCTACTGAGATTAG-CTT-TCCAAGATGAG-ATTTT-AAAGTCATT
* * *
14131428 GAGCCTCTACTAAGATTAGCTTTCCCAGATGAGATTTTAAAGTCATT
1 AAGCCTCTACTGAGATTAGCTTTCCAAGATGAGATTTTAAAGTCATT
** * * *
14131475 AAGCCTCTGTTGAGATGAGCTTTTCTAATATGAGATTTTAAAGT
1 AAGCCTCTACTGAGATTAGC-TTTCCAAGATGAGATTTTAAAGT
14131519 TGTTGAACCT
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
47 23 0.31
48 31 0.41
49 5 0.07
50 16 0.21
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (47 bp):
AAGCCTCTACTGAGATTAGCTTTCCAAGATGAGATTTTAAAGTCATT
Found at i:14131857 original size:16 final size:16
Alignment explanation
Indices: 14131836--14131918 Score: 73
Period size: 16 Copynumber: 5.2 Consensus size: 16
14131826 AAAATTAAAT
*
14131836 AAAAATACAGAATACA
1 AAAAATACAAAATACA
14131852 AAAAATACAAAATACA
1 AAAAATACAAAATACA
*
14131868 AGAAATACCAAAATACTA
1 AAAAATA-CAAAATAC-A
* * *
14131886 AATACTAAAAAAATAC-
1 AAAAAT-ACAAAATACA
14131902 -AAAATACAAAATA-A
1 AAAAATACAAAATACA
14131916 AAA
1 AAA
14131919 CAAAAAGAGG
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
14 7 0.13
15 5 0.09
16 21 0.40
17 8 0.15
18 11 0.21
19 1 0.02
ACGTcount: A:0.71, C:0.12, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAAATACAAAATACA
Found at i:14131863 original size:7 final size:7
Alignment explanation
Indices: 14131832--14131918 Score: 67
Period size: 7 Copynumber: 12.4 Consensus size: 7
14131822 AATAAAAATT
14131832 AAATA-A
1 AAATACA
14131838 AAATACA
1 AAATACA
*
14131845 GAATACAAA
1 AAATAC--A
14131854 AAATACA
1 AAATACA
14131861 AAATACAA
1 AAATAC-A
14131869 GAAATACCA
1 -AAATA-CA
*
14131878 AAATACT
1 AAATACA
14131885 AAATAC-
1 AAATACA
*
14131891 TAA-A-A
1 AAATACA
14131896 AAATACA
1 AAATACA
14131903 AAATACA
1 AAATACA
14131910 AAATA-A
1 AAATACA
14131916 AAA
1 AAA
14131919 CAAAAAGAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
5 3 0.04
6 12 0.18
7 33 0.49
8 6 0.09
9 12 0.18
10 1 0.01
ACGTcount: A:0.71, C:0.11, G:0.02, T:0.15
Consensus pattern (7 bp):
AAATACA
Found at i:14131880 original size:25 final size:24
Alignment explanation
Indices: 14131853--14131918 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
14131843 CAGAATACAA
*
14131853 AAAATACAAAATAC-AAGAAATACC
1 AAAATACAAAATACAAAAAAATA-C
*
14131877 AAAATACTAAATACTAAAAAAATAC
1 AAAATACAAAATAC-AAAAAAATAC
14131902 AAAATACAAAATA-AAAA
1 AAAATACAAAATACAAAA
14131919 CAAAAAGAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.11
24 13 0.35
25 13 0.35
26 7 0.19
ACGTcount: A:0.71, C:0.12, G:0.02, T:0.15
Consensus pattern (24 bp):
AAAATACAAAATACAAAAAAATAC
Found at i:14131900 original size:18 final size:17
Alignment explanation
Indices: 14131836--14131923 Score: 61
Period size: 18 Copynumber: 4.7 Consensus size: 17
14131826 AAAATTAAAT
*
14131836 AAAAATACAGAATAC-A
1 AAAAATACAAAATACAA
14131852 AAAAATACAAAATACAAGAAA
1 AAAAATACAAAATAC----AA
*
14131873 TACCAAAATACTAAATACTAA
1 -A--AAAATACAAAATAC-AA
14131894 AAAAATACAAAATACAA
1 AAAAATACAAAATACAA
*
14131911 AATAAAAACAAAA
1 AA-AAATACAAAA
14131924 AGAGGGGATG
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
16 14 0.24
17 4 0.07
18 22 0.38
20 1 0.02
21 3 0.05
22 1 0.02
24 13 0.22
ACGTcount: A:0.72, C:0.12, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAAATACAAAATACAA
Found at i:14131923 original size:25 final size:25
Alignment explanation
Indices: 14131853--14131923 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
14131843 CAGAATACAA
* *
14131853 AAAATACAAAAT-ACAAGAAATACC
1 AAAATACAAAATAAAAAAAAATACC
* *
14131877 AAAATACTAAATACTAAAAAAATA-C
1 AAAATACAAAATA-AAAAAAAATACC
14131902 AAAATACAAAATAAAAACAAAA
1 AAAATACAAAATAAAAA-AAAA
14131924 AGAGGGGATG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 14 0.37
25 17 0.45
26 7 0.18
ACGTcount: A:0.72, C:0.13, G:0.01, T:0.14
Consensus pattern (25 bp):
AAAATACAAAATAAAAAAAAATACC
Found at i:14134313 original size:21 final size:20
Alignment explanation
Indices: 14134261--14134314 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
14134251 TTATTTGTTA
14134261 TTATTATTTTTTTATTTATC
1 TTATTATTTTTTTATTTATC
* * *
14134281 TTGTAATATTTTTGATTTATC
1 TTATTAT-TTTTTTATTTATC
*
14134302 TTATTCTTTTTTT
1 TTATTATTTTTTT
14134315 CTAATTATCT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.72
Consensus pattern (20 bp):
TTATTATTTTTTTATTTATC
Found at i:14134322 original size:22 final size:21
Alignment explanation
Indices: 14134297--14134342 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
14134287 TATTTTTGAT
14134297 TTATCTTATTCTTTTTT-TCTAA
1 TTATC-TATT-TTTTTTATCTAA
14134319 TTATCTATTTTTTTTAATCTAA
1 TTATCTATTTTTTTT-ATCTAA
14134341 TT
1 TT
14134343 TTTTTTGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.27
21 4 0.18
22 12 0.55
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATCTATTTTTTTTATCTAA
Found at i:14135272 original size:17 final size:17
Alignment explanation
Indices: 14135229--14135295 Score: 66
Period size: 17 Copynumber: 4.0 Consensus size: 17
14135219 ATTTAATATT
* *
14135229 CTTTTCTCTTTATTTTA
1 CTTTTCTTTTTGTTTTA
* *
14135246 TTTTTATTTTTGTTTTA
1 CTTTTCTTTTTGTTTTA
14135263 CTTTTCTTTTT-TTTTCA
1 CTTTTCTTTTTGTTTT-A
*
14135280 CTTTT-ATTTTGTTTTA
1 CTTTTCTTTTTGTTTTA
14135296 TTATTTTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
16 9 0.22
17 32 0.78
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.76
Consensus pattern (17 bp):
CTTTTCTTTTTGTTTTA
Found at i:14135481 original size:60 final size:58
Alignment explanation
Indices: 14135330--14135658 Score: 316
Period size: 59 Copynumber: 5.6 Consensus size: 58
14135320 TAAAAAATAT
* * * **
14135330 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAA-TTTTTAAAA
1 ATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTCAAAAATAAAGTTTCAAAAA
* * *
14135386 ATGA-TTTTTGAGGGAAAGTTGAAAGTATCAA-TTTCCTTCGAAATTAAAAGTTTCCAAAAA
1 AT-ATTTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTTCAAAAAT-AAAGTTT-CAAAAA
14135446 ATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCC-TCAAAAATCAAAGTTTTTCAAAAA
1 ATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTCAAAAAT-AAAG--TTTCAAAAA
* *
14135506 ATA-TTTTTGAGAAAAAGTTGAAAGTATCAA-TTTCCTT-AAAAATAAATTTTTTTTAAAAAA
1 ATATTTTTTGAG-AAAAGTTGAAAGTATCAATTTTCCTTCAAAAATAAA----GTTTCAAAAA
* * * * *
14135566 AGATTTTTTGAGGAAAAATTGAGAGTATCAATTTTCC-TCGAAATTAAAGTTTCAAAAGA
1 ATATTTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTTCAAAAATAAAGTTTCAAAA-A
