Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168071.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_32, 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: 761692
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 6 of 17
Found at i:213525 original size:181 final size:178
Alignment explanation
Indices: 212338--213795 Score: 1161
Period size: 180 Copynumber: 8.1 Consensus size: 178
212328 GTTATTATAA
* * * *
212338 AATAGTCATAACTATTTGAACTTGTT-TAGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATT
1 AATAGTCATAACTATTTGAACTTGTTCGA-TAAACATATTTA-TTTTTTAAATCT-CT--TTATT
* * * ** *
212402 AATCTTTCAAAA-GTTAATAAATTAGTATTATTTTCTTTCAAAAAAGCTTGTATGAACTA-AAAC
61 AAT-TTTTAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAC-AGAAAC
* *** * *
212465 AATTATTTTATGTTTAAACAAAAGGTCAAAACGATTTGAAATAGATAATTATTCT
124 AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCT
* * * * *
212520 AATAATCTTAACTATTTGAAC-TGATCGACAAACACATTTATTTTTTAAATCTC-TTATTAATTT
1 AATAGTCATAACTATTTGAACTTGTTCGATAAACATATTTATTTTTTAAATCTCTTTATTAATTT
* * * * * * *
212583 TCAAAATATTATTAAATTAGTATTGTTTT-TATCTGAATAAGCTTATATGATA-AAAAATAATTG
66 TTAAAATATTAATAAATTAGTATTATTTTAT-TTTGAATAAGCTTGTATGA-ACAGAAACAATTG
* * * * * * *
212646 TTTTATGACAAAAC-AAAGATCATAACGATTTCAGATTA-ACATTTATTCA
129 TTTTATGACAAAACAAAAGGTCATAACGATTTGA-AATAGATAATTGTTCT
* * * * * * *
212695 AATAGTCATAAATATTAGAAC-TGCTT-TA-AAAAATAGCGTTAGTTTTTAAATCTCTTGCTTAA
1 AATAGTCATAACTATTTGAACTTG-TTCGATAAACATA--TTTATTTTTTAAATCTC-T--TTAT
* * * * * *
212757 TAATTTTTGAAATATTAATAAAGTAGTATTATTTTATTTT-AGATAAGTTTTTATTAACTGAAAC
60 TAATTTTTAAAATATTAATAAATTAGTATTATTTTATTTTGA-ATAAGCTTGTATGAACAGAAAC
* * * * ** *
212821 AATTGTTTTATAATAAAACAAAATGTCAAAATAATTTTAAATAGATAATTGTT-T
124 AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCT
* * *
212875 AAATAGTCATATCTATTTGAAATTGTTCAATAAACATATTTATTTTTTTAAATCTC-TTACTTTA
1 -AATAGTCATAACTATTTGAACTTGTTCGATAAACATATTTA-TTTTTTAAATCTCTTTA--TTA
* * ** * *
212939 ATTTTTTAAATGTTAATAAATTAGTATTATTTTA-TTCCAATTAAGCTTGTATGAACTGAAATAA
62 ATTTTTAAAATATTAATAAATTAGTATTATTTTATTTTGAA-TAAGCTTGTATGAACAGAAACAA
* * *
213003 TTGTTTTATGACTAAACAAAAGGAT-ATAATGATTTGAAATAGATAATTATTCT
126 TTGTTTTATGACAAAACAAAAGG-TCATAACGATTTGAAATAGATAATTGTTCT
* * * *
213056 GATAGTCTTAACTATTTGAACTAGTTCGGCT-AACATATTTATTTTTTAAATCT-TTTATTAATT
1 AATAGTCATAACTATTTGAACTTGTTC-GATAAACATATTTATTTTTTAAATCTCTTTATTAATT
* * * ***
213119 TTTAAAATATTATTAAATTAGTATCATTTTAATGCAAATAAGCTTGTATGAA-AGGAAACAATTG
65 TTTAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAACA-GAAACAATTG
* * * * * *
213183 TTGTATGACAAAA-TAAAGATCATTATGATTT-AAGATAGATAATTGTTCA
129 TTTTATGACAAAACAAAAGGTCATAACGATTTGAA-ATAGATAATTGTTCT
* * * * *
213232 AATAGTCGTAACTATTTGAA-TTGGTT-TAGTAAATAGATTTAGTTTTTAAATCTC-TTATTAAT
1 AATAGTCATAACTATTTGAACTT-GTTCGA-TAAACATATTTATTTTTTAAATCTCTTTATTAAT
* ** ** * *
213294 TTTTAAAATATTAATAAATCAAAATTATTTTATTTTGAATAATTTTGTATGAACAGAAACAACTA
64 TTTTAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAACAGAAACAATTG
*
213359 TTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCT
129 TTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCT
* * * * *
213409 AATGGACATGACTATTTGAACTTGTTCGATAAATATATTTATTTTTTAAATCTCGTACCTATTAA
1 AATAGTCATAACTATTTGAACTTGTTCGATAAACATATTTATTTTTTAAATCTC-T--TTATTAA
** * * * *
213474 TTTGCAAAATATTAATAAAGTAGTATTATTTTATTTTGAATAAACTTGTATGAATAGAAAAAATT
63 TTTTTAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAACAGAAACAATT
* * * * * * *
213539 GTTTTATGACAAAACAAAAGATTATAACTATTAGAAATAAAAAATTGTTCA
128 GTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCT
* * ** * * * * * *
213590 AATAGTTATAACTATTTGAGCTTACTCGGTAAAAAAAATTATTTTTTAAATATTTTACTTATTAA
1 AATAGTCATAACTATTTGAACTTGTTCGATAAACATATTTATTTTTTAAAT-CTCT--TTATTAA
* * * *
213655 TTTTTGAAATATTATTAAATTAG-ATTATTTTATTTTGAATAAGCTTATAT-AGACAAAAACAAT
63 TTTTTAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGA-ACAGAAACAAT
* * * * * * *
213718 TGGTTCATCACAAAACAAAAAGTTATAACTATTTGAAATAGATAATTGTTCA
127 TGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCT
* * * *
213770 AATAGTTAGATCTATTTGAACATGTT
1 AATAGTCATAACTATTTGAACTTGTT
213796 AAAAAAAATT
Statistics
Matches: 1022, Mismatches: 204, Indels: 102
0.77 0.15 0.08
Matches are distributed among these distances:
174 5 0.00
175 59 0.06
176 214 0.21
177 138 0.14
178 12 0.01
179 22 0.02
180 302 0.30
181 228 0.22
182 36 0.04
183 6 0.01
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (178 bp):
AATAGTCATAACTATTTGAACTTGTTCGATAAACATATTTATTTTTTAAATCTCTTTATTAATTT
TTAAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAACAGAAACAATTGTT
TTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCT
Found at i:213676 original size:23 final size:22
Alignment explanation
Indices: 213625--213676 Score: 52
Period size: 24 Copynumber: 2.3 Consensus size: 22
213615 TCGGTAAAAA
*
213625 AAATT-ATTTTTTAAATATTTT
1 AAATTAATTTTTGAAATATTTT
*
213646 ACTTATTAATTTTTGAAATATTATT
1 A--AATTAATTTTTGAAATATT-TT
213671 AAATTA
1 AAATTA
213677 GATTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
21 1 0.04
23 7 0.29
24 13 0.54
25 3 0.12
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
AAATTAATTTTTGAAATATTTT
Found at i:213976 original size:14 final size:14
Alignment explanation
Indices: 213954--214084 Score: 62
Period size: 14 Copynumber: 9.1 Consensus size: 14
213944 TAAATTTAAC
*
213954 TAATTTATTAATTA
1 TAATATATTAATTA
213968 TAATATATTTAATTTA
1 TAATATA-TTAA-TTA
213984 TAATTATAATT-ATTA
1 TAA-TAT-ATTAATTA
*
213999 TTAA-ATAATAATTAA
1 -TAATATATTAATT-A
214014 TAATA-ATTAA-T-
1 TAATATATTAATTA
214025 TAATATAATTAAATTAA
1 TAATAT-ATT-AATT-A
214042 TAATATAAATT-ATTA
1 TAATAT--ATTAATTA
*
214057 TTATATAATT-ATTA
1 TAATAT-ATTAATTA
*
214071 TAACA-ATTAATTA
1 TAATATATTAATTA
214084 T
1 T
214085 TACTATTTTT
Statistics
Matches: 95, Mismatches: 6, Indels: 33
0.71 0.04 0.25
Matches are distributed among these distances:
11 5 0.05
12 3 0.03
13 11 0.12
14 31 0.33
15 16 0.17
16 13 0.14
17 11 0.12
18 5 0.05
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATATATTAATTA
Found at i:213980 original size:23 final size:21
Alignment explanation
Indices: 213954--214066 Score: 72
Period size: 23 Copynumber: 5.2 Consensus size: 21
213944 TAAATTTAAC
213954 TAATTTATTAATTATAATATATT
1 TAATTTA-TAATTATAAT-TATT
213977 TAATTTATAATTATAATTATTAT
1 TAATTTATAATTATAATTA-T-T
* * *
214000 TAAATAATAATTAATAA-TAAT
1 TAATTTATAATT-ATAATTATT
*
214021 TAATTAATATAATTA-AATTA-A
1 TAATT--TATAATTATAATTATT
* * *
214042 TAATATA-AATTATTATTATA
1 TAATTTATAATTATAATTATT
214062 TAATT
1 TAATT
214067 ATTATAACAA
Statistics
Matches: 73, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
18 5 0.07
19 6 0.08
20 5 0.07
21 13 0.18
22 14 0.19
23 26 0.36
24 4 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATTTATAATTATAATTATT
Found at i:213990 original size:22 final size:22
Alignment explanation
Indices: 213954--213997 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
213944 TAAATTTAAC
213954 TAATTTATTAATTATAATATATT
1 TAATTTATTAATTATAAT-TATT
213977 TAATTTA-TAATTATAATTATT
1 TAATTTATTAATTATAATTATT
213998 ATTAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 10 0.48
23 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTTATTAATTATAATTATT
Found at i:214019 original size:27 final size:27
Alignment explanation
Indices: 213984--214086 Score: 86
Period size: 27 Copynumber: 3.7 Consensus size: 27
213974 ATTTAATTTA
*
213984 TAATTATAATTATTATTAAATAATAAT
1 TAATAATAATTATTATTAAATAATAAT
214011 TAATAATAATTA--ATTAATATAATTAAAT
1 TAATAATAATTATTATTAA-ATAA-T-AAT
* *
214039 TAATAATATAAATTATTATTATATAATTAT
1 TAAT-A-AT-AATTATTATTAAATAATAAT
*
214069 T-ATAACAATTAATTATTA
1 TAATAATAATT-ATTATTA
214087 CTATTTTTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
25 5 0.08
26 8 0.13
27 20 0.32
28 8 0.13
29 3 0.05
30 5 0.08
31 6 0.10
32 4 0.06
33 4 0.06
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
TAATAATAATTATTATTAAATAATAAT
Found at i:214047 original size:17 final size:17
Alignment explanation
Indices: 213937--214049 Score: 65
Period size: 17 Copynumber: 6.4 Consensus size: 17
213927 TCAATTATTA
213937 AATATAA-TAAATTTAACT
1 AATATAATTAAA-TTAA-T
*
213955 AAT-TTATT-AATT-AT
1 AATATAATTAAATTAAT
* *
213969 AATAT-ATTTAATTTAT
1 AATATAATTAAATTAAT
*
213985 AATTATAATTATTATTAAAT
1 AA-TATAATTA-AATT-AAT
*
214005 AATAATTAATAATAATTAATT
1 AAT-A-TAATTA-AATTAA-T
214026 AATATAATTAAATTAAT
1 AATATAATTAAATTAAT
214043 AATATAA
1 AATATAA
214050 ATTATTATTA
Statistics
Matches: 77, Mismatches: 7, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
14 7 0.09
15 6 0.08
16 6 0.08
17 15 0.19
18 13 0.17
19 9 0.12
20 8 0.10
21 13 0.17
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATAATTAAATTAAT
Found at i:214345 original size:17 final size:18
Alignment explanation
Indices: 214309--214347 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
