Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 95 of 100
Found at i:18810600 original size:17 final size:17
Alignment explanation
Indices: 18810580--18810657 Score: 66
Period size: 17 Copynumber: 4.5 Consensus size: 17
18810570 AAAGATTTTC
*
18810580 AAAATTTTCATATTCGTA
1 AAAATTTT-AGATTCGTA
18810598 AAAATTTTAGATTCGTA
1 AAAATTTTAGATTCGTA
* * *
18810615 AGAATTTTTAGATTTGCA
1 A-AAATTTTAGATTCGTA
* * * *
18810633 AGAATTTCAGGTTCTTA
1 AAAATTTTAGATTCGTA
18810650 AAAATTTT
1 AAAATTTT
18810658 CATATTCATA
Statistics
Matches: 46, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
17 24 0.52
18 22 0.48
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.44
Consensus pattern (17 bp):
AAAATTTTAGATTCGTA
Found at i:18810603 original size:18 final size:18
Alignment explanation
Indices: 18810580--18810664 Score: 75
Period size: 18 Copynumber: 4.8 Consensus size: 18
18810570 AAAGATTTTC
*
18810580 AAAATTTTCATATTCGTA
1 AAAATTTTCAGATTCGTA
18810598 AAAATTTT-AGATTCGTA
1 AAAATTTTCAGATTCGTA
* * * *
18810615 AGAATTTTTAGATTTGCA
1 AAAATTTTCAGATTCGTA
* * *
18810633 AGAA-TTTCAGGTTCTTA
1 AAAATTTTCAGATTCGTA
*
18810650 AAAATTTTCATATTC
1 AAAATTTTCAGATTC
18810665 ATAGGATTTC
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
17 26 0.49
18 27 0.51
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (18 bp):
AAAATTTTCAGATTCGTA
Found at i:18810615 original size:52 final size:53
Alignment explanation
Indices: 18810534--18810703 Score: 150
Period size: 52 Copynumber: 3.2 Consensus size: 53
18810524 TTCGCAATAA
* * * *
18810534 TTCAGATTTGTAAGAATTTTAGGTGCGTAAGAATTCAAAGATTTTCAA-AATT
1 TTCAGATTCGTAAAAATTTTAGATTCGTAAGAATTCAAAGATTTTCAAGAATT
* *** *
18810586 TTCATATTCGTAAAAATTTTAGATTCGTAAGAATTTTTAGATTTGCAAGAA-T
1 TTCAGATTCGTAAAAATTTTAGATTCGTAAGAATTCAAAGATTTTCAAGAATT
* * * * * *
18810638 TTCAGGTTCTTAAAAATTTTCATATTCATAGGATTTCAAAGATTTGT-AAGAATT
1 TTCAGATTCGTAAAAATTTT-AGATTCGTAAGAATTCAAAGATTT-TCAAGAATT
*
18810692 TTCAAATT-GTAA
1 TTCAGATTCGTAA
18810704 TTCACATAAA
Statistics
Matches: 91, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
52 57 0.63
53 27 0.30
54 7 0.08
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.41
Consensus pattern (53 bp):
TTCAGATTCGTAAAAATTTTAGATTCGTAAGAATTCAAAGATTTTCAAGAATT
Found at i:18810621 original size:35 final size:35
Alignment explanation
Indices: 18810580--18810664 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 35
18810570 AAAGATTTTC
* *
18810580 AAAATTTTCATATTCGTAAAAATTTTAGATTCGTA
1 AAAATTTTCATATTCGCAAAAATTTCAGATTCGTA
* * * * * * *
18810615 AGAATTTTTAGATTTGCAAGAATTTCAGGTTCTTA
1 AAAATTTTCATATTCGCAAAAATTTCAGATTCGTA
18810650 AAAATTTTCATATTC
1 AAAATTTTCATATTC
18810665 ATAGGATTTC
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (35 bp):
AAAATTTTCATATTCGCAAAAATTTCAGATTCGTA
Found at i:18810857 original size:23 final size:22
Alignment explanation
Indices: 18810831--18810929 Score: 80
Period size: 23 Copynumber: 4.5 Consensus size: 22
18810821 ATAGTTAGAA
18810831 TTCAAAGATTCTCATTCAAAAAT
1 TTCAAAGATT-TCATTCAAAAAT
* * *
18810854 TTCAGAGATTTATATTC-AAAAG
1 TTCAAAGATTT-CATTCAAAAAT
*
18810876 TT-AAAGATTTTCATTTGAAAAAT
1 TTCAAAGA-TTTCA-TTCAAAAAT
*
18810899 TT-AAAGA-TTCATATCTAAAAT
1 TTCAAAGATTTCAT-TCAAAAAT
18810920 TTCAAAGATT
1 TTCAAAGATT
18810930 CATATTCGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
20 1 0.02
21 17 0.28
