Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008000.1 Hibiscus syriacus cultivar Beakdansim tig00110457_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1646480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:10151 original size:22 final size:22
Alignment explanation
Indices: 10124--10174 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
10114 TATAAAATAG
10124 ATTTATTTATTTTATTAAAAAC
1 ATTTATTTATTTTATTAAAAAC
* * *
10146 ATTTATTTCTTTTATTAAAGAG
1 ATTTATTTATTTTATTAAAAAC
10168 ATTTATT
1 ATTTATT
10175 ACCTCTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (22 bp):
ATTTATTTATTTTATTAAAAAC
Found at i:10208 original size:27 final size:26
Alignment explanation
Indices: 10153--10213 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
10143 AACATTTATT
* *
10153 TCTTTTA-TTAAAGAGATTTATTACC
1 TCTTTTATTTAAAGAGATTTAATACA
* *
10178 TCTTTTATTTAATAGATATTTAATAGA
1 TCTTTTATTTAA-AGAGATTTAATACA
10205 TCTTTTATT
1 TCTTTTATT
10214 AGAATTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 7 0.23
26 4 0.13
27 19 0.63
ACGTcount: A:0.31, C:0.08, G:0.07, T:0.54
Consensus pattern (26 bp):
TCTTTTATTTAAAGAGATTTAATACA
Found at i:13991 original size:28 final size:28
Alignment explanation
Indices: 13945--14059 Score: 203
Period size: 28 Copynumber: 4.1 Consensus size: 28
13935 CAGGTCTGAA
* * *
13945 CACGATAAGACACACCCATAAATATGCT
1 CACGATAAGAAACAACCATAAATACGCT
13973 CACGATAAGAAACAACCATAAATACGCT
1 CACGATAAGAAACAACCATAAATACGCT
14001 CACGATAAGAAACAACCATAAATACGCT
1 CACGATAAGAAACAACCATAAATACGCT
14029 CACGATAAGAAACAACCATAAATACGCT
1 CACGATAAGAAACAACCATAAATACGCT
14057 CAC
1 CAC
14060 AAAAATTGTG
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 84 1.00
ACGTcount: A:0.48, C:0.27, G:0.10, T:0.15
Consensus pattern (28 bp):
CACGATAAGAAACAACCATAAATACGCT
Found at i:14990 original size:28 final size:30
Alignment explanation
Indices: 14928--14995 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 30
14918 TGTGATAGTT
14928 TAATTAT-ATTTTAGTACCTTTTCGGTTTTA
1 TAATTATAATTTTAG-ACCTTTTCGGTTTTA
* * *
14958 AAATTATAATTTTA-A-CTTTTGGGTTTTC
1 TAATTATAATTTTAGACCTTTTCGGTTTTA
14986 TAATT-TAATT
1 TAATTATAATT
14996 ATTTTTCAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
27 5 0.15
28 15 0.45
29 1 0.03
30 6 0.18
31 6 0.18
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (30 bp):
TAATTATAATTTTAGACCTTTTCGGTTTTA
Found at i:21182 original size:32 final size:29
Alignment explanation
Indices: 21102--21182 Score: 83
Period size: 32 Copynumber: 2.6 Consensus size: 29
21092 GAGATGGTTG
21102 GGCATGTGCTTTCGTTTTATGGTTGTCTAGA
1 GGCATGTGCTTT--TTTTATGGTTGTCTAGA
21133 GGCCTATGT-CTTGTTTTTAATGGTTTTGTCTAGA
1 GG-C-ATGTGCTT-TTTTT-ATGG--TTGTCTAGA
21167 GGCATGTGCTTTTTTT
1 GGCATGTGCTTTTTTT
21183 TTTGTTGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
31 6 0.14
32 17 0.40
33 9 0.21
34 11 0.26
ACGTcount: A:0.12, C:0.12, G:0.26, T:0.49
Consensus pattern (29 bp):
GGCATGTGCTTTTTTTATGGTTGTCTAGA
Found at i:43608 original size:16 final size:17
Alignment explanation
Indices: 43587--43638 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
43577 TTTTTAATTT
43587 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
43603 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
43618 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
43635 AATT
1 AATT
43639 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:51598 original size:24 final size:25
Alignment explanation
Indices: 51556--51604 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
51546 GAATCCTACC
51556 GTGCATCGATGCATCCCTTA-ACAT
1 GTGCATCGATGCATCCCTTATACAT
51580 GTGCATCGATGCA-CTCCTTATACAT
1 GTGCATCGATGCATC-CCTTATACAT
51605 CGATGCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.04
24 18 0.78
25 4 0.17
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (25 bp):
GTGCATCGATGCATCCCTTATACAT
Found at i:51668 original size:19 final size:19
Alignment explanation
Indices: 51644--51696 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
51634 TTTTTAATGG
*
51644 GTGCATCGATGCACTTCAT
1 GTGCATCGATACACTTCAT
*
51663 GTGCATCGATACACTTCCT
1 GTGCATCGATACACTTCAT
51682 GTGCATCGATACACT
1 GTGCATCGATACACT
51697 CTGAACAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (19 bp):
GTGCATCGATACACTTCAT
Found at i:57372 original size:2 final size:2
Alignment explanation
Indices: 57337--57364 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
57327 AAAAATATGA
57337 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57365 TGTATATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60163 original size:76 final size:77
Alignment explanation
Indices: 59992--60190 Score: 276
Period size: 76 Copynumber: 2.6 Consensus size: 77
59982 ACGGTTGAAA
* *
59992 CTAAAAATATCATGGTTCACTAAGAAATAGATTACGATTTGGAATGTTAATATTTTTATTAATAA
1 CTAAGAATATCATGGTTCACTAAGAAATAGATTACGATCTGGAATGTTAATATTTTTATTAATAA
60057 AATGAGTTGCGC
66 AATGAGTTGCGC
* * * ** *
60069 CTAAGAATGTCATTGTTCACTAAGAAATAGGTTGTGATCTGGAATGTTTATA-TTTTATTAATAA
1 CTAAGAATATCATGGTTCACTAAGAAATAGATTACGATCTGGAATGTTAATATTTTTATTAATAA
*
60133 CATGAGTTGCGC
66 AATGAGTTGCGC
* *
60145 CTAAGAATATCATGGTTCACTAAGAAATA-AGTTACAATCTTGAATG
1 CTAAGAATATCATGGTTCACTAAGAAATAGA-TTACGATCTGGAATG
60191 AGTTGTGTCC
Statistics
Matches: 105, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
76 61 0.58
77 44 0.42
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.36
Consensus pattern (77 bp):
CTAAGAATATCATGGTTCACTAAGAAATAGATTACGATCTGGAATGTTAATATTTTTATTAATAA
AATGAGTTGCGC
Found at i:60247 original size:54 final size:53
Alignment explanation
Indices: 60134--60255 Score: 138
Period size: 54 Copynumber: 2.3 Consensus size: 53
60124 TATTAATAAC
* *
60134 ATGAGTTGCGCCTAAGAATATCATGGTTCACTAAGAAATAAGTTACAATCTTGA
1 ATGAGTTGTGCC-AAGAATATCATGGTTCACTAAGAAATAAGTTACAATCATGA
* * * ***
60188 ATGAGTTGTGTCCAAGAATATCATGTTTCATTAAGAAATAGGTTGTGAT-ATGA
1 ATGAGTTGTG-CCAAGAATATCATGGTTCACTAAGAAATAAGTTACAATCATGA
60241 AGTGAGTTGTGCCAA
1 A-TGAGTTGTGCCAA
60256 AAAAATGTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.14
54 48 0.83
55 2 0.03
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.32
Consensus pattern (53 bp):
ATGAGTTGTGCCAAGAATATCATGGTTCACTAAGAAATAAGTTACAATCATGA
Found at i:60284 original size:22 final size:22
Alignment explanation
Indices: 60243--60311 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
60233 TGATATGAAG
60243 TGAGTTGTGC-CAAAAAAATGTCA
1 TGAGTTGTGCTC--AAAAATGTCA
60266 TGAGTTGTGCTCAAAAATGTCA
1 TGAGTTGTGCTCAAAAATGTCA
* *
60288 TGAGTTTTGCTCAAGAATGTCA
1 TGAGTTGTGCTCAAAAATGTCA
60310 TG
1 TG
60312 TTTCATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
22 32 0.74
23 10 0.23
24 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (22 bp):
TGAGTTGTGCTCAAAAATGTCA
Found at i:62220 original size:30 final size:30
Alignment explanation
Indices: 62186--62251 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
62176 GTAGTCAAAT
62186 AAGCCCTTAATCTATTATTTATACCCAGAA
1 AAGCCCTTAATCTATTATTTATACCCAGAA
62216 AAGCCCTTAATCTATTATTTATACCCAGAA
1 AAGCCCTTAATCTATTATTTATACCCAGAA
62246 AAGCCC
1 AAGCCC
62252 CTTCTTATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (30 bp):
AAGCCCTTAATCTATTATTTATACCCAGAA
Found at i:62999 original size:26 final size:30
Alignment explanation
Indices: 62925--63000 Score: 74
Period size: 32 Copynumber: 2.7 Consensus size: 30
62915 TGAGATTAAA
*
62925 ATATATATTAT-A-TTTATTATTATATACT
1 ATATATAGTATCATTTTATTATTATATACT
*
62953 ATACTATAGTATGATTATTATTATTAT-TACT
1 ATA-TATAGTATCATT-TTATTATTATATACT
62984 AT-TA-A-TATCATTTTATT
1 ATATATAGTATCATTTTATT
63001 TATATTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
26 5 0.12
27 6 0.14
28 4 0.10
29 9 0.21
30 1 0.02
31 7 0.17
32 10 0.24
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
ATATATAGTATCATTTTATTATTATATACT
Found at i:64197 original size:2 final size:2
Alignment explanation
Indices: 64190--64226 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
64180 GTTGGATTAG
64190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64227 TTAAAATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:64657 original size:68 final size:68
Alignment explanation
Indices: 64575--64711 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
64565 AAATAAATGC
* *
64575 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTA
1 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTCAAATAATCATTTATTTTATTTA
64640 ATT
66 ATT
64643 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTCAAATAATCATTTATTTTATTTA
1 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTCAAATAATCATTTATTTTATTTA
64708 ATT
66 ATT
64711 A
1 A
64712 GTTTTTGTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (68 bp):
ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTCAAATAATCATTTATTTTATTTA
ATT
Found at i:65097 original size:17 final size:18
Alignment explanation
Indices: 65071--65110 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
65061 CGCAGACCAA
65071 TTTTTGTCTTAAAAAATG
1 TTTTTGTCTTAAAAAATG
*
65089 TTTTT-TCTTAAAAATTG
1 TTTTTGTCTTAAAAAATG
65106 TTTTT
1 TTTTT
65111 AAAAGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTTGTCTTAAAAAATG
Found at i:76236 original size:8 final size:8
Alignment explanation
Indices: 76204--76279 Score: 70
Period size: 8 Copynumber: 9.5 Consensus size: 8
76194 TGCTTGAAGA
*
76204 AAAAAAGG
1 AAAAAATG
*
76212 AACAAAT-
1 AAAAAATG
76219 AAAAAGATG
1 AAAAA-ATG
76228 AAAAAATG
1 AAAAAATG
76236 AAAAAAATG
1 -AAAAAATG
76245 AAAAAAAATG
1 --AAAAAATG
76255 AAAAAATG
1 AAAAAATG
76263 ---AAATG
1 AAAAAATG
76268 AAAAAATG
1 AAAAAATG
76276 AAAA
1 AAAA
76280 GAAAAAAAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
5 5 0.09
7 4 0.07
8 27 0.47
9 13 0.22
10 9 0.16
ACGTcount: A:0.75, C:0.01, G:0.13, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:76241 original size:10 final size:10
Alignment explanation
Indices: 76228--76260 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
76218 TAAAAAGATG
76228 AAAAAATG-A
1 AAAAAATGAA
76237 AAAAAATGAA
1 AAAAAATGAA
76247 AAAAAATGAA