214299 GATCATAAAT
*
214309 ATTAATAATTCAATATTA
1 ATTAAAAATTCAATATTA
*
214327 ATTAAAAATTTAA-ATTA
1 ATTAAAAATTCAATATTA
214344 ATTA
1 ATTA
214348 TAAGAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAAAAATTCAATATTA
Found at i:215460 original size:14 final size:14
Alignment explanation
Indices: 215401--215467 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 14
215391 ATTATTTAAT
* *
215401 TTATTATATTAATA
1 TTATAATATTATTA
*
215415 TTTATAATATTACTA
1 -TTATAATATTATTA
*
215430 --ATAATTAATATTA
1 TTATAA-TATTATTA
*
215443 TTATAATATTATTT
1 TTATAATATTATTA
215457 TTATAATATTA
1 TTATAATATTA
215468 GTAATTTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
12 4 0.09
13 6 0.14
14 17 0.40
15 16 0.37
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (14 bp):
TTATAATATTATTA
Found at i:216211 original size:14 final size:14
Alignment explanation
Indices: 216186--216222 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
216176 AGTATCATTT
216186 TATTAA-TAAT-AA
1 TATTAATTAATAAA
216198 TATTTAATTAATAAA
1 TA-TTAATTAATAAA
216213 TATTAATTAA
1 TATTAATTAA
216223 ATTAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 4 0.18
14 12 0.55
15 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TATTAATTAATAAA
Found at i:216800 original size:15 final size:15
Alignment explanation
Indices: 216780--216811 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
216770 TTAACATATA
216780 ATAATTATAATTAAT
1 ATAATTATAATTAAT
*
216795 ATAATTATATTTAAT
1 ATAATTATAATTAAT
216810 AT
1 AT
216812 TATTGTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAATTATAATTAAT
Found at i:216908 original size:12 final size:12
Alignment explanation
Indices: 216874--216931 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
216864 ATAATTAAGC
216874 ATATA-ATAATT
1 ATATATATAATT
* *
216885 ATATGTAAAATT
1 ATATATATAATT
216897 ATATATATAATT
1 ATATATATAATT
*
216909 A-ATTTATAATT
1 ATATATATAATT
*
216920 -TA-ATATATTT
1 ATATATATAATT
216930 AT
1 AT
216932 TATTTAAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 6 0.16
11 15 0.41
12 16 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
ATATATATAATT
Found at i:216923 original size:16 final size:15
Alignment explanation
Indices: 216908--216992 Score: 57
Period size: 17 Copynumber: 5.3 Consensus size: 15
216898 TATATATAAT
216908 TAATTTATAATTTAA
1 TAATTTATAATTTAA
*
216923 TATATTTATTATTTAAA
1 TA-ATTTATAATTT-AA
216940 TAATAATGTA-AATTTAA
1 TAAT--T-TATAATTTAA
* *
216957 TAATTAATAATTATCTA
1 TAATTTATAATT-T-AA
216974 TAATTATATAA-TTAA
1 TAATT-TATAATTTAA
216989 TAAT
1 TAAT
216993 AATTAACTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 18
0.70 0.08 0.23
Matches are distributed among these distances:
14 1 0.02
15 12 0.22
16 14 0.25
17 17 0.31
18 9 0.16
19 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (15 bp):
TAATTTATAATTTAA
Found at i:216963 original size:25 final size:25
Alignment explanation
Indices: 216938--216995 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
216928 TTATTATTTA
*
216938 AATAATAATGTA-AATTTAATAATT
1 AATAATAATCTATAATTTAATAATT
*
216962 AATAATTATCTATAA-TTATATAATT
1 AATAATAATCTATAATTTA-ATAATT
216987 AATAATAAT
1 AATAATAAT
216996 TAACTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
AATAATAATCTATAATTTAATAATT
Found at i:216994 original size:28 final size:27
Alignment explanation
Indices: 216961--217046 Score: 97
Period size: 26 Copynumber: 3.2 Consensus size: 27
216951 ATTTAATAAT
*
216961 TAATAATTATCTATAATTATATAATTAA
1 TAATAATTAACTATAATTATAT-ATTAA
216989 TAATAATTAACTATAAATTA-ATATT-A
1 TAATAATTAACTAT-AATTATATATTAA
* * *
217015 TATTAATTAAATATAATT-TATATTAT
1 TAATAATTAACTATAATTATATATTAA
217041 TAATAA
1 TAATAA
217047 AAAATAATAG
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
25 9 0.18
26 18 0.36
27 3 0.06
28 15 0.30
29 5 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TAATAATTAACTATAATTATATATTAA
Found at i:217010 original size:25 final size:25
Alignment explanation
Indices: 216948--217046 Score: 74
Period size: 26 Copynumber: 3.7 Consensus size: 25
216938 AATAATAATG
*
216948 TAAATTTAA-TAATTAATAATTATCTA
1 TAAA-TTAATTAA-TAATAATTAACTA
216974 TAATTATATAATTAATAATAATTAACTA
1 TAA--AT-TAATTAATAATAATTAACTA
* * *
217002 TAAATTAATATTATATTAATTAAATA
1 TAAATTAAT-TAATAATAATTAACTA
* *
217028 TAATTTATATTATTAATAA
1 TAAATTA-ATTAATAATAA
217047 AAAATAATAG
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
25 4 0.07
26 30 0.51
27 3 0.05
28 19 0.32
29 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TAAATTAATTAATAATAATTAACTA
Found at i:217019 original size:11 final size:9
Alignment explanation
Indices: 216901--217045 Score: 60
Period size: 10 Copynumber: 16.3 Consensus size: 9
216891 AAAATTATAT
216901 ATATAATTA
1 ATATAATTA
216910 ATTTATAATTTA
1 A--TATAA-TTA
*
216922 ATAT-ATTT
1 ATATAATTA
*
216930 AT-TATTTA
1 ATATAATTA
216938 A-ATAA-TA
1 ATATAATTA
* *
216945 ATGTAAATTT
1 ATAT-AATTA
216955 A-ATAATT-
1 ATATAATTA
216962 A-ATAATTA
1 ATATAATTA
*
216970 TCTATAATT-
1 -ATATAATTA
216979 ATATAATTA
1 ATATAATTA
216988 ATAATAATTA
1 AT-ATAATTA
216998 ACTATAAATTA
1 A-TAT-AATTA
*
217009 ATATTA-T-
1 ATATAATTA
217016 AT-TAATTAA
1 ATATAATT-A
*
217025 ATATAATTT
1 ATATAATTA
*
217034 ATATTATTA
1 ATATAATTA
217043 ATA
1 ATA
217046 AAAAATAATA
Statistics
Matches: 103, Mismatches: 14, Indels: 38
0.66 0.09 0.25
Matches are distributed among these distances:
6 2 0.02
7 14 0.14
8 22 0.21
9 20 0.19
10 29 0.28
11 12 0.12
12 4 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (9 bp):
ATATAATTA
Found at i:217653 original size:38 final size:34
Alignment explanation
Indices: 217586--217692 Score: 103
Period size: 34 Copynumber: 3.0 Consensus size: 34
217576 TGTAACTTCA
*
217586 ATATTATTTTTATTAATTAATAATAATTATAAA-
1 ATATTATTTATATTAATTAATAATAATTATAAAT
*
217619 ATAATTATTATATATTATATTAATATATTAATTATAATT
1 AT-ATTATT-TATATTA-ATTAATA-A-TAATTATAAAT
*
217658 ATATTATTT-TA-TAATTAATTAATTAATTATTAAT
1 ATATTATTTATATTAATTAA-TAA-TAATTATAAAT
217692 A
1 A
217693 GATTTATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
33 2 0.03
34 23 0.37
35 10 0.16
36 9 0.14
37 2 0.03
38 15 0.24
39 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (34 bp):
ATATTATTTATATTAATTAATAATAATTATAAAT
Found at i:217661 original size:30 final size:30
Alignment explanation
Indices: 217619--217682 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 30
217609 TAATTATAAA
217619 ATAATTATTATATATTATATTAA-TATATTAATT
1 ATAATTA-TAT-TATTATA-TAATTA-ATTAATT
*
217652 ATAATTATATTATTTTATAATTAATTAATT
1 ATAATTATATTATTATATAATTAATTAATT
217682 A
1 A
217683 ATTATTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 11 0.38
31 8 0.28
32 3 0.10
33 7 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
ATAATTATATTATTATATAATTAATTAATT
Found at i:217689 original size:11 final size:11
Alignment explanation
Indices: 217597--217691 Score: 52
Period size: 11 Copynumber: 8.2 Consensus size: 11
217587 TATTATTTTT
*
217597 ATTAATTAATA
1 ATTAATTATTA
*
217608 A-TAATTATAA
1 ATTAATTATTA
*
217618 AATAATTATTATA
1 ATTAATTA-T-TA
*
217631 TATTATATTAATA
1 -ATTA-ATTATTA
217644 TATTAATTA-TA
1 -ATTAATTATTA
217655 ATTATATTATT-
1 ATTA-ATTATTA
*
217666 TTATAATTAATTA
1 AT-TAATT-ATTA
217679 ATTAATTATTA
1 ATTAATTATTA
217690 AT
1 AT
217692 AGATTTATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 20
0.71 0.07 0.21
Matches are distributed among these distances:
10 12 0.18
11 23 0.34
12 16 0.24
13 9 0.13
14 3 0.04
15 4 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTAATTATTA
Found at i:217701 original size:38 final size:34
Alignment explanation
Indices: 217587--217702 Score: 108
Period size: 38 Copynumber: 3.2 Consensus size: 34
217577 GTAACTTCAA
* *
217587 TATTATTTT-TATTAATTAATAATAATTATAAAAT
1 TATTATTTTATATTAATTAATAATTATTAT-AATT
* *
217621 AATTATTATATATTATATTAATATATTAATTATAATT
1 TATTATTTTATATTA-ATTAATA-ATT-ATTATAATT
217658 ATATTATTTTATAATTAATTAATTAATTATTAATAGATT
1 -TATTATTTTAT-ATTAATTAA-TAATTATT-ATA-ATT
217697 TATTAT
1 TATTAT
217703 AAATAATAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
34 7 0.10
35 5 0.07
36 7 0.10
37 8 0.12
38 31 0.46
39 9 0.13
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (34 bp):
TATTATTTTATATTAATTAATAATTATTATAATT
Found at i:219156 original size:23 final size:23
Alignment explanation
Indices: 219113--219158 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
219103 TAGCTTTTGG
*
219113 ATTAAAATATTAATATAATATTT
1 ATTAAAATATTAAAATAATATTT
*
219136 ATTATAATATTTAAAATATATAT
1 ATTAAAATA-TTAAAATA-ATAT
219159 AATATGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 7 0.37
25 4 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTAAAATATTAAAATAATATTT
Found at i:220292 original size:49 final size:45
Alignment explanation
Indices: 220201--220297 Score: 115
Period size: 49 Copynumber: 2.1 Consensus size: 45
220191 AATAATTATA
*
220201 TTATTATTATAAATTAATAAAAAATTAATATATTATAATAAATTG