* *
14135625 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 ATATTTTTTGAGAAAAGTTGAAAGTATCAATTTT
14135659 TCCTGCACAA
Statistics
Matches: 226, Mismatches: 26, Indels: 40
0.77 0.09 0.14
Matches are distributed among these distances:
56 13 0.06
57 23 0.10
58 34 0.15
59 60 0.27
60 56 0.25
61 27 0.12
62 13 0.06
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (58 bp):
ATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTCAAAAATAAAGTTTCAAAAA
Found at i:14135531 original size:119 final size:118
Alignment explanation
Indices: 14135330--14135657 Score: 398
Period size: 119 Copynumber: 2.8 Consensus size: 118
14135320 TAAAAAATAT
* * * *
14135330 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTT--AAAAATGATT
1 ATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTTTCAAAAAAT-ATT
* * * *
14135392 TTTGAGGGAAAGTTGAAAGTATCAATTTCCTTCGAAATTAAA-AGTTTCCAAAAA
65 TTTGAGGAAAAGTTGAAAGTATCAATTTCCTT-AAAAATAAATAGTTTCAAAAAA
14135446 ATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATCAAAGTTTTTCAAAAAATATT
1 ATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT-AAAGTTTTTCAAAAAATATT
* ** *
14135511 TTTGAGAAAAAGTTGAAAGTATCAATTTCCTTAAAAATAAATTTTTTTTAAAAAA
65 TTTGAGGAAAAGTTGAAAGTATCAATTTCCTTAAAAATAAA-TAGTTTCAAAAAA
* * * * *
14135566 AGATTTTTTGAGGAAAAATTGAGAGTATCAATTTTCCTCGAAATTAAAG--TTTCAAAAGAATAT
1 ATATTTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTTTCAAAA-AATAT
*
14135629 TTTTGGGGAAAAGTTGAAAGTATCAATTT
64 TTTTGAGGAAAAGTTGAAAGTATCAATTT
14135658 TTCCTGCACA
Statistics
Matches: 185, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
116 40 0.22
117 3 0.02
118 20 0.11
119 65 0.35
120 28 0.15
121 29 0.16
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (118 bp):
ATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTTTCAAAAAATATTT
TTGAGGAAAAGTTGAAAGTATCAATTTCCTTAAAAATAAATAGTTTCAAAAAA
Found at i:14135563 original size:17 final size:17
Alignment explanation
Indices: 14135541--14135574 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14135531 ATCAATTTCC
14135541 TTAAAAATAA-ATTTTTT
1 TTAAAAA-AAGATTTTTT
14135558 TTAAAAAAAGATTTTTT
1 TTAAAAAAAGATTTTTT
14135575 GAGGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAAAAAAAGATTTTTT
Found at i:14135701 original size:9 final size:9
Alignment explanation
Indices: 14135681--14135713 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
14135671 ACAATCATTC
14135681 TTTTATTCTT
1 TTTTATT-TT
14135691 TTTTATTTT
1 TTTTATTTT
14135700 TTTTATTTT
1 TTTTATTTT
14135709 TTTTA
1 TTTTA
14135714 AATGTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTATTTT
Found at i:14144350 original size:9 final size:9
Alignment explanation
Indices: 14144336--14144402 Score: 67
Period size: 8 Copynumber: 8.2 Consensus size: 9
14144326 TACTATGCTT
14144336 AAAAAAATG
1 AAAAAAATG
*
14144345 -AAAAAATA
1 AAAAAAATG
14144353 AAAAAAAT-
1 AAAAAAATG
14144361 -AAAAAAT-
1 AAAAAAATG
14144368 AAAAAAATG
1 AAAAAAATG
14144377 -AAAAAA--
1 AAAAAAATG
14144383 AAAAAAATG
1 AAAAAAATG
*
14144392 AAAAAAGTG
1 AAAAAAATG
14144401 AA
1 AA
14144403 TGAAAAAGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
7 13 0.26
8 20 0.40
9 17 0.34
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:14144357 original size:15 final size:16
Alignment explanation
Indices: 14144335--14144397 Score: 103
Period size: 15 Copynumber: 4.0 Consensus size: 16
14144325 ATACTATGCT
14144335 TAAAAAAATGAAAAAA
1 TAAAAAAATGAAAAAA
14144351 TAAAAAAAAT-AAAAAA
1 T-AAAAAAATGAAAAAA
14144367 TAAAAAAATGAAAAAA
1 TAAAAAAATGAAAAAA
14144383 -AAAAAAATGAAAAAA
1 TAAAAAAATGAAAAAA
14144398 GTGAATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
15 23 0.51
16 14 0.31
17 8 0.18
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (16 bp):
TAAAAAAATGAAAAAA
Found at i:14144371 original size:32 final size:31
Alignment explanation
Indices: 14144335--14144397 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
14144325 ATACTATGCT
14144335 TAAAAAAATGAAAAAATAAAAAAAAT-AAAAAA
1 TAAAAAAATG-AAAAA-AAAAAAAATGAAAAAA
14144367 TAAAAAAATGAAAAAAAAAAAAATGAAAAAA
1 TAAAAAAATGAAAAAAAAAAAAATGAAAAAA
14144398 GTGAATGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 9 0.30
31 11 0.37
32 10 0.33
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (31 bp):
TAAAAAAATGAAAAAAAAAAAAATGAAAAAA
Found at i:14144409 original size:24 final size:23
Alignment explanation
Indices: 14144336--14144402 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 23
14144326 TACTATGCTT
*
14144336 AAAAAAATGAAAAAATAAAAAAA
1 AAAAAAATGAAAAAATGAAAAAA
*
14144359 ATAAAAAATAAAAAAATGAAAAAA
1 A-AAAAAATGAAAAAATGAAAAAA
14144383 AAAAAAATGAAAAAAGTGAA
1 AAAAAAATGAAAAAA-TGAA
14144403 TGAAAAAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
23 14 0.36
24 25 0.64
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (23 bp):
AAAAAAATGAAAAAATGAAAAAA
Found at i:14145476 original size:42 final size:42
Alignment explanation
Indices: 14145413--14145588 Score: 302
Period size: 42 Copynumber: 4.2 Consensus size: 42
14145403 GTCAATGAGT
*
14145413 AATTTACTTTCT-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
*
14145454 AATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTGGAGGAGC
1 AATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
14145496 AATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
14145537 AATTTACTTTTTCAAAGTCGTAGTGCCTTTGTTTAGAGGAGC
1 AATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
14145579 AATTTACTTT
1 AATTTACTTT
14145589 CTTTGTTTAG
Statistics
Matches: 128, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
41 51 0.40
42 77 0.60
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (42 bp):
AATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
Found at i:14145518 original size:83 final size:84
Alignment explanation
Indices: 14145413--14145588 Score: 311
Period size: 83 Copynumber: 2.1 Consensus size: 84
14145403 GTCAATGAGT
*
14145413 AATTTAC-TTTCTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGG
1 AATTTACTTTTCTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTAG
*
14145477 TGCCTCTGTTTGGAGGAGC
66 TGCCTCTGTTTAGAGGAGC
14145496 AATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTAG
1 AATTTACTTTTCTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTAG
*
14145560 TGCCTTTGTTTAGAGGAGC
66 TGCCTCTGTTTAGAGGAGC
14145579 AATTTACTTT