1 AAAAAATGAA
76257 AAAA
1 AAAA
76261 TGAAATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:76250 original size:19 final size:21
Alignment explanation
Indices: 76227--76279 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 21
76217 ATAAAAAGAT
76227 GAAAAAATGAAAAAAATG-AA
1 GAAAAAATGAAAAAAATGAAA
76247 -AAAAAATG-AAAAAATGAAA
1 GAAAAAATGAAAAAAATGAAA
76266 TGAAAAAATGAAAA
1 -GAAAAAATGAAAA
76280 GAAAAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.28
19 10 0.34
21 8 0.28
22 3 0.10
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.11
Consensus pattern (21 bp):
GAAAAAATGAAAAAAATGAAA
Found at i:76266 original size:13 final size:13
Alignment explanation
Indices: 76250--76286 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
76240 AAATGAAAAA
76250 AAATGAAAAAATG
1 AAATGAAAAAATG
76263 AAATGAAAAAATG
1 AAATGAAAAAATG
*
76276 AAAAGAAAAAA
1 AAATGAAAAAA
76287 AAGGAGGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.11
Consensus pattern (13 bp):
AAATGAAAAAATG
Found at i:76287 original size:14 final size:13
Alignment explanation
Indices: 76227--76286 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
76217 ATAAAAAGAT
76227 GAAAAAATGAAAA
1 GAAAAAATGAAAA
*
76240 -AAATGAAA-AAAAA
1 GAAA--AAATGAAAA
*
76253 TGAAAAAATGAAAT
1 -GAAAAAATGAAAA
76267 GAAAAAATGAAAA
1 GAAAAAATGAAAA
76280 GAAAAAA
1 GAAAAAA
76287 AAGGAGGGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
12 3 0.08
13 26 0.68
14 6 0.16
15 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (13 bp):
GAAAAAATGAAAA
Found at i:77406 original size:136 final size:136
Alignment explanation
Indices: 77161--77903 Score: 1024
Period size: 136 Copynumber: 5.5 Consensus size: 136
77151 GGTGAACCAA
* * *
77161 CATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCC-AACAGAGGGAGAACAAGTTCATAAT
1 CATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGAA-AGAGGGAGAAGAAGTTCATAAT
*
77225 GAGAAGAGCTTGTTCGACCTATCACTCGATTCATGGCATTTCGAATCAGTGATACCTCGCTTGAG
65 GAGAAGAGCTTGTTCGACCTATCACTCGATTCATGGCATTTCGAATCAGTGACACCTCGCTTGAG
77290 GGATCAG
130 GGATCAG
* * *
77297 TATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGTGGGAGAAGAAGTTCATAATG
1 CATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATG
* * *
77362 AGAAGAGCTTGTTCGACCTATCACTCGATTCACGGTATTTCGAATCAGTGGCACCTCGCTTGAGG
66 AGAAGAGCTTGTTCGACCTATCACTCGATTCATGGCATTTCGAATCAGTGACACCTCGCTTGAGG
*
77427 GATCAA
131 GATCAG
* *
77433 CATTTCCAGTGAAGAGTTTATAATGAGAAGAACTCATCC-AACAGAGGGAGAAGAAGTTCATAAT
1 CATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGAA-AGAGGGAGAAGAAGTTCATAAT
* * * * * *
77497 GAGAAGAGCTTGTTCGTCCTATCACTCGATTCACGACATTTTGAATCAGTGGCACCTAGCTTGAG
65 GAGAAGAGCTTGTTCGACCTATCACTCGATTCATGGCATTTCGAATCAGTGACACCTCGCTTGAG
*
77562 GGATCAA
130 GGATCAG
* * * *
77569 CATTTCCAGTGAAGAGTTCATAATGAGAATAACTCATTCGACAGAGGGAGAA-AAGTTCATAATG
1 CATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATG
*
77633 AGAAGAGCTTGTTCGACCTATCACTCGATTCATGGCATTTCGAATCAGTGATACCTCGCTTGAGG
66 AGAAGAGCTTGTTCGACCTATCACTCGATTCATGGCATTTCGAATCAGTGACACCTCGCTTGAGG
77698 GATCAG
131 GATCAG
* * * * * *
77704 TATTTCCAATGGAGAGTTCATAATGAGAAGAACACATTCGATAGAGAGAGAAGAAGTTCATAATG
1 CATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATG
* * *
77769 AGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTTGAATCAGTGACGCCTCG-TTAGAG
66 AGAAGAGCTTGTTCGACCTATCACTCGATTCATGGCATTTCGAATCAGTGACACCTCGCTT-GAG
*
77833 GGAT-TG
130 GGATCAG
* **
77839 ACATTTCCAA--AAGAGTTCATAATGAGAAGAACTCGT-CTTAA-A-GGAG-A-AAGTTCATAAT
1 -CATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAAT
77897 GAGAAGA
65 GAGAAGA
77904 ACTTTTTCCT
Statistics
Matches: 550, Mismatches: 51, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
129 18 0.03
130 1 0.00
131 3 0.01
132 1 0.00
133 2 0.00
134 23 0.04
135 125 0.23
136 374 0.68
137 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (136 bp):
CATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATG
AGAAGAGCTTGTTCGACCTATCACTCGATTCATGGCATTTCGAATCAGTGACACCTCGCTTGAGG
GATCAG
Found at i:77757 original size:271 final size:269
Alignment explanation
Indices: 77158--77903 Score: 1072
Period size: 271 Copynumber: 2.8 Consensus size: 269
77148 GGAGGTGAAC
* *
77158 CAACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCAACAGAGGGAGAACAAGTTCATA
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGGAGAAGAAGTTCATA
* * *
77223 ATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGGCATTTCGAATCAGTGATACCTCGCTTG
66 ATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTTGAATCAGTGACACCTCGCTTG
** * * *
77288 AGGGATCAGTATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGTGGGAGAAGAAG
131 AGGGATCAACATTTCC-ATGAAGAGTTCATAATGAGAAGAACTCATTCG-AAGAGGGAGAA-AAG
* *
77353 TTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGTATTTCGAATCAGTGGCACCT
193 TTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCT
77418 CGCTTGAGGGAT
258 CGCTTGAGGGAT
* * *
77430 CAACATTTCCAGTGAAGAGTTTATAATGAGAAGAACTCATCCAACAGAGGGAGAAGAAGTTCATA
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGGAGAAGAAGTTCATA
* * * *
77495 ATGAGAAGAGCTTGTTCGTCCTATCACTCGATTCACGACATTTTGAATCAGTGGCACCTAGCTTG
66 ATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTTGAATCAGTGACACCTCGCTTG
*
77560 AGGGATCAACATTTCCAGTGAAGAGTTCATAATGAGAATAACTCATTCGACAGAGGGAGAAAAGT
131 AGGGATCAACATTTCCA-TGAAGAGTTCATAATGAGAAGAACTCATTCGA-AGAGGGAGAAAAGT
* *
77625 TCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGGCATTTCGAATCAGTGATACCTC
194 TCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTC
77690 GCTTGAGGGAT
259 GCTTGAGGGAT
** * * * * *
77701 CAGTATTTCCAATGGAGAGTTCATAATGAGAAGAACACATTCGATAGAGAGAGAAGAAGTTCATA
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGGAGAAGAAGTTCATA
*
77766 ATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTTGAATCAGTGACGCCTCG-TTA
66 ATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTTGAATCAGTGACACCTCGCTT-
** * * *
77830 GAGGGATTGACATTTCCA-AAAGAGTTCATAATGAGAAGAACTC-GTCTTAA-A-GGAG-AAAGT
130 GAGGGATCAACATTTCCATGAAGAGTTCATAATGAGAAGAACTCATTC-GAAGAGGGAGAAAAGT
77890 TCATAATGAGAAGA
194 TCATAATGAGAAGA
77904 ACTTTTTCCT
Statistics
Matches: 427, Mismatches: 43, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
265 19 0.04
266 4 0.01
267 1 0.00
268 3 0.01
269 24 0.06
270 2 0.00
271 205 0.48
272 169 0.40
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (269 bp):
CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACAGAGGGAGAAGAAGTTCATA
ATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTTGAATCAGTGACACCTCGCTTG
AGGGATCAACATTTCCATGAAGAGTTCATAATGAGAAGAACTCATTCGAAGAGGGAGAAAAGTTC
ATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGACACCTCGC
TTGAGGGAT
Found at i:79878 original size:68 final size:68
Alignment explanation
Indices: 79796--79932 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
79786 AAATAAATGC
79796 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTA
1 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTA
79861 ATT
66 ATT
*
79864 ATATAATTTTTGTATTAGAATGTTATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTA
1 ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTA
79929 ATT
66 ATT
79932 A
1 A
79933 ATTTTTGTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.52
Consensus pattern (68 bp):
ATATAATTTTTGTATTAGAATGTCATGGTAATTTTCATGAGTTAAATAATCATTTGTTTTATTTA
ATT
Found at i:80325 original size:17 final size:17
Alignment explanation
Indices: 80287--80325 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
80277 CGCAGACCAA
80287 TTTTTGTCTTAAAAATG
1 TTTTTGTCTTAAAAATG
*
80304 ATTTT-TCTTAAAAATTG
1 TTTTTGTCTTAAAAA-TG
80321 TTTTT
1 TTTTT
80326 AAAAGACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (17 bp):
TTTTTGTCTTAAAAATG
Found at i:85150 original size:10 final size:10
Alignment explanation
Indices: 85135--85159 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
85125 TCACAAAATT
85135 CAAAAAACTC
1 CAAAAAACTC
85145 CAAAAAACTC
1 CAAAAAACTC
85155 CAAAA
1 CAAAA
85160 TACTTTCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.28, G:0.00, T:0.08
Consensus pattern (10 bp):
CAAAAAACTC
Found at i:88263 original size:19 final size:20
Alignment explanation
Indices: 88239--88282 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
88229 ATCATCCAAT
88239 TTTTTAAA-CCCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
*
88258 TTTTTAAACCCCATACCGGA
1 TTTTTAAACCCCAGACCGGA
88278 TTTTT
1 TTTTT
88283 TTCCGGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCGGA
Found at i:91349 original size:42 final size:42
Alignment explanation
Indices: 91286--91404 Score: 211
Period size: 42 Copynumber: 2.8 Consensus size: 42
91276 TTCCCCGAAA
*
91286 TCCCGTGTTTGTTTCATGTAATTCATTTTCCGGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
*
91328 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
*
91370 TCCCGTGTTTATTTCACGTAATTCATTTTCCGGAA
1 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAA
91405 TGTAATTCAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.45
Consensus pattern (42 bp):
TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
Found at i:91620 original size:21 final size:23
Alignment explanation
Indices: 91577--91627 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
91567 CATTTTCATC
91577 AAAATATTATTTATTAAAATATTT
1 AAAATATTATTTATT-AAATATTT
91601 AAAATA-TATTTATT-AATATTT
1 AAAATATTATTTATTAAATATTT
*
91622 ATAATA
1 AAAATA
91628 ATATAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
23 8 0.31
24 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAATATTATTTATTAAATATTT
Found at i:91635 original size:5 final size:5
Alignment explanation
Indices: 91625--91695 Score: 54
Period size: 5 Copynumber: 13.8 Consensus size: 5
91615 AATATTTATA
* * * * * *
91625 ATAAT ATAAT ATAAT AT-TT TTAAT ATTAT ATAAA ATAAT CAATTAT ATTAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT --ATAAT ATAAT
91676 AATAAT ATAAT ATAAT ATAA
1 -ATAAT ATAAT ATAAT ATAA
91696 GATATTATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
4 2 0.04
5 42 0.81
6 4 0.08
7 4 0.08