1 TTATTATTATAAATTAATAAAAAATTAATATAATATAATAAATTG
* *
220246 TTATTATTATAATATTATTAATATAACATT-ATATCAATATAGTAAATTG
1 TTATTATTATAA-ATTAATAA-A-AA-ATTAATAT-AATATAATAAATTG
220295 TTA
1 TTA
220298 GCATATTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
45 12 0.27
46 7 0.16
47 1 0.02
48 6 0.14
49 18 0.41
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.46
Consensus pattern (45 bp):
TTATTATTATAAATTAATAAAAAATTAATATAATATAATAAATTG
Found at i:220420 original size:28 final size:29
Alignment explanation
Indices: 220351--220420 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
220341 AATATAATGT
220351 TTATTCAATTATTATTAAATATTTTGCAAA
1 TTATT-AATTATTATTAAATATTTTGCAAA
*
220381 TTATT-ATTATTATTAATTA-TTT-CATAA
1 TTATTAATTATTATTAAATATTTTGCA-AA
*
220408 TTATTAATAATTA
1 TTATTAATTATTA
220421 ATTATTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
26 2 0.06
27 10 0.28
28 19 0.53
30 5 0.14
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (29 bp):
TTATTAATTATTATTAAATATTTTGCAAA
Found at i:220523 original size:47 final size:45
Alignment explanation
Indices: 220455--220564 Score: 132
Period size: 47 Copynumber: 2.4 Consensus size: 45
220445 AATTGATAAT
* *
220455 AATTATTATTAGTATAATATAAATTATA-ATAAATATTAATATTATA
1 AATTATTATTATTATAATAT-AATAATACATAAATATTAATA-TATA
* * *
220501 CAATTTTTATTATTATACTATAATAATACATATATATTAATATATA
1 -AATTATTATTATTATAATATAATAATACATAAATATTAATATATA
*
220547 AATTATTATAATTATAAT
1 AATTATTATTATTATAAT
220565 TATTAAATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
45 15 0.28
46 10 0.19
47 29 0.54
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (45 bp):
AATTATTATTATTATAATATAATAATACATAAATATTAATATATA
Found at i:220582 original size:23 final size:22
Alignment explanation
Indices: 220537--220588 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
220527 TACATATATA
* *
220537 TTAA-TATATAAATTATTATAAT
1 TTAATTAT-TAAATTAATAAAAT
220559 TATAATTATTAAATTAATAAAAT
1 T-TAATTATTAAATTAATAAAAT
220582 TTAATTA
1 TTAATTA
220589 AAATTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 7 0.27
23 16 0.62
24 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAATTATTAAATTAATAAAAT
Found at i:220592 original size:11 final size:11
Alignment explanation
Indices: 220572--220628 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
220562 AATTATTAAA
220572 TTAA-TAAAAT
1 TTAATTAAAAT
220582 TTAATTAAAATT
1 TTAATTAAAA-T
*
220594 TTAATTAATAT
1 TTAATTAAAAT
* *
220605 TTTATTAAATT
1 TTAATTAAAAT
220616 ATTAATTTAAAAT
1 -TTAA-TTAAAAT
220629 AATTAATTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
10 4 0.11
11 14 0.38
12 13 0.35
13 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TTAATTAAAAT
Found at i:220598 original size:12 final size:12
Alignment explanation
Indices: 220572--220628 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
220562 AATTATTAAA
220572 TTAA-TAAAA-T
1 TTAATTAAAATT
220582 TTAATTAAAATT
1 TTAATTAAAATT
*
220594 TTAATTAATATT
1 TTAATTAAAATT
220606 TT-ATT-AAATT
1 TTAATTAAAATT
220616 ATTAATTTAAAAT
1 -TTAA-TTAAAAT
220629 AATTAATTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 8 0.21
11 10 0.26
12 15 0.38
13 2 0.05
14 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TTAATTAAAATT
Found at i:220611 original size:23 final size:23
Alignment explanation
Indices: 220571--220628 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
220561 TAATTATTAA
220571 ATTAA-TAAAATTTAATTAAAATT
1 ATTAATTAAAATTTAATT-AAATT
* *
220594 -TTAATTAATATTTTATTAAATT
1 ATTAATTAAAATTTAATTAAATT
220616 ATTAATTTAAAAT
1 ATTAA-TTAAAAT
220629 AATTAATTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.31
23 14 0.48
24 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTAATTAAAATTTAATTAAATT
Found at i:220766 original size:27 final size:26
Alignment explanation
Indices: 220726--220781 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
220716 TTTTATAATA
220726 TAATATATTAAATTATAA-AATATTAT
1 TAATATATTAAATTATAATAAT-TTAT
*
220752 TAATAATATTTAATTATAATAATTTAT
1 TAAT-ATATTAAATTATAATAATTTAT
220779 TAA
1 TAA
220782 ATTATTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 20 0.74
28 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TAATATATTAAATTATAATAATTTAT
Found at i:220854 original size:21 final size:20
Alignment explanation
Indices: 220798--220854 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
220788 ACATGATACT
*
220798 ATATAAATTAAT-TATTATA
1 ATATTAATTAATATATTATA
*
220817 ATAAATAA-TAATAATATTATAA
1 AT-ATTAATTAAT-ATATTAT-A
220839 ATATTAATTAATATAT
1 ATATTAATTAATATAT
220855 GACTATTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 6 0.20
20 3 0.10
21 14 0.47
22 7 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATTAATTAATATATTATA
Found at i:220897 original size:18 final size:18
Alignment explanation
Indices: 220726--220899 Score: 61
Period size: 18 Copynumber: 9.9 Consensus size: 18
220716 TTTTATAATA
220726 TAATATATTAAATTATA-
1 TAATATATTAAATTATAT
220743 -AA-ATATT--ATTA-A-
1 TAATATATTAAATTATAT
*
220755 TAATAT-TT-AATTATAA
1 TAATATATTAAATTATAT
* *
220771 TAATTTATTAAATTATTACA
1 TAATATATTAAATTA-TA-T
*
220791 TGATACTATATAAATTA-AT
1 TAATA-TAT-TAAATTATAT
* * * *
220810 TATTATAATAAATAATAA
1 TAATATATTAAATTATAT
*
220828 TAATATTATAAATATTA-AT
1 TAATA-TATTAA-ATTATAT
* *
220847 TAATATATGACTATTAGT-T
1 TAATATATTA-AATTA-TAT
*
220866 GAA-A-ATTGAAATTATAT
1 TAATATATT-AAATTATAT
220883 TAATATATTAAATTATA
1 TAATATATTAAATTATA
220900 ATAGCCAAAT
Statistics
Matches: 116, Mismatches: 20, Indels: 41
0.66 0.11 0.23
Matches are distributed among these distances:
12 1 0.01
13 8 0.07
14 6 0.05
15 6 0.05
16 8 0.07
17 17 0.15
18 31 0.27
19 21 0.18
20 8 0.07
21 3 0.03
22 7 0.06
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (18 bp):
TAATATATTAAATTATAT
Found at i:221527 original size:18 final size:20
Alignment explanation
Indices: 221486--221529 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
221476 TATAATTTAA
221486 AATTATATAATTAATATACT
1 AATTATATAATTAATATACT
*
221506 -ATTAT-TAATTAATAT-TT
1 AATTATATAATTAATATACT
221523 AATTATA
1 AATTATA
221530 ATATTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
17 1 0.05
18 15 0.71
19 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTATATAATTAATATACT
Found at i:221778 original size:7 final size:7
Alignment explanation
Indices: 221766--221803 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
221756 TTATATATTC
*
221766 TATTAAT
1 TATTAAA
221773 TATT-AA
1 TATTAAA
221779 TATTAAA
1 TATTAAA
221786 TATTAAA
1 TATTAAA
221793 TATTAACA
1 TATTAA-A
221801 TAT
1 TAT
221804 AATTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 5 0.18
7 19 0.68
8 4 0.14
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (7 bp):
TATTAAA
Found at i:221784 original size:13 final size:14
Alignment explanation
Indices: 221766--221803 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
221756 TTATATATTC
*
221766 TATTAATTATT-AA
1 TATTAAATATTAAA
221779 TATTAAATATTAAA
1 TATTAAATATTAAA
221793 TATTAACATAT
1 TATTAA-ATAT
221804 AATTAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTAAATATTAAA
Found at i:222125 original size:13 final size:12
Alignment explanation
Indices: 222088--222137 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
222078 ATTAGTTTAT
*
222088 TAATA-TTATTA
1 TAATATTTATAA
*
222099 T-ATATTTTTAA
1 TAATATTTATAA
222110 TAATATATTATAA
1 TAATAT-TTATAA
222123 TAATATTTAATAA
1 TAATATTT-ATAA
222136 TA
1 TA
222138 TTAAATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 3 0.09
11 6 0.19
12 6 0.19
13 17 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATATTTATAA
Found at i:222165 original size:10 final size:10
Alignment explanation
Indices: 222110--222166 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
222100 ATATTTTTAA
222110 TAAT-ATATT
1 TAATAATATT
222119 ATAATAATATT
1 -TAATAATATT
222130 TAATAATATT
1 TAATAATATT
* *
222140 AAATTTAATTAAT
1 TAA--TAA-TATT
222153 TAATAATATT
1 TAATAATATT
222163 TAAT
1 TAAT
222167 CTTCATTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 23 0.59
11 8 0.21
12 3 0.08
13 5 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TAATAATATT
Found at i:222285 original size:19 final size:19
Alignment explanation
Indices: 222252--222297 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
222242 AAATAATAAT
*
222252 TTTTGAAATATTATTAACTA
1 TTTT-AAATAATATTAACTA
*
222272 TTTTAAATAATATTTACTA
1 TTTTAAATAATATTAACTA
*
222291 TTATAAA
1 TTTTAAA
222298 CAACAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTTAAATAATATTAACTA
Found at i:222466 original size:29 final size:28
Alignment explanation
Indices: 222416--222470 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
222406 TATTTTAAAT
* *
222416 AAATTAATTATTTGATAATATAATTATCA
1 AAATTAATAATTTAATAATAT-ATTATCA
* *
222445 AAATTACTAATTTAATACTATATTAT
1 AAATTAATAATTTAATAATATATTAT
222471 TCTAATCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 5 0.23