22 17 0.28
23 25 0.42
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.38
Consensus pattern (22 bp):
TTCAAAGATTTCATTCAAAAAT
Found at i:18810874 original size:22 final size:22
Alignment explanation
Indices: 18810829--18810982 Score: 109
Period size: 22 Copynumber: 6.9 Consensus size: 22
18810819 TCATAGTTAG
*
18810829 AATTCAAAGATTC-TCATTCAAA
1 AATTTAAAGATTCAT-ATTCAAA
* *
18810851 AATTTCAGAGATTTATATTC-AA
1 AATTT-AAAGATTCATATTCAAA
* *
18810873 AAGTTAAAGATTTTCAT-TTGAAA
1 AATTTAAAGA--TTCATATTCAAA
*
18810896 AATTTAAAGATTCATA-TCTAA
1 AATTTAAAGATTCATATTCAAA
18810917 AATTTCAAAGATTCATATTCGAAA
1 AATTT-AAAGATTCATATTC-AAA
* * * *
18810941 ATTTTTAGAGATTCATATTTAGA
1 A-ATTTAAAGATTCATATTCAAA
* *
18810964 ATTTTAAAGATTCACATTC
1 AATTTAAAGATTCATATTC
18810983 GGTAAATTTA
Statistics
Matches: 104, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
21 17 0.16
22 38 0.37
23 30 0.29
24 16 0.15
25 3 0.03
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (22 bp):
AATTTAAAGATTCATATTCAAA
Found at i:18810967 original size:46 final size:45
Alignment explanation
Indices: 18810818--18810983 Score: 144
Period size: 44 Copynumber: 3.7 Consensus size: 45
18810808 GATTTCAATG
* * * *
18810818 TTCATAGTTAGAA-TTCAAAGATTC-TCATTCAAAAATTTCAGAGA
1 TTCATATTTAAAATTTCAAAGATTCAT-ATTCGAAAATTTTAGAGA
* * * * *
18810862 TTTATATTCAAAAGTT-AAAGATTTTCAT-TT-GAAAAATTTAAAGA
1 TTCATATTTAAAATTTCAAAGA--TTCATATTCGAAAATTTTAGAGA
*
18810906 TTCATATCTAAAATTTCAAAGATTCATATTCGAAAATTTTTAGAGA
1 TTCATATTTAAAATTTCAAAGATTCATATTCGAAAA-TTTTAGAGA
* * *
18810952 TTCATATTTAGAATTTTAAAGATTCACATTCG
1 TTCATATTTAAAATTTCAAAGATTCATATTCG
18810984 GTAAATTTAG
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 5 0.05
44 38 0.40
45 14 0.15
46 38 0.40
47 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (45 bp):
TTCATATTTAAAATTTCAAAGATTCATATTCGAAAATTTTAGAGA
Found at i:18811056 original size:46 final size:44
Alignment explanation
Indices: 18810842--18811153 Score: 182
Period size: 46 Copynumber: 6.9 Consensus size: 44
18810832 TCAAAGATTC
* * *
18810842 TCATTC-AAAAATTTCAGAGATTT-ATATTCAAAA-GTTAAAGATTT
1 TCATTCGAAAAATTT-AGAG-TTTCACATCCAAAATTTTAAAG-TTT
* * * * * * *
18810886 TCATTTGAAAAATTTAAAGATTCATATCTAAAATTTCAAAG-AT
1 TCATTCGAAAAATTTAGAGTTTCACATCCAAAATTTTAAAGTTT
* * * ** * *
18810929 TCATATTCGAAAATTTTTAGAGATTCATATTTAGAATTTTAAAGATTC
1 TC--ATTCGAAAA-ATTTAGAGTTTCACATCCAAAATTTTAAAG-TTT
* ** * * *
18810977 ACATTCGGTAAATTTAGGGTTTCGCATCTAAAATTTTAAAGCTTT
1 TCATTCGAAAAATTTAGAGTTTCACATCCAAAATTTTAAAG-TTT
* * *
18811022 TCATTCGAAAAGCTTTAGAGTTTCACATCCAAAATTTTAAAAATTC
1 TCATTCGAAAA-ATTTAGAGTTTCACATCCAAAATTTT-AAAGTTT
* * * *
18811068 TCATTCAAAAAATTCTAAAGTTTTACATCCAAAATTTCAAAGTTT
1 TCATTCGAAAAATT-TAGAGTTTCACATCCAAAATTTTAAAGTTT
* * * *
18811113 CTCATTTGAAAATTTTAGGGTTTTACATCCAAAATTTTAAA
1 -TCATTCGAAAAATTTAGAGTTTCACATCCAAAATTTTAAA
18811154 TATTAAAATT
Statistics
Matches: 206, Mismatches: 50, Indels: 23
0.74 0.18 0.08
Matches are distributed among these distances:
43 5 0.02
44 16 0.08
45 84 0.41
46 97 0.47
47 3 0.01
48 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (44 bp):
TCATTCGAAAAATTTAGAGTTTCACATCCAAAATTTTAAAGTTT
Found at i:18811060 original size:22 final size:22
Alignment explanation
Indices: 18810995--18811153 Score: 86
Period size: 22 Copynumber: 7.0 Consensus size: 22
18810985 TAAATTTAGG
* *
18810995 GTTTCGCATCTAAAATTTTAAA