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:91639 original size:22 final size:22
Alignment explanation
Indices: 91614--91688 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
91604 ATATATTTAT
91614 TAATATTTATAATAATATAATA
1 TAATATTTATAATAATATAATA
* *
91636 TAATATTTTTAATATTATATAAAA
1 TAATATTTATAATA--ATATAATA
* *
91660 TAATCAATTAT-ATTATAATAATA
1 TAAT-ATTTATAATAAT-ATAATA
91683 TAATAT
1 TAATAT
91689 AATATAAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
22 16 0.38
23 9 0.21
24 13 0.31
25 4 0.10
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATATTTATAATAATATAATA
Found at i:91727 original size:10 final size:10
Alignment explanation
Indices: 91712--91782 Score: 51
Period size: 10 Copynumber: 7.3 Consensus size: 10
91702 ATATTTTTAT
91712 TTTAATAATA
1 TTTAATAATA
* *
91722 TTTAATATTG
1 TTTAATAATA
*
91732 TTTTAT-ATA
1 TTTAATAATA
91741 TTTAATAATGA
1 TTTAATAAT-A
* *
91752 -ATAATATTA
1 TTTAATAATA
91761 TTT-AT-ATA
1 TTTAATAATA
91769 TTTAAATAATA
1 TTT-AATAATA
91780 TTT
1 TTT
91783 TAGTAAAGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
8 5 0.11
9 9 0.20
10 24 0.53
11 7 0.16
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (10 bp):
TTTAATAATA
Found at i:91729 original size:29 final size:28
Alignment explanation
Indices: 91697--91782 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 28
91687 ATAATATAAG
*
91697 ATATTATATTTTTATTTTAATAATATTTA
1 ATATTAT-TTTATATTTTAATAATATTTA
* *
91726 ATATTGTTTTATATATTTAATAATGA-ATA
1 ATATTATTTTATAT-TTTAATAAT-ATTTA
*
91755 ATATTATTTATATATTTAAATAATATTT
1 ATATTATTT-TATATTTTAATAATATTT
91783 TAGTAAAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 7 0.15
29 34 0.72
30 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
ATATTATTTTATATTTTAATAATATTTA
Found at i:92168 original size:20 final size:20
Alignment explanation
Indices: 92110--92159 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
92100 TTTCAAGATG
92110 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
92130 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
92150 TTTTCCAGAA
1 TTTTCCAGAA
92160 TTTAAATTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:92187 original size:15 final size:15
Alignment explanation
Indices: 92142--92213 Score: 65
Period size: 15 Copynumber: 4.9 Consensus size: 15
92132 TTCCAGAAAT
92142 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
* **
92157 G-AATTTAAATTCCA
1 GTAATTCATTTTCCA
*
92171 GTAATTCATTTTTCA
1 GTAATTCATTTTCCA
** *
92186 GTAATTCAAATTGCA
1 GTAATTCATTTTCCA
*
92201 GTATTTCATTTTC
1 GTAATTCATTTTC
92214 TGAAAAACCA
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
14 11 0.26
15 31 0.74
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:92197 original size:30 final size:29
Alignment explanation
Indices: 92142--92213 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 29
92132 TTCCAGAAAT
*
92142 GTAATTCATTTTCCAGAATTTAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
* *
92171 GTAATTCATTTTTCAGTAATTCAAATTGCA
1 GTAATTCATTTTCCAG-AATTCAAATTCCA
*
92201 GTATTTCATTTTC
1 GTAATTCATTTTC
92214 TGAAAAACCA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 15 0.41
30 22 0.59
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCCA
Found at i:93162 original size:22 final size:22
Alignment explanation
Indices: 93112--93165 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
93102 TCAACTCTCT
**
93112 ATTTTTGAAATTATTTCATCCTA
1 ATTTTT-AAATTATTTCATCAAA
93135 ATTTTTAAATTATTTC-TCAAA
1 ATTTTTAAATTATTTCATCAAA
93156 ATATTTTAAA
1 AT-TTTTAAA
93166 CTTAAGGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 6 0.21
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTTTTAAATTATTTCATCAAA
Found at i:98738 original size:18 final size:18
Alignment explanation
Indices: 98715--98749 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
98705 AAAAGATGTA
98715 AAATTG-ATCCATTCAAAG
1 AAATTGAATCCA-TCAAAG
98733 AAATTGAATCCATCAAA
1 AAATTGAATCCATCAAA
98750 TATTAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGAATCCATCAAAG
Found at i:99083 original size:5 final size:5
Alignment explanation
Indices: 99073--99099 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
99063 TTTTTTTAAA
99073 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
99100 TTTAATATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:102415 original size:19 final size:20
Alignment explanation
Indices: 102393--102430 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
102383 ACTACTATAT
*
102393 TACTTGCATC-AATTGTGTA
1 TACTTGCACCAAATTGTGTA
102412 TACTTGCACCAAATTGTGT
1 TACTTGCACCAAATTGTGT
102431 CTCACAACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (20 bp):
TACTTGCACCAAATTGTGTA
Found at i:104546 original size:14 final size:15
Alignment explanation
Indices: 104522--104550 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
104512 CTCAATTTAA
104522 TCTTATGAATACTTC
1 TCTTATGAATACTTC
104537 TCTT-TGAATACTTC
1 TCTTATGAATACTTC
104551 ATTCGGACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (15 bp):
TCTTATGAATACTTC
Found at i:105353 original size:15 final size:15
Alignment explanation
Indices: 105311--105352 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
105301 TTTCATCCTA
* *
105311 TAGTTTCTTATTGTT
1 TAGTTTATTTTTGTT
105326 TAGTTTATTTTTGTT
1 TAGTTTATTTTTGTT
105341 TAGTTTTATTTT
1 TAG-TTTATTTT
105353 GGTTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.71
Consensus pattern (15 bp):
TAGTTTATTTTTGTT
Found at i:105381 original size:17 final size:17
Alignment explanation
Indices: 105359--105416 Score: 89
Period size: 17 Copynumber: 3.4 Consensus size: 17
105349 TTTTGGTTAT
105359 ATATATAGTTTTGTAAA
1 ATATATAGTTTTGTAAA
*
105376 ATATATAGTTTTATAAA
1 ATATATAGTTTTGTAAA
* *
105393 ATATATAGTTTGGAAAA
1 ATATATAGTTTTGTAAA
105410 ATATATA
1 ATATATA
105417 TAATATAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (17 bp):
ATATATAGTTTTGTAAA
Found at i:105461 original size:23 final size:23
Alignment explanation
Indices: 105434--105481 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
105424 GTTTTAAAAT
105434 ATATAGTTTGGAAAAA-ATATATA
1 ATATAGTTT-GAAAAATATATATA
*
105457 ATATAGTTTTAAAAATATATATA
1 ATATAGTTTGAAAAATATATATA
105480 AT
1 AT
105482 TTTGAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (23 bp):
ATATAGTTTGAAAAATATATATA
Found at i:105479 original size:56 final size:57
Alignment explanation
Indices: 105414--105529 Score: 141
Period size: 56 Copynumber: 2.1 Consensus size: 57
105404 GGAAAAATAT
* *
105414 ATATAATATAGTTTT-AAAATATATAGTTTGGAAAA-A-ATATATAATATAGTTTTAAAA
1 ATATAATATAATTTTGAAAATA-AT--TTTGGAAAATATATATATAATATAATTTTAAAA
* *
105471 ATAT-ATATAATTTTGAAAATAATTTTGGAAAATATATATATAGTATAATTTTGAAA
1 ATATAATATAATTTTGAAAATAATTTTGGAAAATATATATATAATATAATTTTAAAA
105527 ATA
1 ATA
105530 GTTATGAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 9 0.17
55 1 0.02
56 32 0.62
57 10 0.19
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (57 bp):
ATATAATATAATTTTGAAAATAATTTTGGAAAATATATATATAATATAATTTTAAAA
Found at i:105489 original size:41 final size:40
Alignment explanation
Indices: 105378--105477 Score: 177
Period size: 39 Copynumber: 2.5 Consensus size: 40
105368 TTTGTAAAAT
105378 ATATAGTTTTATAAAATATATAGTTTGGAAAAATATATATA
1 ATATAGTTTTA-AAAATATATAGTTTGGAAAAATATATATA
105419 ATATAGTTTT-AAAATATATAGTTTGGAAAAA-ATATATA
1 ATATAGTTTTAAAAATATATAGTTTGGAAAAATATATATA
105457 ATATAGTTTTAAAAATATATA
1 ATATAGTTTTAAAAATATATA
105478 TAATTTTGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
38 17 0.29
39 31 0.53
41 10 0.17
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (40 bp):
ATATAGTTTTAAAAATATATAGTTTGGAAAAATATATATA
Found at i:105503 original size:13 final size:12
Alignment explanation
Indices: 105477--105574 Score: 67
Period size: 12 Copynumber: 8.1 Consensus size: 12
105467 AAAAATATAT
105477 ATAATTTTGAAA
1 ATAATTTTGAAA
105489 ATAATTTTGGAAA
1 ATAATTTT-GAAA
* **
105502 ATATATATAT-AGT
1 ATA-AT-TTTGAAA
105515 ATAATTTTGAAA
1 ATAATTTTGAAA
* *
105527 ATAGTTATG-AA
1 ATAATTTTGAAA
* *
105538 ATAATATAT-AAT
1 ATAAT-TTTGAAA
105550 ATAATTTTGAAA
1 ATAATTTTGAAA
*
105562 ATAGTTTTGAAA
1 ATAATTTTGAAA
105574 A
1 A
105575 AAATATATAG
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
11 10 0.15
12 41 0.62
13 11 0.17
14 2 0.03
15 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (12 bp):
ATAATTTTGAAA
Found at i:105510 original size:35 final size:35
Alignment explanation
Indices: 105471--105633 Score: 211
Period size: 36 Copynumber: 4.5 Consensus size: 35
105461 AGTTTTAAAA
*
105471 ATATATATAATTTTGAAAATAATTTTGGAAAATATAT
1 ATATATATAATTTTGAAAATAGTTTT-GAAAA-ATAT
*
105508 ATATAGTATAATTTTGAAAATAGTTATGAAATAATAT
1 ATATA-TATAATTTTGAAAATAGTTTTGAAA-AATAT
*
105545 ATA-ATATAATTTTGAAAATAGTTTTGAAAAAAAT
1 ATATATATAATTTTGAAAATAGTTTTGAAAAATAT
* *
105579 ATATAGTATAGTTTTGAAATTAGTTTTGAAAAATAT
1 ATATA-TATAATTTTGAAAATAGTTTTGAAAAATAT
*
105615 ATATAATATAGTTTTGAAA
1 ATAT-ATATAATTTTGAAA
105634 CATATATAAT
Statistics
Matches: 114, Mismatches: 7, Indels: 11
0.86 0.05 0.08
Matches are distributed among these distances:
34 7 0.06
35 25 0.22
36 45 0.39
37 17 0.15
38 20 0.18
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (35 bp):
ATATATATAATTTTGAAAATAGTTTTGAAAAATAT
Found at i:105641 original size:22 final size:23
Alignment explanation
Indices: 105599--105646 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
105589 GTTTTGAAAT
*
105599 TAGTTTTGAAAAATATATATAATA
1 TAGTTTTG-AAAACATATATAATA
105623 TAGTTTTG-AAACATATATAATA
1 TAGTTTTGAAAACATATATAATA
105645 TA
1 TA
105647 ATTTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.65
24 8 0.35
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (23 bp):
TAGTTTTGAAAACATATATAATA
Found at i:110504 original size:29 final size:28
Alignment explanation
Indices: 110457--110514 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
110447 ATTTCAAAAT
110457 TATAATTATATAAAAAAATATTAATTTA
1 TATAATTATATAAAAAAATATTAATTTA
*
110485 TATATATT-TATAAATAAAATATTTATTTA
1 TATA-ATTATATAAA-AAAATATTAATTTA
110514 T
1 T
