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 13 of 17
Found at i:496013 original size:13 final size:14
Alignment explanation
Indices: 495968--496011 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
495958 AAATGTTAAT
495968 AATTAAAA-ATTTTA
1 AATTAAAATA-TTTA
*
495982 AATTTTAAATATTTA
1 AA-TTAAAATATTTA
495997 AATTAAAATATTTA
1 AATTAAAATATTTA
496011 A
1 A
496012 TTTGTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 14 0.54
15 11 0.42
16 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTAAAATATTTA
Found at i:496275 original size:20 final size:20
Alignment explanation
Indices: 496234--496275 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
496224 AGCTTGTATG
*
496234 AACTAATAATTAATATTATA
1 AACTAATAATTAAAATTATA
*
496254 AACTAAT-ATTAACAATTTTA
1 AACTAATAATTAA-AATTATA
496274 AA
1 AA
496276 TAGCTACGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AACTAATAATTAAAATTATA
Found at i:496684 original size:184 final size:179
Alignment explanation
Indices: 496286--496684 Score: 451
Period size: 181 Copynumber: 2.2 Consensus size: 179
496276 TAGCTACGAC
* * * * *
496286 TATTTGAACAATTGTCTACTTAAAATCGTTATGACTTTTTGTTTTGTCATAAAACAATTGTTTTA
1 TATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTCTTTTA
* ** *
496351 GTTCATACAGGCTTATTCAAAATAAAGTAAAACTAATTTATTAATATTCCAAAAATTAATAACTA
66 GTTCATACAAGCTTATTCAAAATAAAAAAAAACTAATTTATTAACATTCCAAAAATTAATAACTA
* *** * * *
496416 AGTGATTTAAAAAGTTAATTTGTTTATCGAATCAGTTCAAATAGTCATT
131 AGAGATTTAAAAAACAAATCTATTTATCGAAACAGTTCAAATAGTCATT
* *
496465 TCCATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTTTCATAAAACAATTCTTT
1 T--ATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTCTTT
* * * **
496530 TTGTTCATGCAAAG-TTATTCAAAATAAAAAAAAATGCTGATTTATTAACATTCTGAAAATTAAT
64 TAGTTCATAC-AAGCTTATTCAAAATAAAAAAAAA--CTAATTTATTAACATTCCAAAAATTAAT
* * *
496594 AAGTAAGAGATTTGAAAAAACAAATCTATTTA-CTAAACAAGTTCAAATAGTTATGAT
126 AACTAAGAGATTT-AAAAAACAAATCTATTTATCGAAAC-AGTTCAAATAGTCAT--T
* *
496651 TATTTGAACAACTATCTATTTAAAATTATTATGA
1 TATTTGAACAATTATCTATTTAAAATCATTATGA
496685 TTAAAAGATT
Statistics
Matches: 182, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
179 1 0.01
181 81 0.45
182 2 0.01
183 39 0.21
184 57 0.31
186 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (179 bp):
TATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTCTTTTA
GTTCATACAAGCTTATTCAAAATAAAAAAAAACTAATTTATTAACATTCCAAAAATTAATAACTA
AGAGATTTAAAAAACAAATCTATTTATCGAAACAGTTCAAATAGTCATT
Found at i:497333 original size:25 final size:26
Alignment explanation
Indices: 497279--497337 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
497269 TATAAAATAT
* * * *
497279 TTAATAATATTAGTTATTATTATTAA
1 TTAATAATATTAATAATAATTATAAA
497305 -TAATAATATTAATAATAATT-TAAA
1 TTAATAATATTAATAATAATTATAAA
497329 TTAATAATA
1 TTAATAATA
497338 ATAACCATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TTAATAATATTAATAATAATTATAAA
Found at i:497505 original size:25 final size:23
Alignment explanation
Indices: 497440--497507 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 23
497430 ATTACAAGCT
*
497440 TATAATAAATTAATTTATTTATTA
1 TATAATAAAATAA-TTATTTATTA
*
497464 -ATTAATAAAAT-AGTATTTATTA
1 TA-TAATAAAATAATTATTTATTA
497486 TATAATACAAATAACTTATTTA
1 TATAATA-AAATAA-TTATTTA
497508 CTAATTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
22 14 0.39
23 7 0.19
24 9 0.25
25 6 0.17
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (23 bp):
TATAATAAAATAATTATTTATTA
Found at i:497805 original size:22 final size:22
Alignment explanation
Indices: 497773--497828 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
497763 ATAAATTTGA
* *
497773 ATTAATAAATTATTATTAATACT
1 ATTAATTAATTAATATTAATA-T
*
497796 A-TAATTAATTAATATTTATAT
1 ATTAATTAATTAATATTAATAT
497817 ATTAATTAATTA
1 ATTAATTAATTA
497829 GCTAATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 26 0.90
23 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTAATTAATTAATATTAATAT
Found at i:497820 original size:18 final size:17
Alignment explanation
Indices: 497783--497826 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
497773 ATTAATAAAT
497783 TATT-ATTAATACTATA
1 TATTAATTAATACTATA
*
497799 -ATTAATTAATATTTATA
1 TATTAATTAATA-CTATA
497816 TATTAATTAAT
1 TATTAATTAAT
497827 TAGCTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 4 0.17
18 10 0.42
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAATTAATACTATA
Found at i:497951 original size:14 final size:13
Alignment explanation
Indices: 497933--497979 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
497923 TAATTATTAA
497933 AAATTATATATTT
1 AAATTATATATTT
*
497946 ATAATT-TAT-TAT
1 A-AATTATATATTT
497958 AAATTATAATATTT
1 AAATTAT-ATATTT
497972 AAATTATA
1 AAATTATA
497980 GAATATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 4 0.14
12 4 0.14
13 7 0.25
14 13 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATTATATATTT
Found at i:497961 original size:25 final size:26
Alignment explanation
Indices: 497922--497976 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
497912 TTATTAAATA
497922 ATAA-TTATTAAAAATTAT-ATATTT
1 ATAATTTATTAAAAATTATAATATTT
*
497946 ATAATTTATTATAAATTATAATATTT
1 ATAATTTATTAAAAATTATAATATTT
497972 A-AATT
1 ATAATT
497977 ATAGAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.14
25 17 0.61
26 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATAATTTATTAAAAATTATAATATTT
Found at i:497967 original size:41 final size:39
Alignment explanation
Indices: 497916--498003 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 39
497906 GTTGGTTTAT
* * *
497916 TAAATAATAATTATTAAAAATTATATATTTATAATTTATTA-
1 TAAATTATAA-TATT-AAAATTATAGA-ATATAATTTATTAC
*
497957 TAAATTATAATATTTAAATTATAGAATATAATTTATTAC
1 TAAATTATAATATTAAAATTATAGAATATAATTTATTAC
497996 TATAATTA
1 TA-AATTA
498004 CATTAGATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 12 0.29
39 11 0.27
40 9 0.22
41 9 0.22
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (39 bp):
TAAATTATAATATTAAAATTATAGAATATAATTTATTAC
Found at i:498142 original size:24 final size:24
Alignment explanation
Indices: 498113--498158 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
498103 GTATTAGATT
*
498113 TATTTTAATATCTTAATAATTATC
1 TATTTTAATATATTAATAATTATC
**
498137 TATTTTGTTATATTAATAATTA
1 TATTTTAATATATTAATAATTA
498159 AATTACTGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (24 bp):
TATTTTAATATATTAATAATTATC
Found at i:498567 original size:181 final size:179
Alignment explanation
Indices: 498250--499951 Score: 980
Period size: 178 Copynumber: 9.6 Consensus size: 179
498240 TCTAAACATA
* * * *
498250 TTCAAATAGTTATGACTATTTTAACAATTATCTATTTCTAATCATTATTG-CCTTTTGTTTTGTC
1 TTCAAATAGTTATGACTATTTGAACATTTATTTATTTCAAATCATTA-TGACCTTTTGTTTTGTC
* * * * * * *
498314 ATAAACCAATTGTTTCTGTGCATAAAAATTTATTTAAAATAAAATAATACTATTTTATTAAAATT
65 ATAAAACAATTGTTTCTATTCATACAAGTTTATTTAAAATAAAATAATACTAATTTATTAATATT
* * * *
498379 TTAAAAATTAATGAGCAAAATATTTAAAAACTAAATCTGTTTATCGAATGAG
130 CTAAAAATTAATAAGTAAAAGATTTAAAAA-TAAATCTGTTTATCGAAT-AG
* * * **
498431 TTCAAATAATTATAACTATTTAAACATTTATTTATTTCAAATCATTATGATATTTTGTTTTGTCA
1 TTCAAATAGTTATGACTATTTGAACATTTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCA
* * **
498496 TAAAAC-GTATGTTTCTATTCATACAAGTTTATTCAAAATAAAATAATACTAATAAATTAATATT
66 TAAAACAAT-TGTTTCTATTCATACAAGTTTATTTAAAATAAAATAATACTAATTTATTAATATT
* *** * * * * *
498560 CTAAAAATTAACAAGTTGGAGATTTAAAAAAAAAACTATTTA-CCATACAAG
130 CTAAAAATTAATAAGTAAAAGATTTAAAAATAAATCTGTTTATCGA-A-TAG
* * * * * * *
498611 TTTAAATAATCATGTCCATTTGAAC-TATTATTTATTTCAAATCGTTATGA-CATTT-TTTTGTC
1 TTCAAATAGTTATGACTATTTGAACAT-TTATTTATTTCAAATCATTATGACCTTTTGTTTTGTC
** * * * * * *
498673 GCAAAATAATTGTTTTTATTCAAACAAGATGATTTCAAATAAAATAATA-TAAATTTATTAATAT
65 ATAAAACAATTGTTTCTATTCATACAAGTTTATTTAAAATAAAATAATACT-AATTTATTAATAT
* * * * *
498737 T-TCAAAAATTAATAAATAAAA-ATTTAAAAACTAAATATATTT-TCTAAACACG
129 TCT-AAAAATTAATAAGTAAAAGATTTAAAAA-TAAATCTGTTTATC-GAATA-G
* * *
498789 TTCAAATAGTTATGACTTTTTGAAC-TATTATCTATTTCAAAT-AGTTATGACCCTTTGTTTTGT
1 TTCAAATAGTTATGACTATTTGAACAT-TTATTTATTTCAAATCA-TTATGACCTTTTGTTTTGT
* * * * * *
498852 CATAAACCAATTGTTTCTATTCATACAAATGTATTTGATATAAAATAATACTAATTTCTTAATAT
64 CATAAAACAATTGTTTCTATTCATACAAGTTTATTTAAAATAAAATAATACTAATTTATTAATAT
* * * * *
498917 TCCAAAAATTAATGAGTAAAAAATTTTAAAAATAAATCTGTTTACCGAGTTAG
129 TCTAAAAATTAATAAGTAAAAGA-TTTAAAAATAAATCTGTTTATCGA-ATAG
* ** * * * * * * *
498970 TTTAAATCCTCATGATTGTTTGAACAATTATTTATTTTAAAT-AGTTATAACCTTTT-TTTTGTT
1 TTCAAATAGTTATGACTATTTGAACATTTATTTATTTCAAATCA-TTATGACCTTTTGTTTTGTC
* * * * * * * *
499033 GTAAAACAATTATTTCTGTTCATACAAGCTTATTTGAAATAAAATAAAACTAATGTAATAATATT
65 ATAAAACAATTGTTTCTATTCATACAAGTTTATTTAAAATAAAATAATACTAATTTATTAATATT
* * * *
499098 CTGAAAATTAATAACTAAGAGATTTAAAAAATAAAAT-TGTTTGTCGAACTAG
130 CTAAAAATTAATAAGTAAAAGATTT-AAAAAT-AAATCTGTTTATCGAA-TAG
* * *
499150 TTCAAATAG-T-T-A--A----AAC---TA--TA--T-GAATAATTATAACCTTTTGTTTTGTCA
1 TTCAAATAGTTATGACTATTTGAACATTTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCA
* * * ** * *
499198 TAAAACAATAT-TTTCAATTCATACTAGCTTATTTGGAATAAAATAA-AATAAATTTATTAAAAT
66 TAAAACAAT-TGTTTCTATTCATACAAGTTTATTTAAAATAAAATAATACT-AATTTATTAATAT
* * * * * * * * *
499261 T-TCAAAATT--TAA-TAAGAGAATTAAAAAATAATTCTATTTACCTAACCAA
129 TCTAAAAATTAATAAGTAAAAG-ATTTAAAAATAAATCTGTTTATCGAA-TAG
** * *
499310 TTCAAATAACTATGACTATTTGAACAATTATCTATTTCAAATTC-TTATGACCTTTTGTTTTGTC
1 TTCAAATAGTTATGACTATTTGAACATTTATTTATTTCAAA-TCATTATGACCTTTTGTTTTGTC
* * * * * *
499374 ATAAAAACTAA-TGTTTTTGTTCATATAAGTTTGTTTGAAATAAAATAATACTAATCTATTAATA
65 AT-AAAAC-AATTGTTTCTATTCATACAAGTTTATTTAAAATAAAATAATACTAATTTATTAATA
* * * *
499438 TT-TCAAAAATTAAT-A--AAAA-TTTTAAAAAATAAATCTATTTATCAAACTGG
128 TTCT-AAAAATTAATAAGTAAAAGATTT-AAAAATAAATCTGTTTATCGAA-TAG
* * * * *
499488 TT-TAA-A-TTAAGACTATTT-AAGCAATTATTTATTTCAAATCATTATGACTTTTTGTTTTGTT
1 TTCAAATAGTTATGACTATTTGAA-CATTTATTTATTTCAAATCATTATGACCTTTTGTTTTGTC
* * ** * * * ** *
499549 ATAAGATAATAATTTCTATTTATTCAAGCTTATTTGGATTAAAATAATA-TAAATTTATTAATAT
65 ATAAAACAATTGTTTCTATTCATACAAGTTTATTTAAAATAAAATAATACT-AATTTATTAATAT
* * * * * * *
499613 TTTGATAATTAAAAAGTAAAAAATGTAAAAAATTAAATATGTTTA-CTGAACTAG
129 TCTAAAAATTAATAAGTAAAAGAT-TTAAAAA-TAAATCTGTTTATC-GAA-TAG
* * * * * * ** * * * *
499667 ATCAAATAGTCATGACTATTTGGATAGTTATCTATTTCAAATCGCTATGACATTTTCTTCTATCA
1 TTCAAATAGTTATGACTATTTGAACATTTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCA
* * * * ** * * *
499732 TAAAAAAATTATTTC-A---ATATAAGCTTATTCGAAATAAAATAATATTAAGTTATTAATATTT