29 17 0.77
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (28 bp):
AAATTAATAATTTAATAATATATTATCA
Found at i:223061 original size:17 final size:16
Alignment explanation
Indices: 223033--223077 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
223023 ATATTAAATC
223033 TATTTAAATAATTGATAT
1 TATTT-AATAATT-ATAT
223051 TATTTAATAA-TATAT
1 TATTTAATAATTATAT
223066 TATATTAATAAT
1 TAT-TTAATAAT
223078 CTAATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 5 0.20
18 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATTTAATAATTATAT
Found at i:223075 original size:16 final size:16
Alignment explanation
Indices: 223047--223122 Score: 66
Period size: 16 Copynumber: 4.7 Consensus size: 16
223037 TAAATAATTG
223047 ATATTAT-TTAATAAT
1 ATATTATATTAATAAT
223062 ATATTATATTAATAAT
1 ATATTATATTAATAAT
* *
223078 CTAATATAAATTAATAAT
1 AT-AT-TATATTAATAAT
* *
223096 ATTTTATATAAATTAAT
1 ATATTATATTAA-TAAT
*
223113 TTA-TATATTA
1 ATATTATATTA
223123 TATCTATATA
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
15 7 0.15
16 21 0.44
17 8 0.17
18 12 0.25
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATTATATTAATAAT
Found at i:223119 original size:34 final size:33
Alignment explanation
Indices: 223037--223119 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 33
223027 TAAATCTATT
* * *
223037 TAAATAATTGATATTATTTAATAATATATTATA
1 TAAATAATTAATATAAATTAATAATATATTATA
* *
223070 TTAATAATCTAATATAAATTAATAATATTTTATA
1 TAAATAAT-TAATATAAATTAATAATATATTATA
*
223104 TAAATTAATTTATATA
1 TAAA-TAATTAATATA
223120 TTATATCTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
33 7 0.17
34 30 0.73
35 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (33 bp):
TAAATAATTAATATAAATTAATAATATATTATA
Found at i:223130 original size:27 final size:27
Alignment explanation
Indices: 223079--223153 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
223069 ATTAATAATC
*
223079 TAATATAAA-TT-A-ATAATATTTTATA
1 TAATATAAATTTAATATAATA-TCTATA
* *
223104 TAA-ATTAATTTATATATTATATCTATA
1 TAATATAAATTTA-ATATAATATCTATA
223131 TAATATAAATTTAATATAATATC
1 TAATATAAATTTAATATAATATC
223154 ATTATGAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
24 4 0.10
25 5 0.12
27 18 0.45
28 13 0.32
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (27 bp):
TAATATAAATTTAATATAATATCTATA
Found at i:223292 original size:49 final size:47
Alignment explanation
Indices: 223203--223306 Score: 113
Period size: 49 Copynumber: 2.1 Consensus size: 47
223193 ATATGTGAAT
*
223203 AGTATAATTTATATTATATATATTATAAATTAACATAATATTAA-ATA
1 AGTATAATTTATATTATATAAATTATAAATTAACATAATA-TAATATA
* * *
223250 AGTATATTTTGATATTAATATAAATTAT-TATTAATATAAATATAATATA
1 AGTATAATTT-ATATT-ATATAAATTATAAATTAACAT-AATATAATATA
223299 AGTTATAA
1 AG-TATAA
223307 ACAAATTAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
47 9 0.19
48 15 0.32
49 19 0.40
50 4 0.09
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (47 bp):
AGTATAATTTATATTATATAAATTATAAATTAACATAATATAATATA
Found at i:223352 original size:28 final size:28
Alignment explanation
Indices: 223313--223380 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 28
223303 ATAAACAAAT
* *
223313 TAATATAAT-ATTATTA--ATAT-ATTA
1 TAATATATTAATTATTAGTATATAATAA
*
223337 TAATTTATTAATTATTAGTATATAATAA
1 TAATATATTAATTATTAGTATATAATAA
*
223365 TAATATATTATTTATT
1 TAATATATTAATTATT
223381 TCAAAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 7 0.20
25 7 0.20
27 4 0.11
28 17 0.49
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (28 bp):
TAATATATTAATTATTAGTATATAATAA
Found at i:223738 original size:23 final size:21
Alignment explanation
Indices: 223698--223765 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 21
223688 TTTAAATAAT
223698 AATATTAATTATAATTATATC
1 AATATTAATTATAATTATATC
*
223719 AATATTACATTACTAATTATATT
1 AATATTA-ATTA-TAATTATATC
* *
223742 ATTATT-ATTAT-ATTATATT
1 AATATTAATTATAATTATATC
223761 AATAT
1 AATAT
223766 ATTATACAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.29
20 1 0.02
21 11 0.26
22 4 0.10
23 14 0.33
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTAATTATAATTATATC
Found at i:224204 original size:18 final size:19
Alignment explanation
Indices: 224181--224228 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 19
224171 TAATAGTTAA
224181 TAAATTAAATATAAT-AGT
1 TAAATTAAATATAATAAGT
224199 TAAATT--ATATAATAAGT
1 TAAATTAAATATAATAAGT
224216 TAAATTATAATAT
1 TAAATTA-AATAT
224229 TTATTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.27
17 9 0.35
18 6 0.23
20 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
TAAATTAAATATAATAAGT
Found at i:224364 original size:13 final size:14
Alignment explanation
Indices: 224346--224407 Score: 56
Period size: 13 Copynumber: 4.4 Consensus size: 14
224336 AATATTTAGA
224346 TAATTAA-TAATAT
1 TAATTAATTAATAT
224359 TAATTAATTAATAT
1 TAATTAATTAATAT
* *
224373 TCTATTATATTAAAAT
1 T-AATTA-ATTAATAT
*
224389 TAATT-ATGAATAT
1 TAATTAATTAATAT
*
224402 AAATTA
1 TAATTA
224408 TTTATCATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
13 17 0.44
14 7 0.18
15 7 0.18
16 8 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
TAATTAATTAATAT
Found at i:224536 original size:13 final size:13
Alignment explanation
Indices: 224507--224544 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
224497 TAATGATTAT
224507 TAAATTA-ATAT-
1 TAAATTATATATA
224518 TCAAATTATATATA
1 T-AAATTATATATA
224532 TAAATTATATATA
1 TAAATTATATATA
224545 ATTAGTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.04
12 6 0.25
13 16 0.67
14 1 0.04
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATTATATATA
Found at i:226278 original size:17 final size:17
Alignment explanation
Indices: 226258--226343 Score: 54
Period size: 17 Copynumber: 5.1 Consensus size: 17
226248 ATATAAAATC
226258 TTATTAATTATAATATT
1 TTATTAATTATAATATT
*
226275 TTA-TAATTTATAATAGT
1 TTATTAA-TTATAATATT
* *
226292 CTATT-ATTTTAATATT
1 TTATTAATTATAATATT
*
226308 ATTTTTAAATTAATAATA--
1 -TTATT-AATT-ATAATATT
* *
226326 TAATTAATTATTATATT
1 TTATTAATTATAATATT
226343 T
1 T
226344 ATAATTTATA
Statistics
Matches: 51, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
15 5 0.10
16 15 0.29
17 22 0.43
18 1 0.02
19 3 0.06
20 5 0.10
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
TTATTAATTATAATATT
Found at i:226408 original size:25 final size:25
Alignment explanation
Indices: 226380--226444 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
226370 AATACAATAT
*
226380 AATTATATTATTTATAATGATTATA
1 AATTATATTATTTATAATGATTAGA
* *
226405 AATTATA-TATATAATGATGATTAGA
1 AATTATATTAT-TTATAATGATTAGA
*
226430 AA-TATATTTTTTATA
1 AATTATATTATTTATA
226445 TAATTTATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
24 10 0.31
25 22 0.69
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (25 bp):
AATTATATTATTTATAATGATTAGA
Found at i:226499 original size:19 final size:19
Alignment explanation
Indices: 226457--226501 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
226447 ATTTATTAAC
226457 ATATAACTTAATTATAAAT
1 ATATAACTTAATTATAAAT
* *
226476 TTATAATTTAATTAATAAAAT
1 ATATAACTTAATT-AT-AAAT
226497 ATATA
1 ATATA
226502 TTATATAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATAACTTAATTATAAAT
Found at i:226509 original size:36 final size:36
Alignment explanation
Indices: 226469--226537 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
226459 ATAACTTAAT
226469 TATAAATTTATAAT-TTA-ATTAATAAAATATATATTA
1 TATAAATTTA-AATATTATATTAAT-AAATATATATTA
* *
226505 TATAATTTTAAATATTATATTAATTAATATATA
1 TATAAATTTAAATATTATATTAATAAATATATA
226538 AAATAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 3 0.10
36 20 0.69
37 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (36 bp):
TATAAATTTAAATATTATATTAATAAATATATATTA
Found at i:226527 original size:12 final size:12
Alignment explanation
Indices: 226493--226547 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
226483 TTAATTAATA
226493 AAAT-ATATATT
1 AAATAATATATT
*
226504 ATATAAT-T-TT
1 AAATAATATATT
*
226514 AAATATTATATT
1 AAATAATATATT
* *
226526 AATTAATATATA
1 AAATAATATATT
226538 AAATAATATA
1 AAATAATATA
226548 ATTATAATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
10 7 0.21
11 5 0.15
12 22 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATAATATATT
Found at i:226546 original size:22 final size:21
Alignment explanation
Indices: 226483--226551 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 21
226473 AATTTATAAT
226483 TTAATTAATAAAATATATATT-A
1 TTAATT-ATAAAATA-ATATTAA
* *
226505 TATAATTTTAAATATTATATTAA
1 T-TAATTATAAA-ATAATATTAA
226528 TTAATATATAAAATAATA-TAA
1 TTAAT-TATAAAATAATATTAA
226549 TTA
1 TTA
226552 TAATATTATC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 6 0.15
22 19 0.49
23 14 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAATTATAAAATAATATTAA
Found at i:227024 original size:18 final size:18
Alignment explanation
