Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3152856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 14
Found at i:669905 original size:19 final size:19
Alignment explanation
Indices: 669865--669907 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
669855 AAGATTACAT
* *
669865 AAAACAAAACACCACCAGA
1 AAAAAAAAACACCACAAGA
669884 AAAAAAAAACACCA-AAGTA
1 AAAAAAAAACACCACAAG-A
669903 AAAAA
1 AAAAA
669908 CTACTAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.72, C:0.21, G:0.05, T:0.02
Consensus pattern (19 bp):
AAAAAAAAACACCACAAGA
Found at i:687623 original size:12 final size:12
Alignment explanation
Indices: 687606--687630 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
687596 GTCAAATAAT
687606 TTAGGCACCAAA
1 TTAGGCACCAAA
687618 TTAGGCACCAAA
1 TTAGGCACCAAA
687630 T
1 T
687631 GGTGCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (12 bp):
TTAGGCACCAAA
Found at i:688384 original size:2 final size:2
Alignment explanation
Indices: 688377--688418 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
688367 TTATGGGATT
688377 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
688419 CTCTGGGACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:688781 original size:4 final size:5
Alignment explanation
Indices: 688763--688795 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
688753 TGACTTGTAT
688763 ATTAA ATTAA ATT-A ATTAA ATTAA ATTATA ATT
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTA-A ATT
688796 TTAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
ATTAA
Found at i:688782 original size:14 final size:14
Alignment explanation
Indices: 688763--688790 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
688753 TGACTTGTAT
688763 ATTAAATTAAATTA
1 ATTAAATTAAATTA
688777 ATTAAATTAAATTA
1 ATTAAATTAAATTA
688791 TAATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTAAATTAAATTA
Found at i:688802 original size:19 final size:18
Alignment explanation
Indices: 688763--688800 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
688753 TGACTTGTAT
688763 ATTAAATTAAATTAATTAA
1 ATTAAATTAAATT-ATTAA
688782 ATTAAATTATAATT-TTAA
1 ATTAAATTA-AATTATTAA
688800 A
1 A
688801 ATAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAATTAAATTATTAA
Found at i:696693 original size:32 final size:31
Alignment explanation
Indices: 696657--696733 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
696647 CGGGGCCATG
* *
696657 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAAGGCCGCA
** **
696689 GGGCCTACCCGAGAATGATCTCAAGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAAGGCCGCA
*
696720 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
696734 GTCACATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAAGGCCGCA
Found at i:706801 original size:55 final size:54
Alignment explanation
Indices: 706708--706878 Score: 202
Period size: 55 Copynumber: 3.1 Consensus size: 54
706698 TCGTGGCTCT
* * * **
706708 TATTTTTATGTTTTTTAATGACAACAATTGATATATATACTCGATTTTGAGGCCTC
1 TATTTTTATG-CTTTTAATGACAACAACTGATAGATATACTCGATTTT-AAACCTC
* *
706764 TATTTTTATGCTTTTAATGGCAACAACTGATAGATATACTCGATTTCAAA-C-C
1 TATTTTTATGCTTTTAATGACAACAACTGATAGATATACTCGATTTTAAACCTC
* * *
706816 TATTTTTATGCTTATTAATAACAACAACTAATAGATATATTCGATTTTAAAACCTC
1 TATTTTTATGCTT-TTAATGACAACAACTGATAGATATACTCGATTTT-AAACCTC
706872 TATTTTT
1 TATTTTT
706879 TGAGAACCCT
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
52 14 0.14
53 30 0.30
54 4 0.04
55 33 0.33
56 18 0.18
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (54 bp):
TATTTTTATGCTTTTAATGACAACAACTGATAGATATACTCGATTTTAAACCTC
Found at i:706850 original size:53 final size:54
Alignment explanation
Indices: 706708--706878 Score: 184
Period size: 53 Copynumber: 3.1 Consensus size: 54
706698 TCGTGGCTCT
* * * * **
706708 TATTTTTATGTTTTTTAATGACAACAATTGATATATATACTCGATTTTGAGGCCTC
1 TATTTTTATG-CTTTTAATGACAACAACTGATAGATATACTCGA-TTTCAGAACTC
*
706764 TATTTTTATGCTTTTAATGGCAACAACTGATAGATATACTCGATTTCA-AAC-C
1 TATTTTTATGCTTTTAATGACAACAACTGATAGATATACTCGATTTCAGAACTC
* * * * *
706816 TATTTTTATGCTTATTAATAACAACAACTAATAGATATATTCGATTTTAAAACCTC
1 TATTTTTATGCTT-TTAATGACAACAACTGATAGATATACTCGATTTCAGAA-CTC
706872 TATTTTT
1 TATTTTT
706879 TGAGAACCCT
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
52 14 0.14
53 31 0.31
54 6 0.06
55 30 0.30
56 18 0.18
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (54 bp):
TATTTTTATGCTTTTAATGACAACAACTGATAGATATACTCGATTTCAGAACTC
Found at i:714964 original size:22 final size:23
Alignment explanation
Indices: 714928--714974 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
714918 TTTTTTGTTA
714928 TTTCCTTTTACTTTTA-C-TAGT
1 TTTCCTTTTACTTTTATCATAGT
*
714949 TTTCACTTTTAGTTTTATCATAGT
1 TTTC-CTTTTACTTTTATCATAGT
714973 TT
1 TT
714975 AATATTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 11 0.50
23 1 0.05
24 6 0.27
ACGTcount: A:0.17, C:0.15, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTCCTTTTACTTTTATCATAGT
Found at i:716009 original size:17 final size:17
Alignment explanation
Indices: 715982--716020 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
715972 TACTCATTTT
*
715982 AGTGATGTGGCACTTTG
1 AGTGTTGTGGCACTTTG
*
715999 TGTGTTGTGGCACTTTG
1 AGTGTTGTGGCACTTTG
716016 AGTGT
1 AGTGT
716021 ACCCGTACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.10, G:0.36, T:0.41
Consensus pattern (17 bp):
AGTGTTGTGGCACTTTG
Found at i:733475 original size:17 final size:18
Alignment explanation
Indices: 733445--733479 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
733435 CCCCCATCCC
733445 CAAAAAAAACAAACAAAA
1 CAAAAAAAACAAACAAAA
*
733463 CAAAAACAA-AAACAAAA
1 CAAAAAAAACAAACAAAA
733480 GGTGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (18 bp):
CAAAAAAAACAAACAAAA
Found at i:742469 original size:2 final size:2
Alignment explanation
Indices: 742462--742524 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
742452 TATACTGATA
742462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
742504 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
742525 CAACAAAGGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:748875 original size:19 final size:19
Alignment explanation
Indices: 748851--748920 Score: 140
Period size: 19 Copynumber: 3.7 Consensus size: 19
748841 TTCAAGTAGG
748851 GTATCGATACACTGCCTGT
1 GTATCGATACACTGCCTGT
748870 GTATCGATACACTGCCTGT
1 GTATCGATACACTGCCTGT
748889 GTATCGATACACTGCCTGT
1 GTATCGATACACTGCCTGT
748908 GTATCGATACACT
1 GTATCGATACACT
748921 TATTGCATTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (19 bp):
GTATCGATACACTGCCTGT
Found at i:752201 original size:19 final size:19
Alignment explanation
Indices: 752154--752220 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
752144 CACCTCCCTC
* * *
752154 ATATATATATATATATATGA
1 ATATATGTATATGTATA-CA
*
752174 ATGTATGTATATGTATACA
1 ATATATGTATATGTATACA
752193 ATATATGTATATGTATACA
1 ATATATGTATATGTATACA
752212 ATATATGTA
1 ATATATGTA
752221 ACTATATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 28 0.67
20 14 0.33
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (19 bp):
ATATATGTATATGTATACA
Found at i:754532 original size:151 final size:149
Alignment explanation
Indices: 754072--754983 Score: 1528
Period size: 149 Copynumber: 6.1 Consensus size: 149
754062 TTAGCTGAAG
* * *
754072 AATCCCTATGCACAGCAAACATTGACAAATTACATGCAAAGTAAGTGATTAAAAAAAATT-GTGT
1 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATT-AAAAAAATTCGTGT
*
754136 GTGT--GTGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCC
65 GTGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCC
754199 CGTTGATCGATGACACGTGT
130 CGTTGATCGATGACACGTGT
754219 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
1 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
*
754284 TGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTACCC
66 TGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCCC
754349 GTTGATCGATGACACGTGT
131 GTTGATCGATGACACGTGT
754368 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
1 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
754433 TGTGAGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGC
66 TGT--GAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGC
754498 CCGTTGATCGATGACACGTGT
129 CCGTTGATCGATGACACGTGT
*
754519 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAATAAGTGATTAAAAAAATTCGTGTG
1 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTC--GTG
754584 TGTGTGAGAGAGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGA
64 TGTGT------GAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGA
754649 TTTTGCCCGTTGATCGATGACACGTGT
123 TTTTGCCCGTTGATCGATGACACGTGT
754676 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
1 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
*
754741 TGTGAGAGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGAAGATGATGAGGACGGAGAGGGATTTT
66 TGT----GAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTT
754806 GCCCGTTGATCGATGACACGTGT
127 GCCCGTTGATCGATGACACGTGT
* * *
754829 AATCTCCATGCACAGCAAACGTTGACAAATTACATGCTAAGTAAGTGATTAAAAAAATTCGTGTG
1 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
* * *
754894 TGTGTGAGAGAGAGAGAG--AGGAGAGGGTGGTGATGATGATGATGACGGAGAGGAATTTTGCCC
66 TGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCCC
754957 GTTGATCGATGACACGTGT
131 GTTGATCGATGACACGTGT
*
754976 AATTCCCA
1 AATCCCCA
754984 AATATGGGAA
Statistics
Matches: 736, Mismatches: 18, Indels: 22
0.95 0.02 0.03
Matches are distributed among these distances:
146 9 0.01
147 122 0.17
149 159 0.22
151 139 0.19
153 157 0.21
155 8 0.01
157 142 0.19
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (149 bp):
AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
TGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCCC
GTTGATCGATGACACGTGT
Found at i:754750 original size:300 final size:295
Alignment explanation
Indices: 754072--754983 Score: 1440
Period size: 300 Copynumber: 3.0 Consensus size: 295
754062 TTAGCTGAAG
* * * *
754072 AATCCCTATGCACAGCAAACATTGACAAATTACATGCAAAGTAAGTGATTAAAAAAAATTGTGTG
1 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATT-AAAAAAATT-CGTG
754137 TGTGTGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCCCGT
64 TGTGT-AGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCCCGT
754202 TGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGA
128 TGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGA
754267 TTAAAAAAATTC--GTGTGTGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGG
193 TTAAAAAAATTCGTGTGTGTGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGG
*
754330 ACGGAGAGGGATTTTACCCGTTGATCGATGACACGTGT
258 ACGGAGAGGGATTTTGCCCGTTGATCGATGACACGTGT
754368 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
1 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
754433 TGTGAGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGC
66 TGT-------AGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGC
*
754498 CCGTTGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAATAA
124 CCGTTGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAA
754563 GTGATTAAAAAAATTCGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGAT
189 GTGATTAAAAAAATTCGTGTGTGTGT------GAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGAT
754628 GATGATGAGGACGGAGAGGGATTTTGCCCGTTGATCGATGACACGTGT
248 GATGATGAGGACGGAGAGGGATTTTGCCCGTTGATCGATGACACGTGT
754676 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
1 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
*
754741 TGTGAGAGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGAAGATGATGAGGACGGAGAGGGATTTT
66 TGT---------AGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTT
* * *
754806 GCCCGTTGATCGATGACACGTGTAATCTCCATGCACAGCAAACGTTGACAAATTACATGCTAAGT
122 GCCCGTTGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGT
754871 AAGTGATTAAAAAAATTCGTGTGTGTGT--GAGAGAGAGAGAG--AGGAGAGGGTGGTGATGATG
187 AAGTGATTAAAAAAATTCGTGTGTGTGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATG
* *
754932 ATGATGACGGAGAGGAATTTTGCCCGTTGATCGATGACACGTGT
252 ATGAGGACGGAGAGGGATTTTGCCCGTTGATCGATGACACGTGT
*
754976 AATTCCCA
1 AATCCCCA
754984 AATATGGGAA
Statistics
Matches: 586, Mismatches: 14, Indels: 28
0.93 0.02 0.04
Matches are distributed among these distances:
294 8 0.01
295 9 0.02
296 47 0.08
300 205 0.35
302 21 0.04
308 148 0.25
310 148 0.25
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (295 bp):
AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTG
TGTAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCCCGTTGA
TCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGATTA
AAAAAATTCGTGTGTGTGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACG
GAGAGGGATTTTGCCCGTTGATCGATGACACGTGT
Found at i:754923 original size:457 final size:445
Alignment explanation
Indices: 754072--754983 Score: 1533
Period size: 457 Copynumber: 2.0 Consensus size: 445
754062 TTAGCTGAAG
* *
754072 AATCCCTATGCACAGCAAACATTGACAAATTACATGCAAAGTAAGTGATTAAAAAAAATTGTGTG
1 AATCCCCATGCACAGCAAACATTGACAAATTACATGCAAAATAAGTGATTAAAAAAAATTGTGTG
754137 TGTGTGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCCCGT
66 TGTGTGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCCCGT
754202 TGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGA
131 TGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGA
*
754267 TTAAAAAAATTCGTGTGTGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGAC
196 TTAAAAAAATTCGTGTGTGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGAAGATGATGAGGAC
*
754332 GGAGAGGGATTTTACCCGTTGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAA
261 GGAGAGGGATTTTACCCGTTGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGACAAA
754397 TTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTGTGTGAGAGAGAGAGAGAGAGAAAGGAGAG
326 TTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTGTGT-AGAGAGAGAGAGAGAG-AAGGAGAG
*
754462 GGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCCCGTTGATCGATGACACGTGT
389 GGTGGTGATGATGATGAGGACGGAGAGGAATTTTGCCCGTTGATCGATGACACGTGT
* *
754519 AATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAATAAGTGATT-AAAAAAATTCGTGT
1 AATCCCCATGCACAGCAAACATTGACAAATTACATGCAAAATAAGTGATTAAAAAAAATT-GTGT
754583 GTGTGTGAGAGAGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGG
65 GTGTGT----------GAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGG
754648 ATTTTGCCCGTTGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAATTACATGC
120 ATTTTGCCCGTTGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAATTACATGC
754713 AAAGTAAGTGATTAAAAAAATTCGTGTGTGTGAGAGAGAGAGAGAGAGAGAAAGGAGAGGGTGGT
185 AAAGTAAGTGATTAAAAAAATTCGTGTGTGT----GAGAGAGAGAGAGAGAAAGGAGAGGGTGGT
* *
754778 GAAGATGATGAGGACGGAGAGGGATTTTGCCCGTTGATCGATGACACGTGTAATCTCCATGCACA
246 GAAGATGATGAGGACGGAGAGGGATTTTACCCGTTGATCGATGACACGTGTAATCCCCATGCACA
* *
754843 GCAAACGTTGACAAATTACATGCTAAGTAAGTGATTAAAAAAATTCGTGTGTGT-GTGAGAGAGA
311 GCAAACGTTGACAAATTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTGTGTAGAGAGAGAGA
*
754907 GAGAG-AGGAGAGGGTGGTGATGATGATGATGACGGAGAGGAATTTTGCCCGTTGATCGATGACA
376 GAGAGAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGAATTTTGCCCGTTGATCGATGACA
754971 CGTGT
441 CGTGT
*
754976 AATTCCCA
1 AATCCCCA
754984 AATATGGGAA
Statistics
Matches: 437, Mismatches: 13, Indels: 20
0.93 0.03 0.04
Matches are distributed among these distances:
446 9 0.02
447 56 0.13
457 214 0.49
459 14 0.03
461 144 0.33
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (445 bp):
AATCCCCATGCACAGCAAACATTGACAAATTACATGCAAAATAAGTGATTAAAAAAAATTGTGTG
TGTGTGAGAGAGAGAGAAAGGAGAGGGTGGTGATGATGATGAGGACGGAGAGGGATTTTGCCCGT
TGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGATAAATTACATGCAAAGTAAGTGA
TTAAAAAAATTCGTGTGTGTGAGAGAGAGAGAGAGAAAGGAGAGGGTGGTGAAGATGATGAGGAC
GGAGAGGGATTTTACCCGTTGATCGATGACACGTGTAATCCCCATGCACAGCAAACGTTGACAAA
TTACATGCAAAGTAAGTGATTAAAAAAATTCGTGTGTGTAGAGAGAGAGAGAGAGAAGGAGAGGG
TGGTGATGATGATGAGGACGGAGAGGAATTTTGCCCGTTGATCGATGACACGTGT
Found at i:760480 original size:2 final size:2
Alignment explanation
Indices: 760468--760506 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
760458 CGTGGTCTAA
760468 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
760507 GTGGCCAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:761938 original size:14 final size:13
Alignment explanation
Indices: 761896--761938 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
761886 CTATATCGGT
761896 AATTGAGTTGCGA
1 AATTGAGTTGCGA
*
761909 AATTGGATTTGCGA
1 AATT-GAGTTGCGA
*
761923 AATTCGAGTTGTGA
1 AATT-GAGTTGCGA
761937 AA
1 AA
761939 ACGAAATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.33
Consensus pattern (13 bp):
AATTGAGTTGCGA
Found at i:761945 original size:20 final size:20
Alignment explanation
Indices: 761920--761957 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
761910 ATTGGATTTG
761920 CGAAATTCGA-GTTGTGAAAA
1 CGAAATTC-ACGTTGTGAAAA
761940 CGAAATTCACGTTGTGAA
1 CGAAATTCACGTTGTGAA
761958 TCACTCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (20 bp):
CGAAATTCACGTTGTGAAAA
Found at i:762139 original size:20 final size:22
Alignment explanation
Indices: 762097--762140 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
762087 AATTTTACAC
762097 TTCGCAACACGAATTTGTCAAA
1 TTCGCAACACGAATTTGTCAAA
*
762119 TTCGCAACTC-AATTT-TCAAA
1 TTCGCAACACGAATTTGTCAAA
762139 TT
1 TT
762141 GGTGAATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 5 0.24
22 9 0.43
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (22 bp):
TTCGCAACACGAATTTGTCAAA
Found at i:762270 original size:20 final size:20
Alignment explanation
Indices: 762190--762272 Score: 94
Period size: 20 Copynumber: 4.0 Consensus size: 20
762180 GTAATTGAAG
762190 CGAAATTCGCGTTGCTGCAAGAA
1 CGAAATTCGCGTTGC-G-AA-AA
* *
762213 CGAAATTTGCGTTGCGAGAA
1 CGAAATTCGCGTTGCGAAAA
*
762233 CGAAATTCGCGTTACGAAAA
1 CGAAATTCGCGTTGCGAAAA
* *
762253 CAAAATTCGCTTTGCGAAAA
1 CGAAATTCGCGTTGCGAAAA
762273 TTTTCATGTT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
20 36 0.69
21 1 0.02
22 1 0.02
23 14 0.27
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (20 bp):
CGAAATTCGCGTTGCGAAAA
Found at i:766090 original size:28 final size:28
Alignment explanation
Indices: 766058--766112 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
766048 TTTATTAAGC
766058 GAGGGAAAATAAATTTCAT-CTATAACAA
1 GAGGGAAAATAAATTTCATAC-ATAACAA
*
766086 GAGGGAAAGTAAATTTCATACATAACA
1 GAGGGAAAATAAATTTCATACATAACA
766113 TGATGAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (28 bp):
GAGGGAAAATAAATTTCATACATAACAA
Found at i:766365 original size:27 final size:26
Alignment explanation
Indices: 766309--766366 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
766299 TTAAATGGGG
* * *
766309 TTCGGGTTGGGTTTTTTAAGTTTATC
1 TTCGGGTCGGGTTTTTTAAGTTAATA
766335 TTCGGGTCGGGTTTTTTAAGTGTAATA
1 TTCGGGTCGGGTTTTTTAAGT-TAATA
766362 TTCGG
1 TTCGG
766367 TTTGACGACC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.14, C:0.09, G:0.29, T:0.48
Consensus pattern (26 bp):
TTCGGGTCGGGTTTTTTAAGTTAATA
Found at i:769838 original size:19 final size:19
Alignment explanation
Indices: 769810--769854 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
769800 ATTTTGCTTA
*
769810 TTAAACAATTTTCAACAAT
1 TTAAACAATTTCCAACAAT
* *
769829 TTAAATAATTTCCACCAAT
1 TTAAACAATTTCCAACAAT
769848 TTAAACA
1 TTAAACA
769855 GGGTATGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAACAATTTCCAACAAT
Found at i:781748 original size:22 final size:22
Alignment explanation
Indices: 781719--781767 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
781709 TATACTTTTT
781719 AATT-TATTTAAAATATAA-ATG
1 AATTATATTT-AAATATAATATG
* *
781740 TATTATATTTTAATATAATATG
1 AATTATATTTAAATATAATATG
781762 AATTAT
1 AATTAT
781768 GAACTTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
AATTATATTTAAATATAATATG
Found at i:785909 original size:13 final size:13
Alignment explanation
Indices: 785891--785921 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
785881 CTCCCCAAAG
785891 ACCTCATTAAAAA
1 ACCTCATTAAAAA
785904 ACCTCATTAAAAA
1 ACCTCATTAAAAA
785917 ACCTC
1 ACCTC
785922 CCTAAGCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (13 bp):
ACCTCATTAAAAA
Found at i:792796 original size:46 final size:46
Alignment explanation
Indices: 792697--792801 Score: 142
Period size: 45 Copynumber: 2.3 Consensus size: 46
792687 TGCACCAAGT
* * *
792697 GTGCATCGATGCATGAAATGCATTCGATGTTTGAGAAATAGCCTGA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTGAGAAAAAGCCAGA
**
792743 -TGCATCGATGCATCAAATGCATTCGATGTTTTGA-AAAAATTCAGA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTGAGAAAAAGCCAGA
792788 GTGCATCGATGCAT
1 GTGCATCGATGCAT
792802 GGAGAGTGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 34 0.65
46 18 0.35
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (46 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTGAGAAAAAGCCAGA
Found at i:792809 original size:19 final size:19
Alignment explanation
Indices: 792785--792835 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
792775 GAAAAAATTC
792785 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
792804 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
792823 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
792836 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:792877 original size:65 final size:65
Alignment explanation
Indices: 792739--792886 Score: 178
Period size: 65 Copynumber: 2.3 Consensus size: 65
792729 GAGAAATAGC
* * *
792739 CTGATGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAATTCAGAGTGCATCGATGCATGG
1 CTGATGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAAAATTCAGAGTGCATCGATGCATGG
792804 A
65 A
* **
792805 --GAGTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCATCGA-TGCATCGATGCAT
1 CTGA-TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAAATTCA--GAGTGCATCGATGCAT
792866 GGA
63 GGA
792869 CTGATGCATCGGTGCATG
1 CTGATGCATCGGTGCATG
792887 CCTTTGAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
63 10 0.14
64 18 0.25
65 41 0.58
66 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (65 bp):
CTGATGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAAATTCAGAGTGCATCGATGCATGGA
Found at i:799319 original size:21 final size:21
Alignment explanation
Indices: 799263--799312 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
799253 GAGTTTGTTT
799263 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTGAAACA
799284 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTGAAACA
799305 TCATTTTT
1 TCATTTTT
799313 ATATTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.52
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAACA
Found at i:801402 original size:19 final size:19
Alignment explanation
Indices: 801378--801447 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
801368 GAAAAAATTC
801378 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
801397 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
801416 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
801435 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
801448 TTCAATTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
17 4 0.08
18 6 0.12
19 38 0.79
ACGTcount: A:0.26, C:0.16, G:0.36, T:0.23
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:801404 original size:65 final size:64
Alignment explanation
Indices: 801271--801413 Score: 189
Period size: 64 Copynumber: 2.2 Consensus size: 64
801261 TGCACCAAGT
* * * ***
801271 GTGCATCGATGCATGAAATGCATTCGATGTTTGAGAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTGAGAAAAAGCCAGATGCATCGATGCATGGAGA
**
801335 GTGCATCGATGCATCAAATGCATTCGATGTTTTGA-AAAAATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTGAGAAAAAGCCAGA-TGCATCGATGCATGGAG
801399 A
64 A
801400 GTGCATCGATGCAT
1 GTGCATCGATGCAT
801414 GGAGAGTGCA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 35 0.51
65 34 0.49
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTGAGAAAAAGCCAGATGCATCGATGCATGGAGA
Found at i:801489 original size:84 final size:84
Alignment explanation
Indices: 801313--801498 Score: 218
Period size: 84 Copynumber: 2.2 Consensus size: 84
801303 GAGAAATAGC
*** *
801313 CTGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAATTC
1 CTGATGCATCGATGCATGGAGAGTGCATCGATGCATCAAATGCATTCGATG-TTTCAAAAAATTC
801378 AGAGTGCATCGATGCATGGA
65 AGAGTGCATCGATGCATGGA
* ** **
801398 --GAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTC
1 CTGA-TGCATCGATGCATGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAAATTC
801460 ATCGA-TGCATCGATGCATGGA
65 A--GAGTGCATCGATGCATGGA
*
801481 CTGATGCATCGGTGCATG
1 CTGATGCATCGATGCATG
801499 CCTTTGAATA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
82 10 0.12
83 18 0.21
84 56 0.65
85 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (84 bp):
CTGATGCATCGATGCATGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAAATTCA
GAGTGCATCGATGCATGGA
Found at i:811855 original size:23 final size:23
Alignment explanation
Indices: 811829--811876 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
811819 ATAAAGTACA
*
811829 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
811852 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
811875 AT
1 AT
811877 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:812283 original size:21 final size:22
Alignment explanation
Indices: 812258--812309 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
812248 ACACTTTACA
*
812258 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
812281 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
812304 ATATAA
1 ATATAA
812310 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:812294 original size:23 final size:23
Alignment explanation
Indices: 812268--812330 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
812258 ATATAACCAC
812268 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
812291 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
812314 TACCTATTACATCATAT
1 TACCTATTACATTATAT
812331 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:812783 original size:39 final size:39
Alignment explanation
Indices: 812729--812815 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
812719 TCAAGTTGTA
*
812729 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
812768 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
812807 GATTTTGAT
1 GATTTTGAT
812816 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:813097 original size:18 final size:18
Alignment explanation
Indices: 813074--813110 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
813064 CGAAATATAT
813074 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
813092 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
813110 A
1 A
813111 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:813387 original size:25 final size:25
Alignment explanation
Indices: 813359--813409 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
813349 TTAATCCAAA
*
813359 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
813384 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
813409 T
1 T
813410 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:813713 original size:23 final size:23
Alignment explanation
Indices: 813687--813749 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
813677 ATATAACCAC
813687 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
813710 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
813733 TACCTATTACATCATAT
1 TACCTATTACATTATAT
813750 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:814128 original size:21 final size:22
Alignment explanation
Indices: 814103--814154 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
814093 ACACTTTACA
*
814103 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
814126 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
814149 ATATAA
1 ATATAA
814155 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:814139 original size:23 final size:23
Alignment explanation
Indices: 814113--814175 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
814103 ATATAACCAC
814113 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
814136 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
814159 TACCTATTACATCATAT
1 TACCTATTACATTATAT
814176 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:814892 original size:33 final size:33
Alignment explanation
Indices: 814855--814920 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
814845 CATCTTAATA
*
814855 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
814888 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
814921 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:817286 original size:19 final size:19
Alignment explanation
Indices: 817231--817277 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
817221 ATCCGGTATC
817231 ATTTTACCGGTTTTATCAT
1 ATTTTACCGGTTTTATCAT
817250 -TTTGATACCGGTTTTATCAT
1 ATTT--TACCGGTTTTATCAT
817270 ATTTTACC
1 ATTTTACC
817278 TGTTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 4 0.16
20 15 0.60
21 3 0.12
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (19 bp):
ATTTTACCGGTTTTATCAT
Found at i:817425 original size:20 final size:20
Alignment explanation
Indices: 817399--817444 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
817389 CACTTTTAAA
817399 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
817418 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
817439 TTTACC
1 TTTACC
817445 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:819835 original size:20 final size:20
Alignment explanation
Indices: 819799--819837 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
819789 GTACTAAAAC
819799 AAAATAAAAATGATAGTTTG
1 AAAATAAAAATGATAGTTTG
*
819819 AAAACTAAACATG-TAGTTT
1 AAAA-TAAAAATGATAGTTT
819838 ACCCTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (20 bp):
AAAATAAAAATGATAGTTTG
Found at i:826176 original size:223 final size:223
Alignment explanation
Indices: 825788--826236 Score: 828
Period size: 223 Copynumber: 2.0 Consensus size: 223
825778 CCGATACCCT
825788 CAAAGAGTGAATATGGGTGATCGCCTCCATGCATCTTTCCTTCAAATATAAGTTTCTCTGCTCTA
1 CAAAGAGTGAATATGGGTGATCGCCTCCATGCATCTTTCCTTCAAATATAAGTTTCTCTGCTCTA
*
825853 TCGGACAAGAAGGAAGCAAATGCTTTGGCCCTATATAAGACCTCTGCTTTGCCAGTCAGTCGATA
66 TCGGACAAGAAGGAAGCAAATGCTTTGGCCCTATATAAGAACTCTGCTTTGCCAGTCAGTCGATA
*
825918 GAGTGAAAGGAACACGTATGCGTTTCAGCTTATACCGTGACAGATTCCAACTCGCTTAAGCAGAC
131 GAGTGAAAGGAACACGAATGCGTTTCAGCTTATACCGTGACAGATTCCAACTCGCTTAAGCAGAC
*
825983 CACGCTTCCAAACTACCTCTCCGGCATC
196 CACACTTCCAAACTACCTCTCCGGCATC
*
826011 CAAAGAGTGAATATGGGTGATCGCCTCCATGCATCTTTCCTTCTAATATAAGTTTCTCTGCTCTA
1 CAAAGAGTGAATATGGGTGATCGCCTCCATGCATCTTTCCTTCAAATATAAGTTTCTCTGCTCTA