66 TAAAACAATTGTTTCTATTCATACAAGTTTATTTAAAATAAAATAATACTAATTTATTAATATTC
* * * * * *
499793 TGAAAATTAATAATTAAGAGATTTAAAAATGATTCTGTTTA-CTGAACAAG
131 TAAAAATTAATAAGTAAAAGATTTAAAAATAAATCTGTTTATC-GAA-TAG
* * * * * ** * * *
499843 TTGAAATAATTATAATTATTTGAACAATTATTTATTGGAAATCACTATAACCTTTTGCTTTGTCA
1 TTCAAATAGTTATGACTATTTGAACATTTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCA
* * * * *
499908 T-AAACTGATTTTTTCTGTTCATACAAGCTTATTTTAAATAAAAT
66 TAAAAC-AATTGTTTCTATTCATACAAGTTTATTTAAAATAAAAT
499952 CGATTAGTTA
Statistics
Matches: 1176, Mismatches: 266, Indels: 159
0.73 0.17 0.10
Matches are distributed among these distances:
159 3 0.00
160 29 0.02
161 7 0.01
162 1 0.00
163 25 0.02
164 59 0.05
165 2 0.00
166 2 0.00
168 2 0.00
169 3 0.00
171 3 0.00
172 2 0.00
173 3 0.00
174 57 0.05
175 51 0.04
176 73 0.06
177 51 0.04
178 251 0.21
179 46 0.04
180 251 0.21
181 191 0.16
182 63 0.05
183 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (179 bp):
TTCAAATAGTTATGACTATTTGAACATTTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCA
TAAAACAATTGTTTCTATTCATACAAGTTTATTTAAAATAAAATAATACTAATTTATTAATATTC
TAAAAATTAATAAGTAAAAGATTTAAAAATAAATCTGTTTATCGAATAG
Found at i:500096 original size:16 final size:16
Alignment explanation
Indices: 500075--500109 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
500065 TACTATTGTT
* *
500075 TAAATTATTATTAATA
1 TAAATTATAACTAATA
500091 TAAATTATAACTAATA
1 TAAATTATAACTAATA
500107 TAA
1 TAA
500110 TTAATTTTAT
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:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATTATAACTAATA
Found at i:500396 original size:27 final size:27
Alignment explanation
Indices: 500365--500420 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
500355 ACATATTTAA
500365 TTAATATTAAAT-TTATGAA-TATTGATT
1 TTAAT-TTAAATATT-TGAATTATTGATT
*
500392 TTAATTTAAATATTTTAATTATTGATT
1 TTAATTTAAATATTTGAATTATTGATT
500419 TT
1 TT
500421 TATTAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (27 bp):
TTAATTTAAATATTTGAATTATTGATT
Found at i:500679 original size:142 final size:141
Alignment explanation
Indices: 500448--500712 Score: 349
Period size: 142 Copynumber: 1.9 Consensus size: 141
500438 CTAAAAAGAT
* *
500448 TTATTTTTAGATCTATTATTAATTTTTAAAATATTAATAAAGTAGTATTAATTTATTTTGAACAA
1 TTATTTTTAAATCTATTATTAATTTTTAAAATATTAATAAAGTAGTATTAATTTATTCTGAACAA
* *
500513 ACTTATATGGACAAAAACATTTGTTTTATGACAAAACAAAAGGTCATAATTATTTAAACTAGTTA
66 ACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTCATAATGATTTAAACTAGTTA
500578 GGTAAGCAAAA
131 GGTAAGCAAAA
* * * * * *
500589 TTATTTGTTAAATCTCTTATTAATTTTTGAAATATTAATAAATTCA-TTTTATTTTATTCTGAAT
1 TTATTT-TTAAATCTATTATTAATTTTTAAAATATTAATAAAGT-AGTATTAATTTATTCTGAAC
* *
500653 AAGC-TAGTATGAATTGAAAAA-A-TTGTTTTATGACAAAACAAAAGGTCATAATGATTTAAA
64 AAACTTA-TATGAA--CAAAAACATTTGTTTTATGACAAAACAAAAGGTCATAATGATTTAAA
500713 ATAGATAATT
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
141 8 0.07
142 92 0.86
143 2 0.02
144 5 0.05
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (141 bp):
TTATTTTTAAATCTATTATTAATTTTTAAAATATTAATAAAGTAGTATTAATTTATTCTGAACAA
ACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTCATAATGATTTAAACTAGTTA
GGTAAGCAAAA
Found at i:500865 original size:181 final size:179
Alignment explanation
Indices: 500555--501473 Score: 773
Period size: 181 Copynumber: 5.1 Consensus size: 179
500545 AAAACAAAAG
* * * *
500555 GTCATAATTATTTAAACTAGTT-AGGTAAGCAAAATTATTTGTTAAA-TC-T-CTTATTAATTTT
1 GTCATAACTATTTAAACTAGTTCA-GTAAACAAATTTATTTTTTAAACTCTTACTTATTAATTTT
* * * * * *
500616 TGAAATATTAATAAATTCA-TTTTATTTTA-TTCTGAATAAGCTAGTATGAATTGAAAAAATTGT
65 AG-AATATTAATAAATT-AGTATTATTTTATTTC-AAATAAGCTTGTATGAAATGAAACAATTGT
*
500679 TTTATGACAAAACAAAAGGTCATAATGATTTAAAATAGATAATTGTTCATATA
127 TTTATGACAAAACAAAAGGTCATAATGATTTAAAATAGATAATTGTTCAAATA
* * * *
500732 GTCTTAACTATTTAAACTAGTTCAGCAAACAAATTTATTGTTTAAATCTCTTAGTTATTAATTTT
1 GTCATAACTATTTAAACTAGTTCAGTAAACAAATTTATTTTTTAAA-CTCTTACTTATTAATTTT
* * * * *
500797 CAGAGTATTATTATATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACATG-AATAATTATT
65 -AGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAA-ATGAAACAATTGTT
* * * * * *
500861 TTATGACAGAACAAAAAAGGTTTATTTTTTAAATAATTGATTTAAACTATACATTTGTTCAAATA
128 TTATGACA-AA-ACAAAAGG---------T-CATAA-TGATTTAAAATAGATAATTGTTCAAATA
** * *
500926 GTCATAACTATTTAAACGGGTTC-GATAAATAAATTTATTTTTTAAATTTCTTACTTATTAACTT
1 GTCATAACTATTTAAACTAGTTCAG-TAAACAAATTTATTTTTTAAA-CTCTTACTTATTAA-TT
* *
500990 TT-GAAAGATTAATAAATTAGTATTATTTTATTT----TGAAGCTTGTATG--ATAAAACAATTG
63 TTAG-AATATTAATAAATTAGTATTATTTTATTTCAAAT-AAGCTTGTATGAAATGAAACAATTG
* * * ** * * * *
501048 TTATATTACCAAACAAAAGGGAAT-CTCGATTTCAAATAGATAATTGTTGAAACA
126 TTTTATGACAAAACAAAAGGTCATAAT-GATTTAAAATAGATAATTGTTCAAATA
* * * * ** *
501102 GCCATAATTATTTGAACTAATTTTGTAAACAGAA-TCATTTTTTAAA-TC--ACTTATTAATTTT
1 GTCATAACTATTTAAACTAGTTCAGTAAACA-AATTTATTTTTTAAACTCTTACTTATTAA-TTT
* * * *
501163 TGGAATATTAATAAATTACTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAACAATTGTTT
64 TAGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAAATGAAACAATTGTTT
*
501228 TATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATA
129 TATGACAAAACAAAAGGTCATAATGATTTAAAATAGATAATTGTTCAAATA
* * * * * *
501279 GTCATAACTATTTGAATTTGTTCAGTAAATAAATTAATTTTTTTAAACTCTTGCTTATTAATTTT
1 GTCATAACTATTTAAACTAGTTCAGTAAACAAATTTA-TTTTTTAAACTCTTACTTATTAATTTT
* * * * * *
501344 TGAAATATTAAGAAATTAGTATTATTTTATTTTAGATAAGCTTTTATGAATTGAAACAATTGTTT
65 AG-AATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAAATGAAACAATTG--T
* * * * *
501409 TTTTTGCCAAAACAAAAGGTCATAATGATTT-AAATAAATAATTATTCAAACA
127 TTTATGACAAAACAAAAGGTCATAATGATTTAAAATAGATAATTGTTCAAATA
501461 GTCATAACTATTT
1 GTCATAACTATTT
501474 GAATTTAATT
Statistics
Matches: 597, Mismatches: 99, Indels: 87
0.76 0.13 0.11
Matches are distributed among these distances:
172 40 0.07
173 1 0.00
174 2 0.00
175 12 0.02
176 55 0.09
177 121 0.20
178 11 0.02
179 4 0.01
180 7 0.01
181 122 0.20
182 39 0.07
183 37 0.06
187 7 0.01
188 4 0.01
189 13 0.02
190 1 0.00
191 11 0.02
192 1 0.00
193 6 0.01
194 99 0.17
195 4 0.01
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (179 bp):
GTCATAACTATTTAAACTAGTTCAGTAAACAAATTTATTTTTTAAACTCTTACTTATTAATTTTA
GAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAAATGAAACAATTGTTTTA
TGACAAAACAAAAGGTCATAATGATTTAAAATAGATAATTGTTCAAATA
Found at i:501270 original size:177 final size:178
Alignment explanation
Indices: 500915--501476 Score: 572
Period size: 177 Copynumber: 3.2 Consensus size: 178
500905 AACTATACAT
* * *** * * *
500915 TTGTTCAAATAGTCATAACTATTTAAACGGGTTC-GATAAATAAATTTA-TTTTTTAAATTTCTT
1 TTGTTCAAACAGTCATAACTATTTGAACTAATTCAG-TAAACAAATTAATTTTTTTAAA-CTC-T
* * *
500978 ACTTATTAACTTTTGAAAGATTAATAAATTAGTATTATTTTATTT---TGAAGCTTGTATG-ATA
63 ACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTGAAT-AAGCTTGTATGAATG
* * * ** * *
501039 AAACAATTGTTATATTACCAAACAAAAGGGAAT-CTCGATTTCAAATAGATAA
127 AAACAATTGTTTTATGACAAAACAAAAGGTCATAAT-GATTTTAAATAGATAA
* * * ** *
501091 TTGTTGAAACAGCCATAATTATTTGAACTAATTTTGTAAACAGAA-TCA-TTTTTTAAA-TC-AC
1 TTGTTCAAACAGTCATAACTATTTGAACTAATTCAGTAAACA-AATTAATTTTTTTAAACTCTAC
* *
501152 TTATTAATTTTTGGAATATTAATAAATTACTATTATTTTATTTCGAATAAGCTTGTATGAACTGA
65 TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT-GAATAAGCTTGTATGAA-TGA
501217 AACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAA
128 AACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAA
* * ** * *
501268 TTGTTCAAATAGTCATAACTATTTGAATTTGTTCAGTAAATAAATTAATTTTTTTAAACTCTTGC
1 TTGTTCAAACAGTCATAACTATTTGAACTAATTCAGTAAACAAATTAATTTTTTTAAACTC-TAC
* * *
501333 TTATTAATTTTTGAAATATTAAGAAATTAGTATTATTTTATTTTAGATAAGCTTTTATGAATTGA
65 TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTGA-ATAAGCTTGTATGAA-TGA
* * *
501398 AACAATTGTTTTTTTTGCCAAAACAAAAGGTCATAATGA-TTTAAATAAATAA
128 AACAATTG--TTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAA
*
501450 TTATTCAAACAGTCATAACTATTTGAA
1 TTGTTCAAACAGTCATAACTATTTGAA
501477 TTTAATTGGT
Statistics
Matches: 323, Mismatches: 46, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
172 41 0.13
174 2 0.01
175 11 0.03
176 45 0.14
177 81 0.25
178 10 0.03
179 2 0.01
180 1 0.00
181 66 0.20
182 37 0.11
183 27 0.08
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (178 bp):
TTGTTCAAACAGTCATAACTATTTGAACTAATTCAGTAAACAAATTAATTTTTTTAAACTCTACT
TATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTGAATAAGCTTGTATGAATGAAAC
AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAA
Found at i:501552 original size:23 final size:24
Alignment explanation
Indices: 501524--501568 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
501514 CTTATTAATT
501524 TTTTAAATGTT-AATAATTAAAAA
1 TTTTAAATGTTAAATAATTAAAAA
* *
501547 TTTTAAATTTTAAATATTTAAA
1 TTTTAAATGTTAAATAATTAAA
501569 TTAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTTAAATGTTAAATAATTAAAAA
Found at i:501583 original size:13 final size:14
Alignment explanation
Indices: 501538--501581 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
501528 AAATGTTAAT
501538 AATTAAAA-ATTTTA
1 AATTAAAATA-TTTA
*
501552 AATTTTAAATATTTA
1 AA-TTAAAATATTTA
501567 AATTAAAATATTTA
1 AATTAAAATATTTA
501581 A
1 A
501582 TTTGTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 14 0.54
15 11 0.42
16 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTAAAATATTTA
Found at i:501845 original size:20 final size:20
Alignment explanation
Indices: 501804--501845 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
501794 AGCTTGTATG
*
501804 AACTAATAATTAATATTATA
1 AACTAATAATTAAAATTATA
*
501824 AACTAAT-ATTAACAATTTTA
1 AACTAATAATTAA-AATTATA
501844 AA
1 AA
501846 TAGCTACGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AACTAATAATTAAAATTATA
Found at i:502226 original size:183 final size:178
Alignment explanation
Indices: 501856--502252 Score: 451
Period size: 183 Copynumber: 2.2 Consensus size: 178
501846 TAGCTACGAC
* * * *
501856 TATTTGAACAATTGTCTACTTAAAATCGTTATGACTTTTGTTTTGTCATAAAACAATTGTTTTAG
1 TATTTGAACAATTATCTATTTAAAATCATTATGACTTTTGTTTTGTCATAAAACAATTCTTTTAG
* ** *
501921 TTCATACAGGCTTATTCAAAATAAAGTAAAACTAATTTATTAATATTCCAAAAATTAATAACTAA
66 TTCATACAAGCTTATTCAAAATAAAAAAAAACTAATTTATTAACATTCCAAAAATTAATAACTAA
* * * * * *
501986 GTGATTTAAAAAGTTAATTTGTTTATCGAATCAGTTCAAATAGTCATT
131 GAGATTTAAAAAATAAATCTATTTATCGAAACAGTTCAAATAGTCATT
* *
502034 TCCATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTTTTCATAAAACAATTCTT
1 T--ATTTGAACAATTATCTATTTAAAATCATTATGA-CTTTTG-TTTTGTCATAAAACAATTCTT
* * **