1 AATTTACTTT
14145589 CTTTGTTTAG
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
83 85 0.96
84 4 0.04
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (84 bp):
AATTTACTTTTCTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTAG
TGCCTCTGTTTAGAGGAGC
Found at i:14145592 original size:26 final size:26
Alignment explanation
Indices: 14145563--14145614 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14145553 GTCGTAGTGC
14145563 CTTTGTTTAGAGGAGCAATTTACTTT
1 CTTTGTTTAGAGGAGCAATTTACTTT
14145589 CTTTGTTTAGAGGAGCAATTTACTTT
1 CTTTGTTTAGAGGAGCAATTTACTTT
14145615 TCAAAAGTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (26 bp):
CTTTGTTTAGAGGAGCAATTTACTTT
Found at i:14145638 original size:68 final size:68
Alignment explanation
Indices: 14145524--14145656 Score: 232
Period size: 68 Copynumber: 2.0 Consensus size: 68
14145514 GTGGTGCCTC
*
14145524 TGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTAGTGCCTTTGTTTAGAGGAGCAATTTACTTT
1 TGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAATTTACTTT
14145589 CTT
66 CTT
*
14145592 TGTTTAGAGGAGCAATTTAC-TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTT
1 TGTTTAGAGGAGCAATTTACTTTTTC-AAAGTCGTAGTGCCTCTGTTTAGAGGAGCAATTTACTT
14145656 T
65 T
14145657 TCAAAGTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 5 0.08
68 57 0.92
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (68 bp):
TGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAATTTACTTT
CTT
Found at i:14145675 original size:41 final size:41
Alignment explanation
Indices: 14145592--14145735 Score: 207
Period size: 42 Copynumber: 3.5 Consensus size: 41
14145582 TTACTTTCTT
*
14145592 TGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTC
1 TGTTTAGAGGAGCAATTTACTTTTC-AAAGTTGTGGTGCCTC
14145634 TGTTTAGAGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTC
1 TGTTTAGAGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTC
* * * *
14145675 TGTTTAGAGGAGCAATTTATTTTTTTAAAGTTGTTGAGCCTC
1 TGTTTAGAGGAGCAATTTA-CTTTTCAAAGTTGTGGTGCCTC
* *
14145717 TGATTAGAGGAGCCATTTA
1 TGTTTAGAGGAGCAATTTA
14145736 TGTTTTTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 34 0.36
42 60 0.64
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (41 bp):
TGTTTAGAGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTC
Found at i:14145679 original size:109 final size:109
Alignment explanation
Indices: 14145483--14145693 Score: 370
Period size: 109 Copynumber: 1.9 Consensus size: 109
14145473 GTGGTGCCTC
*
14145483 TGTTTGGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT
1 TGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT
*
14145548 TCAAAGTCGTAGTGCCTTTGTTTAGAGGAGCAATTTACTTTCTT
66 TCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTT
14145592 TGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TT
1 TGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
* *
14145656 TTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTA
65 TTCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAATTTA
14145694 TTTTTTTAAA
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
109 61 0.63
110 36 0.37
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (109 bp):
TGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT
TCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTT
Found at i:14145724 original size:151 final size:151
Alignment explanation
Indices: 14145441--14145735 Score: 484
Period size: 151 Copynumber: 2.0 Consensus size: 151
14145431 GTGGTGCCTC
*
14145441 TGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTGGAGGAGCAATTTACTTT
1 TGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
* * *
14145506 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTAGTGCCTTTGTTT
66 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTAGAGCCTCTGATT
14145571 AGAGGAGCAATTTACTTTCTT
131 AGAGGAGCAATTTACTTTCTT
14145592 TGTTTAGAGGAGCAATTTAC-TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTT
1 TGTTTAGAGGAGCAATTTACTTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTT
* * * * *
14145656 TTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTTAAAGTTGTTGAGCCTCTGAT
65 TTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTAGAGCCTCTGAT
*
14145721 TAGAGGAGCCATTTA
130 TAGAGGAGCAATTTA
14145736 TGTTTTTCAA
Statistics
Matches: 133, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
150 5 0.04
151 128 0.96
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.39
Consensus pattern (151 bp):
TGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTAGAGCCTCTGATT
AGAGGAGCAATTTACTTTCTT
Found at i:14145736 original size:42 final size:42
Alignment explanation
Indices: 14145592--14145758 Score: 194
Period size: 42 Copynumber: 4.0 Consensus size: 42
14145582 TTACTTTCTT
* *
14145592 TGTTTAGAGGAGCAATTTA-CTTTTCAAAAGTCGTGGTGCCTC
1 TGTTTAGAGGAGCAATTTATTTTTTC-AAAGTCGTGGAGCCTC
* * *
14145634 TGTTTAGAGGAGCAATTTA-CTTTTCAAAGTTGTGGTGCCTC
1 TGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGGAGCCTC
* * *
14145675 TGTTTAGAGGAGCAATTTATTTTTTTAAAGTTGTTGAGCCTC
1 TGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGGAGCCTC
* * * *
14145717 TGATTAGAGGAGCCATTTATGTTTTTCAAAGCCGTTGAGCCT
1 TGTTTAGAGGAGCAATTTAT-TTTTTCAAAGTCGTGGAGCCT
14145759 TTGCTCATAG
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
41 34 0.30
42 61 0.54
43 18 0.16
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.39
Consensus pattern (42 bp):
TGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGGAGCCTC
Found at i:14145801 original size:10 final size:10
Alignment explanation
Indices: 14145786--14145811 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14145776 GATCAAAAAC
14145786 AAAAAAACAA
1 AAAAAAACAA
14145796 AAAAAAACAA
1 AAAAAAACAA
14145806 AAAAAA
1 AAAAAA
14145812 TAAAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:14145803 original size:18 final size:18
Alignment explanation
Indices: 14145780--14145819 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
14145770 GGCTTTGATC
14145780 AAAAACAAAAAAACA-AAA
1 AAAAACAAAAAAA-ATAAA
14145798 AAAAACAAAAAAAATAAA
1 AAAAACAAAAAAAATAAA
14145816 AAAA
1 AAAA
14145820 TGTCGAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (18 bp):
AAAAACAAAAAAAATAAA
Found at i:14146092 original size:8 final size:9
Alignment explanation
Indices: 14146029--14146128 Score: 62