*
826076 TCGGACAAGAAGGAAGTAAATGCTTTGGCCCTATATAAGAACTCTGCTTTGCCAGTCAGTCGATA
66 TCGGACAAGAAGGAAGCAAATGCTTTGGCCCTATATAAGAACTCTGCTTTGCCAGTCAGTCGATA
*
826141 GAGTGAAAGGAACACGAATGTGTTTCCA-CTTATACCGTGACAGATTCCAACTCGCTTAAGCAGA
131 GAGTGAAAGGAACACGAATGCGTTT-CAGCTTATACCGTGACAGATTCCAACTCGCTTAAGCAGA
826205 CCACACTTCCAAACTACCTCTCCGGCATC
195 CCACACTTCCAAACTACCTCTCCGGCATC
826234 CAA
1 CAA
826237 TGCCGCTTGT
Statistics
Matches: 219, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
223 217 0.99
224 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (223 bp):
CAAAGAGTGAATATGGGTGATCGCCTCCATGCATCTTTCCTTCAAATATAAGTTTCTCTGCTCTA
TCGGACAAGAAGGAAGCAAATGCTTTGGCCCTATATAAGAACTCTGCTTTGCCAGTCAGTCGATA
GAGTGAAAGGAACACGAATGCGTTTCAGCTTATACCGTGACAGATTCCAACTCGCTTAAGCAGAC
CACACTTCCAAACTACCTCTCCGGCATC
Found at i:833723 original size:16 final size:16
Alignment explanation
Indices: 833702--833732 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
833692 CCTGATCACG
833702 CTCGGCTAATATCTCC
1 CTCGGCTAATATCTCC
*
833718 CTCGGCTCATATCTC
1 CTCGGCTAATATCTC
833733 TCTTTTGTTT
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:0.16, C:0.39, G:0.13, T:0.32
Consensus pattern (16 bp):
CTCGGCTAATATCTCC
Found at i:834260 original size:53 final size:53
Alignment explanation
Indices: 834203--834433 Score: 284
Period size: 53 Copynumber: 4.4 Consensus size: 53
834193 AGGGATTAAG
**** * *
834203 GAACTCGAACAATCTTCTAAAAATGGGTTCGCTCCCTATTGCTTCAAGGAGTA
1 GAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAAGGAGTA
* * *
834256 GAACTCGAATAATATTCTGCTTACGGGTTCGCTCCCTCTTGCTTCAATGG-GTA
1 GAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAA-GGAGTA
* * * *
834309 GAACTCAAACACTCTTCTGCCTACGGGTTCACTCCCTCTTGCTTCAGGGAGTA
1 GAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAAGGAGTA
* * * *
834362 GAACTCAAACAATCTTCTGTCTACGGGTTCGCTCCCTCTTGCTTTAGGGAGTA
1 GAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAAGGAGTA
*
834415 AAACTCGAACAATCTTCTG
1 GAACTCGAACAATCTTCTG
834434 GTGTGATTCT
Statistics
Matches: 155, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
52 2 0.01
53 151 0.97
54 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (53 bp):
GAACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAAGGAGTA
Found at i:834984 original size:13 final size:13
Alignment explanation
Indices: 834966--834990 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
834956 TGCTCGAAAG
834966 ACTTACTGATGGC
1 ACTTACTGATGGC
834979 ACTTACTGATGG
1 ACTTACTGATGG
834991 GTTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:835045 original size:93 final size:93
Alignment explanation
Indices: 834886--835071 Score: 300
Period size: 93 Copynumber: 2.0 Consensus size: 93
834876 TGCTCGAAAG
* * * *
834886 ACTTACTGATGAATTTGTTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAATGATTTAAT
1 ACTTACTGATGAATTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCAGAAAGATTTAAT
834951 CATCATGCTCGAAAGACTTACTGATGGC
66 CATCATGCTCGAAAGACTTACTGATGGC
** *
834979 ACTTACTGATGGGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCATAAAGATTTAAT
1 ACTTACTGATGAATTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCAGAAAGATTTAAT
*
835044 CATCATGCTCTAAAGACTTACTGATGGC
66 CATCATGCTCGAAAGACTTACTGATGGC
835072 CCTATGGATT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 85 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (93 bp):
ACTTACTGATGAATTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCAGAAAGATTTAAT
CATCATGCTCGAAAGACTTACTGATGGC
Found at i:835083 original size:42 final size:42
Alignment explanation
Indices: 835036--835115 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
835026 TTACCATAAA
* *
835036 GATTTAATCATCATGCTCTAAAGACTTACTGATGGCCCTATG
1 GATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCTATG
*
835078 GATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCC
1 GATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCC
835116 GAAGGACTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (42 bp):
GATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCTATG
Found at i:842638 original size:231 final size:231
Alignment explanation
Indices: 842235--842696 Score: 924
Period size: 231 Copynumber: 2.0 Consensus size: 231
842225 ACAATTACTT
842235 ACCTTAGATAATTTTAAAGATGTGGCATTTTATTTCCTTTTCGAATCGTTTACAATAGCTTTGTT
1 ACCTTAGATAATTTTAAAGATGTGGCATTTTATTTCCTTTTCGAATCGTTTACAATAGCTTTGTT
842300 TTTGTATTTTCTGTGCTTTCCTCTGTATTTTGTATGTAAATCGTGTGTTACAAATGGGGAGGATT
66 TTTGTATTTTCTGTGCTTTCCTCTGTATTTTGTATGTAAATCGTGTGTTACAAATGGGGAGGATT
842365 ACATGTATTTATAGTGAAAAAAACTAACTATTTTTAGAATCCTATTAACAATAGAATCCTAATGC
131 ACATGTATTTATAGTGAAAAAAACTAACTATTTTTAGAATCCTATTAACAATAGAATCCTAATGC
842430 AACTAGACTCCTTGCTCGGTTGTTGCACGTTTGTTG
196 AACTAGACTCCTTGCTCGGTTGTTGCACGTTTGTTG
842466 ACCTTAGATAATTTTAAAGATGTGGCATTTTATTTCCTTTTCGAATCGTTTACAATAGCTTTGTT
1 ACCTTAGATAATTTTAAAGATGTGGCATTTTATTTCCTTTTCGAATCGTTTACAATAGCTTTGTT
842531 TTTGTATTTTCTGTGCTTTCCTCTGTATTTTGTATGTAAATCGTGTGTTACAAATGGGGAGGATT
66 TTTGTATTTTCTGTGCTTTCCTCTGTATTTTGTATGTAAATCGTGTGTTACAAATGGGGAGGATT
842596 ACATGTATTTATAGTGAAAAAAACTAACTATTTTTAGAATCCTATTAACAATAGAATCCTAATGC
131 ACATGTATTTATAGTGAAAAAAACTAACTATTTTTAGAATCCTATTAACAATAGAATCCTAATGC
842661 AACTAGACTCCTTGCTCGGTTGTTGCACGTTTGTTG
196 AACTAGACTCCTTGCTCGGTTGTTGCACGTTTGTTG
842697 GTGTGGTTGT
Statistics
Matches: 231, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 231 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (231 bp):
ACCTTAGATAATTTTAAAGATGTGGCATTTTATTTCCTTTTCGAATCGTTTACAATAGCTTTGTT
TTTGTATTTTCTGTGCTTTCCTCTGTATTTTGTATGTAAATCGTGTGTTACAAATGGGGAGGATT
ACATGTATTTATAGTGAAAAAAACTAACTATTTTTAGAATCCTATTAACAATAGAATCCTAATGC
AACTAGACTCCTTGCTCGGTTGTTGCACGTTTGTTG
Found at i:843553 original size:36 final size:36
Alignment explanation
Indices: 843504--843572 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
843494 AAAGATTGAA
* *
843504 GTTTCAAGGGAAACTGTCTCAAGATAGACAAAATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
843540 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
843573 ACTTCCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.23
Consensus pattern (36 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:843663 original size:30 final size:30
Alignment explanation
Indices: 843627--843685 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
843617 GTAAAACATA
*
843627 TTCAAAGATTT-TGTTTCAA-ATGAAACTGTT
1 TTCAAAG-TTTATGCTTCAAGA-GAAACTGTT
843657 TTCAAAGTTTATGCTTCAAGAGAAACTGT
1 TTCAAAGTTTATGCTTCAAGAGAAACTGT
843686 CTCAAGGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 22 0.85
31 1 0.04
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (30 bp):
TTCAAAGTTTATGCTTCAAGAGAAACTGTT
Found at i:843718 original size:36 final size:36
Alignment explanation
Indices: 843671--843855 Score: 127
Period size: 36 Copynumber: 5.3 Consensus size: 36
843661 AAGTTTATGC
* *
843671 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
* * * **
843707 TTCAAGGGAAACTATCTCATGAGTGACAAAATTCAT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
* * *
843743 TTCAAGGGAAA-TGTTTTC-A-A-TG-----TTTATGT
1 TTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT-TGT
* *
843772 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGT
* * **
843809 TTCAAGGGAACCTATCTCAAGAGAGACAAAATTCAT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
*
843845 CTCAAGGGAAA
1 TTCAAGGGAAA
843856 TGTTTTCAAT
Statistics
Matches: 111, Mismatches: 26, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
28 2 0.02
29 14 0.13
30 3 0.03
32 1 0.01
33 2 0.02
34 1 0.01
35 1 0.01
36 55 0.50
37 30 0.27
38 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (36 bp):
TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
Found at i:843827 original size:37 final size:37
Alignment explanation
Indices: 843769--844175 Score: 124
Period size: 37 Copynumber: 12.0 Consensus size: 37
843759 TCAATGTTTA
* *
843769 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
843806 TGTTTCAAGGGAACCTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
** * * * * *
843842 CATCTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGAGAAACT-ATCTCAAGAGAGACAAAATTT
*
843870 ATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* * * * * * *
843908 AGTTCCAAAAGAAAATGTCTCAAGGGAGACGAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
843944 TGTTTCAAGTGAAACAAAT-TC-A-A-AG-----ATTT
1 TGTTTCAAGAGAAAC-TATCTCAAGAGAGACAAAATTT
843973 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
** * * * *
844009 CATTTCAAGTGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGAGAAACT-ATCTCAAGAGAGACAAAATTT
*
844037 ATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* * * * * * *
844075 AGTTCCAAAAGAAAATGTCTCAAGGGAGACGAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
844111 TGTTTCAAGGGAAACAGAT-TC-A-A-AG-----ATTT
1 TGTTTCAAGAGAAAC-TATCTCAAGAGAGACAAAATTT
*
844140 TGTTTCAAGAGAAACTATCTCAAAAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
844176 CATTTCAAGG
Statistics
Matches: 256, Mismatches: 66, Indels: 96
0.61 0.16 0.23
Matches are distributed among these distances:
28 10 0.04
29 63 0.25
30 6 0.02
31 4 0.02
32 6 0.02
33 6 0.02
34 2 0.01
35 6 0.02
36 59 0.23
37 90 0.35
38 4 0.02
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
Found at i:843843 original size:102 final size:102
Alignment explanation
Indices: 843648--844008 Score: 447
Period size: 102 Copynumber: 3.5 Consensus size: 102
843638 TGTTTCAAAT
* * *
843648 GAAACTGTTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAA
1 GAAA-TGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTTGTTTCAA
* *
843712 GGGAAACTATCTCATGAGTGACAAAATTCATTTCAAGG
65 GGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGG
* * *
843750 GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAG
1 GAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTTGTTTCAAG
* *
843815 GGAACCTATCTCAAGAGAGACAAAATTCATCTCAAGG
66 GGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGG
* * * * *
843852 GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAA
1 GAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTTGTTTCAAG
* * * * * ** *
843917 AGAAAATGTCTCAAGGGAGACGAAATTTGTTTCAAGT
66 GGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGG
****
843954 GAAACAAATTCAAAGATTT-TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
1 GAAATGTTTTCAAAG-TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
844009 CATTTCAAGT
Statistics
Matches: 229, Mismatches: 28, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
101 47 0.21
102 179 0.78
103 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (102 bp):
GAAATGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTTGTTTCAAG
GGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGG
Found at i:844021 original size:65 final size:65
Alignment explanation
Indices: 843925--844071 Score: 197
Period size: 65 Copynumber: 2.3 Consensus size: 65
843915 AAAGAAAATG
* * **
843925 TCTCAAGGGAGACGAAATTTGTTTCAAGTGAAACAAATTCAAAGATTT-TGTTTCAAGAGAAACT
1 TCTCAAGAGAGACAAAATTCATTTCAAGTGAAACAAATTCAAAG-TTTATGTTTCAAGAGAAACT
843989 A
65 A
**** *
843990 TCTCAAGAGAGACAAAATTCATTTCAAGTGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTA
1 TCTCAAGAGAGACAAAATTCATTTCAAGTGAAACAAATTCAAAGTTTATGTTTCAAGAGAAACTA
844055 TCTCAAGAGAGACAAAA
1 TCTCAAGAGAGACAAAA
844072 CTTAGTTCCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 3 0.04
65 69 0.96
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (65 bp):
TCTCAAGAGAGACAAAATTCATTTCAAGTGAAACAAATTCAAAGTTTATGTTTCAAGAGAAACTA
Found at i:844088 original size:102 final size:102
Alignment explanation
Indices: 843982--844173 Score: 253
Period size: 102 Copynumber: 1.9 Consensus size: 102
843972 TTGTTTCAAG
* * * * *
843982 AGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGTGAAA-TGTTTTCAATG-TTTATGTTTCA
1 AGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAG-ATTCAAAGATTT-TGTTTCA
*
844045 AGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAA
64 AGAGAAACTATCTCAAAAGAGACAAAACTTAGTTCCAAA
* * * **
844084 AGAAAATGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACAGATTCAAAGATTTTGTTTCAAG
1 AGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAGATTCAAAGATTTTGTTTCAAG
844149 AGAAACTATCTCAAAAGAGACAAAA
66 AGAAACTATCTCAAAAGAGACAAAA
844174 TTCATTTCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
102 73 0.95
103 4 0.05
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (102 bp):
AGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAGATTCAAAGATTTTGTTTCAAG
AGAAACTATCTCAAAAGAGACAAAACTTAGTTCCAAA
Found at i:844188 original size:65 final size:65
Alignment explanation
Indices: 844113--844240 Score: 170
Period size: 65 Copynumber: 2.0 Consensus size: 65
844103 ACGAAATTTG
844113 TTTCAAGGGAAACAG-ATTCAAAGATTT-TGTTTCAAGAGAAACTATCTCAAAAGAGACAAAATT
1 TTTCAAGGGAAA-AGTATTCAAAG-TTTATGTTTCAAGAGAAACTATCTCAAAAGAGACAAAATT
844176 CA
64 CA
* * * * **
844178 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TTTCAAGGGAAAAGTATTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGACAAAATT
844241 TAGTTCCAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
64 4 0.07
65 51 0.93
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (65 bp):
TTTCAAGGGAAAAGTATTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGACAAAATTCA
Found at i:844309 original size:167 final size:166
Alignment explanation
Indices: 843798--844322 Score: 858
Period size: 167 Copynumber: 3.2 Consensus size: 166
843788 TCAAGGGAGA
* * *
843798 CAAA-ATTTTGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTCATCTCAAGGGAAATGTTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
843862 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTC
66 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTC
843927 TCAAGGGAGACGAAATTTGTTTCAAGTGAAACAA-ATT
131 TCAAGGGAGACGAAATTTGTTTCAA-TGAAA-AAGATT
*
843964 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGTGAAATGTTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
844029 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTC
66 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTC
* *
844094 TCAAGGGAGACGAAATTTGTTTCAAGGGAAACAGATT
131 TCAAGGGAGACGAAATTTGTTTCAA-TGAAAAAGATT
*
844131 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAAAGAGACAAAATTCATTTCAAGGGAAATGTTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
* * * *
844196 CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAAGGAAATGTC
66 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTC
*
844261 TCAAGGGAGACGAAATTAGTTTCAATGAAAATAGATT
131 TCAAGGGAGACGAAATTTGTTTCAATGAAAA-AGATT
* *
844298 TAAATATTTTGTTTCAA-ATGAAACT
1 CAAAGATTTTGTTTCAAGA-GAAACT
844323 TGGAAATTGT
Statistics
Matches: 338, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
166 10 0.03
167 328 0.97
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.29
Consensus pattern (166 bp):
CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTC
TCAAGGGAGACGAAATTTGTTTCAATGAAAAAGATT
Found at i:844660 original size:106 final size:106
Alignment explanation
Indices: 844470--844792 Score: 423
Period size: 106 Copynumber: 3.0 Consensus size: 106
844460 TGTATTGTTC
* * * * * **
844470 CGAGTCCAATATCCTCCGTCGTGAAGTTAAAATTGGCTATGGAACTAAGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTGTTTGTTGACA
* * * * * **
844535 GCCAG-CTGCCCCTTTGTTGTGAAGTTGAGCTTATACTGTCT
66 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
844576 CGAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTGTTTGTTGACA
*
844641 ACCAGTCGTCCATTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
844682 CGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTATTTGTTGAAA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTGTTTGTTGACA
* *
844747 ACTAGTCGTCCCTTCGTTGTGGAGTTGAACTTGTGTTGTCT
66 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
844788 CGAGT
1 CGAGT
844793 GGCATGATAT
Statistics
Matches: 190, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
106 189 0.99
107 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTGTTTGTTGACA
ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:845458 original size:32 final size:32
Alignment explanation
Indices: 845370--845458 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 32
845360 TTTGCATCAG
* * *
845370 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-TCAAAGATGCCCTAACATTC
* *
845402 GATGTTGAATC-TCACAAAATGCCCTAACATTT
1 GATGTTGAATCTTCA-AAGATGCCCTAACATTC
845434 GATGTTGAATCTTCAAAGATGCCCT
1 GATGTTGAATCTTCAAAGATGCCCT
845459 CATTGTTCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 2 0.04
32 43 0.90
33 3 0.06
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (32 bp):
GATGTTGAATCTTCAAAGATGCCCTAACATTC
Found at i:846492 original size:69 final size:69
Alignment explanation
Indices: 846381--846518 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
846371 TGTCTCTCTC
846381 TTGATGCTCTATGATCTTCGAGTAAAGTGATTCAGTGATTCGAAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTAAAGTGATTCAGTGATTCGAAAATGATTGTGCTTGATCAATC
846446 TCAT
66 TCAT
*
846450 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGAAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTAAAGTGATTCAGTGATTCGAAAATGATTGTGCTTGATCAATC
846515 TCAT
66 TCAT
846519 AGTTTGAATC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTAAAGTGATTCAGTGATTCGAAAATGATTGTGCTTGATCAATC
TCAT
Found at i:856381 original size:21 final size:21
Alignment explanation
Indices: 856334--856423 Score: 108
Period size: 21 Copynumber: 4.3 Consensus size: 21
856324 TAATCTTAAG
* ** *
856334 TGTTAATATGAAGAGTTGAGA
1 TGTTAATATGAATAAATGTGA
*
856355 TATTAATATGAATAAATGTGA
1 TGTTAATATGAATAAATGTGA
* *
856376 TGTTAACATGAATAAATATGA
1 TGTTAATATGAATAAATGTGA
*
856397 TGTTAATATGAATAGATGTGA
1 TGTTAATATGAATAAATGTGA
856418 TGTTAA
1 TGTTAA
856424 CATCATATTA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.37
Consensus pattern (21 bp):
TGTTAATATGAATAAATGTGA
Found at i:856446 original size:32 final size:32
Alignment explanation
Indices: 856399--856487 Score: 151
Period size: 32 Copynumber: 2.8 Consensus size: 32
856389 AAATATGATG
* *
856399 TTAATATGAATAGATGTGATGTTAACATCATA
1 TTAACATGAAGAGATGTGATGTTAACATCATA
856431 TTAACATGAAGAGATGTGATGTTAACATCATA
1 TTAACATGAAGAGATGTGATGTTAACATCATA
*
856463 TTAACATGAAGAGATATGATGTTAA
1 TTAACATGAAGAGATGTGATGTTAA
856488 TATGAAGACA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.34
Consensus pattern (32 bp):
TTAACATGAAGAGATGTGATGTTAACATCATA
Found at i:856492 original size:21 final size:21
Alignment explanation
Indices: 856463--856509 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
856453 TAACATCATA
* *
856463 TTAACATGAAGAGATATGATG
1 TTAATATGAAGACATATGATG
856484 TTAATATGAAGACATATGATG
1 TTAATATGAAGACATATGATG
856505 TTAAT
1 TTAAT
856510 TTGTCTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
TTAATATGAAGACATATGATG
Found at i:862820 original size:20 final size:20
Alignment explanation
Indices: 862797--862848 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
862787 AACGCGATCC
862797 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
862817 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
862837 CCAAAATCGCAA
1 CCAGAATCGCAA
862849 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:862965 original size:20 final size:20
Alignment explanation
Indices: 862904--863094 Score: 201
Period size: 20 Copynumber: 9.6 Consensus size: 20
862894 GATTTTCCAT
* ** *
862904 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
862924 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
862944 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
862964 AATCGC-ACGTGTATCCGT-
1 AATCGCAACGCGTATCCGTA
**
862982 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
863002 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
863022 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
863042 AATCGCAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
863063 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
863083 AATCGCAACGCG
1 AATCGCAACGCG
863095 ATATTTAAAG
Statistics
Matches: 141, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
18 6 0.04
19 22 0.16
20 95 0.67
21 17 0.12
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:862991 original size:58 final size:59
Alignment explanation
Indices: 862923--863094 Score: 220
Period size: 58 Copynumber: 2.9 Consensus size: 59
862913 GCGAATATGA
* *
862923 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCACGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCACGCGTATCCGT
* *** * *
862982 -AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGC-ACGCGTATCCGT
**
863041 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTAAATCGC-ACGCG
863095 ATATTTAAAG
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
58 39 0.41
59 11 0.12
60 13 0.14
61 31 0.33
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (59 bp):
AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCACGCGTATCCGT
Found at i:863005 original size:78 final size:78
Alignment explanation
Indices: 862901--863095 Score: 214
Period size: 78 Copynumber: 2.5 Consensus size: 78
862891 TGCGATTTTC
* * *
862901 CATAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAA
1 CATAATCGCAACGCGTATACGTAAATCGCAACGCGAAC-CATAAATCGCAACGCGTATCCGTAAA
* *
862966 TCGC-ACG-TGTATC
65 TCGCAACGAT-AATA
* ** * * * *
862979 CGTAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAA
1 CATAATCGCAACGCGTATACGTAAATCGCAACGCG-AACCATAAATCGCAACGCGTATCCGTAAA
863044 TCGCAACGATAATA
65 TCGCAACGATAATA
*
863058 CATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 CAT--AATCGCAACGCGTATACGTAAATCGCAACGCGA
863096 TATTTAAAGC
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 57 0.59
79 9 0.09
80 2 0.02
81 29 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (78 bp):
CATAATCGCAACGCGTATACGTAAATCGCAACGCGAACCATAAATCGCAACGCGTATCCGTAAAT
CGCAACGATAATA
Found at i:863513 original size:33 final size:33
Alignment explanation
Indices: 863474--863544 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
863464 TTCACTTAGA
*
863474 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
863507 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
863540 TTTCA
1 TTTCA
863545 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:863684 original size:14 final size:14
Alignment explanation
Indices: 863665--863719 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
863655 AGAATGACTG
863665 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
863679 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
863698 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
863712 TCGCAACG
1 TCGCAACG
863720 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:863702 original size:33 final size:33
Alignment explanation
Indices: 863665--863735 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
863655 AGAATGACTG
**
863665 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
863698 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
863731 TCGCA
1 TCGCA
863736 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:863772 original size:14 final size:14
Alignment explanation
Indices: 863753--863841 Score: 88
Period size: 14 Copynumber: 5.7 Consensus size: 14
863743 TTTCATTTCG
863753 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
863767 CGTTGCGATTTTCATTCG
1 CGTTGCGA--TTC--TCT
863785 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
863799 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
863816 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
863832 CGTTGCGATT
1 CGTTGCGATT
863842 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 11 0.17
17 5 0.08
18 11 0.17
19 8 0.12
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:863778 original size:33 final size:33
Alignment explanation
Indices: 863736--863849 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
863726 CAAAATCGCA
863736 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
863769 TTGCGATTTTCA-TTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
863801 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
863834 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
863850 AACCAAAGAC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 31 0.41
33 45 0.59
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:865851 original size:93 final size:93
Alignment explanation
Indices: 865540--866195 Score: 1266
Period size: 93 Copynumber: 7.1 Consensus size: 93
865530 TAGATTGCTT
*
865540 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
865605 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
865633 AGTAAATTTGTTCGGTTGC-GCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
865696 TTTGTCTTTGTTTTGTCTTTT--TTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
865722 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
865787 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
865815 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
865880 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
865908 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
865973 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
866001 AGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
866066 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
866094 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
866159 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
866187 AGTAAATTT
1 AGTAAATTT
866196 ATCCATTCAA
Statistics
Matches: 556, Mismatches: 3, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
89 24 0.04
90 42 0.08
91 46 0.08
92 42 0.08
93 402 0.72
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:866277 original size:19 final size:19
Alignment explanation
Indices: 866237--866364 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
866227 AATAGTTTTT
* *
866237 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
866257 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
866276 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
866295 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
866309 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
866328 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
866342 TCGCAACGCGAAACC-AAA
1 TCGCAACGCGAAACCAAAA
866360 TCGCA
1 TCGCA
866365 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 9 0.10
19 38 0.43
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:866316 original size:33 final size:32
Alignment explanation
Indices: 866273--866364 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
866263 CGCGAAACCA
**
866273 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
866305 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
866338 AAGATCGCAACGCGAAACC-AAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
866365 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
32 10 0.18
33 46 0.82
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:866387 original size:19 final size:19
Alignment explanation
Indices: 866360--866493 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
866350 CGAAACCAAA
*
866360 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
866379 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
866395 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
866412 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
866428 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
**
866444 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
866463 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
866483 TCGTGTTGCGA
1 TCGCGTTGCGA
866494 AAGTAAACTA
Statistics
Matches: 94, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
15 3 0.03
16 10 0.11
17 9 0.10
18 8 0.09
19 37 0.39
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:866401 original size:14 final size:14
Alignment explanation
Indices: 866382--866438 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
866372 TTTCATTTCG
866382 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
866396 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
866413 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
866429 CGTTGCGATT
1 CGTTGCGATT
866439 TCATTTCGCG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:866446 original size:32 final size:33
Alignment explanation
Indices: 866365--866456 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
866355 CCAAATCGCA
*
866365 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
866398 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
866431 TTGCGA-TTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
866457 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 19 0.34
33 37 0.66
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:866465 original size:51 final size:47
Alignment explanation
Indices: 866382--866475 Score: 125
Period size: 51 Copynumber: 1.9 Consensus size: 47
866372 TTTCATTTCG
866382 CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTGT
1 CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTGT
** *
866429 CGTTGCGATTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATT
1 CGTTGCGA-TTC-TTT--CGTTGCGATTTTCATTTCGCATTGCGATT
866476 TTAAGTTTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 8 0.20
48 3 0.08
49 3 0.08
51 26 0.65
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (47 bp):
CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTGT
Found at i:868424 original size:14 final size:14
Alignment explanation
Indices: 868405--868440 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
868395 ATTGTTTAAT
868405 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
868419 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
868433 TGATTTGT
1 TGATTTGT
868441 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:868615 original size:20 final size:19
Alignment explanation
Indices: 868547--868629 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
868537 AAAAATGACT
868547 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
868566 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
868580 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
868599 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
868619 ATCGCAATGCG
1 ATCGCAATGCG
868630 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:868682 original size:19 final size:19
Alignment explanation
Indices: 868658--868909 Score: 307
Period size: 19 Copynumber: 14.4 Consensus size: 19
868648 GATTATCTCG
868658 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
868677 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
868696 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
868710 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
868728 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