502099 TT-GTTCATGCAAAG-TTATTCAAAATAAAAAAAAATGCTGATTTATTAACATTCTGAAAATTAA
62 TTAGTTCATAC-AAGCTTATTCAAAATAAAAAAAAA--CTAATTTATTAACATTCCAAAAATTAA
* *
502162 TAAGTAAGAGATTTGAAAAAATAAATCTATTTA-CTAAACAAGTTCAAATAGT-ATGAT
124 TAACTAAGAGATTT-AAAAAATAAATCTATTTATCGAAAC-AGTTCAAATAGTCAT--T
* *
502219 TATTTGAACAACTATCTATTTAAAATTATTATGA
1 TATTTGAACAATTATCTATTTAAAATCATTATGA
502253 TTAAAAGATT
Statistics
Matches: 183, Mismatches: 25, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
178 1 0.01
180 29 0.16
181 31 0.17
182 23 0.13
183 71 0.39
184 26 0.14
185 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (178 bp):
TATTTGAACAATTATCTATTTAAAATCATTATGACTTTTGTTTTGTCATAAAACAATTCTTTTAG
TTCATACAAGCTTATTCAAAATAAAAAAAAACTAATTTATTAACATTCCAAAAATTAATAACTAA
GAGATTTAAAAAATAAATCTATTTATCGAAACAGTTCAAATAGTCATT
Found at i:502901 original size:25 final size:26
Alignment explanation
Indices: 502847--502905 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
502837 TATAAAATAT
* * * *
502847 TTAATAATATTAGTTATTATTATTAA
1 TTAATAATATTAATAATAATTATAAA
502873 -TAATAATATTAATAATAATT-TAAA
1 TTAATAATATTAATAATAATTATAAA
502897 TTAATAATA
1 TTAATAATA
502906 ATAACCATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TTAATAATATTAATAATAATTATAAA
Found at i:503073 original size:25 final size:23
Alignment explanation
Indices: 503008--503075 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 23
502998 ATTACAAGCT
*
503008 TATAATAAATTAATTTATTTATTA
1 TATAATAAAATAA-TTATTTATTA
*
503032 -ATTAATAAAAT-AGTATTTATTA
1 TA-TAATAAAATAATTATTTATTA
503054 TATAATACAAATAACTTATTTA
1 TATAATA-AAATAA-TTATTTA
503076 CTAATTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
22 14 0.39
23 7 0.19
24 9 0.25
25 6 0.17
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (23 bp):
TATAATAAAATAATTATTTATTA
Found at i:503360 original size:22 final size:22
Alignment explanation
Indices: 503328--503383 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
503318 ATAAATTTGA
* *
503328 ATTAATAAATTATTATTAATACT
1 ATTAATTAATTAATATTAATA-T
*
503351 A-TAATTAATTAATATTTATAT
1 ATTAATTAATTAATATTAATAT
503372 ATTAATTAATTA
1 ATTAATTAATTA
503384 GCTAATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 26 0.90
23 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTAATTAATTAATATTAATAT
Found at i:503375 original size:18 final size:17
Alignment explanation
Indices: 503338--503381 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
503328 ATTAATAAAT
503338 TATT-ATTAATACTATA
1 TATTAATTAATACTATA
*
503354 -ATTAATTAATATTTATA
1 TATTAATTAATA-CTATA
503371 TATTAATTAAT
1 TATTAATTAAT
503382 TAGCTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 4 0.17
18 10 0.42
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAATTAATACTATA
Found at i:503506 original size:14 final size:13
Alignment explanation
Indices: 503488--503534 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
503478 TAATTATTAA
503488 AAATTATATATTT
1 AAATTATATATTT
*
503501 ATAATT-TAT-TAT
1 A-AATTATATATTT
503513 AAATTATAATATTT
1 AAATTAT-ATATTT
503527 AAATTATA
1 AAATTATA
503535 GAATATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 4 0.14
12 4 0.14
13 7 0.25
14 13 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATTATATATTT
Found at i:503516 original size:25 final size:26
Alignment explanation
Indices: 503477--503531 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
503467 TTATTAAATA
503477 ATAA-TTATTAAAAATTAT-ATATTT
1 ATAATTTATTAAAAATTATAATATTT
*
503501 ATAATTTATTATAAATTATAATATTT
1 ATAATTTATTAAAAATTATAATATTT
503527 A-AATT
1 ATAATT
503532 ATAGAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.14
25 17 0.61
26 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATAATTTATTAAAAATTATAATATTT
Found at i:503522 original size:41 final size:39
Alignment explanation
Indices: 503471--503558 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 39
503461 GTTGGTTTAT
* * *
503471 TAAATAATAATTATTAAAAATTATATATTTATAATTTATTA-
1 TAAATTATAA-TATT-AAAATTATAGA-ATATAATTTATTAC
*
503512 TAAATTATAATATTTAAATTATAGAATATAATTTATTAC
1 TAAATTATAATATTAAAATTATAGAATATAATTTATTAC
503551 TATAATTA
1 TA-AATTA
503559 CATTAGATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 12 0.29
39 11 0.27
40 9 0.22
41 9 0.22
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (39 bp):
TAAATTATAATATTAAAATTATAGAATATAATTTATTAC
Found at i:503697 original size:24 final size:24
Alignment explanation
Indices: 503668--503713 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
503658 GTATTAGATT
*
503668 TATTTTAATATCTTAATAATTATC
1 TATTTTAATATATTAATAATTATC
**
503692 TATTTTGTTATATTAATAATTA
1 TATTTTAATATATTAATAATTA
503714 AATTACTGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (24 bp):
TATTTTAATATATTAATAATTATC
Found at i:504393 original size:146 final size:144
Alignment explanation
Indices: 504200--504473 Score: 349
Period size: 146 Copynumber: 1.9 Consensus size: 144
504190 TATTATTTAT
* * *
504200 TTCAAATCGTTATGACATTTTTTTGTCGCAAAATAATTGTTTTTATTCAAACAAGATG-ATTTCA
1 TTCAAATAGTTATGACATTTTTTTGTCGCAAAACAATTGTTTCTATTCAAACAA-ATGTATTTCA
*
504264 AATAAAATAATA-TAAATTTATTAATATTTCAAAAATTAATAAAT-AAAAA-TTTAAAAACTAAA
65 AATAAAATAATACT-AATTTATTAATATTCCAAAAATTAATAAATAAAAAATTTTAAAAA-TAAA
504326 TATATTTTCTAAACACG
128 TATATTTTCTAAACACG
* * * *
504343 TTCAAATAGTTATGACCCTTTTGTTTTGTCGTAAACCAATTGTTTCTATTCATACAAATGTATTT
1 TTCAAATAGTTATGA--CATTT-TTTTGTCGCAAAACAATTGTTTCTATTCAAACAAATGTATTT
* * * * *
504408 GATATAAAATAATACTAATTTCTTAATATTCCAAAAATTAATGAGTAAAAAATTTTAAAAATAAA
63 CAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAATAAAAAATTTTAAAAATAAA
504473 T
128 T
504474 CTGTTTACCG
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
143 14 0.13
145 7 0.06
146 71 0.64
147 11 0.10
148 8 0.07
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.40
Consensus pattern (144 bp):
TTCAAATAGTTATGACATTTTTTTGTCGCAAAACAATTGTTTCTATTCAAACAAATGTATTTCAA
ATAAAATAATACTAATTTATTAATATTCCAAAAATTAATAAATAAAAAATTTTAAAAATAAATAT
ATTTTCTAAACACG
Found at i:504695 original size:181 final size:179
Alignment explanation
Indices: 504346--504788 Score: 482
Period size: 181 Copynumber: 2.4 Consensus size: 179
504336 AAACACGTTC
* * * *
504346 AAATAGTTATGACCCTTTTGTTTTGTCGTAAACCAATTGTTTCTATTCATACAAATGTATTTGAT
1 AAATAGTTATGA-CCTTTTATTTTGTCATAAAACAATTGTTTCTATTCATAC-AATTTATTTGA-
** * *
504411 ATAAAATAATACTAATTTCTTAATATTCCAAAAATTAATGAGTAAAAAATTTTAAAAATAAATCT
63 ATAAAATAATACTAATTGATTAATACTCCAAAAATTAATGAGTAAAAAATTTAAAAAATAAATCT
*** * **
504476 GTTTACCGAGTTAGTTTAAATCATCATGATTGTTTGAACAATTATTTATTTT
128 GTTTACCGAACAAGTTCAAATCATCATGATCATTTGAACAATTATTTATTTT
* * *
504528 AAATAGTTATGATCTTTTTTTTTGTCCTAAAACAATTGTTTCTATTCATACAAGTTTATTTGGAA
1 AAATAGTTATGACCTTTTATTTTGTCATAAAACAATTGTTTCTATTCATACAA-TTTATTT-GAA
* * ** * *
504593 TAAAATAATACTAATTGATTAATACTCTAAAAATTAGT-AGGTAGGAGATTTAAAAAATAACTCT
64 TAAAATAATACTAATTGATTAATACTCCAAAAATTAATGA-GTAAAAAATTTAAAAAATAAATCT
** *
504657 GTTTGTCGAACAAGTTCAAAT-AGTTATG-TCCATTTGAACAATTATTTATTTT
128 GTTTACCGAACAAGTTCAAATCA-TCATGAT-CATTTGAACAATTATTTATTTT
* *
504709 AAATCA-TTATGACCTTTTATTTTGTCATAAAACAATTGTTTCTGTTCATGTACAA-TTATTCAG
1 AAAT-AGTTATGACCTTTTATTTTGTCATAAAACAATTGTTTCTATTCA--TACAATTTATT-TG
*
504772 AATAAAATAATAGTAAT
62 AATAAAATAATACTAAT
504789 CTATTCATAT
Statistics
Matches: 222, Mismatches: 30, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
180 5 0.02
181 197 0.89
182 15 0.07
183 5 0.02
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (179 bp):
AAATAGTTATGACCTTTTATTTTGTCATAAAACAATTGTTTCTATTCATACAATTTATTTGAATA
AAATAATACTAATTGATTAATACTCCAAAAATTAATGAGTAAAAAATTTAAAAAATAAATCTGTT
TACCGAACAAGTTCAAATCATCATGATCATTTGAACAATTATTTATTTT
Found at i:504971 original size:162 final size:163
Alignment explanation
Indices: 504669--504971 Score: 342
Period size: 162 Copynumber: 1.8 Consensus size: 163
504659 TTGTCGAACA
* * * *
504669 AGTTCAAATAGTTATGTCCATTTGAACAATTATTTATTTTAAATCATTATGACCTTTTATTTTGT
1 AGTTCAAATAGTTATGACCATTTGAACAATTATCTATATCAAATCATTATGACCTTTTATTTTGT
* * *
504734 CATAAAACAATTGTTTCTGTTCATGTACAATTATTCAGAATAAAATAATAGTAATCTATTCATAT
66 CAT---A-AATTGTTTCTGTTCA-GTACAATTATTCAGAATAAAATAATACTAATCTAATAATAT
***
504799 TTTGAAAATTAATAAAACTTAAATTTGTTTACCGAAAT
126 TCCAAAAATTAATAAAACTTAAATTTGTTTACCGAAAT
* * * ** *
504837 AGTTTAAATAGTTATGACTATTTGAATAATTATCTATATCAAATTGTTATGA-TTTTTATTTTGT
1 AGTTCAAATAGTTATGACCATTTGAACAATTATCTATATCAAATCATTATGACCTTTTATTTTGT
* * * *
504901 CAT-AATTGTTTCTTTTCA-TACAAGCTTATTCATATTAAAATAATACTAATTTAATAATATTCC
66 CATAAATTGTTTCTGTTCAGTACAA--TTATTCAGAATAAAATAATACTAATCTAATAATATTCC
504964 AAAAATTA
129 AAAAATTA
504972 GTAAGAGATT
Statistics
Matches: 113, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
160 5 0.04
162 51 0.45
167 14 0.12
168 43 0.38
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.45
Consensus pattern (163 bp):
AGTTCAAATAGTTATGACCATTTGAACAATTATCTATATCAAATCATTATGACCTTTTATTTTGT
CATAAATTGTTTCTGTTCAGTACAATTATTCAGAATAAAATAATACTAATCTAATAATATTCCAA
AAATTAATAAAACTTAAATTTGTTTACCGAAAT
Found at i:505755 original size:179 final size:180
Alignment explanation
Indices: 505421--505763 Score: 487
Period size: 179 Copynumber: 1.9 Consensus size: 180
505411 TTATTAATAT
* * * * * * * *
505421 TTTAAAAATAAATCTGTTTACTGAGCTAATTCAAATCGTTATGACTATTTGAACAATTTTTTATT
1 TTTAAAAATAAATCTATTTACTGAGATAAGTCAAATAGTCATGACCATTTGAACAATTATCTATT
* * ** *
505486 TCAAATAGTTATGATCTTTTGTTTTGTCCTAAAACAATTGTTTCTATTCATACAAGTTTATTTGA
66 TCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAAATTATTAGA
505551 AATAAAATAATACTAATTGATTAATACTTTGAAAGTTAGTAGGTAGGAGA
131 AATAAAATAATACTAATTGATTAATACTTTGAAAGTTAGTAGGTAGGAGA
*
505601 TTTAAAAATAAATCTATTTACTGA-ATAAGTCTAAATAGTCATGTCCATTTGAACAATTATCTAT
1 TTTAAAAATAAATCTATTTACTGAGATAAGTC-AAATAGTCATGACCATTTGAACAATTATCTAT
505665 TTCAAATAGTTATGACCTTTT-TTTTGTCATAAAACAATTGTTTCTATTCATACAAAATTATTCA
65 TTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAAATTATT-A
* *
505729 G-AATAAAATAATACTGATCT-ATTAATATTTTGAAA
129 GAAATAAAATAATACTAAT-TGATTAATACTTTGAAA
505764 ATTAATAAGA
Statistics
Matches: 144, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
179 73 0.51
180 71 0.49
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (180 bp):
TTTAAAAATAAATCTATTTACTGAGATAAGTCAAATAGTCATGACCATTTGAACAATTATCTATT
TCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAAATTATTAGA
AATAAAATAATACTAATTGATTAATACTTTGAAAGTTAGTAGGTAGGAGA
Found at i:506612 original size:8 final size:8
Alignment explanation
Indices: 506601--506625 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
506591 TATTTGTTTA
506601 TTAATTAT
1 TTAATTAT