Period size: 9 Copynumber: 10.7 Consensus size: 9
14146019 ATCTTATGTA
14146029 TTTATTATT
1 TTTATTATT
*
14146038 TAT-TTATT
1 TTTATTATT
*
14146046 TATTATTACTA
1 T-TTATTA-TT
*
14146057 TTTATTA-A
1 TTTATTATT
*
14146065 TATA-TATT
1 TTTATTATT
14146073 TTTATTATT
1 TTTATTATT
14146082 TTTATTATT
1 TTTATTATT
* *
14146091 TTTTTTCTT
1 TTTATTATT
14146100 TTTCATTTTATT
1 TTT-A--TTATT
14146112 TTATATGTATT
1 TT-TAT-TATT
14146123 TTTATT
1 TTTATT
14146129 TATCTAGTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
7 2 0.03
8 13 0.18
9 27 0.38
10 13 0.18
11 8 0.11
12 7 0.10
13 1 0.01
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (9 bp):
TTTATTATT
Found at i:14146151 original size:20 final size:17
Alignment explanation
Indices: 14146119--14146166 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
14146109 ATTTTATATG
*
14146119 TATTTTTATTTATCTAGT
1 TATTATTATTTATCT-GT
14146137 TATATATTCATTTATCTGT
1 TAT-TATT-ATTTATCTGT
14146156 TATTATTATTT
1 TATTATTATTT
14146167 TTTTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.15
18 7 0.26
19 8 0.30
20 8 0.30
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (17 bp):
TATTATTATTTATCTGT
Found at i:14146170 original size:45 final size:41
Alignment explanation
Indices: 14146121--14146251 Score: 117
Period size: 45 Copynumber: 3.1 Consensus size: 41
14146111 TTTATATGTA
14146121 TTTTTATTTATCTAGTTATATATTCATTTATCTGTTATTATTATT
1 TTTTTATTTATCTAGTTATATATT-ATTTATC--TTATTATT-TT
* * *
14146166 TTTTTATTTATCTTGTAATATTTTTGATTTATCTTATTATTTT
1 TTTTTATTTATCTAGTTATA-TATT-ATTTATCTTATTATTTT
* *
14146209 TTTCTAATTATCTA-TTAT-TATTATTT-T-TTATTTGATTTT
1 TTTTTATTTATCTAGTTATATATTATTTATCTTA-TT-ATTTT
14146248 TTTT
1 TTTT
14146252 AGAGGCTGAG
Statistics
Matches: 73, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
37 3 0.04
38 3 0.04
39 12 0.16
40 3 0.04
42 3 0.04
43 13 0.18
44 8 0.11
45 18 0.25
46 10 0.14
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (41 bp):
TTTTTATTTATCTAGTTATATATTATTTATCTTATTATTTT
Found at i:14146210 original size:21 final size:20
Alignment explanation
Indices: 14146158--14146211 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
14146148 TTATCTGTTA
14146158 TTATTATTTTTTTATTTATC
1 TTATTATTTTTTTATTTATC
* * *
14146178 TTGTAATATTTTTGATTTATC
1 TTATTAT-TTTTTTATTTATC
14146199 TTATTATTTTTTT
1 TTATTATTTTTTT
14146212 CTAATTATCT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (20 bp):
TTATTATTTTTTTATTTATC
Found at i:14146569 original size:26 final size:24
Alignment explanation
Indices: 14146531--14146581 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
14146521 GAAAAAAAAA
* *
14146531 TTTTTGGAGATTTTTGACGAAATTT
1 TTTTTGGAAATTTTTGA-AAAATTT
14146556 TTTTCTGGAAATTTTTGAAAAATTT
1 TTTT-TGGAAATTTTTGAAAAATTT
14146581 T
1 T
14146582 CAGATTCCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (24 bp):
TTTTTGGAAATTTTTGAAAAATTT
Found at i:14146745 original size:20 final size:19
Alignment explanation
Indices: 14146711--14146756 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
14146701 GACGAACTTC
*
14146711 CGGTGAAAAACCCAGATTT
1 CGGTGAAAAACCCAGAATT
*
14146730 CGGTGAAAAATTCCAGAATT
1 CGGTGAAAAA-CCCAGAATT
*
14146750 CGATGAA
1 CGGTGAA
14146757 TATTCAACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (19 bp):
CGGTGAAAAACCCAGAATT
Found at i:14147156 original size:5 final size:5
Alignment explanation
Indices: 14147120--14147228 Score: 57
Period size: 5 Copynumber: 21.4 Consensus size: 5
14147110 TTTATTTAGA
* * * *
14147120 TTATGT TTATT TAATA TTCTT TTATCT TTATT TTATTT TTATTT TTGTT
1 TTAT-T TTATT TTATT TTATT TTAT-T TTATT TTA-TT TTA-TT TTATT
* * *
14147169 TTACTT TT-CT TTATT TTATT TT-TT ATT-TT TCACTT TTATT TTGTT
1 TTA-TT TTATT TTATT TTATT TTATT -TTATT TTA-TT TTATT TTATT
14147214 TTA-- TTATT TTATT TT
1 TTATT TTATT TTATT TT
14147229 CTTTAAATAA
Statistics
Matches: 80, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
3 3 0.04
4 6 0.08
5 44 0.55
6 27 0.34
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:14147159 original size:6 final size:6
Alignment explanation
Indices: 14147139--14147228 Score: 53
Period size: 6 Copynumber: 14.5 Consensus size: 6
14147129 TTTAATATTC
* * *
14147139 TTTTAT CTTTA- TTTTAT TTTTAT TTTT-G TTTTACT TTTCTTT ATTTTATT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTT-TAT -TTTTA-T
*
14147189 TTTTAT TTTTCAC TTTTAT TTTGT-T TTATTA- TTTTAT TTT
1 TTTTAT TTTT-AT TTTTAT TTT-TAT TT-TTAT TTTTAT TTT
14147229 CTTTAAATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
5 11 0.17
6 32 0.49
7 17 0.26
8 5 0.08
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:14147193 original size:39 final size:38
Alignment explanation
Indices: 14147150--14147228 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 38
14147140 TTTATCTTTA
* * *
14147150 TTTTATTTTT-ATTTTTGTTTTACTTTTCTTTATTTTATT
1 TTTTATTTTTCACTTTTATTTT-CTTTT-ATTATTTTATT
*
14147189 TTTTATTTTTCACTTTTATTTTGTTTTATTATTTTATT
1 TTTTATTTTTCACTTTTATTTTCTTTTATTATTTTATT
14147227 TT
1 TT
14147229 CTTTAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 12 0.34
39 14 0.40
40 9 0.26
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (38 bp):
TTTTATTTTTCACTTTTATTTTCTTTTATTATTTTATT
Found at i:14147322 original size:58 final size:57
Alignment explanation
Indices: 14147243--14147871 Score: 646
Period size: 58 Copynumber: 10.7 Consensus size: 57
14147233 AAATAAAATA
* *
14147243 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAA-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
14147301 AAGAAAAAGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTT-
1 AA-AAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * ** *
14147358 TAAAAATGATTTTTGAGGGAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTTC
1 AAAAAAAG-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
* *
14147418 AAAAAATA-TTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAATTTTTC
1 AAAAAA-AGTTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
14147475 AAAAAAATGTTTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTTTTTT
1 AAAAAAA-G-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA----TTTTC
* * **
14147538 AAAAAAGGTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTC
1 AAAAAAAG-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
14147598 AAAAAATA-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT-