Indices: 227001--227035 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
226991 TGTTTAATAT
*
227001 TAAATTAATTATACTATA
1 TAAATTAAGTATACTATA
*
227019 TAAATTTAGTATACTAT
1 TAAATTAAGTATACTAT
227036 TCAAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
TAAATTAAGTATACTATA
Found at i:227986 original size:13 final size:14
Alignment explanation
Indices: 227953--227992 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
227943 ATATAGTTAT
227953 TTTAT-AATAAATA
1 TTTATAAATAAATA
227966 TTTATAAATAAATA
1 TTTATAAATAAATA
*
227980 -TTATAAAAAAATA
1 TTTATAAATAAATA
227993 CGATTAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 17 0.68
14 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTTATAAATAAATA
Found at i:228707 original size:25 final size:27
Alignment explanation
Indices: 228664--228792 Score: 85
Period size: 25 Copynumber: 4.8 Consensus size: 27
228654 TAATTATATT
*
228664 TATAATATTATTAATTTATATATAATA
1 TATAATATTATTAATTTATAAATAATA
228691 TATAATATTA-TAA-TTATAAATAATA
1 TATAATATTATTAATTTATAAATAATA
*
228716 TAATACATAATT-TAAATTATTATTAAATAAT-
1 T-ATA-AT-ATTATTAA-T-TTA-TAAATAATA
* *
228747 T-T-ATA-AACT-ATTTATAAATAATA
1 TATAATATTATTAATTTATAAATAATA
*
228770 AATAATATTTATTAATATTATAA
1 TATAATA-TTATTAAT-TTATAA
228793 TAGAAATTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 30
0.67 0.07 0.26
Matches are distributed among these distances:
22 8 0.10
23 3 0.04
24 2 0.03
25 16 0.21
26 7 0.09
27 16 0.21
28 7 0.09
29 7 0.09
31 4 0.05
32 8 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TATAATATTATTAATTTATAAATAATA
Found at i:228753 original size:11 final size:11
Alignment explanation
Indices: 228675--228768 Score: 52
Period size: 11 Copynumber: 8.4 Consensus size: 11
228665 ATAATATTAT
*
228675 TAATTTATATA
1 TAATTTATAAA
*
228686 TAATATATAATA
1 TAATTTATAA-A
*
228698 TTATAATTATAAA
1 -TA-ATTTATAAA
* *
228711 TAATATAATACA
1 TAAT-TTATAAA
228723 TAA-TT-TAAA
1 TAATTTATAAA
*
228732 TTA-TTATTAAA
1 TAATTTA-TAAA
228743 TAATTTATAAA
1 TAATTTATAAA
228754 CT-ATTTATAAA
1 -TAATTTATAAA
228765 TAAT
1 TAAT
228769 AAATAATATT
Statistics
Matches: 63, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
9 7 0.11
10 2 0.03
11 30 0.48
12 15 0.24
13 3 0.05
14 6 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATTTATAAA
Found at i:228792 original size:22 final size:22
Alignment explanation
Indices: 228665--228792 Score: 53
Period size: 22 Copynumber: 6.0 Consensus size: 22
228655 AATTATATTT
*
228665 ATAATA-TTATTAAT-TTATAT
1 ATAATATTTATTAATATTATAA
228685 ATAATATATAATATT-ATAATTATAA
1 ATAATAT-T--TATTAAT-ATTATAA
*
228710 ATAATA--TAATACATAATT-TAA
1 ATAATATTTATTA-AT-ATTATAA
* * *
228731 ATTATTATTAAATAAT-TTAT-A
1 A-TAATATTTATTAATATTATAA
* *
228752 A-ACTATTTA-TAA-ATAATAA
1 ATAATATTTATTAATATTATAA
228771 ATAATATTTATTAATATTATAA
1 ATAATATTTATTAATATTATAA
228793 TAGAAATTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 32
0.67 0.07 0.26
Matches are distributed among these distances:
18 6 0.07
19 8 0.10
20 16 0.20
21 11 0.13
22 18 0.22
23 4 0.05
24 8 0.10
25 11 0.13
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATATTTATTAATATTATAA
Found at i:228830 original size:15 final size:16
Alignment explanation
Indices: 228803--228833 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
228793 TAGAAATTAT
228803 TATAAATTAATAATAG
1 TATAAATTAATAATAG
228819 TATAAA-TAATAATAG
1 TATAAATTAATAATAG
228834 AAATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TATAAATTAATAATAG
Found at i:229008 original size:21 final size:20
Alignment explanation
Indices: 228982--229026 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
228972 AATATTATTT
228982 TTATTATAATAATAAAATATA
1 TTATTATAATAATAAAATA-A
* *
229003 TTATTATAATTATAAATTAA
1 TTATTATAATAATAAAATAA
229023 TTAT
1 TTAT
229027 AAATAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTATAATAATAAAATAA
Found at i:229025 original size:11 final size:10
Alignment explanation
Indices: 228984--229036 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
228974 TATTATTTTT
228984 ATTAT-AATA
1 ATTATAAATA
228993 A-TA-AAATA
1 ATTATAAATA
*
229001 TATTAT-TATA
1 -ATTATAAATA
229011 ATTATAAATTA
1 ATTATAAA-TA
229022 ATTATAAATA
1 ATTATAAATA
229032 ATTAT
1 ATTAT
229037 TATAATATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
8 6 0.17
9 7 0.19
10 13 0.36
11 10 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATTATAAATA
Found at i:229126 original size:21 final size:21
Alignment explanation
Indices: 229077--229116 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
229067 TGTCATAATT
*
229077 ATTAATATTAAGTAAATATGA
1 ATTAATAATAAGTAAATATGA
*
229098 ATTAATAATAAGTAGATAT
1 ATTAATAATAAGTAAATAT
229117 TAATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
ATTAATAATAAGTAAATATGA
Found at i:229498 original size:17 final size:17
Alignment explanation
Indices: 229476--229529 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 17
229466 AAATTTTATA
229476 ATTTAACTAATATAATT
1 ATTTAACTAATATAATT
229493 ATTTAAACATAATAATAATT
1 ATTT-AAC-TAAT-ATAATT
* *
229513 ATTTTA-TAATATTATT
1 ATTTAACTAATATAATT
229529 A
1 A
229530 ATAATTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 6 0.19
17 8 0.25
18 3 0.09
19 5 0.16
20 10 0.31
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTAACTAATATAATT
Found at i:229574 original size:21 final size:22
Alignment explanation
Indices: 229526--229568 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
229516 TTATAATATT
*
229526 ATTAATAATTTAAGTATATTAA
1 ATTAATAATTTAACTATATTAA
*
229548 ATTAATAA-TTAACTATTTTAA
1 ATTAATAATTTAACTATATTAA
229569 TATAATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTAATAATTTAACTATATTAA
Found at i:230399 original size:16 final size:16
Alignment explanation
Indices: 230378--230408 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
230368 ATTTAATGTT
*
230378 ATATTAATATTAATTA
1 ATATTAAGATTAATTA
230394 ATATTAAGATTAATT
1 ATATTAAGATTAATT
230409 TAGTACAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTAAGATTAATTA
Found at i:230946 original size:23 final size:26
Alignment explanation
Indices: 230892--230947 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 26
230882 TATTTCAAAT
230892 AATTATTTATAATTAATACTATATAA
1 AATTATTTATAATTAATACTATATAA
230918 AA-TATTTAT-A-TAATAC-ATATAA
1 AATTATTTATAATTAATACTATATAA
230940 AATTATTT
1 AATTATTT
230948 TTATTAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.28
23 11 0.38
24 1 0.03
25 7 0.24
26 2 0.07
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
AATTATTTATAATTAATACTATATAA
Found at i:231083 original size:20 final size:19
Alignment explanation
Indices: 231060--231128 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
231050 TATAGTATCC
*
231060 AATTATATATTATATTTATT
1 AATTATATATTATATATA-T
231080 AATTATATTATTGA-ATATAT
1 AATTATA-TATT-ATATATAT
*
231100 AATTATATAATATATA-AT
1 AATTATATATTATATATAT
*
231118 AATTATTTATT
1 AATTATATATT
231129 TAAATAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 12 0.29
19 6 0.14
20 15 0.36
21 8 0.19
22 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (19 bp):
AATTATATATTATATATAT
Found at i:232656 original size:23 final size:27
Alignment explanation
Indices: 232630--232683 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
232620 TTAATTATAT
232630 TTTAATT-AAG-A-TAAT-ACCTTTAA
1 TTTAATTAAAGAATTAATAACCTTTAA
232653 TTT-ATTAAAGATATTAATAACCTTTAA
1 TTTAATTAAAGA-ATTAATAACCTTTAA
232680 TTTA
1 TTTA
232684 TCCAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
22 3 0.12
23 6 0.24
25 1 0.04
26 4 0.16
27 11 0.44
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (27 bp):
TTTAATTAAAGAATTAATAACCTTTAA
Found at i:232695 original size:27 final size:27
Alignment explanation
Indices: 232641--232699 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
232631 TTAATTAAGA
*
232641 TAAT-ACCTTTAATTTATTAAAGATAT
1 TAATAACCTTTAATTTATCAAAGATAT
*
232667 TAATAACCTTTAATTTATCCAA-ATAAT
1 TAATAACCTTTAATTTATCAAAGAT-AT
232694 TAATAA
1 TAATAA
232700 TATTAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (27 bp):
TAATAACCTTTAATTTATCAAAGATAT
Found at i:232842 original size:24 final size:23
Alignment explanation
Indices: 232814--232858 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
232804 TAATAATCAG
232814 TTAATTA-TAATTTATTATATTAAT
1 TTAATTATTAA-TTATT-TATTAAT
232838 TTAATTATTAATTATTTATTA
1 TTAATTATTAATTATTTATTA
232859 TACTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.25
24 12 0.60
25 3 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTAATTATTAATTATTTATTAAT
Found at i:232852 original size:31 final size:29
Alignment explanation
Indices: 232814--232879 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
232804 TAATAATCAG
*
232814 TTAATTATAATTTATTATATTAATTTAATTA
1 TTAATTAT-ATTTATTATACT-ATTTAATTA
*
232845 TTAA-T-TATTTATTATACTATTTATTTA
1 TTAATTATATTTATTATACTATTTAATTA
232872 TTAATTAT