868747 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
868766 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
868785 TTGCGA--TTC---TCG--
1 TTGCGATTTTCATTTCGCA
868797 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
868816 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
868835 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
868849 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
868869 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
868883 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
868902 TTGCGATT
1 TTGCGATT
868910 GTATTTTCCG
Statistics
Matches: 206, Mismatches: 4, Indels: 46
0.80 0.02 0.18
Matches are distributed among these distances:
12 6 0.03
14 29 0.14
15 3 0.01
16 19 0.09
17 15 0.07
18 9 0.04
19 113 0.55
20 12 0.06
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:868762 original size:38 final size:38
Alignment explanation
Indices: 868636--868909 Score: 307
Period size: 33 Copynumber: 7.9 Consensus size: 38
868626 TGCGTTTATA
*
868636 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
868669 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
868705 -TTTCG--TTGCGA-TTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
868739 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
868777 ATTTCGCATTGCGA--TTC---TCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
868808 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
*
868844 -TCTCG--TTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTTTC
* *
868880 A--T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
868910 GTATTTTCCG
Statistics
Matches: 215, Mismatches: 4, Indels: 44
0.82 0.02 0.17
Matches are distributed among these distances:
31 25 0.12
32 18 0.08
33 52 0.24
34 28 0.13
35 17 0.08
36 20 0.09
37 6 0.03
38 49 0.23
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (38 bp):
ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:868806 original size:50 final size:52
Alignment explanation
Indices: 868658--868881 Score: 275
Period size: 50 Copynumber: 4.2 Consensus size: 52
868648 GATTATCTCG
*
868658 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
*
868710 TTGCGA-TTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
868766 TTGCGATTTTCATTTCGCATTGCGA-T-TCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
868816 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
868869 TTGCGATTTTCAT
1 TTGCGATTTTCAT
868882 GTTGGGATTT
Statistics
Matches: 162, Mismatches: 1, Indels: 17
0.90 0.01 0.09
Matches are distributed among these distances:
50 44 0.27
51 38 0.23
52 30 0.19
53 20 0.12
54 6 0.04
56 6 0.04
57 18 0.11
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:868812 original size:139 final size:138
Alignment explanation
Indices: 868636--868909 Score: 448
Period size: 139 Copynumber: 2.0 Consensus size: 138
868626 TGCGTTTATA
868636 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
*
868701 ATTCTTTCGTTGCGA-TTTCATTT-CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
66 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCA--T-G--TTGCGATTTTCATTTCG
868764 CATTGCGATTTTC
126 CATTGCGATTTTC
868777 ATTTCGCATTGCGA-T-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
* *
868840 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCGTTG
66 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGCGATTTTCATTTCGCATTG
868905 CGATT
131 CGATT
868910 GTATTTTCCG
Statistics
Matches: 128, Mismatches: 3, Indels: 9
0.91 0.02 0.06
Matches are distributed among these distances:
136 25 0.20
138 1 0.01
139 63 0.49
140 9 0.07
141 30 0.23
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (138 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGCGATTTTCATTTCGCATTG
CGATTTTC
Found at i:872135 original size:20 final size:20
Alignment explanation
Indices: 872107--872455 Score: 427
Period size: 20 Copynumber: 17.4 Consensus size: 20
872097 AAATTTCAGT
* * * *
872107 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
872127 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
872147 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
872167 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
872187 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
872207 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
872227 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
872247 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
872267 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
872287 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
872307 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
872327 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
872347 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
872367 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
872387 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
872407 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
872427 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
872447 GTTGCGATT
1 GTTGCGATT
872456 ATGGAAAATC
Statistics
Matches: 291, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.02
20 281 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:877612 original size:14 final size:14
Alignment explanation
Indices: 877593--877636 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
877583 GACTGGATCT
877593 TATAAAATTTAAAA
1 TATAAAATTTAAAA
**
877607 TATAAAAACTAAAA
1 TATAAAATTTAAAA
* *
877621 TTTAAATTTTAAAA
1 TATAAAATTTAAAA
877635 TA
1 TA
877637 CTAGAAATAC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
TATAAAATTTAAAA
Found at i:877621 original size:21 final size:22
Alignment explanation
Indices: 877595--877644 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
877585 CTGGATCTTA
877595 TAAAATTTAAAATATAAAA-AC
1 TAAAATTTAAAATATAAAATAC
* *
877616 TAAAATTTAAATTTTAAAATAC
1 TAAAATTTAAAATATAAAATAC
877638 TAGAAAT
1 TA-AAAT
877645 ACCTTCAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.68
22 4 0.16
23 4 0.16
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (22 bp):
TAAAATTTAAAATATAAAATAC
Found at i:880025 original size:20 final size:20
Alignment explanation
Indices: 879960--880169 Score: 201
Period size: 20 Copynumber: 10.5 Consensus size: 20
879950 CGATTTTCCA
* ** *
879960 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
879980 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
880000 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
880020 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
880040 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
880060 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
880080 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
880100 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
880120 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
880140 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
880160 AAATCACAAC
1 AAATCGCAAC
880170 ACTGAAATTT
Statistics
Matches: 158, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 154 0.97
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:880876 original size:24 final size:24
Alignment explanation
Indices: 880849--880895 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
880839 AAATTTAGTC
880849 TTGGTCAATATC-CGGACTTTGATA
1 TTGGTCAATA-CACGGACTTTGATA
*
880873 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
880896 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:881087 original size:12 final size:12
Alignment explanation
Indices: 881070--881094 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
881060 ATATAATCCT
881070 GAAGAAGAAAAA
1 GAAGAAGAAAAA
881082 GAAGAAGAAAAA
1 GAAGAAGAAAAA
881094 G
1 G
881095 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:883467 original size:19 final size:19
Alignment explanation
Indices: 883427--883524 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
883417 GATTCTCTCG
883427 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
883447 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
883466 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
883480 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
883499 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
883518 TTGCGAT
1 TTGCGAT
883525 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:883521 original size:52 final size:53
Alignment explanation
Indices: 883408--883524 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
883398 GAAATGAAAA
883408 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
883461 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
883513 TCGCATTGCGAT
1 TCGCATTGCGAT
883525 AGTCAATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:883635 original size:33 final size:33
Alignment explanation
Indices: 883583--883744 Score: 159
Period size: 33 Copynumber: 4.7 Consensus size: 33
883573 CCATTACATT
883583 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
* *
883617 TCGCAATGCGAAATGAAAATCGCAATGCGA-AA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
* * * *
883649 T-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAGAA
883688 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
*
883721 TCGCAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
883745 TTGCGATTCT
Statistics
Matches: 105, Mismatches: 12, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 54 0.51
34 10 0.10
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:883639 original size:19 final size:19
Alignment explanation
Indices: 883583--883750 Score: 177
Period size: 19 Copynumber: 9.6 Consensus size: 19
883573 CCATTACATT
883583 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
883603 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
883617 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
883636 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
883655 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
883669 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
883688 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
883707 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
883721 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
883740 TCGCATTGCGA
1 TCGCAATGCGA