110515 TTAGAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TATAATTATATAAAAAAATATTAATTTA
Found at i:110714 original size:116 final size:116
Alignment explanation
Indices: 110483--110707 Score: 287
Period size: 116 Copynumber: 2.0 Consensus size: 116
110473 AATATTAATT
* * *
110483 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAAGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAAGACATCCAGGTGCCT
* *
110548 TAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAATTAAAACAATTAA
66 TAAGACAGCTCATTTCTTCAATATTAAAAAATAAATAATTAAAACAATTAA
** * * *
110599 TATATA-ATTTATAAAATATGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-AGACATCCAGGTGC
* * *
110663 TTTAAGACTGC-CATTTCTT-AATATTGAAAAATAAAT-ATTAAAACA
64 CTTAAGACAGCTCATTTCTTCAATATTAAAAAATAAATAATTAAAACA
110708 TGATTAAAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
114 9 0.10
115 21 0.22
116 46 0.49
117 18 0.19
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (116 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAAGACATCCAGGTGCCT
TAAGACAGCTCATTTCTTCAATATTAAAAAATAAATAATTAAAACAATTAA
Found at i:112185 original size:3 final size:3
Alignment explanation
Indices: 112179--112223 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
112169 ATTATTTATT
*
112179 TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
112224 ATAAAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:112606 original size:113 final size:113
Alignment explanation
Indices: 112472--113106 Score: 541
Period size: 113 Copynumber: 5.4 Consensus size: 113
112462 ATTGAGCAAG
*
112472 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAGGTTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATCCATCAAGT
112537 GATGAATTCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTA
66 GATGAATTCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTA
* *
112585 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGTAATGATGATCCATCGAA
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-CTCTGGAAATGTTGATCCATC-AA
* ** * * *
112649 -TGATGAATTCAAATAAAAAGTTTGAACAAGTTCTTCTCATTCTTCAGA-TGA
64 GTGATGAATTCGAGCAAAAAG-TTGAACAAGTTCTTCTCATT-ATGA-ACTTA
* ** ** *** * * * * *
112700 GTTCTTCTCATTATGAACTTCTTCTTCTTCTTCA-GAT-AAGTTCTTCTCATTATGAACTTTCTC
1 -TTCTTC-C-TTCTTCAGAT-GAGTTCTTC-TCATTATGAA-CTC-TCTC--T-GGAA--ATGT-
** * * * * * *
112763 TGGA-AAAGCTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACAAGCTGTTCTCATTATG
53 T-GATCCATC-AAG--------TGATGAATTCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATG
112827 AACTTA
108 AACTTA
* * * *
112833 TTATT-CTTCTTCAGATAAGTTCTTCTCA-TATGAACTTTCTCTGGAAATTTTGATCCATCAAGT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATCCATCAAGT
* * * * *
112896 GATGGATTTGAGCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTA
66 GATGAATTCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTA
* * * *
112944 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATCCATCAAGT
* *
113009 GATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
66 GATGAATTCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTA
113057 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAAT
1 TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-CTCTGGAAAT
113107 TTTTTAAGAA
Statistics
Matches: 410, Mismatches: 77, Indels: 70
0.74 0.14 0.13
Matches are distributed among these distances:
111 49 0.12
112 22 0.05
113 191 0.47
114 24 0.06
115 4 0.01
116 7 0.02
117 1 0.00
118 7 0.02
119 14 0.03
120 8 0.02
121 2 0.00
122 1 0.00
123 5 0.01
124 1 0.00
125 1 0.00
126 8 0.02
127 8 0.02
128 8 0.02
129 5 0.01
130 1 0.00
132 5 0.01
133 4 0.01
134 18 0.04
135 16 0.04
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATCCATCAAGT
GATGAATTCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTA
Found at i:112705 original size:22 final size:21
Alignment explanation
Indices: 112677--112750 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
112667 AGTTTGAACA
112677 AGTTCTTCTCATTCTTCAGAT
1 AGTTCTTCTCATTCTTCAGAT
*
112698 GAGTTCTTCTCATT-AT--GA-
1 -AGTTCTTCTCATTCTTCAGAT
*
112716 ACTTCTTCTTC-TTCTTCAGAT
1 AGTTCTTC-TCATTCTTCAGAT
112737 AAGTTCTTCTCATT
1 -AGTTCTTCTCATT
112751 ATGAACTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
17 9 0.22
18 3 0.07
19 2 0.05
20 2 0.05
21 3 0.07
22 22 0.54
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (21 bp):
AGTTCTTCTCATTCTTCAGAT
Found at i:112731 original size:39 final size:39
Alignment explanation
Indices: 112679--112758 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
112669 TTTGAACAAG
*
112679 TTCTTCTCATTCTTCAGATGAGTTCTTCTCATTATGAAC
1 TTCTTCTCATTCTTCAGATAAGTTCTTCTCATTATGAAC
112718 TTCTTCTTC-TTCTTCAGATAAGTTCTTCTCATTATGAAC
1 TTCTTC-TCATTCTTCAGATAAGTTCTTCTCATTATGAAC
112757 TT
1 TT
112759 TCTCTGGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 37 0.95
40 2 0.05
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.49
Consensus pattern (39 bp):
TTCTTCTCATTCTTCAGATAAGTTCTTCTCATTATGAAC
Found at i:112842 original size:135 final size:136
Alignment explanation
Indices: 112563--112825 Score: 361
Period size: 135 Copynumber: 1.9 Consensus size: 136
112553 AAGTTGAACA
*
112563 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
1 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTACC
* * * * * * *
112628 TGGTAATGATGATCCATCGAATGATGAATTCAAATAAAAAGTTTGAACAAGTTCTTCTCATTCTT
66 TGGAAAAGATGATCCATCGAATGATGAATTCAAAGAAAAAGGTTGAACAAGCTCTTCTCATTATA
112693 CAGATG
131 CAGATG
* *
112699 AGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCATTATGAACT-TTCT
1 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTAC-
* * * * *
112762 CTGGAAAAGCTGATCCATCGAGTGATGAATTC-GAGCAAAAGGTTGAACAAGCTGTTCTCATTAT
65 CTGGAAAAGATGATCCATCGAATGATGAATTCAAAGAAAAAGGTTGAACAAGCTCTTCTCATTAT
112826 GAACTTATTA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
134 27 0.24
135 59 0.53
136 26 0.23
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (136 bp):
AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTACC
TGGAAAAGATGATCCATCGAATGATGAATTCAAAGAAAAAGGTTGAACAAGCTCTTCTCATTATA
CAGATG
Found at i:112911 original size:111 final size:113
Alignment explanation
Indices: 112702--113094 Score: 612
Period size: 113 Copynumber: 3.5 Consensus size: 113
112692 TCAGATGAGT
*
112702 TCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGG
*
112766 AAAAGCTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACAAGC
66 AAAAGCTGATCCATCAAGTGATGAATTCGAGCAAAAGGTTGAACAAGC
* *
112814 TGTTCTCATTATGAACTTATTATT-CTTCTTCAGATAAGTTCTTCTCA-TATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGG
*** * * *
112877 AAATTTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAATAAGC
66 AAAAGCTGATCCATCAAGTGATGAATTCGAGCAAAAGGTTGAACAAGC
*
112925 TCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGG
* * * *
112990 AAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAGT
66 AAAAGCTGATCCATCAAGTGATGAATTCGAGCAAAAGGTTGAACAAGC
* *
113038 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 TCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
113095 CTACCTGGAA
Statistics
Matches: 255, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
111 79 0.31
112 66 0.26
113 110 0.43
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (113 bp):
TCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCAAGTGATGAATTCGAGCAAAAGGTTGAACAAGC
Found at i:113254 original size:76 final size:76
Alignment explanation
Indices: 113120--113301 Score: 276
Period size: 76 Copynumber: 2.4 Consensus size: 76
113110 TTAAGAAAAA
* * * * *
113120 AAACATTC-TGCACTGTAGGGCTTACAGCTGACTCAAAAGTTTTGAAAACATCAAAAAGCTCCCG
1 AAACA-TCATGCACTGTAGGACTTATAGATGACCCAAAAGCTTTGAAAACATCAAAAAGCTCCCG
113184 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* * *
113196 ACACATCATGCACTGTAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTATAGATGACCCAAAAGCTTTGAAAACATCAAAAAGCTCCCGA
113261 AGGCTTTTTGG
66 AGGCTTTTTGG
113272 AAACATCATGCACTGTAGGACTTATAGATG
1 AAACATCATGCACTGTAGGACTTATAGATG
113302 TGGGAAATAG
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
75 2 0.02
76 94 0.98
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (76 bp):
AAACATCATGCACTGTAGGACTTATAGATGACCCAAAAGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:113597 original size:156 final size:157
Alignment explanation
Indices: 113326--113617 Score: 487
Period size: 156 Copynumber: 1.9 Consensus size: 157
113316 CTAAGTAAGA
* **
113326 AACTATGAAAATCGTTTTCTTACTTTTCAACAATTTTATTTTTAGAAAAGATTGAATGAGAAACT
1 AACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTTATTTTTAGAAAAGATAAAATGAGAAACT
* * *
113391 ATGGAAATCGTTTTCTCATTATTTTTTAAAATAACATATTGATTGGGTAACATGCCCCAATCTTA
66 ATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATATTGATTGGGTAACATGACCCAATCTCA
113456 AGATAAGGTTGTTGGAAATAGTTTACT
131 AGATAAGGTTGTTGGAAATAGTTTACT
* *
113483 AACTAAGAAAATCGTTTTCTTACTTTTCAACAA-TTTCTTTTTAGGAAAGATAAAATGAGAAACT
1 AACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTTATTTTTAGAAAAGATAAAATGAGAAACT
* *
113547 ATGGAAATCGTTTTCTCATTATTTTTCAAAATATCATGTTGATTGGGTAACATGACCCAATCTCA
66 ATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATATTGATTGGGTAACATGACCCAATCTCA
113612 AGATAA
131 AGATAA
113618 TGCTTATTTT
Statistics
Matches: 125, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
156 93 0.74
157 32 0.26
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (157 bp):
AACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTTATTTTTAGAAAAGATAAAATGAGAAACT
ATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATATTGATTGGGTAACATGACCCAATCTCA
AGATAAGGTTGTTGGAAATAGTTTACT
Found at i:114159 original size:22 final size:22
Alignment explanation
Indices: 114134--114193 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
114124 AATAAAGCTT
* *
114134 TCATTTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
114156 TCATCTTTAAAAAGATAATCTA
1 TCATCTTTGAAAAGAGAATCTA
114178 TCATCTTTGAAAAGAG
1 TCATCTTTGAAAAGAG
114194 TGTAGATGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:120982 original size:12 final size:12
Alignment explanation