1 TTAATTAT
232880 TACTATACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 12 0.39
28 12 0.39
29 2 0.06
30 1 0.03
31 4 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
TTAATTATATTTATTATACTATTTAATTA
Found at i:233017 original size:22 final size:22
Alignment explanation
Indices: 232989--233049 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
232979 TTATTATTTG
232989 TTTAATAATAATATATAAAATA
1 TTTAATAATAATATATAAAATA
*
233011 TTTAATAA-AATATTATTCAAATA
1 TTTAATAATAATA-TA-TAAAATA
* *
233034 TAT-ATAATATTATATA
1 TTTAATAATAATATATA
233050 TATAAGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
21 5 0.16
22 16 0.50
23 11 0.34
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTAATAATAATATATAAAATA
Found at i:233050 original size:14 final size:14
Alignment explanation
Indices: 233031--233085 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
233021 TATTATTCAA
233031 ATATATATAATATT
1 ATATATATAATATT
*
233045 ATATATATAAGATT
1 ATATATATAATATT
233059 -TATAATATAA-ATT
1 ATAT-ATATAATATT
*
233072 ATAATCTATAATAT
1 AT-ATATATAATAT
233086 ATAATAATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
13 6 0.17
14 25 0.71
15 4 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (14 bp):
ATATATATAATATT
Found at i:233081 original size:7 final size:7
Alignment explanation
Indices: 233033--233101 Score: 54
Period size: 7 Copynumber: 9.7 Consensus size: 7
233023 TTATTCAAAT
233033 ATATATA
1 ATATATA
233040 ATAT-TA
1 ATATATA
233046 TATATATAA
1 -ATATAT-A
*
233055 GATTTATA
1 -ATATATA
233063 ATATA-A
1 ATATATA
233069 AT-TATA
1 ATATATA
*
233075 ATCTATA
1 ATATATA
233082 ATATATA
1 ATATATA
*
233089 ATAATCTA
1 AT-ATATA
233097 ATATA
1 ATATA
233102 ATAAGGTAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
5 2 0.04
6 8 0.16
7 26 0.52
8 8 0.16
9 6 0.12
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (7 bp):
ATATATA
Found at i:233852 original size:20 final size:20
Alignment explanation
Indices: 233803--233853 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
233793 TTATCATTAA
233803 TAATAATTATTTAACTATAT
1 TAATAATTATTTAACTATAT
* *
233823 TATTATTTATTATAA-TA-ATT
1 TAATAATTATT-TAACTATA-T
233843 TAATAATTATT
1 TAATAATTATT
233854 GAAATATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATAATTATTTAACTATAT
Found at i:234395 original size:10 final size:10
Alignment explanation
Indices: 234380--234414 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
234370 TATAAATTTT
234380 TTATTAATAA
1 TTATTAATAA
234390 TTATTAAT-A
1 TTATTAATAA
234399 TT-TTAATAA
1 TTATTAATAA
234408 TTATTAA
1 TTATTAA
234415 AAAGTCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.22
9 6 0.26
10 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTATTAATAA
Found at i:234989 original size:23 final size:23
Alignment explanation
Indices: 234935--234989 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
234925 TAATATTTAT
*
234935 TAAATTAATAAATAATTTATTATTA
1 TAAATT-A-AAATAATTTATAATTA
*
234960 TAAATTAAAATAATTT-TAATTT
1 TAAATTAAAATAATTTATAATTA
234982 TAATATTA
1 TAA-ATTA
234990 TAATTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 7 0.26
23 13 0.48
24 1 0.04
25 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAATTAAAATAATTTATAATTA
Found at i:235020 original size:17 final size:17
Alignment explanation
Indices: 234952--235027 Score: 54
Period size: 17 Copynumber: 4.6 Consensus size: 17
234942 ATAAATAATT
234952 TATTATTATAAATTAA-AA
1 TATTATT-T-AATTAATAA
* *
234970 TAAT-TTTAATT-TTAA
1 TATTATTTAATTAATAA
*
234985 TATTA--TAATTTAATTA
1 TATTATTTAA-TTAATAA
*
235001 TATTGTTTAATTAATAA
1 TATTATTTAATTAATAA
235018 TATTATTTAA
1 TATTATTTAA
235028 ATTACTTATT
Statistics
Matches: 44, Mismatches: 8, Indels: 13
0.68 0.12 0.20
Matches are distributed among these distances:
14 3 0.07
15 11 0.25
16 7 0.16
17 17 0.39
18 6 0.14
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (17 bp):
TATTATTTAATTAATAA
Found at i:235043 original size:33 final size:30
Alignment explanation
Indices: 234981--235058 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
234971 AATTTTAATT
* *
234981 TTAATATTATAATTT-AATTATATTGTTTAA
1 TTAATAATAT-ATTTAAATTATATTATTTAA
235011 TTAATAATATTATTTAAATTACTTATTATTTAA
1 TTAATAATA-TATTTAAATTA--TATTATTTAA
*
235044 ATAA-AATA-ATTTAAA
1 TTAATAATATATTTAAA
235059 CAATTGTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 19 0.46
31 6 0.15
32 4 0.10
33 12 0.29
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TTAATAATATATTTAAATTATATTATTTAA
Found at i:235608 original size:14 final size:14
Alignment explanation
Indices: 235589--235615 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
235579 TAATTATAAC
235589 ATAATTAAATTATT
1 ATAATTAAATTATT
235603 ATAATTAAATTAT
1 ATAATTAAATTAT
235616 AATATGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATTAAATTATT
Found at i:235699 original size:21 final size:20
Alignment explanation
Indices: 235666--235704 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
235656 AGTATATTTA
235666 ATAATTAATTATAATAAACT
1 ATAATTAATTATAATAAACT
235686 ATAATTATATTATAATAAA
1 ATAATTA-ATTATAATAAA
235705 ATTAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAATTAATTATAATAAACT
Found at i:235718 original size:21 final size:21
Alignment explanation
Indices: 235663--235718 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
235653 ATTAGTATAT
* *
235663 TTAATAATTAATTATAATAAAC
1 TTAAT-ATAAATTATAATAAAA
*
235685 TATAAT-TATATTATAATAAAA
1 T-TAATATAAATTATAATAAAA
235706 TTAATATAAATTA
1 TTAATATAAATTA
235719 ATTATTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 4 0.14
21 19 0.68
22 1 0.04
23 4 0.14
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAATATAAATTATAATAAAA
Found at i:236239 original size:17 final size:17
Alignment explanation
Indices: 236212--236245 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
236202 ATATAATTAA
236212 TAAATTTAATTATTAATT
1 TAAATTTAATTA-TAATT
236230 TAAA-TTAATTATAATT
1 TAAATTTAATTATAATT
236246 ATTAATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATTTAATTATAATT
Found at i:236249 original size:13 final size:13
Alignment explanation
Indices: 236181--236252 Score: 57
Period size: 12 Copynumber: 5.8 Consensus size: 13
236171 TATAATTAAT
236181 ATTATATAATTATA
1 ATTAT-TAATTATA
*
236195 ATTGACT-A-TATA
1 ATT-ATTAATTATA
*
236207 ATTAATAAATT-TA
1 ATT-ATTAATTATA
236220 ATTATTAATT-TA
1 ATTATTAATTATA
236232 A--ATTAATTATA
1 ATTATTAATTATA
236243 ATTATTAATT
1 ATTATTAATT
236253 TAGCTAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
10 7 0.15
11 3 0.06
12 17 0.36
13 14 0.30
14 5 0.11
15 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (13 bp):
ATTATTAATTATA
Found at i:236461 original size:23 final size:21
Alignment explanation
Indices: 236414--236466 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
236404 TTAAGTTAAC
236414 TTAAAT-ATATAAATTTATAA
1 TTAAATAATATAAATTTATAA
* *
236434 GTAAATAATATTAGAATTTATAT
1 TTAAATAATA-TA-AATTTATAA
236457 TTAAAATAAT
1 TT-AAATAAT
236467 TGATATTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.19
21 3 0.12
22 2 0.08
23 9 0.35
24 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
TTAAATAATATAAATTTATAA
Found at i:236508 original size:15 final size:16
Alignment explanation
Indices: 236486--236525 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
236476 TTTATAATTA
236486 AACT-ATAATTATTT-
1 AACTAATAATTATTTG
*
236500 AACTAATAAGTATTTG
1 AACTAATAATTATTTG
236516 AA-TAATAATT
1 AACTAATAATT
236526 TTATATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 4 0.18
15 16 0.73
16 2 0.09
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (16 bp):
AACTAATAATTATTTG
Found at i:237119 original size:18 final size:18
Alignment explanation
Indices: 237102--237140 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
237092 TTTAACATAT
237102 TATAAATAAAAT-TAATA
1 TATAAATAAAATATAATA
*
237119 TATTAATAAAATATAAT-
1 TATAAATAAAATATAATA
237136 TATAA
1 TATAA
237141 CATTTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAAATAAAATATAATA
Found at i:237587 original size:25 final size:24
Alignment explanation
Indices: 237525--237592 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
237515 TAATTTATCA
* *
237525 TTAATTT-TATAATATTAATTAAT
1 TTAATTTATATTATAATAATTAAT
*
237548 TGTAAAATTAT-TTATAATAATTATAT
1 T-T-AATTTATATTATAATAATTA-AT
*
237574 TTAATTTATATTATTATAA
1 TTAATTTATATTATAATAA
237593 GATATTAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
23 1 0.03
24 7 0.20
25 23 0.66
26 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (24 bp):
TTAATTTATATTATAATAATTAAT
Found at i:237608 original size:48 final size:46
Alignment explanation
Indices: 237556--237665 Score: 109
Period size: 48 Copynumber: 2.4 Consensus size: 46
237546 ATTGTAAAAT
*
237556 TATTTATAATAATTATATT-TAATTTATATTATTATAAGATA-TTAGTAA
1 TATTTATAATAATTAT-TTAAAATTTATATTATTAT-A-ATAGTTA-TAA
* * * *
237604 TATTTATTATCACTATTTAAAATTTTTATTATTATAATAGTTATAA