506609 TTAATTAT
1 TTAATTAT
506617 TTAATTAT
1 TTAATTAT
506625 T
1 T
506626 ATTGATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTAATTAT
Found at i:506639 original size:16 final size:17
Alignment explanation
Indices: 506597--506658 Score: 74
Period size: 16 Copynumber: 3.6 Consensus size: 17
506587 ATTTTATTTG
*
506597 TTTATTAATTATTTAATTA
1 TTTATT-ATTA-TTGATTA
506616 TTTAATTATTATTGATT-
1 TTT-ATTATTATTGATTA
506633 TTTATTATTA-TGATTA
1 TTTATTATTATTGATTA
506649 TTTATTATTA
1 TTTATTATTA
506659 ATAGTTTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 5 0.12
16 17 0.43
17 3 0.08
18 5 0.12
19 7 0.17
20 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTATTATTATTGATTA
Found at i:506791 original size:25 final size:25
Alignment explanation
Indices: 506736--506794 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
506726 TATTTAATCT
*
506736 ATTAT-ATTAATATTTATAATATTA
1 ATTATAATTAATATTTATAATAATA
* *
506760 CTAATAATTAATA-TTATATATAATA
1 ATTATAATTAATATTTATA-ATAATA
506785 ATTATAATTA
1 ATTATAATTA
506795 GTAATTTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTATAATTAATATTTATAATAATA
Found at i:507136 original size:19 final size:17
Alignment explanation
Indices: 507112--507149 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
507102 TGTTTGACAT
507112 ATTAATAATTAATATTTTA
1 ATTAATAATT--TATTTTA
507131 ATTAATAATTTATTTTA
1 ATTAATAATTTATTTTA
507148 AT
1 AT
507150 AAAATAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTAATAATTTATTTTA
Found at i:507538 original size:14 final size:14
Alignment explanation
Indices: 507513--507549 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
507503 AGTGTTATTT
507513 TATTAA-TAAT-AA
1 TATTAATTAATAAA
507525 TATTTAATTAATAAA
1 TA-TTAATTAATAAA
507540 TATTAATTAA
1 TATTAATTAA
507550 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:509154 original size:180 final size:180
Alignment explanation
Indices: 508261--509689 Score: 1160
Period size: 181 Copynumber: 8.0 Consensus size: 180
508251 AATACTTATT
* ** * * * * *
508261 ATTTGAAATAGATAGTTATTTTAATAGTC-TGAACTATTTGGACTAGTTCGGCAAACACATTTAT
1 ATTTGAAATAGATAATTATTCAAATAGTCAT-AACTATTTGAACTTGTTCAGAAAACATATTTA-
* * * * * * *
508325 TTTTTTAAATC--T-CTTACTAATTTTTGGAATATTATTAAATTAATATTATTTGAATT-GAATA
64 TTTTTTAAATCTTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAATA
* *** * * * * *
508386 AGCCAATATGAAAAGAAACACTTGTTTTATGACAAAA-TAAAGATCATAAAG
129 AACTTGTATGAATAGAAATAATTGTTTTATGACAAAACAAAAGATCATAATG
* * * * *
508437 ATTTGAGATAGATAATTATTCAAATAGTTATAAATATTTGAACTCT-TTCA-ATAAATAGATTT-
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACT-TGTTCAGA-AAACATATTTA
* * * ** * * * ** *
508499 TGTTTTTAAATC--T-CTTATTAATTATAAAAATATTAGCAGATCATTATTATCATA-TTCTGAA
64 T-TTTTTAAATCTTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTC-AAA
* * ** * *
508560 T-AA-TTGTACATGAACAAAAATAATTGTTTTACAACAAAACAAAATATCATTATG
127 TAAACTTGT--ATGAATAGAAATAATTGTTTTATGACAAAACAAAAGATCATAATG
** * * *
508614 ATTTGAAATAGATAA-TAGTTCAAATAAACATGACTATTTGAACTTGATC-GATAAACAAATTTA
1 ATTTGAAATAGATAATTA-TTCAAATAGTCATAACTATTTGAACTTGTTCAGA-AAACATATTTA
** * *
508677 TTTTTTAAATCTCAAACTTATTAATTTTTAGAACACTAATAAATTAGTATTATTTTATTTCAAAT
64 TTTTTTAAATCT-TTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAAT
*
508742 AAAATTGTATGAATAGAAATAATTGTTTTATGACAAAACAAAAGATCATAATG
128 AAACTTGTATGAATAGAAATAATTGTTTTATGACAAAACAAAAGATCATAATG
* * * *
508795 ATTTGAAATAAATAATTATTCCAATAGTCATAACTATTTGAACTTGCTC-GATAAACAAATTTAT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGA-AAACATATTTAT
* *
508859 TTTTTAAATCTTCTACTTATTAATTTTTGGAATTTTAATAAATTAGTATTATTTTATTTCAAA-A
65 TTTTTAAATCTT-TACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAATA
* * * * *
508923 AAGCTTTTATGAATAGAAATAGTTGGTTTATGACAAAACAAAAGGTTATAATG
129 AA-CTTGTATGAATAGAAATAATTGTTTTATGACAAAACAAAAGATCATAATG
* * * *
508976 ATTTGAAATAGATAATTCTTCAAATAGTCATAATTATTTGAAATTGTTCAGAAAATATATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGAAAACATATTTATT
* * * *
509041 TTTTAAAGT-TTTACTTATTAATTTTTGGAATATTAATAAATTTA-AATTACTTTATTTGAAATA
66 TTTTAAA-TCTTTACTTATTAATTTTTAGAATATTAATAAA-TTAGTATTATTTTATTTCAAATA
* * ** * *
509104 AACTTGCATGAACAGAACCAATTGTTTAATGACAAAACAAAAGATTATAATG
129 AACTTGTATGAATAGAAATAATTGTTTTATGACAAAACAAAAGATCATAATG
* * * * * * *
509156 TTTTAAAATAGATAATTGTTC-GATAGTCATAACTATTTGAACTTTTTCGGTAAACATATTCT-T
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGAAAACATATT-TAT
* * * * * * *
509219 TTTTTAATTCTCTTACTCATTAATTTTTAGAACATTAATGAATTAGTATTATCTTACTTCAAAGA
65 TTTTTAAATCT-TTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAATA
* * * * * * * *
509284 AGCTTATATGAATTA-AAACAAGTGTTTTATTACAAAAGAAAAGGTCATAGTG
129 AACTTGTATGAA-TAGAAATAATTGTTTTATGACAAAACAAAAGATCATAATG
* * * * *
509336 ATTTGAAATAGATAATTATTCAAATATTCATGACTATTTGAACTTGTTTAGTAAATATATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGAAAACATATTTATT
* * * * *
509401 TTTTAAATCTTTTACTTATTAATTTTCAAAATATTTATAAATTAATATTATTTTAATTT-GAATA
66 TTTTAAATC-TTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTT-ATTTCAAATA
* **
509465 AACTTGTATGAATAGAAATAATTATTTTATGACAAAACAAAA-AGTCATAACA
129 AACTTGTATGAATAGAAATAATTGTTTTATGACAAAACAAAAGA-TCATAATG
* * * * ** * * * *
509517 AGTTAAAATA-AAAAGTGCTCAAATAGCCATAA-TGATTTGAACTTGTTTAGTAAACAGATTTAT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACT-ATTTGAACTTGTTCAGAAAACATATTTAT
*
509580 TTTTTAAATATTTTACTTATTAATTGTCTT--AATATTAATAAA-TATGTATTATTTTA-TTCGA
65 TTTTTAAAT-CTTTACTTATTAATT-T-TTAGAATATTAATAAATTA-GTATTATTTTATTTC-A
* * * * *
509641 AATAAGCTTCG-ATGAACAGAAAAAAAAATCTTTTATGACAAAACAAAAG
125 AATAAACTT-GTATGAATAG--AAATAATTGTTTTATGACAAAACAAAAG
509690 GTTATAGCTA
Statistics
Matches: 1010, Mismatches: 194, Indels: 91
0.78 0.15 0.07
Matches are distributed among these distances:
174 4 0.00
175 40 0.04
176 77 0.08
177 68 0.07
178 4 0.00
179 48 0.05
180 303 0.30
181 423 0.42
182 39 0.04
183 4 0.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (180 bp):
ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAGAAAACATATTTATT
TTTTAAATCTTTACTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCAAATAAA
CTTGTATGAATAGAAATAATTGTTTTATGACAAAACAAAAGATCATAATG
Found at i:509296 original size:541 final size:542
Alignment explanation
Indices: 508593--509661 Score: 1314
Period size: 541 Copynumber: 2.0 Consensus size: 542
508583 TTGTTTTACA
* * * *
508593 ACAAAACAAAATATCATTATGATTTGAAATAGATAATAGTTCAAATAAACATGACTATTTGAACT
1 ACAAAACAAAAGATCATAATGATTTAAAATAGATAATAGTTCAAATAAACATAACTATTTGAACT
*
508658 TGATCGATAAACAAATTTATTTTTTAAATCTCAAACTTATTAATTTTTAGAACACTAATAAATTA
66 TGATCGATAAACAAATTTATTTTTTAAATCTCAAACTCATTAATTTTTAGAACACTAATAAATTA
* * * * * *
508723 GTATTATTTTATTTCAAATAAAATTGTATGAA-TAGAAATAATTGTTTTATGACAAAACAAAAGA
131 GTATTATCTTACTTCAAAGAAAATTATATGAATTA-AAACAAGTGTTTTATGACAAAACAAAAGA
*
508787 TCATAATGATTTGAAATAAATAATTATTCCAATAGTCATAACTATTTGAACTTGCTCGA-TAAAC
195 TCATAATGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTG-TCGAGTAAAC
*** *
508851 AAATTTATTTTTTAAATCTTCTACTTATTAATTTTTGGAAT-TTTAATAAATTAGTATTATTTT-
259 AAATTTATTTTTTAAATCTTCTACTTATTAATTTTCAAAATATTT-ATAAATTAATATTATTTTA
* * * * * ** *
508914 ATTTCAAAAAAGCTTTTATGAATAGAAATAGTTGGTTTATGACAAAACAAAAGGTTATAATGATT
323 ATTTCAAAAAA-CTTGTATGAATAGAAATAATTAGTTTATGACAAAACAAAAAGTCATAACAAGT
* * * * * * *
508979 TGAAATAGATAA-TTCTTCAAATAGTCATAATTATTTGAAATTGTTCAGAAAATATATTTATTTT
387 TAAAATA-AAAAGTGC-TCAAATAGCCATAATGATTTGAAATTGTTCAGAAAACAGATTTATTTT
* * *
509043 TTAAA-GTTTTACTTATTAATT-T-TTGGAATATTAATAAATTTAAATTACTTTATTTGAAATAA
450 TTAAATATTTTACTTATTAATTGTCTT--AATATTAATAAATATAAATTACTTTATTCGAAATAA
509105 ACTT-GCATGAACAGAACCAATTGTTTAATG
513 ACTTCG-ATGAACAGAACCAATTGTTTAATG
* * * * **
509135 ACAAAACAAAAGATTATAATGTTTTAAAATAGATAATTGTTC-GATAGTCATAACTATTTGAACT
1 ACAAAACAAAAGATCATAATGATTTAAAATAGATAATAGTTCAAATAAACATAACTATTTGAACT
** * * * ** * *
509199 TTTTCGGTAAACATATTCT-TTTTTTAATTCTCTTACTCATTAATTTTTAGAACATTAATGAATT
66 TGATCGATAAACAAATT-TATTTTTTAAATCTCAAACTCATTAATTTTTAGAACACTAATAAATT
** * * *
509263 AGTATTATCTTACTTCAAAGAAGCTTATATGAATTAAAACAAGTGTTTTATTACAAAAGAAAAGG
130 AGTATTATCTTACTTCAAAGAAAATTATATGAATTAAAACAAGTGTTTTATGACAAAACAAAAGA
* * * * ** *
509328 TCATAGTGATTTGAAATAGATAATTATTCAAATATTCATGACTATTTGAACTTGTTTAGTAAATA
195 TCATAATGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTCGAGTAAACA
* *
509393 TATTTATTTTTTAAATCTTTTACTTATTAATTTTCAAAATATTTATAAATTAATATTATTTTAAT
260 AATTTATTTTTTAAATCTTCTACTTATTAATTTTCAAAATATTTATAAATTAATATTATTTTAAT
* * *
509458 TTGAATAAACTTGTATGAATAGAAATAATTATTTTATGACAAAACAAAAAGTCATAACAAGTTAA
325 TTCAAAAAACTTGTATGAATAGAAATAATTAGTTTATGACAAAACAAAAAGTCATAACAAGTTAA
* * *
509523 AATAAAAAGTGCTCAAATAGCCATAATGATTTGAACTTGTTTAGTAAACAGATTTATTTTTTAAA
390 AATAAAAAGTGCTCAAATAGCCATAATGATTTGAAATTGTTCAGAAAACAGATTTATTTTTTAAA
** * *
509588 TATTTTACTTATTAATTGTCTTAATATTAATAAATATGTATTATTTTATTCGAAATAAGCTTCGA
455 TATTTTACTTATTAATTGTCTTAATATTAATAAATATAAATTACTTTATTCGAAATAAACTTCGA
509653 TGAACAGAA
520 TGAACAGAA
509662 AAAAAAATCT
Statistics
Matches: 444, Mismatches: 73, Indels: 21
0.83 0.14 0.04
Matches are distributed among these distances:
540 51 0.11
541 338 0.76
542 53 0.12
543 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (542 bp):
ACAAAACAAAAGATCATAATGATTTAAAATAGATAATAGTTCAAATAAACATAACTATTTGAACT
TGATCGATAAACAAATTTATTTTTTAAATCTCAAACTCATTAATTTTTAGAACACTAATAAATTA
GTATTATCTTACTTCAAAGAAAATTATATGAATTAAAACAAGTGTTTTATGACAAAACAAAAGAT
CATAATGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTCGAGTAAACAA
ATTTATTTTTTAAATCTTCTACTTATTAATTTTCAAAATATTTATAAATTAATATTATTTTAATT
TCAAAAAACTTGTATGAATAGAAATAATTAGTTTATGACAAAACAAAAAGTCATAACAAGTTAAA
ATAAAAAGTGCTCAAATAGCCATAATGATTTGAAATTGTTCAGAAAACAGATTTATTTTTTAAAT
ATTTTACTTATTAATTGTCTTAATATTAATAAATATAAATTACTTTATTCGAAATAAACTTCGAT
GAACAGAACCAATTGTTTAATG
Found at i:511769 original size:5 final size:5
Alignment explanation
Indices: 511747--511785 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
511737 TAATTAACCT
511747 TAAT- TAAT- TAAT- TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
511786 TTTAACTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 12 0.35
5 22 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TAATA
Found at i:511772 original size:10 final size:9
Alignment explanation
Indices: 511747--511813 Score: 66
Period size: 10 Copynumber: 7.3 Consensus size: 9
511737 TAATTAACCT
511747 TAATTAAT-
1 TAATTAATA
511755 TAATTAATA
1 TAATTAATA
511764 TAATATAATA
1 TAAT-TAATA
511774 TAATATAATA
1 TAAT-TAATA
* *
511784 TATTTAA-C
1 TAATTAATA
511792 TAATTAATAA
1 TAATTAAT-A
*
511802 TAATTATTA