1 AAAAAA-AGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
14147653 TAAAAAAGATTTTTGATGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTTCC
1 AAAAAAAG-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTT-C
* *
14147714 AAAAAATA-TTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAAATAAATTTTC
1 AAAAAA-AGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTC
* * ** * *
14147772 AAAAAAATAAATTTTTGAGGTAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
1 --AAAAA-AAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
14147832 AAAAGAATA-TTTTTG-GGAAAAAGTTGAAAGTATCAATTTT
1 AAAA-AA-AGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
14147872 TCCTACACAA
Statistics
Matches: 483, Mismatches: 55, Indels: 66
0.80 0.09 0.11
Matches are distributed among these distances:
54 1 0.00
55 5 0.01
56 16 0.03
57 83 0.17
58 120 0.25
59 98 0.20
60 67 0.14
61 42 0.09
62 38 0.08
63 13 0.03
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.37
Consensus pattern (57 bp):
AAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:14147875 original size:295 final size:291
Alignment explanation
Indices: 14147244--14147871 Score: 888
Period size: 295 Copynumber: 2.1 Consensus size: 291
14147234 AATAAAATAA
* *
14147244 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAGAAAAA
1 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAGAAAAA
* *
14147309 GGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTTAAAAATGATTTTTGA
66 GGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTTAAAAAAGATTTTTGA
* *
14147374 GGGAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTTCAAAAAATATTTTTGGAGAAAA
131 GGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTTCAAAAAATATTTTTGGAGAAAA
* * * **
14147439 GTTGAAAGTATCAATTTTTCTTAAAAATAATTTTTCAAAAAAATGTTTTTTAAGGAAAAGTTAAA
196 ATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATAATTTTTAAGGAAAAGTTAAA
* * * *
14147504 AGTATCAATTTTTCTTAAAAATAAATTTTTTTTT
261 AGTATCAATTTTCCTCAAAAATAAA---TGTTTC
* *
14147538 AAAAAAGGT-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTCAA-A
1 AAAAAA--TATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT-AAA-TTTTCAAGA
*
14147601 AAATA-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTTAAAAAAGATT
62 AAA-AGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTTAAAAAAGATT
*
14147664 TTTGATGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTTCCAAAAAATATTTTTGG
126 TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTT-CAAAAAATATTTTTGG
* * *
14147729 GGAAAAATTGAAAGTATCAATTTTCCTTAAAAAATAAATTTTCAAAAAAATAAATTTTTGAGGTA
190 AGAAAAATTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTCAAAAAAAT-AATTTTTAAGGAA
* * *
14147794 AAGTTGAAAGTATCAATTTTCCTCGAAATTAAA-GTTTC
253 AAGTTAAAAGTATCAATTTTCCTCAAAAATAAATGTTTC
14147832 AAAAGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
1 AAAA-AATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
14147872 TCCTACACAA
Statistics
Matches: 298, Mismatches: 26, Indels: 20
0.87 0.08 0.06
Matches are distributed among these distances:
293 1 0.00
294 43 0.14
295 134 0.45
296 54 0.18
297 29 0.10
298 37 0.12
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.37
Consensus pattern (291 bp):
AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAGAAAAA
GGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTTAAAAAAGATTTTTGA
GGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTTCAAAAAATATTTTTGGAGAAAA
ATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATAATTTTTAAGGAAAAGTTAAA
AGTATCAATTTTCCTCAAAAATAAATGTTTC
Found at i:14150367 original size:12 final size:12
Alignment explanation
Indices: 14150350--14150374 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14150340 CAAACCTAGG
14150350 ACCAACCCCTAA
1 ACCAACCCCTAA
14150362 ACCAACCCCTAA
1 ACCAACCCCTAA
14150374 A
1 A
14150375 AGCATACTCT
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:0.44, C:0.48, G:0.00, T:0.08
Consensus pattern (12 bp):
ACCAACCCCTAA
Found at i:14151973 original size:40 final size:35
Alignment explanation
Indices: 14151928--14152015 Score: 88
Period size: 40 Copynumber: 2.4 Consensus size: 35
14151918 CTGATTTTAG
14151928 TTTTTTGGTTTTCT-TTTTTAAATGCTTTTTAAAACTGT
1 TTTTTTGGTTTT-TATTTTTAAAT--TTTTTAAAA-TGT
** *
14151966 TGATTTTTTATTTTTATTTTTTAATTTTTTAAAATGT
1 T--TTTTTGGTTTTTATTTTTAAATTTTTTAAAATGT
14152003 TTTTTTGGTTTTT
1 TTTTTTGGTTTTT
14152016 TTATATTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
35 10 0.24
37 4 0.10
38 10 0.24
39 1 0.02
40 17 0.40
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.69
Consensus pattern (35 bp):
TTTTTTGGTTTTTATTTTTAAATTTTTTAAAATGT
Found at i:14151973 original size:41 final size:34
Alignment explanation
Indices: 14151928--14152014 Score: 84
Period size: 41 Copynumber: 2.4 Consensus size: 34
14151918 CTGATTTTAG
*
14151928 TTTTTTGGTTTTCTTTTTTAAATGCTTTTTAAAACTGTT
1 TTTTTTGGTTTTATTTTTT-AAT--TTTTTAAAA-TG-T
**
14151967 GATTTTTTATTTTTATTTTTTAATTTTTTAAAATGT
1 --TTTTTTGGTTTTATTTTTTAATTTTTTAAAATGT
14152003 TTTTTTGGTTTT
1 TTTTTTGGTTTT
14152015 TTTATATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
34 10 0.24
36 1 0.02
37 2 0.05
38 9 0.22
40 3 0.07
41 16 0.39
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.69
Consensus pattern (34 bp):
TTTTTTGGTTTTATTTTTTAATTTTTTAAAATGT
Found at i:14152554 original size:29 final size:28
Alignment explanation
Indices: 14152486--14152561 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 28
14152476 AATATTTGTT
**
14152486 TTATATTTATATT-ATATTAATAAACTTA
1 TTATATTTATATTAAT-TTAATAAAAATA
14152514 TTAT-TTAATATATTAATTTAATAAAAAATA
1 TTATATT--TATATTAATTTAAT-AAAAATA
14152544 TTATATTTATACTTAATT
1 TTATATTTATA-TTAATT
14152562 AAGATATGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
27 2 0.05
28 4 0.10
29 15 0.38
30 17 0.43
31 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATATTTATATTAATTTAATAAAAATA
Found at i:14152563 original size:29 final size:27
Alignment explanation
Indices: 14152486--14152563 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 27
14152476 AATATTTGTT
**
14152486 TTATATTTATATTATATTAATAAACTTA
1 TTATATTTATATTA-ATTAATAAAAATA
14152514 TTAT-TTAATATATTAATTTAATAAAAAATA
1 TTATATT--TATATTAA-TTAAT-AAAAATA
14152544 TTATATTTATACTTAATTAA
1 TTATATTTATA-TTAATTAA
14152564 GATATGATCC
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
27 2 0.05