883751 TTCTCCCATT
Statistics
Matches: 125, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
14 30 0.24
15 3 0.02
16 6 0.05
17 5 0.04
18 4 0.03
19 71 0.57
20 6 0.05
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:883662 original size:52 final size:52
Alignment explanation
Indices: 883583--883750 Score: 309
Period size: 52 Copynumber: 3.2 Consensus size: 52
883573 CCATTACATT
883583 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
883636 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
883688 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
883740 TCGCATTGCGA
1 TCGCAATGCGA
883751 TTCTCCCATT
Statistics
Matches: 113, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 104 0.92
53 9 0.08
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:883779 original size:34 final size:33
Alignment explanation
Indices: 883740--883819 Score: 133
Period size: 34 Copynumber: 2.4 Consensus size: 33
883730 GAAATTAAAA
883740 TCGCATTGCGATTCTCCCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATT
* *
883773 TCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGATTCTCCCATTGCGATTTTCATT
883807 TCGCATTGCGATT
1 TCGCATTGCGATT
883820 TTCATTTCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 13 0.30
34 31 0.70
ACGTcount: A:0.14, C:0.26, G:0.17, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATT
Found at i:883817 original size:19 final size:19
Alignment explanation
Indices: 883757--883837 Score: 109
Period size: 19 Copynumber: 4.5 Consensus size: 19
883747 GCGATTCTCC
883757 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
*
883777 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
883793 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
883810 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
883829 CATTGCGAT
1 CATTGCGAT
883838 AGTCAATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 5 0.09
17 6 0.11
18 3 0.06
19 26 0.48
20 8 0.15
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.44
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:883963 original size:14 final size:14
Alignment explanation
Indices: 883944--883980 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
883934 CATCAATTAC
883944 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
883958 ACAAATCATCTTTT
1 ACAAATCAACTTTT
883972 ACAAATCAA
1 ACAAATCAA
883981 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:885978 original size:14 final size:14
Alignment explanation
Indices: 885959--886015 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
885949 GCGAAATGAA
*
885959 AATCGCAACGACAG
1 AATCGCAACGAAAG
885973 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
885990 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
886006 AATCGCAACG
1 AATCGCAACG
886016 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:885986 original size:33 final size:33
Alignment explanation
Indices: 885940--886032 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
885930 GCGAAACCAA
*
885940 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
885973 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
886006 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
886033 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:885997 original size:19 final size:19
Alignment explanation
Indices: 885903--886037 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
885893 TAGTTTACTT
* *
885903 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
885923 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
885942 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
885961 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
885975 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
885994 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
886008 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
886027 TCGCAATGCGA
1 TCGCAACGCGA
886038 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:886055 original size:19 final size:19
Alignment explanation
Indices: 886033--886161 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
886023 AAAATCGCAA
886033 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
886052 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
886066 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
886085 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
886099 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
886118 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
886137 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
886157 TGCGA
1 TGCGA
886162 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:886075 original size:33 final size:33
Alignment explanation
Indices: 886033--886124 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
886023 AAAATCGCAA
886033 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
886066 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
886099 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
886125 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:886477 original size:93 final size:93
Alignment explanation
Indices: 886205--886584 Score: 735
Period size: 93 Copynumber: 4.1 Consensus size: 93
886195 TTGAATGGAT
886205 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
886270 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
886298 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
886362 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
886390 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
886455 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
886483 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
886548 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
886576 AAATTTACT
1 AAATTTACT
886585 AAGCAATCTA
Statistics
Matches: 283, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 91 0.32
93 192 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:888305 original size:14 final size:14
Alignment explanation
Indices: 888286--888375 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
888276 TTGAAATGAA
888286 AATCGCAACGAGAG
1 AATCGCAACGAGAG
888300 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
*
888317 ACAATCGCAACGATAG
1 --AATCGCAACGAGAG
*
888333 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
888352 AATCGCAACGAGAG
1 AATCGCAACGAGAG
888366 AATCGCAACG
1 AATCGCAACG
888376 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 28 0.45
15 1 0.02
16 8 0.13
17 7 0.11
18 1 0.02
19 17 0.27
ACGTcount: A:0.42, C:0.23, G:0.24, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:888323 original size:33 final size:33
Alignment explanation
Indices: 888278--888392 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
888268 TCTTTTGGTT
888278 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* * *
888311 GAGATGACAATCGCAACGATAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
888344 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
888377 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
888393 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:888324 original size:19 final size:19
Alignment explanation
Indices: 888281--888397 Score: 84
Period size: 19 Copynumber: 6.9 Consensus size: 19
888271 TTTGGTTGAA
888281 ATGAAAATCGCAA--CGAG
1 ATGAAAATCGCAACGCGAG
888298 A-G--AATCGCAACGCGAG
1 ATGAAAATCGCAACGCGAG
*
888314 ATGACAATCGCAA--C--G
1 ATGAAAATCGCAACGCGAG
* *
888329 AT-AGAATCGCAACGCGAA
1 ATGAAAATCGCAACGCGAG
888347 ATGAAAATCGCAA--CGAG
1 ATGAAAATCGCAACGCGAG
*
888364 A-G--AATCGCAACGCGAA
1 ATGAAAATCGCAACGCGAG
*
888380 ATGAAAATCGCAATGCGA
1 ATGAAAATCGCAACGCGA
888398 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 6, Indels: 28
0.70 0.05 0.25
Matches are distributed among these distances:
14 25 0.32
15 3 0.04
16 12 0.15
17 8 0.10
18 2 0.03
19 29 0.37
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (19 bp):
ATGAAAATCGCAACGCGAG
Found at i:888428 original size:14 final size:14
Alignment explanation
Indices: 888409--888465 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
888399 TTTGGTTTCG
888409 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
888423 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
888442 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
888456 CATTGCGATT
1 CGTTGCGATT
888466 TTCAATTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:888441 original size:33 final size:33
Alignment explanation
Indices: 888393--888484 Score: 130
Period size: 33 Copynumber: 2.7 Consensus size: 33
888383 AAAATCGCAA
** *
888393 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
888426 TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
*
888459 TGCGATTTTCAATTCTCTCGTTGCGA
1 TGCGATTTTC-ATT-TCGCGTTGCGA
888485 CAGTCATTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 40 0.75
34 3 0.06
35 10 0.19
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
Found at i:888473 original size:21 final size:21
Alignment explanation
Indices: 888449--888525 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
888439 TCGCGTTGCG
*
888449 ATTCTCTCATTGCGATTTTCA
1 ATTCTCTCGTTGCGATTTTCA
***
888470 ATTCTCTCGTTGCGACAGTC-
1 ATTCTCTCGTTGCGATTTTCA
*
888490 ATTCTCTGGTTGCGATTTTCA
1 ATTCTCTCGTTGCGATTTTCA
* *
888511 TTTATCTCGTTGCGA
1 ATTCTCTCGTTGCGA
888526 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (21 bp):
ATTCTCTCGTTGCGATTTTCA
Found at i:888506 original size:41 final size:41
Alignment explanation
Indices: 888449--888526 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
888439 TCGCGTTGCG
*
888449 ATTCTCTCATTGCGATTTTCAATTCTCTCGTTGCGACAGTC
1 ATTCTCTCATTGCGATTTTCAATTATCTCGTTGCGACAGTC
** *
888490 ATTCTCTGGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCATTGCGATTTTCAATTATCTCGTTGCGAC
888527 TCTTCTGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (41 bp):
ATTCTCTCATTGCGATTTTCAATTATCTCGTTGCGACAGTC
Found at i:888652 original size:33 final size:33
Alignment explanation
Indices: 888605--888675 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
888595 AATACTAACT
* *
888605 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
888638 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
888671 TGAAA
1 TGAAA
888676 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Done.