1 TAATTAATA
511811 TAA
1 TAA
511814 ATTATAATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
8 14 0.28
9 11 0.22
10 25 0.50
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATTAATA
Found at i:511779 original size:15 final size:14
Alignment explanation
Indices: 511746--511813 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 14
511736 ATAATTAACC
511746 TTAAT-TAAT-TAA
1 TTAATATAATATAA
511758 TTAATATAATATAA
1 TTAATATAATATAA
*
511772 TATAATATAATATAT
1 T-TAATATAATATAA
511787 TTAACTAATTAATAATAA
1 TTAA-T-A-TAAT-ATAA
*
511805 TTATTATAA
1 TTAATATAA
511814 ATTATAATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
12 5 0.11
13 4 0.09
14 7 0.15
15 17 0.37
16 2 0.04
17 5 0.11
18 6 0.13
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAATATAATATAA
Found at i:511796 original size:37 final size:39
Alignment explanation
Indices: 511750--511840 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 39
511740 TTAACCTTAA
*
511750 TTAATTAATTAAT-ATAATATAATAT-AA-TATAATATAT
1 TTAACTAATTAATAATAAT-TAATATAAATTATAATATAT
*
511787 TTAACTAATTAATAATAATTATTATAAATTATAATAT-T
1 TTAACTAATTAATAATAATTAATATAAATTATAATATAT
*
511825 ATAA-TAATTGAATAAT
1 TTAACTAATT-AATAAT
511841 GTTTAATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
37 22 0.47
38 17 0.36
39 8 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (39 bp):
TTAACTAATTAATAATAATTAATATAAATTATAATATAT
Found at i:512074 original size:21 final size:22
Alignment explanation
Indices: 512048--512103 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
512038 ATATGATTCA
512048 AAATAATAATATTATAA-ATTT
1 AAATAATAATATTATAACATTT
512069 AAATAATTTAATA--ATAACATTT
1 AAATAA--TAATATTATAACATTT
512091 -AAT-ATAATATTAT
1 AAATAATAATATTAT
512104 TTGGATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
18 5 0.17
20 3 0.10
21 13 0.43
22 4 0.13
23 5 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATAATAATATTATAACATTT
Found at i:512646 original size:24 final size:22
Alignment explanation
Indices: 512575--512647 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
512565 AATAATAGGT
**
512575 ATATTTAATTAT-TAAACACATA
1 ATATTTAATTATATAATTA-ATA
512597 ATATTTAATTATATAATTAATTTA
1 ATATTTAATTATATAATTAA--TA
* *
512621 ATATTATATATTATTTATTTAATA
1 ATATT-TA-ATTATATAATTAATA
512645 ATA
1 ATA
512648 AATAAATAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 13 0.31
23 4 0.10
24 12 0.29
25 2 0.05
26 11 0.26
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTAATTATATAATTAATA
Found at i:512710 original size:14 final size:15
Alignment explanation
Indices: 512680--512718 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
512670 GTATTATTAT
*
512680 TATTAAGTATAAATAA
1 TATTAA-TATGAATAA
512696 TA-TAATATGAATAA
1 TATTAATATGAATAA
512710 TATTAATAT
1 TATTAATAT
512719 TTAACATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 10 0.48
15 9 0.43
16 2 0.10
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (15 bp):
TATTAATATGAATAA
Found at i:513087 original size:24 final size:25
Alignment explanation
Indices: 513060--513113 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
513050 ATTAATTACT
*
513060 TATTAT-TTAACATTATTTTTAT-AA
1 TATTATGTT-ACATTATTATTATCAA
*
513084 TATT-TGTTACTTTATTATTATCAA
1 TATTATGTTACATTATTATTATCAA
513108 TATTAT
1 TATTAT
513114 AATATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 12 0.48
24 12 0.48
25 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (25 bp):
TATTATGTTACATTATTATTATCAA
Found at i:513208 original size:22 final size:24
Alignment explanation
Indices: 513174--513219 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
513164 AAATTAATTA
*
513174 TTAATTATATAATGTTCATTTATT
1 TTAATTATATAATATTCATTTATT
*
513198 TTAATT-T-TAATATTTATTTATT
1 TTAATTATATAATATTCATTTATT
513220 GTCTAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TTAATTATATAATATTCATTTATT
Found at i:513391 original size:12 final size:12
Alignment explanation
Indices: 513374--513403 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
513364 AATAATTAAC
513374 AATATTATAATA
1 AATATTATAATA
513386 AATATTATAATA
1 AATATTATAATA
513398 ATATAT
1 A-ATAT
513404 ATAGATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AATATTATAATA
Found at i:514400 original size:21 final size:23
Alignment explanation
Indices: 514374--514424 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
514364 AGAATTATCT
514374 TTTATAATTAAT-A-AATATAAA
1 TTTATAATTAATAATAATATAAA
*
514395 TTTATATATTATTAATAATATAAA
1 TTTATA-ATTAATAATAATATAAA
514419 -TTATAA
1 TTTATAA
514425 ATAAATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.23
22 6 0.23
23 6 0.23
24 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTATAATTAATAATAATATAAA
Found at i:514671 original size:27 final size:27
Alignment explanation
Indices: 514640--514702 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
514630 ATAAAAATTG
*
514640 TATTATATTAATATTTATTA-TAATTTA
1 TATTATAATAATA-TTATTATTAATTTA
*
514667 TATTATAATAATATTATTATTATTTTA
1 TATTATAATAATATTATTATTAATTTA
514694 TAATTATAA
1 T-ATTATAA
514703 CAATTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 6 0.19
27 19 0.59
28 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTATAATAATATTATTATTAATTTA
Found at i:514699 original size:11 final size:11
Alignment explanation
Indices: 514573--514701 Score: 65
Period size: 11 Copynumber: 11.8 Consensus size: 11
514563 TATTAATTTA
514573 ATAATTATAATT
1 ATAATTAT-ATT
514585 ATAATTAT-TT
1 ATAATTATATT
514595 ATACATTA-A-T
1 ATA-ATTATATT
* *
514605 ATATTTATTTT
1 ATAATTATATT
* *
514616 ATTA-TAGTATA
1 ATAATTA-TATT
* *
514627 ATAATAAAAATT
1 ATAAT-TATATT
*
514639 GT-ATTATATT
1 ATAATTATATT
514649 A-ATATT-TATT
1 ATA-ATTATATT
514659 ATAATTTATATT
1 ATAA-TTATATT
*
514671 ATAATAATATT
1 ATAATTATATT
* *
514682 ATTATTATTTT
1 ATAATTATATT
514693 ATAATTATA
1 ATAATTATA
514702 ACAATTTAAA
Statistics
Matches: 85, Mismatches: 20, Indels: 25
0.65 0.15 0.19
Matches are distributed among these distances:
9 3 0.04
10 21 0.25
11 41 0.48
12 19 0.22
13 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (11 bp):
ATAATTATATT
Found at i:514930 original size:15 final size:16
Alignment explanation
Indices: 514902--514941 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
514892 GATGTTAAAG
514902 TTAAT-ATTATTTG-A
1 TTAATAATTATTTGAA
514916 TATAATAATTA-TTGAA
1 T-TAATAATTATTTGAA
514932 TTAATAATTA
1 TTAATAATTA
514942 ACGTATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 16 0.70
16 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
TTAATAATTATTTGAA
Found at i:514989 original size:21 final size:22
Alignment explanation
Indices: 514964--515009 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
514954 ACAATTAAGA
514964 AATTAT-TAGTATAATTTATTT
1 AATTATATAGTATAATTTATTT
*
514985 AATTATAAATATTATAATTTATTT
1 AATTAT--ATAGTATAATTTATTT
515009 A
1 A
515010 TCCCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
24 15 0.71
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AATTATATAGTATAATTTATTT
Found at i:515104 original size:10 final size:10
Alignment explanation
Indices: 515076--515105 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
515066 AATTAAATCG
*
515076 TTATAAATAA
1 TTATAAATTA
515086 TTATAAATTA
1 TTATAAATTA
515096 TTATAAATTA
1 TTATAAATTA
515106 ATAATTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTATAAATTA
Found at i:515580 original size:24 final size:23
Alignment explanation
Indices: 515553--515617 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
515543 TACAATTAAA
515553 TAATAAATAATATTTATTATTTA-T
1 TAAT-AATAATA-TTATTATTTATT
*
515577 TAAT-ATAA-ATTACTATTTATT
1 TAATAATAATATTATTATTTATT
*
515598 TTATCAATAATATTATTATT
1 TAAT-AATAATATTATTATT
515618 GATACTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
20 9 0.26
21 5 0.15
22 4 0.12
23 4 0.12
24 12 0.35
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (23 bp):
TAATAATAATATTATTATTTATT
Found at i:515628 original size:44 final size:45
Alignment explanation
Indices: 515558--515644 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 45
515548 TTAAATAATA
*
515558 AATAATATTTATTATTTATTAATATAAATTACTATT-TATTTTATC
1 AATAATATTTATTATTGATTAATAT-AATTACTATTGTATTTTATC
* *
515603 AATAATA-TTATTATTGA-TACTTATAATTATTATTGTATTTTA
1 AATAATATTTATTATTGATTA-ATATAATTACTATTGTATTTTA
515645 ATAATTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 11 0.30
44 19 0.51
45 7 0.19
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.55
Consensus pattern (45 bp):
AATAATATTTATTATTGATTAATATAATTACTATTGTATTTTATC
Found at i:515706 original size:27 final size:26
Alignment explanation
Indices: 515672--515723 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
515662 ATTAGGTTAT
* *
515672 AATTATTAATATATTTAATTATAATG
1 AATTATTAATATATCTAATAATAATG
*
515698 AATTAATTATTATATCTAATAATAAT
1 AATT-ATTAATATATCTAATAATAAT
515724 TATTAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
AATTATTAATATATCTAATAATAATG
Found at i:515945 original size:20 final size:20
Alignment explanation
Indices: 515798--515953 Score: 68
Period size: 20 Copynumber: 7.5 Consensus size: 20
515788 TTAGATATAG
* *
515798 ATAATTAGTATCTATTATATA
1 ATAATTAATATTTATTAT-TA
* * *
515819 ATTATAAATATTTATAATTA
1 ATAATTAATATTTATTATTA
515839 ATAATTAATTATTTAATAAATATTA
1 ATAATTAA-TATTT-AT---TATTA
* * *
515864 ATTGACTTAA-ATATTAATAGTA
1 A-T-AATTAATAT-TTATTATTA
* * *
515886 ATTATTAATAGTTATGA-T-
1 ATAATTAATATTTATTATTA
* * *
515904 A-AATTAAAATTTATAATAA
1 ATAATTAATATTTATTATTA
515923 ATAATTAATATTTATTATTA
1 ATAATTAATATTTATTATTA
*
515943 ATAAGTAATAT
1 ATAATTAATAT
515954 AAATAAAATA
Statistics
Matches: 98, Mismatches: 25, Indels: 25
0.66 0.17 0.17
Matches are distributed among these distances:
17 11 0.11
18 1 0.01
19 2 0.02
20 41 0.42
21 20 0.20
22 7 0.07
25 8 0.08
26 3 0.03
27 5 0.05
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (20 bp):
ATAATTAATATTTATTATTA
Found at i:516341 original size:12 final size:12
Alignment explanation
Indices: 516317--516365 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
516307 GAAATCTAAG
516317 ATAATTAATAATA
1 ATAATT-ATAATA
*
516330 TTAATTATAATA
1 ATAATTATAATA
516342 ATAATTA-AAT-
1 ATAATTATAATA
*
516352 A-AATTATATTA
1 ATAATTATAATA
516363 ATA
1 ATA
516366 TAATTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
9 5 0.17
10 3 0.10
11 4 0.13
12 13 0.43
13 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:516362 original size:14 final size:14
Alignment explanation
Indices: 516318--516372 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
516308 AAATCTAAGA
*