28 5 0.12
29 20 0.48
30 13 0.31
31 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (27 bp):
TTATATTTATATTAATTAATAAAAATA
Found at i:14154175 original size:9 final size:8
Alignment explanation
Indices: 14154109--14154180 Score: 56
Period size: 8 Copynumber: 8.2 Consensus size: 8
14154099 AATTTAAAAT
14154109 TTTTTCTTA
1 TTTTT-TTA
*
14154118 TTCTTTTTT
1 TT-TTTTTA
14154127 TTTAATTTTA
1 TTT--TTTTA
14154137 TTTTTGTCT-
1 TTTTT-T-TA
14154146 TTTTTTTA
1 TTTTTTTA
14154154 CTTTTTTTA
1 -TTTTTTTA
*
14154163 TTTTTTGA
1 TTTTTTTA
14154171 TTTTTTTA
1 TTTTTTTA
14154179 TT
1 TT
14154181 AAATAAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
7 1 0.02
8 20 0.38
9 20 0.38
10 11 0.21
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.81
Consensus pattern (8 bp):
TTTTTTTA
Found at i:14154468 original size:23 final size:23
Alignment explanation
Indices: 14154432--14154477 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
14154422 TTTTAAATGC
14154432 TTTTTAAAACTGTTGATTTTTTAT
1 TTTTTAAAACTGTT-ATTTTTTAT
* *
14154456 TTTTTTAAA-TGTTTTTTTTTAT
1 TTTTTAAAACTGTTATTTTTTAT
14154478 ATTTAGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 4 0.20
24 8 0.40
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.70
Consensus pattern (23 bp):
TTTTTAAAACTGTTATTTTTTAT
Found at i:14154473 original size:22 final size:23
Alignment explanation
Indices: 14154448--14154495 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14154438 AAACTGTTGA
** *
14154448 TTTTTTAT-TTTTTTAAATGTTT
1 TTTTTTATATTTAGTAAATATTT
14154470 TTTTTTATATTTAGTAAATATTT
1 TTTTTTATATTTAGTAAATATTT
14154493 TTT
1 TTT
14154496 AATAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTTTATATTTAGTAAATATTT
Found at i:14154694 original size:18 final size:18
Alignment explanation
Indices: 14154666--14154712 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
14154656 TATTTTTTTT
*
14154666 TTTTTCA-TTTTATT-AC
1 TTTTTCATTTTTTTTCAC
*
14154682 TTTTTCATTTTTTTTCTC
1 TTTTTCATTTTTTTTCAC
*
14154700 TTTTTCCTTTTTT
1 TTTTTCATTTTTT
14154713 GATTTAGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 7 0.27
17 6 0.23
18 13 0.50
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTCATTTTTTTTCAC
Found at i:14154826 original size:9 final size:10
Alignment explanation
Indices: 14154798--14154828 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
14154788 TAATTTGACT
14154798 AATATTTTAA
1 AATATTTTAA
14154808 AATATTTTAA
1 AATATTTTAA
14154818 AAT-TTTTAA
1 AATATTTTAA
14154827 AA
1 AA
14154829 GTGGGAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AATATTTTAA
Found at i:14154907 original size:13 final size:13
Alignment explanation
Indices: 14154889--14154920 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
14154879 ATTTGATAAT
14154889 TTTATATTTTATA
1 TTTATATTTTATA
14154902 TTTATA-TTTATA
1 TTTATATTTTATA
14154914 -TTATATT
1 TTTATATT
14154921 AATAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 7 0.39
13 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATATTTTATA
Found at i:14154942 original size:24 final size:25
Alignment explanation
Indices: 14154901--14154947 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
14154891 TATATTTTAT
14154901 ATTTATATTTATATTATATTAATAA
1 ATTTATATTTATATTATATTAATAA
14154926 ATTTATTATTTA-A-TATATTAAT
1 ATTTA-TATTTATATTATATTAAT
14154948 TTAATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.43
25 6 0.29
26 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTATATTTATATTATATTAATAA
Found at i:14154975 original size:29 final size:30
Alignment explanation
Indices: 14154896--14154978 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 30
14154886 AATTTTATAT
* *
14154896 TTTATATTTATATTTATATTATATTAATAAA
1 TTTATATTTATAATTA-ATTATAATAATAAA
14154927 TTTATTATTTAATATATTAATT-TAATAA-AAA
1 TTTA-TATTT-ATA-ATTAATTATAATAATAAA
*
14154958 TGTTATATTTATACTTAATTA
1 T-TTATATTTATAATTAATTA
14154979 AGATATGATC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
29 6 0.14
30 3 0.07
31 13 0.30
32 13 0.30
33 6 0.14
34 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (30 bp):
TTTATATTTATAATTAATTATAATAATAAA
Found at i:14157721 original size:15 final size:15
Alignment explanation
Indices: 14157703--14157762 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
14157693 GTTAAATAAT
14157703 TATAATAATTTATTA
1 TATAATAATTTATTA
* *
14157718 TATAATTATTTA-AA
1 TATAATAATTTATTA
14157732 TAATAATAATTT-TTA
1 T-ATAATAATTTATTA
*
14157747 TTCTAATAAATTTATT
1 -TATAAT-AATTTATT
14157763 CAAAATACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 2 0.06
15 25 0.71
16 6 0.17
17 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TATAATAATTTATTA
Found at i:14160416 original size:23 final size:22
Alignment explanation
Indices: 14160365--14160416 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
14160355 ATTATTTATT
*
14160365 TATTTATTAATATTTTGTGTAT
1 TATTTATTAATATTTTGTGTAA
* *
14160387 TATTTTATTTATATTTATGTTTAA
1 TA-TTTATTAATATTT-TGTGTAA
14160411 TATTTA
1 TATTTA
14160417 ATATATGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
24 7 0.28
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (22 bp):
TATTTATTAATATTTTGTGTAA
Found at i:14161442 original size:22 final size:20
Alignment explanation
Indices: 14161400--14161452 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
14161390 GAAAAAAATA
14161400 TTTTTTGTTTTTAAGTGTTT
1 TTTTTTGTTTTTAAGTGTTT
*
14161420 TTTTTTGTGTTTTGAGAT-TTT
1 TTTTTTGT-TTTTAAG-TGTTT
14161441 TTGTTTTGTTTT
1 TT-TTTTGTTTT
14161453 GTTTTGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.28
21 14 0.48
22 7 0.24
ACGTcount: A:0.08, C:0.00, G:0.17, T:0.75
Consensus pattern (20 bp):
TTTTTTGTTTTTAAGTGTTT
Found at i:14161449 original size:5 final size:5
Alignment explanation
Indices: 14161439--14161464 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14161429 TTTTGAGATT
14161439 TTTTG TTTTG TTTTG TTTTG TTTTG T
1 TTTTG TTTTG TTTTG TTTTG TTTTG T
14161465 ATTATACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:14163267 original size:21 final size:22
Alignment explanation
Indices: 14163219--14163268 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
14163209 ATGTATAAAT
* *
14163219 ATTAAGAATAATAATTAAAATA
1 ATTAAAAATAATAATTAAAAAA
*
14163241 A-CAAAAATAAT-ATTAAAAAA
1 ATTAAAAATAATAATTAAAAAA
14163261 ATTAAAAA
1 ATTAAAAA