1 TATTTATAATAATTATTTAAAATTTATATTATTATAATAGTTATAA
*
237650 TA-CTATAATAATTATT
1 TATTTATAATAATTATT
237666 CGAGTATATA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
45 10 0.20
46 8 0.16
47 6 0.12
48 27 0.53
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (46 bp):
TATTTATAATAATTATTTAAAATTTATATTATTATAATAGTTATAA
Found at i:237800 original size:18 final size:17
Alignment explanation
Indices: 237779--237812 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
237769 CATTTATTAA
*
237779 TATAATCTAATTTAATAG
1 TATAATC-AAATTAATAG
237797 TATAATCAAATTAATA
1 TATAATCAAATTAATA
237813 ATATGATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (17 bp):
TATAATCAAATTAATAG
Found at i:238071 original size:24 final size:22
Alignment explanation
Indices: 238044--238090 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
238034 ACTTACATAA
*
238044 ATTAATATATTAATAATAATATAT
1 ATTAATATA-TAATAAAAAT-TAT
*
238068 ATTAATTTATAATAAAAATTAT
1 ATTAATATATAATAAAAATTAT
238090 A
1 A
238091 AATAGTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 9 0.43
24 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTAATATATAATAAAAATTAT
Found at i:238140 original size:22 final size:22
Alignment explanation
Indices: 238096--238154 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
238086 TTATAAATAG
238096 TATATAATT-TATAGTTTAGTAAT
1 TATAT-ATTATATA-TTTAGTAAT
*
238119 TATATATTATATATTTATTAAT
1 TATATATTATATATTTAGTAAT
*
238141 AATA-ATTCATATAT
1 TATATATT-ATATAT
238155 ATTGTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 3 0.09
22 20 0.62
23 9 0.28
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (22 bp):
TATATATTATATATTTAGTAAT
Found at i:238239 original size:29 final size:29
Alignment explanation
Indices: 238197--238252 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
238187 TATAGTCTTA
*
238197 AATATTATATAAA-TCATACTTATTATAAT
1 AATATTATATAAATTAATA-TTATTATAAT
238226 AATA-TATAGTAAATTAATATTATTATA
1 AATATTATA-TAAATTAATATTATTATA
238253 CTATAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.17
29 16 0.67
30 4 0.17
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (29 bp):
AATATTATATAAATTAATATTATTATAAT
Found at i:238564 original size:16 final size:16
Alignment explanation
Indices: 238543--238586 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
238533 ATATTTTTTA
*
238543 AATATAAATATACTGT
1 AATATAAATATACTAT
238559 AATATAAATATACTAT
1 AATATAAATATACTAT
238575 AATATAAATATA
1 AATATAAATATA
238587 AATATTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (16 bp):
AATATAAATATACTAT
Found at i:238715 original size:15 final size:16
Alignment explanation
Indices: 238695--238760 Score: 61
Period size: 15 Copynumber: 4.3 Consensus size: 16
238685 TTTTATTAAC
238695 AATATA-TAAATAATT
1 AATATAGTAAATAATT
238710 AATATAGTAAAT-ATT
1 AATATAGTAAATAATT
* *
238725 -ATACTATTATATAATT
1 AATA-TAGTAAATAATT
238741 -ATAATA-TAAATAATT
1 AAT-ATAGTAAATAATT
238756 AATAT
1 AATAT
238761 TATTATTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 3 0.07
15 25 0.58
16 14 0.33
17 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
AATATAGTAAATAATT
Found at i:238784 original size:36 final size:36
Alignment explanation
Indices: 238719--238789 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
238709 TAATATAGTA
238719 AATATTATACTATTATATAATTATAATATAAATAATT
1 AATATTATA-TATTATATAATTATAATATAAATAATT
* *
238756 AATATTAT-TATTAATATAATTGTTATATAAATAA
1 AATATTATATATT-ATATAATTATAATATAAATAA
238790 ATAACTATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 4 0.13
36 19 0.61
37 8 0.26
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (36 bp):
AATATTATATATTATATAATTATAATATAAATAATT
Found at i:239126 original size:25 final size:24
Alignment explanation
Indices: 239078--239134 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
239068 TTATTAAGAG
239078 ATTAAAATAAATCTAATACATAATT
1 ATTAAAATAAATCTAATACATAA-T
* *
239103 ATTAAAATATAT-TAATAACTTAAT
1 ATTAAAATAAATCTAAT-ACATAAT
*
239127 ATCAAAAT
1 ATTAAAAT
239135 TTAAGTTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (24 bp):
ATTAAAATAAATCTAATACATAAT
Found at i:239253 original size:14 final size:13
Alignment explanation
Indices: 239234--239279 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
239224 ATTATATTCG
239234 ATAATTTAAATATT
1 ATAATTTAAATA-T
*
239248 ATAATTTATA-AT
1 ATAATTTAAATAT
239260 A-AATTATAAATAT
1 ATAATT-TAAATAT
239273 ATAATTT
1 ATAATTT
239280 TTAATAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 5 0.19
14 13 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAATTTAAATAT
Found at i:239275 original size:25 final size:25
Alignment explanation
Indices: 239234--239290 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
239224 ATTATATTCG
239234 ATAATT-TAAATATTATAATTTATA
1 ATAATTATAAATATTATAATTTATA
*
239258 ATAAATTATAAATA-TATAATTTTTA
1 AT-AATTATAAATATTATAATTTATA
239283 ATAATTAT
1 ATAATTAT
239291 TATTTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 8 0.27
25 16 0.53
26 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATAATTATAAATATTATAATTTATA
Found at i:240372 original size:21 final size:21
Alignment explanation
Indices: 240335--240377 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
240325 TTTGTATTTG
* *
240335 TTAATTAAATATTATATTTAT
1 TTAATTAAATATAATATATAT
240356 TTAATTATAA-ATAATATATAT
1 TTAATTA-AATATAATATATAT
240377 T
1 T
240378 GTTCAATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAATTAAATATAATATATAT
Found at i:240492 original size:32 final size:28
Alignment explanation
Indices: 240456--240521 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 28
240446 TCAATGAATT
240456 AATATTTAAAAATATTATAAAATCAATATTCA
1 AATATTTAAAAATATT-T-AAAT-AATATT-A
*
240488 AATATTTGAAAATATTTAAATAATATTA
1 AATATTTAAAAATATTTAAATAATATTA
240516 AATATT
1 AATATT
240522 AGTAAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
28 7 0.21
29 6 0.18
30 4 0.12
31 1 0.03
32 15 0.45
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (28 bp):
AATATTTAAAAATATTTAAATAATATTA
Found at i:240528 original size:29 final size:32
Alignment explanation
Indices: 240456--240529 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
240446 TCAATGAATT
240456 AATATTTA-AAAATATTATAAAATCAATATTCA
1 AATA-TTAGAAAATATTATAAAATCAATATTCA
*
240488 AATATTTGAAAATATT-T-AAAT-AATATT-A
1 AATATTAGAAAATATTATAAAATCAATATTCA
240516 AATATTAGTAAAAT
1 AATATTAG-AAAAT
240530 TAAACAAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
28 8 0.21
29 11 0.29
30 4 0.11
31 3 0.08
32 12 0.32
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (32 bp):
AATATTAGAAAATATTATAAAATCAATATTCA
Found at i:240650 original size:22 final size:22
Alignment explanation
Indices: 240608--240652 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
240598 TTAATTATTG
*
240608 TTATTAATTAATATTAGTTAAT
1 TTATTAATTAACATTAGTTAAT
*
240630 TTATTACTTAACATTTA-TTAAT
1 TTATTAATTAACA-TTAGTTAAT
240652 T
1 T
240653 AGTAAATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTAATTAACATTAGTTAAT
Found at i:240764 original size:32 final size:33
Alignment explanation
Indices: 240686--240765 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 33
240676 ATACTATTTG
*
240686 ATAATAATTTTAATTAATATTTTATTATTAAAAT
1 ATAA-AATATTAATTAATATTTTATTATTAAAAT
** * *
240720 ATTTAACA-TAATTAATATTTTA-TATTATAAT
1 ATAAAATATTAATTAATATTTTATTATTAAAAT
240751 ATAAAATATTAATTA
1 ATAAAATATTAATTA
240766 TGTTAAATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
31 13 0.35
32 20 0.54
33 2 0.05
34 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (33 bp):
ATAAAATATTAATTAATATTTTATTATTAAAAT
Found at i:240901 original size:20 final size:22
Alignment explanation
Indices: 240861--240901 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
240851 CCCATTTAAA
240861 TTTAATTATTATTAAAAATTAT
1 TTTAATTATTATTAAAAATTAT
*
240883 TTTAA-TATT-TTAAATATTA
1 TTTAATTATTATTAAAAATTA
240902 AATAAGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAATTATTATTAAAAATTAT
Found at i:241083 original size:18 final size:18
Alignment explanation
Indices: 241050--241088 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
241040 TCTTTAGAAT
*
241050 TTAATAATCATTTTATCA
1 TTAATAATCATATTATCA
* *
241068 TTAATAATGATATTATTA
1 TTAATAATCATATTATCA
241086 TTA
1 TTA
241089 TTATTATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (18 bp):
TTAATAATCATATTATCA
Found at i:241235 original size:22 final size:23
Alignment explanation
Indices: 241205--241248 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
241195 ATTTGTTATA
241205 TTAATATTAAATATTAT-TAAATT
1 TTAATATTAAAT-TTATATAAATT
241228 TTAA-ATTAAATTTATATAAAT
1 TTAATATTAAATTTATATAAAT
241249 AGAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATATTAAATTTATATAAATT
Found at i:241258 original size:14 final size:14
Alignment explanation
Indices: 241239--241265 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