516318 TAAT-TAATAATAT
1 TAATATAATTATAT
*
516331 TAATTATAATAATAAT
1 TAA-TATAATTAT-AT
516347 TAA-ATAAATTATAT
1 TAATAT-AATTATAT
516361 TAATATAATTAT
1 TAATATAATTAT
516373 TTATTGAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 3 0.08
14 14 0.39
15 14 0.39
16 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATATAATTATAT
Found at i:516526 original size:30 final size:30
Alignment explanation
Indices: 516490--516550 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
516480 AATAAGTATA
*
516490 ATATAATTAATTAATTAT-AATTATTATAAT
1 ATATAA-TAATTAATTATAAATTATAATAAT
**
516520 ATATAATAATTTTTTATAAATTATAATAAT
1 ATATAATAATTAATTATAAATTATAATAAT
516550 A
1 A
516551 AAAATAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
ATATAATAATTAATTATAAATTATAATAAT
Found at i:516736 original size:21 final size:20
Alignment explanation
Indices: 516712--516761 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
516702 TTTTGTTATT
*
516712 TTATAATAAATTAATAGTGAA
1 TTATAATAAATTAATAAT-AA
*
516733 TTATATTAAATTAATAATAA
1 TTATAATAAATTAATAATAA
*
516753 TAATAATAA
1 TTATAATAA
516762 TAGCTTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TTATAATAAATTAATAATAA
Found at i:517127 original size:23 final size:23
Alignment explanation
Indices: 517101--517144 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
517091 TATGTTTACT
517101 TTAT-ATATTAATTATTAATATAC
1 TTATAATATTAATT-TTAATATAC
*
517124 TTATAATATTAGTTTTAATAT
1 TTATAATATTAATTTTAATAT
517145 TAATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATAATATTAATTTTAATATAC
Found at i:517180 original size:22 final size:22
Alignment explanation
Indices: 517155--517210 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
517145 TAATAATTAT
*
517155 TAATATAAATAAAAAATTAAAA
1 TAATATAAATAAAAAACTAAAA
* * * *
517177 TAATATATATTATAAACTAACA
1 TAATATAAATAAAAAACTAAAA
517199 TAAT-TAAATAAA
1 TAATATAAATAAA
517211 TAGATAATAA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
TAATATAAATAAAAAACTAAAA
Found at i:517258 original size:21 final size:20
Alignment explanation
Indices: 517214--517255 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
517204 AAATAAATAG
517214 ATAATAATTTATTATTATTTT
1 ATAATAATTTATTATTA-TTT
517235 ATAATAATATTATTAATTATT
1 ATAATAAT-TTATT-ATTATT
517256 ATATTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAATAATTTATTATTATTT
Found at i:519639 original size:15 final size:15
Alignment explanation
Indices: 519621--519650 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
519611 TAAGATAAGA
*
519621 TATTTAATTATAATT
1 TATTAAATTATAATT
519636 TATTAAATTATAATT
1 TATTAAATTATAATT
519651 ATAATAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTAAATTATAATT
Found at i:519659 original size:15 final size:15
Alignment explanation
Indices: 519625--519677 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
519615 ATAAGATATT
*
519625 TAATTATAATT-TAT
1 TAATTATAATTATAA
519639 TAAATTATAATTATAA
1 T-AATTATAATTATAA
519655 TAATTAT--TTA-AA
1 TAATTATAATTATAA
519667 TATATTATAAT
1 TA-ATTATAAT
519678 ATTTAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
12 4 0.12
13 8 0.24
14 1 0.03
15 17 0.52
16 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATTATAATTATAA
Found at i:519682 original size:18 final size:18
Alignment explanation
Indices: 519654--519688 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
519644 TATAATTATA
519654 ATAATTATTTAAATATATT
1 ATAATTATTTAAA-ATATT
519673 ATAA-TATTTAAAATAT
1 ATAATTATTTAAAATAT
519689 GATTCATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTATTTAAAATATT
Found at i:519927 original size:13 final size:13
Alignment explanation
Indices: 519876--519963 Score: 65
Period size: 13 Copynumber: 6.8 Consensus size: 13
519866 TTAACTATTA
519876 ATAATAATTAA-T
1 ATAATAATTAATT
*
519888 ATGAATTATTAATT
1 AT-AATAATTAATT
*
519902 ATAA-GATATAATT
1 ATAATAAT-TAATT
*
519915 ATAATAATAAATTT
1 ATAATAATTAA-TT
* *
519929 ATTATAA-CAATT
1 ATAATAATTAATT
*
519941 ATAATAGTTAATT
1 ATAATAATTAATT
*
519954 ATAATTATTA
1 ATAATAATTA
519964 TAAACAATAT
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
12 11 0.19
13 35 0.59
14 13 0.22
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (13 bp):
ATAATAATTAATT
Found at i:520043 original size:21 final size:22
Alignment explanation
Indices: 520017--520057 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
520007 TATTATTTAA
520017 TAATTTT-TGTTATAT-AATAAT
1 TAATTTTAT-TTATATCAATAAT
520038 TAATTTTATTTATATCAATA
1 TAATTTTATTTATATCAATA
520058 CAATCTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TAATTTTATTTATATCAATAAT
Found at i:520298 original size:19 final size:19
Alignment explanation
Indices: 520267--520316 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
520257 ATTAAAATTA
*
520267 TAATAA-TAAATATAATATT
1 TAATAATTATATAT-ATATT
*
520286 TAATAAGTTATATATTTATT
1 TAATAA-TTATATATATATT
520306 TAATAATTATA
1 TAATAATTATA
520317 AATTATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 11 0.41
20 10 0.37
21 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATAATTATATATATATT
Found at i:520326 original size:6 final size:6
Alignment explanation
Indices: 520251--520338 Score: 60
Period size: 6 Copynumber: 14.7 Consensus size: 6
520241 TATAAGCTTT
* * *
520251 ATTATA ATTAAA ATTATA ATAATA AATATA A-TAT- -TTAATA AGTTATA
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATT-ATA A-TTATA
*
520298 TATT-TA TTTAATA ATTATAA ATTATA ATTAT- ATTATA ATTA
1 -ATTATA ATT-ATA ATTAT-A ATTATA ATTATA ATTATA ATTA
520339 GTTATTCAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
4 1 0.02
5 12 0.18
6 34 0.52
7 15 0.23
8 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (6 bp):
ATTATA
Found at i:520531 original size:21 final size:21
Alignment explanation
Indices: 520499--520542 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
520489 AATATTAATA
* *
520499 ATAATTAAAATTATTACTATT
1 ATAATTAAAATTAATAATATT
520520 ATAA-TAATAATTAATAATATT
1 ATAATTAA-AATTAATAATATT
520541 AT
1 AT
520543 TATTTAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAATTAAAATTAATAATATT
Found at i:520532 original size:27 final size:27
Alignment explanation
Indices: 520494--520546 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
520484 TTGGAAATAT
520494 TAATAATAATTAA-AATTATTACTATTA
1 TAATAATAATTAATAA-TATTACTATTA
*
520521 TAATAATAATTAATAATATTATTATT
1 TAATAATAATTAATAATATTACTATT
520547 TAAACTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TAATAATAATTAATAATATTACTATTA
Found at i:520706 original size:22 final size:21
Alignment explanation
Indices: 520681--520760 Score: 83
Period size: 22 Copynumber: 3.7 Consensus size: 21
520671 GATTAATTAT
520681 TTTAATAAATTATAATAATATA
1 TTTAAT-AATTATAATAATATA
520703 TTTAATAA-TATAA-AATATAAA
1 TTTAATAATTATAATAATAT--A
*
520724 TATTAATAATTATAATTATAATA
1 T-TTAATAATTATAATAAT-ATA
*
520747 TTTAATCATTATAA
1 TTTAATAATTATAA
520761 AATGATTGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
19 5 0.10
20 5 0.10
21 4 0.08
22 25 0.50
23 7 0.14
24 2 0.04
25 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAATAATTATAATAATATA
Found at i:520710 original size:12 final size:13
Alignment explanation
Indices: 520683--520746 Score: 55
Period size: 12 Copynumber: 5.2 Consensus size: 13
520673 TTAATTATTT
*
520683 TAATAAATTATAA
1 TAATATATTATAA
520696 TAATATATT-TAA
1 TAATATATTATAA
**
520708 TAATATAAAAT-A
1 TAATATATTATAA
520720 TAA-ATATTAATAA
1 TAATATATT-ATAA
*
520733 TTATA-ATTATAA
1 TAATATATTATAA
520745 TA
1 TA
520747 TTTAATCATT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
11 3 0.08
12 21 0.52
13 15 0.38
14 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATATATTATAA
Found at i:521003 original size:15 final size:15
Alignment explanation
Indices: 520983--521039 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
520973 ATTTGTCTAT
520983 ATATTATAATTATTA
1 ATATTATAATTATTA
520998 ATATTATAATT-TATA
1 ATATTATAATTAT-TA
* *
521013 ACAATTA-AATTAATA
1 A-TATTATAATTATTA
521028 ATATTATTAATT
1 ATATTA-TAATT
521040 TGTTATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
14 5 0.15
15 21 0.62
16 8 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTATAATTATTA
Found at i:522879 original size:19 final size:19
Alignment explanation
Indices: 522852--522888 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
522842 TCAAATAGTA
*
522852 ATAACTATTTGAACTGGTC
1 ATAACTATTTAAACTGGTC
*
522871 ATAATTATTTAAACTGGT
1 ATAACTATTTAAACTGGT
522889 TTGATAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (19 bp):
ATAACTATTTAAACTGGTC
Found at i:523741 original size:25 final size:26
Alignment explanation
Indices: 523691--523741 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
523681 TTATATCTCT
*
523691 ATATTAAAATTTAATTTTAATTATTA
1 ATATTAAAATTTAATTTTAATAATTA
523717 ATATT-AAATTTAATATTT-ATAATTA
1 ATATTAAAATTTAAT-TTTAATAATTA
523742 TTTTGTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATATTAAAATTTAATTTTAATAATTA
Found at i:523786 original size:18 final size:17
Alignment explanation
Indices: 523706--523795 Score: 74
Period size: 18 Copynumber: 5.1 Consensus size: 17
523696 AAAATTTAAT
523706 TTTAATTATTAATATTAAA
1 TTTAATTATTAATATT--A
*
523725 TTTAA-TATTTATAATTA
1 TTTAATTATTAAT-ATTA
** *
523742 TTTTGTTATAAATAATTA
1 TTTAATTATTAAT-ATTA
*
523760 TTTATTTATTAATATTA
1 TTTAATTATTAATATTA
*
523777 TTTAAATTATTATTATTA
1 TTT-AATTATTAATATTA
523795 T
1 T
523796 ATGTAAAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
17 11 0.19
18 39 0.67
19 8 0.14
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (17 bp):
TTTAATTATTAATATTA
Found at i:524143 original size:16 final size:16
Alignment explanation
Indices: 524122--524152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
524112 TATTTTTCTA
*
524122 AATTAATCTTAATATT
1 AATTAATATTAATATT
524138 AATTAATATTAATAT
1 AATTAATATTAATAT
524153 AACATTAAAT
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:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAATATTAATATT
Found at i:524600 original size:26 final size:26
Alignment explanation
Indices: 524566--524626 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
524556 TTATATTAGA
524566 TAATATAATT-TTATATATATTTAAAAT
1 TAATATAATTATTATATA-A-TTAAAAT
524593 TAAT-TAATTCATTATATAATTAAAAT
1 TAATATAATT-ATTATATAATTAAAAT
*
524619 TATTATAA
1 TAATATAA
524627 CTAAATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 15 0.50
27 8 0.27
28 7 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATATAATTATTATATAATTAAAAT
Found at i:524718 original size:23 final size:23
Alignment explanation