14163269 ATTTTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 9 0.39
21 13 0.57
22 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
ATTAAAAATAATAATTAAAAAA
Found at i:14164527 original size:23 final size:24
Alignment explanation
Indices: 14164476--14164527 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
14164466 TTTATTTATT
* *
14164476 TATTTATTAATATTTTGTGTTTTA
1 TATTTATTAATATTTTATGTTTAA
*
14164500 T-TTTATTTATA-TTTATGTTTAA
1 TATTTATTAATATTTTATGTTTAA
14164522 TATTTA
1 TATTTA
14164528 ATATATGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 10 0.42
23 13 0.54
24 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (24 bp):
TATTTATTAATATTTTATGTTTAA
Found at i:14164532 original size:22 final size:21
Alignment explanation
Indices: 14164482--14164533 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
14164472 TATTTATTTA
* *
14164482 TTAATAT-TTTGTGTTTTATT
1 TTAATATATTTATGTTTAATT
*
14164502 TTATTTATATTTATGTTTAATAT
1 TTA-ATATATTTATGTTTAAT-T
14164525 TTAATATAT
1 TTAATATAT
14164534 GCATATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.12
21 3 0.12
22 15 0.60
23 4 0.16
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (21 bp):
TTAATATATTTATGTTTAATT
Found at i:14167890 original size:10 final size:10
Alignment explanation
Indices: 14167877--14167916 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
14167867 AAAAAGATAC
14167877 AAAATACAAA
1 AAAATACAAA
14167887 AAAATAC---
1 AAAATACAAA
14167894 AAAATA-AAA
1 AAAATACAAA
14167903 AAAATACAAA
1 AAAATACAAA
14167913 AAAA
1 AAAA
14167917 AAGTAGAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
7 6 0.23
9 6 0.23
10 14 0.54
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAATACAAA
Found at i:14167903 original size:16 final size:16
Alignment explanation
Indices: 14167862--14167918 Score: 80
Period size: 16 Copynumber: 3.4 Consensus size: 16
14167852 AATATGAAAT
14167862 ATAATAAAAAGATACAAA
1 ATAA-AAAAA-ATACAAA
14167880 ATACAAAAAAATACAAA
1 ATA-AAAAAAATACAAA
14167897 ATAAAAAAAATACAAA
1 ATAAAAAAAATACAAA
14167913 A-AAAAA
1 ATAAAAA
14167919 GTAGAGCAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.13
16 14 0.37
17 10 0.26
18 8 0.21
19 1 0.03
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (16 bp):
ATAAAAAAAATACAAA
Found at i:14168024 original size:12 final size:12
Alignment explanation
Indices: 14168009--14168039 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14167999 AGACCCTACA
14168009 CTGCCACCACCC
1 CTGCCACCACCC
*
14168021 CTGCCATCACCC
1 CTGCCACCACCC
14168033 CTGCCAC
1 CTGCCAC
14168040 TAGACCCACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.16, C:0.61, G:0.10, T:0.13
Consensus pattern (12 bp):
CTGCCACCACCC
Found at i:14168046 original size:51 final size:51
Alignment explanation
Indices: 14167970--14168071 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
14167960 CCCGGCACTA
* * *
14167970 CTGCCACCACCCGTGCCACCAGACCCACTAGACCCTACACTGCCACCACCC
1 CTGCCACCACCCCTGCCACCAGACCCACCAGACCCTACACTACCACCACCC
* *
14168021 CTGCCATCACCCCTGCCACTAGACCCACCAGACCCTACACTACCACCACCC
1 CTGCCACCACCCCTGCCACCAGACCCACCAGACCCTACACTACCACCACCC
14168072 ATGATCGCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.25, C:0.55, G:0.10, T:0.11
Consensus pattern (51 bp):
CTGCCACCACCCCTGCCACCAGACCCACCAGACCCTACACTACCACCACCC
Found at i:14169140 original size:26 final size:26
Alignment explanation
Indices: 14169110--14169159 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
14169100 GTTAATTTTT
14169110 AAAATAAACTTAAAAATAATAATATA
1 AAAATAAACTTAAAAATAATAATATA
* *
14169136 AAAATAAATTTAATAATAATAATA
1 AAAATAAACTTAAAAATAATAATA
14169160 AACTAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (26 bp):
AAAATAAACTTAAAAATAATAATATA
Found at i:14169359 original size:24 final size:24
Alignment explanation
Indices: 14169307--14169361 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
14169297 AATCTTCAAT
*
14169307 ATAATAAAAATTTCATTTTTCTTC
1 ATAATAAAAATTTCATTTTTCTTA
14169331 A-AATAAAAATTTCATTTTT-TATA
1 ATAATAAAAATTTCATTTTTCT-TA
14169354 ATAATAAA
1 ATAATAAA
14169362 TAAAAATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 1 0.04
23 20 0.71
24 7 0.25
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAATAAAAATTTCATTTTTCTTA
Found at i:14170135 original size:192 final size:192
Alignment explanation
Indices: 14169650--14170229 Score: 1011
Period size: 192 Copynumber: 3.0 Consensus size: 192
14169640 TGCATTGCAT
* *
14169650 ACATGACATAATTT-TTACGAAAAATAAATT-TAGACCTCCAAAGATGAGATTCTAAAAGTATTT
1 ACATGACAT--TTTCTTACGAAAAATGAATTCGAG-CCTCCAAAGATGAGATTCTAAAAGTATTT
14169713 CGAGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTG
63 CGAGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTG
14169778 GAACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTT
128 GAACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAA--TTTTTT
14169843 TA
191 TA
*
14169845 ACATGACATTTTCTTACGAAAAATGAATTCGAGCCTTCAAAGATGAGATTCTAAAAGTATTTCGA
1 ACATGACATTTTCTTACGAAAAATGAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTTCGA
* * *
14169910 GTAGAGATGCTTTAAGAAATCTATAGATGAGAAAGAATTCTTTTAATGTTACCAACGTACTGGAA
66 GTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAA
*
14169975 CATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCAAGAATAATTTTTTTA
131 CATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTA
* *
14170037 ACATGACATTTTCTTACGAAAAATGAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTCCAA
1 ACATGACATTTTCTTACGAAAAATGAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTTCGA
14170102 GTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAA
66 GTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAA
*
14170167 CATTTTAAGAATTATTTCAATAAAAAGGTTTTGATTTATTTTTCTCGAGAATAATTTTTTTA
131 CATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTA
14170229 A
1 A
14170230 TAAATAAAAA
Statistics
Matches: 368, Mismatches: 15, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
192 193 0.52
193 3 0.01
194 161 0.44
195 11 0.03
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (192 bp):
ACATGACATTTTCTTACGAAAAATGAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTTCGA
GTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAA
CATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTA
Found at i:14170714 original size:5 final size:5
Alignment explanation