241229 TAAATTAAAT
241239 TTATATAAATAGAA
1 TTATATAAATAGAA
241253 TTATATAAATAGA
1 TTATATAAATAGA
241266 TTTAAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (14 bp):
TTATATAAATAGAA
Found at i:241281 original size:10 final size:10
Alignment explanation
Indices: 241212--241299 Score: 54
Period size: 10 Copynumber: 8.2 Consensus size: 10
241202 ATATTAATAT
241212 TAAATATTAT-
1 TAAAT-TTATA
*
241222 TAAATTTTAAA
1 TAAA-TTTATA
241233 TTAAATTTATA
1 -TAAATTTATA
241244 TAAATAGAATTATA
1 TAAAT----TTATA
** *
241258 TAAATAGATT
1 TAAATTTATA
241268 TAAATTTATA
1 TAAATTTATA
241278 TAAATTTA-A
1 TAAATTTATA
241287 TAATATTTATA
1 TAA-ATTTATA
241298 TA
1 TA
241300 TTGTTTAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
9 4 0.07
10 34 0.56
11 9 0.15
12 4 0.07
14 10 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (10 bp):
TAAATTTATA
Found at i:241834 original size:29 final size:28
Alignment explanation
Indices: 241792--241847 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
241782 AATTAATACT
* *
241792 TTATAGTATTTTAAATAACTTATAAATAG
1 TTATAATAATTTAAATAA-TTATAAATAG
*
241821 TTATAATAATTTAAATTATTATAAATA
1 TTATAATAATTTAAATAATTATAAATA
241848 TTAATATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (28 bp):
TTATAATAATTTAAATAATTATAAATAG
Found at i:242153 original size:16 final size:16
Alignment explanation
Indices: 242056--242162 Score: 87
Period size: 16 Copynumber: 6.5 Consensus size: 16
242046 ATATAGATAT
*
242056 TAAATA-TAATTATTT
1 TAAATATTAATTATTA
*
242071 TAAAATATTATCTTAATTA
1 T-AAATATTA-ATT-ATTA
*
242090 TAAAATATTAATT-TAA
1 T-AAATATTAATTATTA
242106 TAAATTATTATATTATTA
1 TAAA-TATTA-ATTATTA
242124 T-AATAATTAA-TATTA
1 TAAAT-ATTAATTATTA
*
242139 TAAATAGTAATTATTA
1 TAAATATTAATTATTA
242155 TAAATATT
1 TAAATATT
242163 TTATAATCTT
Statistics
Matches: 75, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.19
16 30 0.40
17 11 0.15
18 7 0.09
19 13 0.17
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (16 bp):
TAAATATTAATTATTA
Found at i:242309 original size:21 final size:20
Alignment explanation
Indices: 242234--242311 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 20
242224 AATACTGATT
*
242234 TAATATTGAATAATATTATTA
1 TAATATT-AATAATATTAATA
*
242255 TAATAATTAGATAAATTTTATTATAA
1 TAAT-ATTA-AT-AATATTA--AT-A
*
242281 TGATATTAATATATATTAATA
1 TAATATTAATA-ATATTAATA
242302 TAATATTAAT
1 TAATATTAAT
242312 TTAATTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
21 15 0.33
22 7 0.16
23 7 0.16
24 7 0.16
25 5 0.11
26 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
TAATATTAATAATATTAATA
Found at i:242310 original size:11 final size:11
Alignment explanation
Indices: 242219--242316 Score: 58
Period size: 11 Copynumber: 8.7 Consensus size: 11
242209 ATTATATTTA
*
242219 AATATAATACT
1 AATATAATATT
* *
242230 GATTTAATATT
1 AATATAATATT
*
242241 GA-ATAATATT
1 AATATAATATT
*
242251 ATTATAATAATT
1 AATATAAT-ATT
*
242263 AGATA-AATTTT
1 A-ATATAATATT
*
242274 ATTATAATGATATT
1 A--AT-ATAATATT
242288 AATAT-ATATT
1 AATATAATATT
242298 AATATAATATT
1 AATATAATATT
*
242309 AATTTAAT
1 AATATAAT
242317 TTTATATTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
10 17 0.25
11 32 0.47
12 11 0.16
13 3 0.04
14 5 0.07
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (11 bp):
AATATAATATT
Found at i:242315 original size:16 final size:16
Alignment explanation
Indices: 242296--242330 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
242286 TTAATATATA
242296 TTAATATAATATTAAT
1 TTAATATAATATTAAT
* *
242312 TTAATTTTATATTAAT
1 TTAATATAATATTAAT
242328 TTA
1 TTA
242331 TAAGAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAATATAATATTAAT
Found at i:243017 original size:145 final size:145
Alignment explanation
Indices: 242839--243110 Score: 417
Period size: 145 Copynumber: 1.9 Consensus size: 145
242829 TATTATCTAT
* * * *
242839 TTCAAATTGTTATGACATTTGTTTTGTCCTAAAA-CAATTGTTTTTATTCAAACAAGCTTATTCT
1 TTCAAATAGTTATGACATTTGTTTTGTCATAAAACCAATTGTTTCTATT-AAACAAGCATATT-T
242903 G-AATAAAATAATA-TAAATTTATTAATATTTCAAAAATTAATAAGT-AAAAATTTAAAAAATAA
64 GAAATAAAATAATACT-AATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTAAAAAATAA
242965 ATATGTTTTCTGAACATG
128 ATATGTTTTCTGAACATG
* *
242983 TTCAAATAGTTATGACCCTTTGTTTTGTCATAAAACCAATTGTTTCTATTATACAAGCATATTTG
1 TTCAAATAGTTATGA-CATTTGTTTTGTCATAAAACCAATTGTTTCTATTAAACAAGCATATTTG
*
243048 AAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAA
65 AAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTAAAAAATAA
243111 GTCTGTTTAT
Statistics
Matches: 116, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
144 16 0.14
145 70 0.60
146 30 0.26
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (145 bp):
TTCAAATAGTTATGACATTTGTTTTGTCATAAAACCAATTGTTTCTATTAAACAAGCATATTTGA
AATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTAAAAAATAAATA
TGTTTTCTGAACATG
Found at i:243133 original size:145 final size:144
Alignment explanation
Indices: 242840--243142 Score: 400
Period size: 145 Copynumber: 2.1 Consensus size: 144
242830 ATTATCTATT
* * * *
242840 TCAAATTGTTATGACATTTGTTTTGTCCTAAAACAATTGTTTTTATTCAAACAAGCTTATTCTGA
1 TCAAATAGTTATGACATTTGTTTTGTCATAAAACAATTGTTTCTATTCAAACAAGCATATTCTGA
242905 ATAAAATAATATAAATTTATTAATATTTCAAAAATTAATAAGTAAAAATTTAAAAAATAAATATG
66 ATAAAATAATATAAATTTATTAATATTTCAAAAATTAATAAGTAAAAATTTAAAAAATAAATATG
**
242970 TTTTCTGAACATGT
131 TTTTCTGAACATAA
* *
242984 TCAAATAGTTATGACCCTTTGTTTTGTCATAAAACCAATTGTTTCTATT-ATACAAGCATATT-T
1 TCAAATAGTTATGA-CATTTGTTTTGTCATAAAA-CAATTGTTTCTATTCAAACAAGCATATTCT
*
243047 GAAATAAAATAATACT-AATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAA
64 G-AATAAAATAATA-TAAATTTATTAATATTTCAAAAATTAATAAGT-AAAAATTTAAAAAATAA
* * *
243111 GTCTGTTTAT-TGATC-TAA
126 ATATGTTT-TCTGAACATAA
*
243129 TCAAATCGTTATGA
1 TCAAATAGTTATGA
243143 TTGTTTGAAC
Statistics
Matches: 140, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
144 15 0.11
145 84 0.60
146 40 0.29
147 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (144 bp):
TCAAATAGTTATGACATTTGTTTTGTCATAAAACAATTGTTTCTATTCAAACAAGCATATTCTGA
ATAAAATAATATAAATTTATTAATATTTCAAAAATTAATAAGTAAAAATTTAAAAAATAAATATG
TTTTCTGAACATAA
Found at i:243289 original size:180 final size:175
Alignment explanation
Indices: 242983--243650 Score: 603
Period size: 180 Copynumber: 3.7 Consensus size: 175
242973 TCTGAACATG
* *
242983 TTCAAATAGTTATGACCCTTTGTTTTGTCATAAAACCAATTGTTTCTATT-ATACAAGCATATT-
1 TTCAAATAGTTATGACCTTTTGTTTTGTCATAAAA-CAATTGTTTCTATTCATACAAGCTTATTC
* * * * *
243046 TGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAA
65 AG-AATAAAATAATACTAA-TTATTAATATTT-AAAAATT-AT-TGT-AGAGATTTAAAAAATAA
* * * ** * * *
243111 GTCTGTTTATTGATCTAATCAAATCGTTATGATTGTTTGAACAATTTTTTAT
124 ATCTATTTACTGAAATAATCAAATAGTTATGATTATTTGAACAATTATTTAT
* * * * **
243163 TTCAAATAGTTATGATCTTTTGTTTTGTCCTAAAACAATTGTTTCTATTCACACAAGTTTATTTG
1 TTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCA
* *
243228 GAATAAAATAATACTAATTGATTAATACTTTGAAAGTTAGTTGGTAGCAGATTTAAAAAATAAAT
66 GAATAAAATAATACTAATT-ATTAATA-TTTAAAAATTA-TT-GTAG-AGATTTAAAAAATAAAT
* * **
243293 CTATTTACT-AAATAAGTCCAAATAGTCATG-TCCATTTGAACAATTATCCAT
126 CTATTTACTGAAATAA-T-CAAATAGTTATGAT-TATTTGAACAATTATTTAT
* * * **
243344 TTCAAATAGTTATGACCTTTT-TTTTGTCATGAAACAATTGTTTCTATTCGTGCAAAATTATTCA
1 TTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCA
* * * * *
243408 GAATAAAATAATACTGATCTATTAATATTTTAAAAATTAAT-AAGAGATTTAAAAACTAAATTTA
66 GAATAAAATAATACTAAT-TATTAATA-TTTAAAAATTATTGTAGAGATTTAAAAAATAAATCTA
* * *
243472 TTTACCGAAATAGTTCAAATAGTTATGACTATTTGAACAATTATTTAT
129 TTTACTGAAATA-ATCAAATAGTTATGATTATTTGAACAATTATTTAT
* * * * * *
243520 ATCAAATTGTTATGATC-TTTATTTTGTCATAAAACAATTGTTTCTTTTCATATAAGCTTATTCA
1 TTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCA
* * * * *
243584 TATTAAAATAATACTAATTTAATAATATATTCCAAAAATTAGTAAGAAAGAGATTTAAAAAATAA
66 GAATAAAATAATACTAA-TTATTAATAT-TT--AAAAATTA-T-TG-TAGAGATTTAAAAAATAA
243649 AT
124 AT
243651 TGTTTGTTGA
Statistics
Matches: 398, Mismatches: 67, Indels: 44
0.78 0.13 0.09
Matches are distributed among these distances:
175 4 0.01
176 123 0.31
177 9 0.02
178 8 0.02
179 23 0.06
180 163 0.41
181 49 0.12
182 19 0.05
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (175 bp):
TTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCA
GAATAAAATAATACTAATTATTAATATTTAAAAATTATTGTAGAGATTTAAAAAATAAATCTATT
TACTGAAATAATCAAATAGTTATGATTATTTGAACAATTATTTAT
Found at i:243782 original size:12 final size:14
Alignment explanation
Indices: 243749--243787 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
243739 ATAATCTTTA
243749 ATAATTATATTATT
1 ATAATTATATTATT
243763 ATAATTATATT-TT
1 ATAATTATATTATT
243776 A-AATTATATTAT
1 ATAATTATATTAT
243788 ATTATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.38
13 4 0.17
14 11 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATAATTATATTATT
Done.