Indices: 120941--120994 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
120931 AATTATGTAA
120941 AAATGAAAATGT
1 AAATGAAAATGT
*
120953 AAAT-ACAAACGT
1 AAATGA-AAATGT
120965 AAAAATGAAAATGT
1 --AAATGAAAATGT
*
120979 AAATGCAAATGT
1 AAATGAAAATGT
120991 AAAT
1 AAAT
120995 ATGTGAATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.03
12 24 0.69
14 9 0.26
15 1 0.03
ACGTcount: A:0.59, C:0.06, G:0.13, T:0.22
Consensus pattern (12 bp):
AAATGAAAATGT
Found at i:121006 original size:26 final size:26
Alignment explanation
Indices: 120937--120993 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
120927 ATGTAATTAT
120937 GTAAAAATGAAAATGTAAATACAAAC
1 GTAAAAATGAAAATGTAAATACAAAC
* *
120963 GTAAAAATGAAAATGTAAATGCAAAT
1 GTAAAAATGAAAATGTAAATACAAAC
120989 GTAAA
1 GTAAA
120994 TATGTGAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21
Consensus pattern (26 bp):
GTAAAAATGAAAATGTAAATACAAAC
Found at i:121079 original size:8 final size:7
Alignment explanation
Indices: 121053--121094 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
121043 ATAAAAGTAT
121053 AAATGCA
1 AAATGCA
*
121060 CAATGCA
1 AAATGCA
121067 AAATGCAA
1 AAATGC-A
121075 AAATGCA
1 AAATGCA
121082 AAATGC-
1 AAATGCA
121088 AAATGCA
1 AAATGCA
121095 TGTATGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
8 7 0.23
ACGTcount: A:0.55, C:0.17, G:0.14, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:121081 original size:15 final size:15
Alignment explanation
Indices: 121061--121090 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
121051 ATAAATGCAC
121061 AATGCAAAATGCAAA
1 AATGCAAAATGCAAA
121076 AATGCAAAATGCAAA
1 AATGCAAAATGCAAA
121091 TGCATGTATG
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:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (15 bp):
AATGCAAAATGCAAA
Found at i:122669 original size:21 final size:20
Alignment explanation
Indices: 122606--122669 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
122596 TAATGAAATT
122606 TAATATT-TGAAAATAA-AA
1 TAATATTATGAAAATAATAA
* *
122624 TAATA-AAT-AAAAAATATAA
1 TAATATTATGAAAATA-ATAA
122643 TAAATATTATGAAAATAATAA
1 T-AATATTATGAAAATAATAA
122664 GTAATA
1 -TAATA
122670 AATTTTTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
17 5 0.14
18 7 0.20
19 3 0.09
20 4 0.11
21 10 0.29
22 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
TAATATTATGAAAATAATAA
Found at i:123185 original size:29 final size:29
Alignment explanation
Indices: 123153--123211 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
123143 ATTTCAAAAT
123153 TATA-ATTATATAAAAAAAATATTAATTTA
1 TATATATT-TATAAAAAAAATATTAATTTA
* *
123182 TATATATTTATAAATAAAATATTTATTTA
1 TATATATTTATAAAAAAAATATTAATTTA
123211 T
1 T
123212 TTAGAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TATATATTTATAAAAAAAATATTAATTTA
Found at i:123411 original size:116 final size:116
Alignment explanation
Indices: 123180--123404 Score: 278
Period size: 116 Copynumber: 2.0 Consensus size: 116
123170 AATATTAATT
* * *
123180 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCT
** *
123245 TAAGACAGCTTTTTTCTTCGATACTAAAAAATAAATAATTAAAACAATTAA
66 TAAGACAGCTCATTTCTTCAATACTAAAAAATAAATAATTAAAACAATTAA
** * *
123296 TATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGACATCCAGGTGC
* * * *
123360 TTTAAGACTG-TCATTTCTT-AATATTGAAAAATAAAT-ATTAAAACA
64 CTTAAGACAGCTCATTTCTTCAATACTAAAAAATAAATAATTAAAACA
123405 GGATTAAAAT
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
114 9 0.10
115 20 0.22
116 46 0.49
117 18 0.19
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (116 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCT
TAAGACAGCTCATTTCTTCAATACTAAAAAATAAATAATTAAAACAATTAA
Found at i:124876 original size:3 final size:3
Alignment explanation
Indices: 124870--124914 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
124860 ATTATTTATT
* *
124870 TAA TAA TAA T-A TAA T-A TAA TAA TAT TAT TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
124915 ATAAAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:124890 original size:13 final size:13
Alignment explanation
Indices: 124872--124918 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
124862 TATTTATTTA
124872 ATAATAATATAAT
1 ATAATAATATAAT
*
124885 ATAATAATATTATT
1 ATAATAATA-TAAT
*
124899 AAAATAATAATAAT
1 ATAATAAT-ATAAT
124913 A-AATAA
1 ATAATAA
124919 AACAAATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 14 0.48
14 14 0.48
15 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:124897 original size:33 final size:32
Alignment explanation
Indices: 124848--124917 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
124838 ATTGGGCCTG
* **
124848 TAATAATAATAAATTATTTATTTAATAATAATA
1 TAAT-ATAATAAATTATTAAAATAATAATAATA
124881 TAATATAATAATATTATTAAAATAATAATAATA
1 TAATATAATAA-ATTATTAAAATAATAATAATA
124914 -AATA
1 TAATA
124918 AAACAAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.33
33 22 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
TAATATAATAAATTATTAAAATAATAATAATA
Found at i:124915 original size:14 final size:14
Alignment explanation
Indices: 124874--124915 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
124864 TTTATTTAAT
*
124874 AATAAT-ATAATAT
1 AATAATAATAATAA
* *
124887 AATAATATTATTAA
1 AATAATAATAATAA
124901 AATAATAATAATAA
1 AATAATAATAATAA
124915 A
1 A
124916 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:127896 original size:200 final size:199
Alignment explanation
Indices: 127558--127973 Score: 632
Period size: 200 Copynumber: 2.1 Consensus size: 199
127548 TTTATTTTGG
* *
127558 TCGGGTCGGGT-TAGTTTTTTTAAGTGTGATATTCAGGTCGGGTCGAGTTCGGATTTAGGGTGAA
1 TCGGGTCGGGTCGAGTTTTTTTAAGTGTGATATTCAGGCCGGGTCGAGTTCGGATTTAGGGTGAA
*
127622 AAATACCGACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCC
66 AAATACCGACCCGAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCC
*
127687 CTCTATATATA-AT-T-T-TTT-CAATTAAGTCATTGTTTTTATTGAATAAAAATAATTTTTTTT
131 CTCTATATATATATATATATTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATAA--TTTTTT
*
127747 TTTATT
194 ATTATT
* *
127753 TCGGGTCGGGTCGA-TTTTTTTAAGTGTGATATTCGGGCCGGGTCGGGTTCAGG-TTTAGGGTGA
1 TCGGGTCGGGTCGAGTTTTTTTAAGTGTGATATTCAGGCCGGGTCGAGTTC-GGATTTAGGGTGA
127816 AAAATACCCGACCCGACCCAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATA
65 AAAATA-CCGACCCG----AAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATA
127881 ATACCCCTCTATATATATATATATATTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATAATT
125 ATACCCCTCTATATATATATATATATTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATAATT
127946 TTTTATTATT
190 TTTTATTATT
*
127956 TTGGGTCGGGTCGAGTTT
1 TCGGGTCGGGTCGAGTTT
127974 CTAATTTATA
Statistics
Matches: 200, Mismatches: 8, Indels: 17
0.89 0.04 0.08
Matches are distributed among these distances:
195 60 0.30
196 11 0.05
200 62 0.31
201 2 0.01
202 1 0.00
203 25 0.12
204 6 0.03
205 33 0.17
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (199 bp):
TCGGGTCGGGTCGAGTTTTTTTAAGTGTGATATTCAGGCCGGGTCGAGTTCGGATTTAGGGTGAA
AAATACCGACCCGAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCC
CTCTATATATATATATATATTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTAT
TATT
Found at i:128422 original size:18 final size:17
Alignment explanation
Indices: 128384--128431 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
128374 ATATGAAATT
*
128384 AGATTCCAATTCCTGAC
1 AGATTCCAATTCCTCAC
*
128401 AGATTCCAATTCTTTCAC
1 AGATTCCAATTC-CTCAC
*
128419 AGATTCTAATTCC
1 AGATTCCAATTCC
128432 CTCAGAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.35
Consensus pattern (17 bp):
AGATTCCAATTCCTCAC
Found at i:132206 original size:10 final size:10
Alignment explanation
Indices: 132185--132220 Score: 58
Period size: 9 Copynumber: 3.8 Consensus size: 10
132175 TGGTTCTTCC
132185 GACCGG-TCG
1 GACCGGTTCG
132194 GACCGGTTCG
1 GACCGGTTCG
132204 GACCGGTTC-
1 GACCGGTTCG
132213 GACCGGTT
1 GACCGGTT
132221 GAACCAGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.11, C:0.31, G:0.39, T:0.19
Consensus pattern (10 bp):
GACCGGTTCG
Found at i:132878 original size:36 final size:35
Alignment explanation
Indices: 132827--132935 Score: 99
Period size: 36 Copynumber: 3.3 Consensus size: 35
132817 AATAAATTTT
* *
132827 CTTAACAAACACGAGTCGAGCAAAATTTTAACGAG
1 CTTAACGAGCACGAGTCGAGCAAAATTTTAACGAG
132862 CTTAACGAGCAACGAGTCGAGCAACAAATTTT------
1 CTTAACGAGC-ACGAGTCGAGC-A-AAATTTTAACGAG
* *
132894 CTTAATGAGCACGGGTCGAGCAAAATTTTAACGAG
1 CTTAACGAGCACGAGTCGAGCAAAATTTTAACGAG
132929 --TAACGAG
1 CTTAACGAG
132936 TCGAGTAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
29 7 0.12
30 1 0.02
31 10 0.17
32 9 0.15
33 6 0.10
35 8 0.13
36 11 0.18
37 1 0.02
38 7 0.12
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (35 bp):
CTTAACGAGCACGAGTCGAGCAAAATTTTAACGAG
Found at i:132912 original size:67 final size:67
Alignment explanation
Indices: 132787--132935 Score: 221
Period size: 67 Copynumber: 2.3 Consensus size: 67
132777 AGTAACAAAC
* * *
132787 TTAATGAGCTTAACGAGCAACGGGTCGAGCAATAAATTTTCTTAACAAACACGAGTCGAGCAAAA
1 TTAACGAGCTTAACGAGCAACGAGTCGAGCAACAAATTTTCTTAACAAACACGAGTCGAGCAAAA
132852 TT
66 TT
** * *
132854 TTAACGAGCTTAACGAGCAACGAGTCGAGCAACAAATTTTCTTAATGAGCACGGGTCGAGCAAAA
1 TTAACGAGCTTAACGAGCAACGAGTCGAGCAACAAATTTTCTTAACAAACACGAGTCGAGCAAAA
132919 TT
66 TT
132921 TTAACGAG--TAACGAG
1 TTAACGAGCTTAACGAG
132936 TCGAGTAATA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
65 7 0.09
67 68 0.91
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (67 bp):
TTAACGAGCTTAACGAGCAACGAGTCGAGCAACAAATTTTCTTAACAAACACGAGTCGAGCAAAA
TT
Found at i:132915 original size:31 final size:31
Alignment explanation
Indices: 132795--132973 Score: 131
Period size: 31 Copynumber: 5.7 Consensus size: 31
132785 ACTTAATGAG
*
132795 CTTAACGAGCAACGGGTCGAGCAATAAATTTT
1 CTTAACGAGCAACGAGTCGAGCAA-AAATTTT
* *
132827 CTTAACAAAC-ACGAGTCGAGC-AAAATTTT
1 CTTAACGAGCAACGAGTCGAGCAAAAATTTT
132856 AACGAGCTTAACGAGCAACGAGTCGAGCAACAAATTTT
1 ------CTTAACGAGCAACGAGTCGAGCAA-AAATTTT
* *
132894 CTTAATGAGC-ACGGGTCGAGC-AAAA--TT
1 CTTAACGAGCAACGAGTCGAGCAAAAATTTT
* *