Indices: 524678--524721 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
524668 TTGTAAATAA
524678 TTATTGATAAATAATAATTAAGT
1 TTATTGATAAATAATAATTAAGT
* * *
524701 TTATTTATATATATTAATTAA
1 TTATTGATAAATAATAATTAA
524722 ATAAGTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (23 bp):
TTATTGATAAATAATAATTAAGT
Found at i:524758 original size:16 final size:15
Alignment explanation
Indices: 524730--524761 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
524720 AAATAAGTTA
524730 TTAAATTATAATAAT
1 TTAAATTATAATAAT
524745 TTAAATTAATAATAAT
1 TTAAATT-ATAATAAT
524761 T
1 T
524762 ATTTATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATTATAATAAT
Found at i:524857 original size:16 final size:15
Alignment explanation
Indices: 524833--524950 Score: 72
Period size: 15 Copynumber: 8.3 Consensus size: 15
524823 AATTATAAAT
*
524833 TATAGTTATAATTAA
1 TATAATTATAATTAA
* *
524848 TTTAAATTATAAATAA
1 TAT-AATTATAATTAA
**
524864 TATAATTATAATTTT
1 TATAATTATAATTAA
524879 TATAA-TAT-A--AA
1 TATAATTATAATTAA
*
524890 TATAATTTTAATTAA
1 TATAATTATAATTAA
* *
524905 TTTTAATTAT-ATAAA
1 -TATAATTATAATTAA
*
524920 TA-AATTATATTTAA
1 TATAATTATAATTAA
*
524934 TAT--TTAAAATTAA
1 TATAATTATAATTAA
524947 TATA
1 TATA
524951 TATATATTAT
Statistics
Matches: 76, Mismatches: 18, Indels: 19
0.67 0.16 0.17
Matches are distributed among these distances:
11 5 0.07
12 2 0.03
13 19 0.25
14 9 0.12
15 22 0.29
16 19 0.25
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
TATAATTATAATTAA
Found at i:524875 original size:6 final size:6
Alignment explanation
Indices: 524823--524915 Score: 55
Period size: 6 Copynumber: 17.2 Consensus size: 6
524813 CTTAGTAAAC
* *
524823 AATTAT AAATTAT AGTTAT AATTA- ATTTA- AATTAT AA--AT AA-TAT
1 AATTAT -AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT
* * *
524867 AATTAT AATT-T --TTAT AA-TAT AAATAT AATTTT AA-T-T AATTTT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT
524909 AATTAT A
1 AATTAT A
524916 TAAATAAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
3 2 0.03
4 8 0.11
5 20 0.29
6 34 0.49
7 6 0.09
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (6 bp):
AATTAT
Found at i:524880 original size:29 final size:30
Alignment explanation
Indices: 524823--524928 Score: 95
Period size: 29 Copynumber: 3.7 Consensus size: 30
524813 CTTAGTAAAC
*
524823 AATTATAAAT-TATAGTTATAATTAATTTA-
1 AATTATAAATATATAATTATAATT-ATTTAT
524852 AATTATAAATAATATAATTATAATT-TTTAT
1 AATTATAAAT-ATATAATTATAATTATTTAT
*
524882 AA-TAT-AA-ATATAATTTTAATTAATTT-T
1 AATTATAAATATATAATTATAATT-ATTTAT
524909 AATTATATAA-ATA-AATTATA
1 AATTATA-AATATATAATTATA
524929 TTTAATATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 16
0.78 0.04 0.19
Matches are distributed among these distances:
26 13 0.20
27 3 0.05
28 8 0.12
29 23 0.35
30 7 0.11
31 12 0.18
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (30 bp):
AATTATAAATATATAATTATAATTATTTAT
Found at i:524883 original size:20 final size:20
Alignment explanation
Indices: 524860--524898 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
524850 TAAATTATAA
*
524860 ATAATATAATTATAATTTTT
1 ATAATATAAATATAATTTTT
524880 ATAATATAAATATAATTTT
1 ATAATATAAATATAATTTT
524899 AATTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATATAAATATAATTTTT
Found at i:524901 original size:26 final size:24
Alignment explanation
Indices: 524854--524902 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
524844 TTAATTTAAA
524854 TTATAAATAATATAATTATAATTT
1 TTATAAATAATATAATTATAATTT
*
524878 TTATAATATAAATATAATTTTAATT
1 TTATAA-AT-AATATAATTATAATT
524903 AATTTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 2 0.09
26 14 0.64
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTATAAATAATATAATTATAATTT
Found at i:524933 original size:29 final size:29
Alignment explanation
Indices: 524838--524940 Score: 97
Period size: 30 Copynumber: 3.6 Consensus size: 29
524828 TAAATTATAG
*
524838 TTATAATTAA-TTTAAAT-TATAAAT-AA
1 TTATAATTAATTTTAATTATATAAATAAA
* *
524864 -TATAATTATAATTTTTATAATATAAATATAA
1 TTATAA-T-TAATTTTAATTATATAAATA-AA
*
524895 TTTTAATTAATTTTAATTATATAAATAAA
1 TTATAATTAATTTTAATTATATAAATAAA
*
524924 TTATATTTAATATTTAA
1 TTATAATTAAT-TTTAA
524941 AATTAATATA
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
25 5 0.08
26 1 0.02
27 3 0.05
28 4 0.07
29 18 0.30
30 23 0.38
31 3 0.05
32 4 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TTATAATTAATTTTAATTATATAAATAAA
Found at i:524950 original size:33 final size:30
Alignment explanation
Indices: 524838--524961 Score: 91
Period size: 30 Copynumber: 4.2 Consensus size: 30
524828 TAAATTATAG
*
524838 TTATAATTAA-TTTAA--ATTATAAAT-AA
1 TTATAATTAATTTTAATTAATATAAATAAA
*
524864 -TATAATTATAATTTTTA-TAATATAAATATAA
1 TTATAA-T-TAATTTTAATTAATATAAATA-AA
*
524895 TTTTAATTAATTTTAATT-ATATAAATAAA
1 TTATAATTAATTTTAATTAATATAAATAAA
* * *
524924 TTATATTTAATATTTAAAATTAATATATATATA
1 TTATAATTAAT-TTT--AATTAATATAAATAAA
524957 TTATA
1 TTATA
524962 GTATTAAATA
Statistics
Matches: 78, Mismatches: 8, Indels: 17
0.76 0.08 0.17
Matches are distributed among these distances:
25 5 0.06
26 1 0.01
27 3 0.04
28 4 0.05
29 19 0.24
30 20 0.26
31 4 0.05
32 8 0.10
33 14 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
TTATAATTAATTTTAATTAATATAAATAAA
Found at i:526335 original size:18 final size:16
Alignment explanation
Indices: 526305--526338 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
526295 TTAAATTATG
526305 TTAATATTATTATAAT
1 TTAATATTATTATAAT
526321 TTAATATATATTTATAAT
1 TTAATAT-TA-TTATAAT
526339 AATTAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATATTATTATAAT
Found at i:526340 original size:21 final size:19
Alignment explanation
Indices: 526311--526354 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
526301 TATGTTAATA
*
526311 TTATTATAATTTAATATATAT
1 TTATAATAA-TTAA-ATATAT
*
526332 TTATAATAATTAACTATAT
1 TTATAATAATTAAATATAT
526351 TTAT
1 TTAT
526355 TAAATCTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATAATAATTAAATATAT
Found at i:526450 original size:24 final size:25
Alignment explanation
Indices: 526423--526472 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
526413 AAATTATGAC
* *
526423 AATTTATAATTA-ATATTTATTATA
1 AATTTAAAATTAGATATTTATAATA
*
526447 AATTTAAAATTAGTTATTTATAATA
1 AATTTAAAATTAGATATTTATAATA
526472 A
1 A
526473 TTATATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
AATTTAAAATTAGATATTTATAATA
Found at i:529445 original size:19 final size:20
Alignment explanation
Indices: 529421--529463 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
529411 TAAACAATTT
529421 TTATAT-ACAAAATATAAGA
1 TTATATAACAAAATATAAGA
* *
529440 TTATATAACAAAATTTAATA
1 TTATATAACAAAATATAAGA
529460 TTAT
1 TTAT
529464 TTATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (20 bp):
TTATATAACAAAATATAAGA
Found at i:529553 original size:17 final size:16
Alignment explanation
Indices: 529522--529575 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
529512 ATAATATATC
529522 AATAATTAA-A-T-GT
1 AATAATTAATATTAGT
529535 AATAATTAATTATTAGT
1 AATAATTAA-TATTAGT
* *
529552 AATATACTAATATTATT
1 AATA-ATTAATATTAGT
529569 AATAATT
1 AATAATT
529576 TTAAATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 9 0.27
15 1 0.03
16 3 0.09
17 16 0.48
18 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (16 bp):
AATAATTAATATTAGT
Found at i:529586 original size:17 final size:17
Alignment explanation
Indices: 529566--529599 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
529556 TACTAATATT
529566 ATTAATAATTTTA-AATA
1 ATTAA-AATTTTATAATA
529583 ATTAAAATTTTATAATA
1 ATTAAAATTTTATAATA
529600 CTCATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAAATTTTATAATA
Found at i:529610 original size:16 final size:15
Alignment explanation
Indices: 529591--529668 Score: 64
Period size: 14 Copynumber: 5.7 Consensus size: 15
529581 TAATTAAAAT
*
529591 TTTATAATACTCATTA
1 TTTATAATA-TCAATA
529607 TTTATAATATCAATA
1 TTTATAATATCAATA
*
529622 TTTA-AA-AT--A-G
1 TTTATAATATCAATA
*
529632 TTTATAAAATCAATA
1 TTTATAATATCAATA
529647 -TTATAA-AT-AATA
1 TTTATAATATCAATA
529659 TTTATAATAT
1 TTTATAATAT
529669 TTAAATTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
10 4 0.08
11 3 0.06
12 6 0.12
13 10 0.19
14 11 0.21
15 9 0.17
16 9 0.17
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.46
Consensus pattern (15 bp):
TTTATAATATCAATA
Found at i:529635 original size:25 final size:27
Alignment explanation
Indices: 529605--529668 Score: 89
Period size: 25 Copynumber: 2.4 Consensus size: 27
529595 TAATACTCAT
529605 TATTTATAATATCAATATT-T-AA-AA
1 TATTTATAATATCAATATTATAAATAA
*
529629 TAGTTTATAAAATCAATATTATAAATAA
1 TA-TTTATAATATCAATATTATAAATAA
529657 TATTTATAATAT
1 TATTTATAATAT
529669 TTAAATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 2 0.06
25 16 0.47
26 1 0.03
27 11 0.32
28 4 0.12
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (27 bp):
TATTTATAATATCAATATTATAAATAA
Found at i:529684 original size:20 final size:21
Alignment explanation
Indices: 529643--529688 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
529633 TTATAAAATC
*
529643 AATATTATAAATAATATTTAT
1 AATATTATAAATAATATATAT
529664 AATATT-TAAATTAATA-ATAT
1 AATATTATAAA-TAATATATAT
529684 AATAT
1 AATAT
529689 AATTAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTATAAATAATATATAT
Found at i:530347 original size:146 final size:146
Alignment explanation
Indices: 530083--530382 Score: 564
Period size: 146 Copynumber: 2.1 Consensus size: 146
530073 TAATTAATTA
*
530083 ATATTAATTAAACTCAAATGTTATCATGAGTTTCCAATGCACATATTAATTGCCCAATTGTCAAT
1 ATATTAATTAAACTCAAATGTTATCATGAGTTTCCAATGCACATATTAACTGCCCAATTGTCAAT
530148 TCCTAGTTCATGGCTATTGAAACCTTCAAACTTAATTTCAAAATTTTATTAGAACTTTAATTCTC
66 TCCTAGTTCATGGCTATTGAAACCTTCAAACTTAATTTCAAAATTTTATTAGAACTTTAATTCTC
530213 CACCATTGTCACAAAT
131 CACCATTGTCACAAAT
*
530229 ATATTAATTAAACTCAAATGTTGTCATGAGTTTCCAATGCACATATTAACTGCCCAATTGTCAAT
1 ATATTAATTAAACTCAAATGTTATCATGAGTTTCCAATGCACATATTAACTGCCCAATTGTCAAT
*
530294 TCCTAGTTCATGGCTATTGAAACCTTCAAACTTAATTTCAAAATTTTATTAGAACTTTATTTCTC
66 TCCTAGTTCATGGCTATTGAAACCTTCAAACTTAATTTCAAAATTTTATTAGAACTTTAATTCTC
*
530359 CACCATTGTCATAAAT
131 CACCATTGTCACAAAT
530375 ATATTAAT
1 ATATTAAT
530383 ATTAAACATA
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
146 150 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (146 bp):
ATATTAATTAAACTCAAATGTTATCATGAGTTTCCAATGCACATATTAACTGCCCAATTGTCAAT
TCCTAGTTCATGGCTATTGAAACCTTCAAACTTAATTTCAAAATTTTATTAGAACTTTAATTCTC
CACCATTGTCACAAAT
Found at i:530462 original size:7 final size:7
Alignment explanation