Indices: 14170704--14170747 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
14170694 AAAGGTCAAA
*
14170704 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAATC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
14170748 ATAAAAAGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.80, C:0.18, G:0.00, T:0.02
Consensus pattern (5 bp):
AAAAC
Found at i:14170763 original size:10 final size:9
Alignment explanation
Indices: 14170701--14170763 Score: 56
Period size: 10 Copynumber: 6.7 Consensus size: 9
14170691 AAAAAAGGTC
14170701 AAAAAAACA
1 AAAAAAACA
14170710 AAACAAAACA
1 AAA-AAAACA
14170720 AAACAAAACA
1 AAA-AAAACA
14170730 AAACAAAACA
1 AAA-AAAACA
*
14170740 AATCAAAA-A
1 AA-AAAAACA
* *
14170749 TAAAAAGCA
1 AAAAAAACA
14170758 AAAAAA
1 AAAAAA
14170764 TTCACACATT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
8 3 0.07
9 11 0.24
10 32 0.70
ACGTcount: A:0.81, C:0.14, G:0.02, T:0.03
Consensus pattern (9 bp):
AAAAAAACA
Found at i:14179706 original size:48 final size:48
Alignment explanation
Indices: 14179583--14180116 Score: 693
Period size: 48 Copynumber: 11.0 Consensus size: 48
14179573 TTTGAAAACT
* * *
14179583 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGATGAG-TTTTTCCA
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT-CA
* *
14179631 AGA-GAAGAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCA
1 AGATG-AG--ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
14179681 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTTCA
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCA
*
14179730 A-A--AGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTACA
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
14179775 A-ATGAGATTTTTAAAGTTGTTGAGCCTATGCTAAGAGGAGCTTTTCCA
1 AGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
14179823 AGATAAGAATTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTCA
1 AGATGAG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* * *
14179872 AGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTAA
1 AGATGAG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
14179921 AGAAGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGCAGAGGAGCTTTTCCA
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCT----G-AGAGGAGCTTTTTCA
* * *
14179974 CGATGAGATTTTTAAAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTCA
1 AGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
14180023 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAAAGGAGCTTTTCCA
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
* *
14180071 AGATGAGACTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTT
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTT
14180117 TAGATTTTAA
Statistics
Matches: 430, Mismatches: 39, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
45 8 0.02
46 36 0.08
47 4 0.01
48 176 0.41
49 120 0.28
50 38 0.09
51 6 0.01
52 1 0.00
53 19 0.04
54 22 0.05
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (48 bp):
AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA
Found at i:14179865 original size:97 final size:97
Alignment explanation
Indices: 14179583--14180115 Score: 679
Period size: 97 Copynumber: 5.5 Consensus size: 97
14179573 TTTGAAAACT
* * * *
14179583 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGATGAGTTTTTCCAAGAGAAGAAATTTTAAA
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGAGAAG-AATTTTAAA
* * *
14179648 GTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCA
65 GTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
*
14179681 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTTC-A-A-AAG-ATTTTAAA
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCCAAGAGAAGAATTTTAAA
*
14179742 GTTGTTGAGCCTCTGCTGAGAGGAGCTTTTACA
65 GTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
* * *
14179775 A-ATGAGATTTTTAAAGTTGTTGAGCCTATGCTAAGAGGAGCTTTTCCAAGATAAGAATTTTAAA
1 AGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGAGAAGAATTTTAAA
* *
14179839 GTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTCA
65 GTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
* * *
14179872 AGATGAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTT-TAA-AGAAGAGATTTTAA
1 AGATGAG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGAGAAGA-ATTTTAA
14179935 AGTTGTTGAGCCTCTGCTGAGAGCAGAGGAGCTTTTCCA
64 AGTTGTTGAGCCTCTGCT----G-AGAGGAGCTTTTCCA
* * * *
14179974 CGATGAGATTTTTAAAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATG-AG-ATTTTAA
1 AGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGA-GAAGAATTTTAA
*
14180037 AGTTGTTGAGCCTCTGCTGAAAGGAGCTTTTCCA
64 AGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
* *
14180071 AGATGAGACTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTT
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT
14180116 TTAGATTTTA
Statistics
Matches: 386, Mismatches: 31, Indels: 38
0.85 0.07 0.08
Matches are distributed among these distances:
93 11 0.03
94 71 0.18
95 1 0.00
96 44 0.11
97 88 0.23
98 77 0.20
99 6 0.02
101 2 0.01
102 80 0.21
103 2 0.01
104 3 0.01
105 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.35
Consensus pattern (97 bp):
AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGAGAAGAATTTTAAAG
TTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
Found at i:14180325 original size:18 final size:19
Alignment explanation
Indices: 14180304--14180353 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
14180294 AAGTACGTAT
14180304 AAAATATGAAATATA-ATAA
1 AAAATATGAAATATACA-AA
*
14180323 AAAGATA-CAAA-ATACAAA
1 AAA-ATATGAAATATACAAA
14180341 AAAATATGAAATA
1 AAAATATGAAATA
14180354 AAAAAATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
17 3 0.12
18 11 0.44
19 8 0.32
20 3 0.12
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (19 bp):
AAAATATGAAATATACAAA
Found at i:14180341 original size:17 final size:15
Alignment explanation
Indices: 14180318--14180370 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
14180308 TATGAAATAT
*
14180318 AATAAAAAGATACAA
1 AATAAAAAAATACAA
**
14180333 AATACAAAAAAATATGA
1 AAT--AAAAAAATACAA
14180350 AATAAAAAAATACAA
1 AATAAAAAAATACAA
14180365 AA-AAAA
1 AATAAAA
14180371 GTAGAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.13
15 15 0.48
17 12 0.39
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.13
Consensus pattern (15 bp):
AATAAAAAAATACAA
Done.