132921 -TTAACGAGTAACGAGTCGAGTAATAAATTTT
1 CTTAACGAGCAACGAGTCGAGCAA-AAATTTT
* * *
132952 TTTAAGGAGC-ATGAGTCGAGCA
1 CTTAACGAGCAACGAGTCGAGCA
132974 CTGCTTAACA
Statistics
Matches: 117, Mismatches: 15, Indels: 31
0.72 0.09 0.19
Matches are distributed among these distances:
26 7 0.06
27 11 0.09
28 1 0.01
29 13 0.11
30 2 0.02
31 32 0.27
32 24 0.21
35 8 0.07
36 11 0.09
37 1 0.01
38 7 0.06
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (31 bp):
CTTAACGAGCAACGAGTCGAGCAAAAATTTT
Found at i:132927 original size:58 final size:58
Alignment explanation
Indices: 132863--132973 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
132853 TTTAACGAGC
* *
132863 TTAACGAGCAACGAGTCGAGCAACAAATTTTCTTAATGAGCACGGGTCGAGCAAAATT
1 TTAACGAGCAACGAGTCGAGCAACAAATTTTCTTAAGGAGCACGAGTCGAGCAAAATT
* * * * *
132921 TTAACGAGTAACGAGTCGAGTAATAAATTTTTTTAAGGAGCATGAGTCGAGCA
1 TTAACGAGCAACGAGTCGAGCAACAAATTTTCTTAAGGAGCACGAGTCGAGCA
132974 CTGCTTAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (58 bp):
TTAACGAGCAACGAGTCGAGCAACAAATTTTCTTAAGGAGCACGAGTCGAGCAAAATT
Found at i:134961 original size:2 final size:2
Alignment explanation
Indices: 134954--134979 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
134944 TCTAATCATA
134954 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
134980 TATTCTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:135010 original size:18 final size:19
Alignment explanation
Indices: 134952--135012 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 19
134942 TATCTAATCA
*
134952 TAATATATAT-ATA-TATA
1 TAATATATATAATATTATT
* *
134969 T-ATATATATATTATTCTT
1 TAATATATATAATATTATT
*
134987 TCATAT-TATAATATTATT
1 TAATATATATAATATTATT
135005 TAATATAT
1 TAATATAT
135013 CAAATATAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 8 0.24
17 3 0.09
18 18 0.53
19 5 0.15
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATATATAATATTATT
Found at i:138225 original size:153 final size:156
Alignment explanation
Indices: 137958--138247 Score: 426
Period size: 153 Copynumber: 1.9 Consensus size: 156
137948 ATAAATCACA
* * * *
137958 AATTGAAGGAATAAGGAGATAATGAAAAATTGAATGACTAAATTGAAAAATAAAAAATTTGTTAT
1 AATTGAAGAAATAAGGAGATAATAAAAAATTGAAGGACTAAATTG---AATAAAAAATTTATTAT
* *
138023 CAAAAAGAGGAATTGAAAGTACACATGTATTCTACTATGGTTTAAGAGCATATGACTCAAATTTG
63 CAAAAAGAGAAATTGAAAGTACACATGTATTCCACTATGGTTTAAGAGCATATGACTCAAATTTG
138088 GTAAAAAACAAACTTAAAAATAAATGGTG
128 GTAAAAAACAAACTTAAAAATAAATGGTG
*
138117 AATTGAAGAAATAAGGAGATTATAAAAAATTGAAGGACTAAATTG-A-AAAAAA-TTATTATCAA
1 AATTGAAGAAATAAGGAGATAATAAAAAATTGAAGGACTAAATTGAATAAAAAATTTATTATCAA
* * *
138179 AAAGAGAAATTGAAAGTACACATGTATTCCA-TAATGGTTTAGGAGCATGTGACTCATATTTGGT
66 AAAGAGAAATTGAAAGTACACATGTATTCCACT-ATGGTTTAAGAGCATATGACTCAAATTTGGT
138243 AAAAA
130 AAAAA
138248 TTGACTTAAA
Statistics
Matches: 120, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
152 1 0.01
153 71 0.59
154 6 0.05
155 1 0.01
159 41 0.34
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (156 bp):
AATTGAAGAAATAAGGAGATAATAAAAAATTGAAGGACTAAATTGAATAAAAAATTTATTATCAA
AAAGAGAAATTGAAAGTACACATGTATTCCACTATGGTTTAAGAGCATATGACTCAAATTTGGTA
AAAAACAAACTTAAAAATAAATGGTG
Found at i:144320 original size:64 final size:63
Alignment explanation
Indices: 144170--144345 Score: 167
Period size: 64 Copynumber: 2.8 Consensus size: 63
144160 CTTTAACATG
* * * *
144170 TGCATCGATGCACTACC-CATGCATCGATACACAAATCACCTTCGATGTTTTAATATTAACGGG
1 TGCATCGATGCACT-CCTTATGCATCGATACACTAATCACATTCGATGTTTTAATATTAACGGA
* * * * * * *
144233 TGCATCGATGCACTACTTGTGCATCGATACACTGATGACATTTGAT-TTTTGTATTTTAAACGGA
1 TGCATCGATGCACTCCTTATGCATCGATACACTAATCACATTCGATGTTTT-AATATT-AACGGA
* * * **
144297 TGCATCGATGCACTCCTTATGCATAGATGCACTATTGGCATTCGATGTT
1 TGCATCGATGCACTCCTTATGCATCGATACACTAATCACATTCGATGTT
144346 CAATATTTGA
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
62 5 0.06
63 40 0.44
64 43 0.48
65 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
TGCATCGATGCACTCCTTATGCATCGATACACTAATCACATTCGATGTTTTAATATTAACGGA
Found at i:150191 original size:18 final size:19
Alignment explanation
Indices: 150136--150201 Score: 89
Period size: 18 Copynumber: 3.4 Consensus size: 19
150126 AATTTGTCTT
*
150136 GAAGGACCACATAGATGTCCC
1 GAAGGACCACAT--ATATCCC
150157 GAAGGACCACATATATCCC
1 GAAGGACCACATATATCCC
*
150176 GAAAGACCAC-TATATCCC
1 GAAGGACCACATATATCCC
150194 GAAGGACC
1 GAAGGACC
150202 GCGTAGACCC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
18 15 0.36
19 15 0.36
21 12 0.29
ACGTcount: A:0.36, C:0.30, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAGGACCACATATATCCC
Found at i:151183 original size:63 final size:64
Alignment explanation
Indices: 151113--151268 Score: 176
Period size: 63 Copynumber: 2.5 Consensus size: 64
151103 CCTTTGACAT
* *
151113 ATGCATCGATGCACTACCCATGCATCGATACACAAAACACCTTCGATGTTT-TAATATT-AACGG
1 ATGCATCGATGCACTACCCATGCATCGATACACAAAACACATTCGATGTTTGAAAT-TTAAACGG
* * ** **
151176 GTGCATCGATGCACTACTTC-TGCATCGATACACTGATGACATTCGATGTTTGAAATTTAAACGG
1 ATGCATCGATGCACTAC-CCATGCATCGATACACAAAACACATTCGATGTTTGAAATTTAAACGG
*
151240 ATGCATCGATGCACT-CCTTATGCATCGAT
1 ATGCATCGATGCACTACC-CATGCATCGAT
151269 GCACTATTGG
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
63 45 0.58
64 32 0.42
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (64 bp):
ATGCATCGATGCACTACCCATGCATCGATACACAAAACACATTCGATGTTTGAAATTTAAACGG
Found at i:151264 original size:64 final size:62
Alignment explanation
Indices: 151113--151289 Score: 189
Period size: 64 Copynumber: 2.8 Consensus size: 62
151103 CCTTTGACAT
* ** *
151113 ATGCATCGATGCACTACC-CATGCATCGATACAC-AAAACACCTTCGATGTTTTAATATTAACGG
1 ATGCATCGATGCACT-CCTTATGCATCGATACACTATGACA--TTCGATGTTTAAATATTAACGG
* * *
151176 GTGCATCGATGCACTACTTCTGCATCGATACACTGATGACATTCGATGTTTGAAAT-TTAAACGG
1 ATGCATCGATGCACTCCTTATGCATCGATACACT-ATGACATTCGATGTTT-AAATATT-AACGG
* *
151240 ATGCATCGATGCACTCCTTATGCATCGATGCACTATTGGCATTCGATGTT
1 ATGCATCGATGCACTCCTTATGCATCGATACACTA-TGACATTCGATGTT
151290 CAATATTTGA
Statistics
Matches: 96, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
62 1 0.01
63 40 0.42
64 51 0.53
65 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTTATGCATCGATACACTATGACATTCGATGTTTAAATATTAACGG
Found at i:155100 original size:63 final size:63
Alignment explanation
Indices: 155032--155181 Score: 169
Period size: 63 Copynumber: 2.4 Consensus size: 63
155022 GATGCATCCT
* * *
155032 TTAACATGTGCTTCGATGCACTACTCATGCATCGATACACAAATCACCTTCGATGTTTTAATA
1 TTAACAGGTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTTAATA
* ** ** * *
155095 TTAACAGGTGCATCGATGTACTACTTGTGCATCGATACACTGATGACATTCGATGTTTGT-ATT
1 TTAACAGGTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTT-TAATA
155158 TTAA-ACGGATGCATCGATGCACTA
1 TTAACA-GG-TGCATCGATGCACTA
155182 TTGGCATTCG
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
62 1 0.01
63 57 0.78
64 15 0.21
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (63 bp):
TTAACAGGTGCATCGATGCACTACTCATGCATCGATACACAAATCACATTCGATGTTTTAATA
Found at i:158291 original size:15 final size:15
Alignment explanation
Indices: 158271--158307 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
158261 TAGATATTTA
158271 GCGGGGCGGGCGGAT
1 GCGGGGCGGGCGGAT
158286 GCGGGGCGGGCGGAT
1 GCGGGGCGGGCGGAT
158301 GCGGGGC
1 GCGGGGC
158308 AGATGTGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.05, C:0.22, G:0.68, T:0.05
Consensus pattern (15 bp):
GCGGGGCGGGCGGAT
Found at i:159904 original size:63 final size:64
Alignment explanation
Indices: 159835--159991 Score: 185
Period size: 63 Copynumber: 2.5 Consensus size: 64
159825 CCTTTAACAT
* * *
159835 ATGCATCGATGCACTACCCATGCATCGATAAACAAATCACCTTCGATGTTT-TAATATT-AAGGG
1 ATGCATCGATGCACTACCTATGCATCGATAAACAAATCACATTCGATGTTTGT-ATATTAAACGG
* * * ** * *
159898 GTGCATCGATGCACTACTTATGCATCGATACACTGATGACATTCGATGTTTGTATTTTAAACGG
1 ATGCATCGATGCACTACCTATGCATCGATAAACAAATCACATTCGATGTTTGTATATTAAACGG
159962 ATGCATCGATGCACT-CCTTATGCATCGATA
1 ATGCATCGATGCACTACC-TATGCATCGATA
159992 CACTATTGGC
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
63 48 0.61
64 31 0.39
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTATGCATCGATAAACAAATCACATTCGATGTTTGTATATTAAACGG
Found at i:159984 original size:64 final size:62
Alignment explanation
Indices: 159835--160011 Score: 196
Period size: 64 Copynumber: 2.8 Consensus size: 62
159825 CCTTTAACAT
* * * * * *
159835 ATGCATCGATGCACTACC-CATGCATCGATAAACAAATCACCTTCGATGTTTTAATATTAAGGG
1 ATGCATCGATGCACT-CCTTATGCATCGATACAC-TATGACATTCGATGTTTTAATATTAACGG
* * *
159898 GTGCATCGATGCACTACTTATGCATCGATACACTGATGACATTCGATGTTTGT-ATTTTAAACGG
1 ATGCATCGATGCACTCCTTATGCATCGATACACT-ATGACATTCGATGTTT-TAATATT-AACGG
*
159962 ATGCATCGATGCACTCCTTATGCATCGATACACTATTGGCATTCGATGTT
1 ATGCATCGATGCACTCCTTATGCATCGATACACTA-TGACATTCGATGTT
160012 CAATATTTGA
Statistics
Matches: 97, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
62 1 0.01
63 46 0.47
64 50 0.52
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTTATGCATCGATACACTATGACATTCGATGTTTTAATATTAACGG
Found at i:161124 original size:17 final size:18
Alignment explanation
Indices: 161098--161137 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
161088 GATTAAAGCT
* *
161098 CTTTTGTAAGGATGA-TA
1 CTTTTCTAAGAATGATTA
161115 CTTTTCTAAGAATGATTA
1 CTTTTCTAAGAATGATTA
161133 CTTTT
1 CTTTT
161138 GGGAATCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (18 bp):
CTTTTCTAAGAATGATTA
Found at i:164060 original size:12 final size:12
Alignment explanation
Indices: 164030--164060 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
164020 CAGAAGAAGA
*
164030 TATTACAGCCTC
1 TATTACTGCCTC
164042 TATTACTGCCTC
1 TATTACTGCCTC
164054 TATTACT
1 TATTACT
164061 ACTGATGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (12 bp):
TATTACTGCCTC
Found at i:169488 original size:40 final size:41
Alignment explanation
Indices: 169427--169872 Score: 202
Period size: 40 Copynumber: 10.5 Consensus size: 41
169417 CCAGAACTCT
*
169427 TCATCACGTATGAG-TCGTGTCATCACC-TGACCTGATCTCC
1 TCATCACGTAGGAGCT-GTGTCATCACCTTGACCTGATCTCC