Indices: 530446--530492 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
530436 CTCCCATATA
*
530446 TATTAAT
1 TATTATT
530453 TATTATT
1 TATTATT
530460 TATTATT
1 TATTATT
530467 TA-TATT
1 TATTATT
530473 TA-TATT
1 TATTATT
*
530479 TATAATT
1 TATTATT
530486 TATTATT
1 TATTATT
530493 AGTAAATATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 12 0.33
7 24 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (7 bp):
TATTATT
Found at i:530766 original size:22 final size:22
Alignment explanation
Indices: 530735--530777 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
530725 AATATAAACA
*
530735 ATTATTATAATTACAATATTTT
1 ATTATAATAATTACAATATTTT
**
530757 ATTATAATAATTTTAATATTT
1 ATTATAATAATTACAATATTT
530778 ATAAATATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTATAATAATTACAATATTTT
Found at i:530987 original size:13 final size:13
Alignment explanation
Indices: 530925--530979 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 13
530915 ATATTATAAA
*
530925 TATTAATTATTAT
1 TATTAATAATTAT
*
530938 T-TT-ATAATTAA
1 TATTAATAATTAT
*
530949 TATAAATAAATTAT
1 TATTAAT-AATTAT
530963 TATTAATAATTA-
1 TATTAATAATTAT
530975 TATTA
1 TATTA
530980 GATTATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
11 7 0.21
12 8 0.24
13 8 0.24
14 11 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TATTAATAATTAT
Found at i:531584 original size:20 final size:19
Alignment explanation
Indices: 531549--531603 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
531539 TAAATAAGCT
* *
531549 ATTAAGATATAAATTATTA
1 ATTAATATATATATTATTA
*
531568 ATATAATTTATATATTATTA
1 AT-TAATATATATATTATTA
531588 ATTAATATAT-TATTAT
1 ATTAATATATATATTAT
531604 AGTAAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 6 0.19
19 9 0.29
20 16 0.52
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTAATATATATATTATTA
Found at i:531595 original size:15 final size:15
Alignment explanation
Indices: 531571--531602 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
531561 ATTATTAATA
*
531571 TAATTTATATATTAT
1 TAATTAATATATTAT
531586 TAATTAATATATTAT
1 TAATTAATATATTAT
531601 TA
1 TA
531603 TAGTAAAATT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATTAATATATTAT
Found at i:531979 original size:35 final size:32
Alignment explanation
Indices: 531940--532018 Score: 90
Period size: 35 Copynumber: 2.4 Consensus size: 32
531930 CTATCTCAAT
531940 TTATAATTATTAATAATAACTATA-AATTAATTATA
1 TTATAATTATTAAT-A-AACTATATAA-TAATT-TA
*
531975 TTATAATAATTAATAAACTATATAATAATTTA
1 TTATAATTATTAATAAACTATATAATAATTTA
*
532007 TTATTA-TATTAA
1 TTATAATTATTAA
532019 AAAAATAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 5 0.12
32 7 0.17
33 12 0.30
34 3 0.08
35 13 0.32
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
TTATAATTATTAATAAACTATATAATAATTTA
Found at i:533092 original size:22 final size:22
Alignment explanation
Indices: 533062--533139 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 22
533052 GCTATATTTT
533062 TATAA-TATTAATCTTAAATAA
1 TATAATTATTAATCTTAAATAA
* *
533083 TATATTTATTTATTCATT-AATAA
1 TATAATTA-TTAATC-TTAAATAA
* *
533106 -ATAATTATTAAT-ATAATTAA
1 TATAATTATTAATCTTAAATAA
533126 TATTAATTATTAAT
1 TA-TAATTATTAAT
533140 ACATTTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
19 1 0.02
20 4 0.09
21 9 0.20
22 19 0.42
23 10 0.22
24 2 0.04
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (22 bp):
TATAATTATTAATCTTAAATAA
Found at i:533152 original size:21 final size:22
Alignment explanation
Indices: 533098--533172 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 22
533088 TTATTTATTC
*
533098 ATTAATAAATAATTATTAATATA
1 ATTAAT-ATTAATTATTAATATA
*
533121 ATTAATATTAATTATTAATA-C
1 ATTAATATTAATTATTAATATA
** *
533142 ATTTGTATTAATTATTAAAATA
1 ATTAATATTAATTATTAATATA
533164 ATT-ATATTA
1 ATTAATATTA
533173 TAGATTATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.50
22 16 0.36
23 6 0.14
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (22 bp):
ATTAATATTAATTATTAATATA
Found at i:533432 original size:175 final size:175
Alignment explanation
Indices: 533246--533565 Score: 393
Period size: 175 Copynumber: 1.8 Consensus size: 175
533236 GTTTTATTAT
* **
533246 AAAATAATTGTTTCTA-TTCATACAAAATTATTC-AGAATGA-AATAATACCAATTTATTACTAT
1 AAAACAATTGTTTC-AGTTCATACAAAATTATTCGA-AAT-ATAATAATACCAATTTATTAAAAT
* * *
533308 TTCA-AAAATTAATAAG-GATTTAAAAATAAATGTGTTT-CCTGAA-ACAGTTCAAATAGTTAAG
63 TT-AGAAAATTAATAAGAAATTTAAAAA-AAATCTATTTACC-GAATA-AGTTCAAATAGTTAAG
533369 ACTATTAGAACAATTATCTATTCCAAATTATTCTGATCTTTTGTTTAGTCAA
124 ACTATTAGAACAATTATCTATTCCAAATTATTCTGATCTTTTGTTTAGTCAA
*** * *
533421 AAAACAATTGTTTCAGTTCATACATGCTTATTCGAAATATAGTAATACTAATTTATTAAAATTTA
1 AAAACAATTGTTTCAGTTCATACAAAATTATTCGAAATATAATAATACCAATTTATTAAAATTTA
* * *
533486 GAAAATTAATAAGAAATTTTAAAAAAATCTATTTACCGAATAAGTTCAAATAGTTATGACTATTT
66 GAAAATTAATAAGAAATTTAAAAAAAATCTATTTACCGAATAAGTTCAAATAGTTAAGACTATTA
*
533551 GAATAATTATCTATT
131 GAACAATTATCTATT
533566 TAAAATCGTT
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
174 3 0.02
175 108 0.88
176 12 0.10
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.38
Consensus pattern (175 bp):
AAAACAATTGTTTCAGTTCATACAAAATTATTCGAAATATAATAATACCAATTTATTAAAATTTA
GAAAATTAATAAGAAATTTAAAAAAAATCTATTTACCGAATAAGTTCAAATAGTTAAGACTATTA
GAACAATTATCTATTCCAAATTATTCTGATCTTTTGTTTAGTCAA
Found at i:534332 original size:177 final size:175
Alignment explanation
Indices: 534125--534539 Score: 454
Period size: 177 Copynumber: 2.3 Consensus size: 175
534115 AAATTTTTTT
* ** * * *
534125 CTTATTAATTGTCAAAATATTAACAAATTAGTATTATTTTAATCCAAATAAGCTTGTATAAATAG
1 CTTATTAATTTTTGAAATATTAACAAATTAGTATTATTTTATTCCAAATAAGCTTGTATAAACAA
* * * *
534190 AAATAGTTGTTTTATAATAGAACAAAAAGTCATAATGATTTGAAATAAATAATTACTCAAATAGT
66 AAACAGTTGTTTTATAACA-AAAAAAAAGTAATAATGATTTGAAATAAATAATTACTCAAATAGT
* * * * *
534255 CATAACTTTTTGAACTAGTTTGATACATAGATTTATTTTTTAAATCA
130 -ATAACTTTTTGAACTAGTTAGATAAACAAAATTATTTTTTAAATCA
* * * * *
534302 CTTATTAATTTTTGAAATATTAATAAATTAGTATTACTTTATTCCAAATAAACTTATATGAACAA
1 CTTATTAATTTTTGAAATATTAACAAATTAGTATTATTTTATTCCAAATAAGCTTGTATAAACAA
* * ** * *
534367 AAACATTTGTTTTATGACAAAAAAAAAGTAATAATGATTTGAAATATGTAATTGCTCAAATAGTG
66 AAACAGTTGTTTTATAACAAAAAAAAAGTAATAATGATTTGAAATAAATAATTACTCAAATAGTA
* * * * *
534432 TAATTTTTTGAATTGGTTAGGTAAACAAAATTATTTTTTAAATCT
131 TAACTTTTTGAACTAGTTAGATAAACAAAATTATTTTTTAAATCA
* * *
534477 CTTATATATTAATTTTTGAAATATTAACAAATTCA-TTTTATTTTATTTCAAATAAGCTAGTAT
1 C---T-TATTAATTTTTGAAATATTAACAAATT-AGTATTATTTTATTCCAAATAAGCTTGTAT
534540 GACTTGAGAA
Statistics
Matches: 195, Mismatches: 38, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
175 36 0.18
176 40 0.21
177 69 0.35
178 1 0.01
179 48 0.25
180 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (175 bp):
CTTATTAATTTTTGAAATATTAACAAATTAGTATTATTTTATTCCAAATAAGCTTGTATAAACAA
AAACAGTTGTTTTATAACAAAAAAAAAGTAATAATGATTTGAAATAAATAATTACTCAAATAGTA
TAACTTTTTGAACTAGTTAGATAAACAAAATTATTTTTTAAATCA
Found at i:535540 original size:35 final size:37
Alignment explanation
Indices: 535452--535545 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 37
535442 CAATCCAATT
* *
535452 TAATATTAAATTATAATATATTAAATTATTAATTTATGA
1 TAATATTAAA-TATATTATATTAAATCATTAA-TTATGA
* *
535491 TAATTAGTATAATATATTATATT-AATCATTAA-TATTA
1 TAA-TATTA-AATATATTATATTAAATCATTAATTATGA
535528 TAATATTAAATATATTAT
1 TAATATTAAATATATTAT
535546 TAATAATCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
35 10 0.21
36 4 0.08
37 7 0.15
39 11 0.23
40 14 0.29
41 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (37 bp):
TAATATTAAATATATTATATTAAATCATTAATTATGA
Found at i:535609 original size:13 final size:15
Alignment explanation
Indices: 535543--535630 Score: 56
Period size: 16 Copynumber: 5.7 Consensus size: 15
535533 TTAAATATAT
*
535543 TATTAATAATCTAATA
1 TATTAATAATC-ATTA
*
535559 TATTACTCAATGCATTA
1 TATTAAT-AAT-CATTA
*
535576 TATCATAAT-ATAATTA
1 TAT--TAATAATCATTA
*
535592 GATT-ATAAT-ATTA
1 TATTAATAATCATTA
535605 TATTAATAATCATTA
1 TATTAATAATCATTA
*
535620 TTAATAATAAT
1 -TATTAATAAT
535631 AAGATATCTT
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
13 9 0.16
14 8 0.14
15 4 0.07
16 21 0.37
17 11 0.19
18 1 0.02
19 3 0.05
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (15 bp):
TATTAATAATCATTA
Found at i:535861 original size:17 final size:18
Alignment explanation
Indices: 535821--535861 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
535811 AATATATGAT
*
535821 TATAATTTTATTATAATA
1 TATAATTTTATCATAATA
535839 -ATTAATTTT-TCATAATA
1 TA-TAATTTTATCATAATA
535856 TATAAT
1 TATAAT
535862 CTTAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TATAATTTTATCATAATA
Found at i:536072 original size:13 final size:13
Alignment explanation
Indices: 536042--536090 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
536032 TTGAATATAA
* *
536042 TTATTATATATAAG
1 TTATAATAT-TAAT
536056 TTATAATATTAAT
1 TTATAATATTAAT
* *
536069 TTATATTAATAAT
1 TTATAATATTAAT
536082 TTATAATAT
1 TTATAATAT
536091 CATTAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
13 21 0.72
14 8 0.28
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
TTATAATATTAAT
Found at i:536087 original size:33 final size:34
Alignment explanation
Indices: 536002--536087 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 34
535992 TATATTTCAC
* *
536002 ATATAAATTAATAA-TTATAATTTATATCTATTGA
1 ATAT-AATTAATAATTTATAAGTTATATATATTGA
* *
536036 ATATAATT-ATTATATATAAGTTATA-ATATT-A
1 ATATAATTAATAATTTATAAGTTATATATATTGA
*
536067 ATTTATATTAATAATTTATAA
1 ATATA-ATTAATAATTTATAA
536088 TATCATTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
31 5 0.12
32 10 0.24
33 23 0.55
34 4 0.10
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (34 bp):
ATATAATTAATAATTTATAAGTTATATATATTGA
Found at i:536462 original size:15 final size:17
Alignment explanation
Indices: 536433--536467 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
536423 TATATATTAG
536433 AATATTATATAATTTTT
1 AATATTATATAATTTTT
536450 AATATTAT-T-ATTTTT
1 AATATTATATAATTTTT
536465 AAT
1 AAT
536468 TATTTCTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 1 0.06
17 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATATTATATAATTTTT
Found at i:536736 original size:16 final size:17
Alignment explanation
Indices: 536717--536751 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
536707 AAATATTATT
536717 TATAAATAA-TAATATA
1 TATAAATAACTAATATA
*
536733 TATAAATAACTATTATA
1 TATAAATAACTAATATA
536750 TA
1 TA
536752 AGTTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
TATAAATAACTAATATA
Done.