* *
169467 TCATCACGTAGGAGCTATGTCA--ACCTTTGATAACCAG-TCGTCC
1 TCATCACGTAGGAGCTGTGTCATCACC-TTG---ACCTGATC-TCC
* * * * **
169510 TCATCACGTAGGAACTGTGTTATCACCTTTAGATTACCAGAACTAT
1 TCATCACGTAGGAGCTGTGTCATCACC-TT-G---ACCTGATCTCC
*
169556 TCATCACGTATGAG-TCGTGTCATCACC-TGACCTGATCTCC
1 TCATCACGTAGGAGCT-GTGTCATCACCTTGACCTGATCTCC
*
169596 TCATCACGTAGGAGCTGTGTCA--ACCTTTGATAACCAG-TCGTCC
1 TCATCACGTAGGAGCTGTGTCATCACC-TTG---ACCTGATC-TCC
** * * ** *
169639 TCATCACGTAGGAATTGTGTTATCACCTTTAGATGACCATAACTC
1 TCATCACGTAGGAGCTGTGTCATCACCTTGACCTGATC-T--C-C
* * *
169684 TCATCACGTATGAGCCGTGTCATCACC-TGAGCTGATCTCC
1 TCATCACGTAGGAGCTGTGTCATCACCTTGACCTGATCTCC
*
169724 TCATCACGTAGGAGCTGTGTCA--ACCTTTGATAACCAG-TCGTCC
1 TCATCACGTAGGAGCTGTGTCATCACC-TTG---ACCTGATC-TCC
* * * * * * *
169767 TCATCACATAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCTGTGTCATCACC-TT-GA---CCTGATCTCC
** * *
169813 TCATCATATATGAGTTGTGTCATCACC-TGACCTGATCTCC
1 TCATCACGTAGGAGCTGTGTCATCACCTTGACCTGATCTCC
*
169853 TCTTCACGTAGGAGCTGTGT
1 TCATCACGTAGGAGCTGTGT
169873 TAACCTTTGA
Statistics
Matches: 308, Mismatches: 60, Indels: 76
0.69 0.14 0.17
Matches are distributed among these distances:
38 9 0.03
40 93 0.30
41 5 0.02
42 8 0.03
43 81 0.26
44 12 0.04
45 39 0.13
46 59 0.19
47 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (41 bp):
TCATCACGTAGGAGCTGTGTCATCACCTTGACCTGATCTCC
Found at i:169532 original size:129 final size:129
Alignment explanation
Indices: 169366--170089 Score: 923
Period size: 129 Copynumber: 5.5 Consensus size: 129
169356 TGTTACCCCA
* * * * *
169366 GATAATCAGCCGTCCTCATCACGTAAGAACCATGTTATCACTTTTAGATGGCCAGAACTCTTCAT
1 GATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCAT
*
169431 CACGTATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTATGTCAACCTTT
66 CACGTATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTT
* ** *
169495 GATAACCAGTCGTCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATTACCAGAACTATTCAT
1 GATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCAT
169560 CACGTATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTT
66 CACGTATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTT
** * *
169624 GATAACCAGTCGTCCTCATCACGTAGGAATTGTGTTATCACCTTTAGATGACCATAACTC-TCAT
1 GATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCAT
* *
169688 CACGTATGAGCCGTGTCATCACCTGAGCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTT
66 CACGTATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTT
*
169752 GATAACCAGTCGTCCTCATCACATAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCAT
1 GATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCAT
** * * *
169817 CATATATGAGTTGTGTCATCACCTGACCTGATCTCCTCTTCACGTAGGAGCTGTGTTAACCTTT
66 CACGTATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTT
* * * ** * *
169881 GATAACAAGTCGTGCTCATCTCGTAGGAACCAAGTTATCATCATTCTTAAAGATGGCTAAGAACT
1 GATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCA-C---CTT-TAGATGGC-CAGAACT
* ** * * * *
169946 CTTCATCATGTATGAGTAATGTCATCA-CTCGA-CTAAATTTCCTCATCACTTAGGAGCTGTGTT
60 CTTCATCACGTATGAGTCGTGTCATCACCT-GACCT-GATCTCCTCATCACGTAGGAGCTGTGTC
170009 AACCTTT
123 AACCTTT
* * * ** *
170016 GATAACTAGTCGTCCTCATCGCATAGGAACCAAGTTATCACTCTTCTTAAAGATGACCAAGAACT
1 GATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCAC-C-T-TT--AGATGGCC-AGAACT
170081 CTTCATCAC
60 CTTCATCAC
170090 AAACCAAGTT
Statistics
Matches: 530, Mismatches: 51, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
128 121 0.23
129 270 0.51
130 1 0.00
132 2 0.00
133 4 0.01
134 13 0.02
135 119 0.22
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (129 bp):
GATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCAT
CACGTATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTT
Found at i:169835 original size:257 final size:257
Alignment explanation
Indices: 169366--170090 Score: 950
Period size: 257 Copynumber: 2.8 Consensus size: 257
169356 TGTTACCCCA
* * * *
169366 GATAATCAGCCGTCCTCATCACGTAAGAACCATGTTATCACTTTTAGATGGCCAGAACTCTTCAT
1 GATAACCAGTCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCAT
*
169431 CACGTATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTATGTCAACCTTTG
66 CACGTATGAGTCGTGTCATCACCTGA-CTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTTG
* * * *
169496 ATAACCAGTCGTCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATTACCAGAACTATTCATC
130 ATAACCAGTCGTCCTCATCACATAGGAACCGTGTTATCACCTTTAGATGACCAGAACTCTTCATC
*
169561 ACGTATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTT
195 ACATATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTT
*** * *
169624 GATAACCAGTCGTCCTCATCACGTAGGAATTGTGTTATCACCTTTAGATGACCATAACTC-TCAT
1 GATAACCAGTCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCAT
*
169688 CACGTATGAGCCGTGTCATCACCTGAGCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTTG
66 CACGTATGAGTCGTGTCATCACCTGA-CTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTTG
*
169753 ATAACCAGTCGTCCTCATCACATAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATC
130 ATAACCAGTCGTCCTCATCACATAGGAACCGTGTTATCACCTTTAGATGACCAGAACTCTTCATC
* * * *
169818 ATATATGAGTTGTGTCATCACCTGACCTGATCTCCTCTTCACGTAGGAGCTGTGTTAACCTTT
195 ACATATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTT
* * * * * *
169881 GATAACAAGTCGTGCTCATCTCGTAGGAACCAAGTTATCATCATTCTTAAAGATGGCTAAGAACT
1 GATAACCAGTCGTCCTCATCACGTAGGAACCATGTTATCA-C---CTT-TAGATGGC-CAGAACT
* ** * * * *
169946 CTTCATCATGTATGAGTAATGTCATCA-CTCGACTAAATTTCCTCATCACTTAGGAGCTGTGTTA
60 CTTCATCACGTATGAGTCGTGTCATCACCT-GACT-GATCTCCTCATCACGTAGGAGCTGTGTCA
* * **
170010 ACCTTTGATAACTAGTCGTCCTCATCGCATAGGAACCAAGTTATCACTCTTCTTAAAGATGACCA
123 ACCTTTGATAACCAGTCGTCCTCATCACATAGGAACCGTGTTATCAC-C-T-TT--AGATGACC-
170075 AGAACTCTTCATCACA
182 AGAACTCTTCATCACA
170091 AACCAAGTTA
Statistics
Matches: 405, Mismatches: 47, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
257 217 0.54
258 52 0.13
261 3 0.01
262 6 0.01
263 10 0.02
264 91 0.22
265 1 0.00
266 1 0.00
267 2 0.00
269 7 0.02
270 15 0.04
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (257 bp):
GATAACCAGTCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCAT
CACGTATGAGTCGTGTCATCACCTGACTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTTGA
TAACCAGTCGTCCTCATCACATAGGAACCGTGTTATCACCTTTAGATGACCAGAACTCTTCATCA
CATATGAGTCGTGTCATCACCTGACCTGATCTCCTCATCACGTAGGAGCTGTGTCAACCTTT
Found at i:170115 original size:48 final size:48
Alignment explanation
Indices: 170043--170137 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
170033 ATCGCATAGG
*
170043 AACCAAGTTATCACTCTTCTTAAAGATGACCAAGAACTCTTCATCACA
1 AACCAAGTTATCACTCTTCCTAAAGATGACCAAGAACTCTTCATCACA
**
170091 AACCAAGTTATCA-TCCTTCCTAAAGATGGTCAAGAACTCTTCATCAC
1 AACCAAGTTATCACT-CTTCCTAAAGATGACCAAGAACTCTTCATCAC
170138 CTATGAGCAG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.02
48 42 0.98
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.27
Consensus pattern (48 bp):
AACCAAGTTATCACTCTTCCTAAAGATGACCAAGAACTCTTCATCACA
Found at i:172708 original size:15 final size:16
Alignment explanation
Indices: 172673--172716 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
172663 GCAACTTTTT
172673 TTTTGTCTTAAAAATGA
1 TTTT-TCTTAAAAATGA
*
172690 TTTTTCTTAAAATTG-
1 TTTTTCTTAAAAATGA
172705 TTTTT-TTAAAAA
1 TTTTTCTTAAAAA
172717 ATACAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 6 0.24
15 5 0.20
16 10 0.40
17 4 0.16
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (16 bp):
TTTTTCTTAAAAATGA
Found at i:173182 original size:13 final size:13
Alignment explanation
Indices: 173164--173190 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
173154 TTACAGACGC
173164 GCATATGAAGACT
1 GCATATGAAGACT
173177 GCATATGAAGACT
1 GCATATGAAGACT
173190 G
1 G
173191 TTCAATCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:173207 original size:4 final size:4
Alignment explanation
Indices: 173198--173236 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
173188 CTGTTCAATC
* *
173198 TATT TATT TATG TATT TATT TATG TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
173237 ACATGCATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (4 bp):
TATT
Found at i:173215 original size:12 final size:12
Alignment explanation
Indices: 173198--173232 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
173188 CTGTTCAATC
173198 TATTTATTTATG
1 TATTTATTTATG
173210 TATTTATTTATG
1 TATTTATTTATG
173222 TATTTATTTAT
1 TATTTATTTAT
173233 TTATACATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (12 bp):
TATTTATTTATG
Found at i:178257 original size:16 final size:16
Alignment explanation
Indices: 178211--178258 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
178201 TCCTAAATTT
* *
178211 TTTTTGAGTTCGAGCC
1 TTTTCGAGTTCGAGTC
*
178227 TTTTCGAGTTTGAGTC
1 TTTTCGAGTTCGAGTC
178243 TTTTCGAGTTCGAGTC
1 TTTTCGAGTTCGAGTC
178259 GAGTTTCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.12, C:0.17, G:0.25, T:0.46
Consensus pattern (16 bp):
TTTTCGAGTTCGAGTC
Found at i:182209 original size:28 final size:28
Alignment explanation
Indices: 182177--182230 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
182167 CCAGAGGCTT
*
182177 TTATATTATTAAACTTTCAATTTTATAA
1 TTATAATATTAAACTTTCAATTTTATAA
* * *
182205 TTATAATATTGATCTTTCTATTTTAT
1 TTATAATATTAAACTTTCAATTTTAT
182231 TATCATAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (28 bp):
TTATAATATTAAACTTTCAATTTTATAA
Found at i:185808 original size:24 final size:24
Alignment explanation
Indices: 185776--185822 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
185766 CAGGTTAACA
* *
185776 GGTTGACTCGGTATGAGTTGACTC
1 GGTTAACTCAGTATGAGTTGACTC
*
185800 GGTTAACTCAGTCTGAGTTGACT
1 GGTTAACTCAGTATGAGTTGACT
185823 TAATATCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (24 bp):
GGTTAACTCAGTATGAGTTGACTC
Found at i:188009 original size:16 final size:17
Alignment explanation
Indices: 187988--188020 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
187978 ACACACTAAA
187988 TCGGTT-TCGGTTTTTT
1 TCGGTTATCGGTTTTTT
188004 TCGGTTATCGGTTTTTT
1 TCGGTTATCGGTTTTTT
188021 GGATCGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.12, G:0.24, T:0.61
Consensus pattern (17 bp):
TCGGTTATCGGTTTTTT
Found at i:188080 original size:27 final size:25
Alignment explanation
Indices: 188001--188076 Score: 109
Period size: 24 Copynumber: 3.0 Consensus size: 25
187991 GTTTCGGTTT
*
188001 TTTTCGGTTATCGGTTTTTTGGATCGA
1 TTTTCGGTTAT--TTTTTTTGGATCGA
188028 TTTTCGGTTA-TTTTTTTGGATCGA
1 TTTTCGGTTATTTTTTTTGGATCGA
188052 TTTTCGGTTATTTTTTTTTGGATCG
1 TTTTCGGTTA-TTTTTTTTGGATCG
188077 GATTGGATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
24 23 0.50
26 13 0.28
27 10 0.22
ACGTcount: A:0.11, C:0.09, G:0.22, T:0.58
Consensus pattern (25 bp):
TTTTCGGTTATTTTTTTTGGATCGA
Found at i:189424 original size:54 final size:54
Alignment explanation
Indices: 189350--189864 Score: 791
Period size: 54 Copynumber: 9.6 Consensus size: 54
189340 GAATTTCTAT
* * * * *
189350 TTATTAATTTCTTAATTTGCACACACAGTGTCAATACGAAAATTTATAAACTTA
1 TTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
* * * *
189404 TTATGAATTTCTTAAGTTGCACACATAGAGCCTATAAGGAAATTCATAAACTTA
1 TTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
*
189458 TTATGAATTTCTTAAGTTGCACACACAGTGTCAATACGGAAATTCATAAACTTA
1 TTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
* *
189512 TTATGAATTTCTTAAGTTGCACACACAGTGACAATACGAAAATTCATAAACTTA
1 TTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
189566 TTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
1 TTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
*
189620 TCATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
1 TTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
*
189674 TTATGAATTTCTTAAGTTG--CACACAGTGCCAATACGTAAATTCATAAACTTA
1 TTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
* * * **
189726 TTATAAATTTCTTAAGTTGCACCCACAGTGTCAATACATAAATTCATAAACTTA
1 TTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
* * *
189780 TTATGAATTTCTTAAGTTGCACATACAGTGTCAATACGGAAATTCGTAAACTTA
1 TTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
* * *
189834 TTATAAATTTCTTAAGTTACACACATAGTGC
1 TTATGAATTTCTTAAGTTGCACACACAGTGC
189865 ACATTTGGTA
Statistics
Matches: 423, Mismatches: 36, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
52 50 0.12
54 373 0.88
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (54 bp):
TTATGAATTTCTTAAGTTGCACACACAGTGCCAATACGGAAATTCATAAACTTA
Found at i:197636 original size:18 final size:18
Alignment explanation
Indices: 197613--197647 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
197603 GGGTAATAAC
* *
197613 AAATATAGTAGATATTAA
1 AAATATAATAGAAATTAA
197631 AAATATAATAGAAATTA
1 AAATATAATAGAAATTA
197648 CAGGTAGTGC
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:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (18 bp):
AAATATAATAGAAATTAA
Found at i:202816 original size:2 final size:2
Alignment explanation
Indices: 202811--202868 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
202801 TATCTTATTC
202811 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
202853 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
202869 CCGTAAATAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:203809 original size:20 final size:20
Alignment explanation
Indices: 203781--203838 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
203771 TTTCCCTTGA
203781 AGTGCATCGATACATTCTAC
1 AGTGCATCGATACATTCTAC
* *
203801 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATACATTC--T-AC
203824 ATGTGCATCGATACA
1 A-GTGCATCGATACA
203839 CTACCCATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 15 0.50
22 1 0.03
23 3 0.10
24 11 0.37
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:203915 original size:64 final size:63
Alignment explanation
Indices: 203826--203987 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 63
203816 TCTTTAACAT
* * * *
203826 GTGCATCGATACACTACCCATGCATCGATACACAAATCACCTTCGATGTTTTAATTTTAAAGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCAATGTTTTAATTTTAAAGGG
* ** * * *
203890 GTGCATCGATGCACTCCTTATGCATCGATGCACAAATTGCATTCAATGTTTTTATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTCAATGTTTTAATTTTAAAGGG
*
203954 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
203988 CTGAACAATT
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 2 0.02
64 79 0.94
65 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCAATGTTTTAATTTTAAAGGG
Found at i:208951 original size:20 final size:20
Alignment explanation
Indices: 208923--208980 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
208913 TTTCCCTTGA
208923 AGTGCATCGATACATTCTAC
1 AGTGCATCGATACATTCTAC
* *
208943 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATACATTC--T-AC
208966 ATGTGCATCGATACA
1 A-GTGCATCGATACA
208981 CTACCCATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 15 0.50
22 1 0.03
23 3 0.10
24 11 0.37
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:209077 original size:64 final size:64
Alignment explanation
Indices: 208968--209129 Score: 193
Period size: 64 Copynumber: 2.5 Consensus size: 64
208958 TCTTTAACAT
* * * *
208968 GTGCATCGATACACTACCCATGCATCGATACACAAATCACCTTCGATGTTT-TAATTTTAAGGGG
1 GTGCATCGATGCACTTCCTATGCATCGATACACAAATCACATTCGATGTTTCTAATTTTAA-GGG
* * * * * *
209032 GTGCATTGATGCAC-TCCTTATGCATCGATGCACTAATTACATTCGATGTTTCTATTTTTAATGG
1 GTGCATCGATGCACTTCC-TATGCATCGATACACAAATCACATTCGATGTTTCTAATTTTAAGGG
*
209096 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCACTTCCTATGCATCGATACACA
209130 CTGAACAATT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
63 2 0.02
64 68 0.84
65 11 0.14
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTTCCTATGCATCGATACACAAATCACATTCGATGTTTCTAATTTTAAGGG
Found at i:211545 original size:85 final size:85
Alignment explanation
Indices: 211444--211609 Score: 210
Period size: 85 Copynumber: 2.0 Consensus size: 85
211434 ATACAATCAC
* * * ***
211444 GACACACGAATGTGTGTCATCTT-TTTTAATGGCGTTTGCTTCAATGACACGCAATGTAA-GTCA
1 GACACACAAATGTGTGTCATCTTAATTT-ATGACGGGGGCTTCAATGACACGCAATG-AACGTCA
* *
211507 TACATGCGTGTCATAAATTTAT
64 TAAATGCGCGTCATAAATTTAT
* *
211529 GACACACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACGCTCAATGAACGTCATA
1 GACACACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACACGCAATGAACGTCATA
211594 AATGCGCGTCATAAAT
66 AATGCGCGTCATAAAT
211610 GTGTGTCATA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 2 0.03
85 64 0.93
86 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (85 bp):
GACACACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACACGCAATGAACGTCATA
AATGCGCGTCATAAATTTAT
Found at i:211603 original size:13 final size:13
Alignment explanation
Indices: 211587--211635 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
211577 GCTCAATGAA
211587 CGTCATAAATGCG
1 CGTCATAAATGCG
*
211600 CGTCATAAATGTG
1 CGTCATAAATGCG
*
211613 TGTCATAAATGCG
1 CGTCATAAATGCG
211626 CGTCATAAAT
1 CGTCATAAAT
211636 TTATGACGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:211610 original size:26 final size:26
Alignment explanation
Indices: 211581--211635 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
211571 AATGACGCTC
211581 AATGAACGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
***
211607 AATGTGTGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
211633 AAT
1 AAT
211636 TTATGACGCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (26 bp):
AATGAACGTCATAAATGCGCGTCATA
Found at i:214867 original size:26 final size:27
Alignment explanation
Indices: 214815--214871 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
214805 AATATACAAC
* * *
214815 ACAACTTTTTATAAATCACATTTAAGG
1 ACAACTTTTTATAAATCAAACTAAAGG
*
214842 ACAAC-TTTTATAAATTAAACTAAAGG
1 ACAACTTTTTATAAATCAAACTAAAGG
214868 ACAA
1 ACAA
214872 AATATTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (27 bp):
ACAACTTTTTATAAATCAAACTAAAGG
Found at i:214936 original size:27 final size:28
Alignment explanation
Indices: 214901--214964 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
214891 AAAACTTTAC
*
214901 ATAAATTAAAATTAAGG-ACAACATTTT
1 ATAAATTAAAATTAAGGAAAAACATTTT
214928 ATAAATTAAAATTAAGGATAAAACATTTT
1 ATAAATTAAAATTAAGGA-AAAACATTTT
214957 ATAAATTA
1 ATAAATTA
214965 TAATAGAGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 17 0.50
29 17 0.50
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (28 bp):
ATAAATTAAAATTAAGGAAAAACATTTT
Found at i:218649 original size:16 final size:14
Alignment explanation
Indices: 218620--218654 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
218610 CGTTCATTTA
218620 ATAAATAAACGAAC
1 ATAAATAAACGAAC
218634 ATAAATGAATACGAAC
1 ATAAAT-AA-ACGAAC
218650 ATAAA
1 ATAAA
218655 CGTTTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 2 0.11
16 11 0.58
ACGTcount: A:0.63, C:0.11, G:0.09, T:0.17
Consensus pattern (14 bp):
ATAAATAAACGAAC
Found at i:218738 original size:16 final size:16
Alignment explanation
Indices: 218717--218821 Score: 84
Period size: 16 Copynumber: 6.2 Consensus size: 16
218707 TAAATAAACG
* *
218717 AACATAAATGTACACA
1 AACATAAACGAACACA
*
218733 AACATAAACGAACACG
1 AACATAAACGAACACA
**
218749 AACATAAACGAACATG
1 AACATAAACGAACACA
218765 AACATAAACGAACACGAACA
1 AACATAAACG-A-AC--ACA
* *
218785 CGAACATAAATGAACACG
1 --AACATAAACGAACACA
*
218803 AACATAAACGAACATA
1 AACATAAACGAACACA
218819 AAC
1 AAC
218822 GTTGGAGACC
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
16 54 0.75
17 1 0.01
18 4 0.06
20 3 0.04
21 1 0.01
22 9 0.12
ACGTcount: A:0.57, C:0.22, G:0.10, T:0.10
Consensus pattern (16 bp):
AACATAAACGAACACA
Found at i:218750 original size:32 final size:32
Alignment explanation
Indices: 218714--218784 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
218704 TAATAAATAA
* *
218714 ACGAACATAAATGTACACAAACATAAACGAAC
1 ACGAACATAAACGAACACAAACATAAACGAAC
**
218746 ACGAACATAAACGAACATGAACATAAACGAAC
1 ACGAACATAAACGAACACAAACATAAACGAAC
218778 ACGAACA
1 ACGAACA
218785 CGAACATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.56, C:0.23, G:0.11, T:0.10
Consensus pattern (32 bp):
ACGAACATAAACGAACACAAACATAAACGAAC
Done.