1 GTTTCACATCCAAAATTTTAAA
* * * *
18811017 GCTTTTCA-TTCGAAAAGCTTTAGA
1 G--TTTCACATCCAAAA-TTTTAAA
18811041 GTTTCACATCCAAAATTTTAAA
1 GTTTCACATCCAAAATTTTAAA
** * * *
18811063 AATTCTCATTCAAAAAATTCTAAA
1 GTTTCACA-TC-CAAAATTTTAAA
* *
18811087 GTTTTACATCCAAAATTTCAAA
1 GTTTCACATCCAAAATTTTAAA
* ** **
18811109 GTTTCTCATTTGAAAATTTTAGG
1 GTTTCACA-TCCAAAATTTTAAA
*
18811132 GTTTTACATCCAAAATTTTAAA
1 GTTTCACATCCAAAATTTTAAA
18811154 TATTAAAATT
Statistics
Matches: 96, Mismatches: 34, Indels: 14
0.67 0.24 0.10
Matches are distributed among these distances:
22 41 0.43
23 31 0.32
24 24 0.25
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (22 bp):
GTTTCACATCCAAAATTTTAAA
Found at i:18811081 original size:91 final size:91
Alignment explanation
Indices: 18810893--18811153 Score: 233
Period size: 91 Copynumber: 2.9 Consensus size: 91
18810883 TTTTCATTTG
* * * * * *
18810893 AAAAATT-TAAAGATTCATATCTAAAATTTCAAAGATTCAT-ATTCGAAAATTTTTAGAGATTCA
1 AAAAATTCTAAAGTTTCACATCCAAAATTTCAAAGTTTC-TCATTCGAAAA-CTTTAGAGTTTCA
* ** * * *
18810956 TATTTAGAATTTTAAAGATTCACATTCG
64 CATCCAAAATTTTAAAAATTCACATTCA
** ** * * *
18810984 GTAAATT-TAGGGTTTCGCATCTAAAATTTTAAAGCTTT-TCATTCGAAAAGCTTTAGAGTTTCA
1 AAAAATTCTAAAGTTTCACATCCAAAATTTCAAAG-TTTCTCATTCGAAAA-CTTTAGAGTTTCA
*
18811047 CATCCAAAATTTTAAAAATTCTCATTCA
64 CATCCAAAATTTTAAAAATTCACATTCA
* * * * *
18811075 AAAAATTCTAAAGTTTTACATCCAAAATTTCAAAGTTTCTCATTTGAAAATTTTAGGGTTTTACA
1 AAAAATTCTAAAGTTTCACATCCAAAATTTCAAAGTTTCTCATTCGAAAACTTTAGAGTTTCACA
18811140 TCCAAAATTTTAAA
66 TCCAAAATTTTAAA
18811154 TATTAAAATT
Statistics
Matches: 135, Mismatches: 31, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
90 1 0.01
91 101 0.75
92 33 0.24
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (91 bp):
AAAAATTCTAAAGTTTCACATCCAAAATTTCAAAGTTTCTCATTCGAAAACTTTAGAGTTTCACA
TCCAAAATTTTAAAAATTCACATTCA
Found at i:18811170 original size:45 final size:45
Alignment explanation
Indices: 18811087--18811172 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
18811077 AAATTCTAAA
*** *
18811087 GTTTTACATCCAAAATTTCAAAGTTTCTCATTTGAAAATTTTAGG
1 GTTTTACATCCAAAATTTCAAAGTTTAAAATTTCAAAATTTTAGG
*
18811132 GTTTTACATCCAAAATTTTAAA-TATTAAAATTTCAAAATTT
1 GTTTTACATCCAAAATTTCAAAGT-TTAAAATTTCAAAATTT
18811173 CTAATTCAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.03
45 34 0.97
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (45 bp):
GTTTTACATCCAAAATTTCAAAGTTTAAAATTTCAAAATTTTAGG
Found at i:18818386 original size:18 final size:17
Alignment explanation
Indices: 18818354--18818387 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18818344 TCAGATATCG
*
18818354 TATTTTTTTTTAAATTA
1 TATTTTTTTTGAAATTA
18818371 TATTTTTTCTTGAAATT
1 TATTTTTT-TTGAAATT
18818388 TACGATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TATTTTTTTTGAAATTA
Found at i:18819486 original size:24 final size:24
Alignment explanation
Indices: 18819459--18819507 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
18819449 AAACTCGATC
*
18819459 GATTATACTCTTAATTGAGGTGAA
1 GATTACACTCTTAATTGAGGTGAA
*
18819483 GATTACATTCTTAATTGAGGTGAA
1 GATTACACTCTTAATTGAGGTGAA
18819507 G
1 G
18819508 TCATTTCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (24 bp):
GATTACACTCTTAATTGAGGTGAA
Found at i:18820934 original size:230 final size:230
Alignment explanation
Indices: 18820530--18820990 Score: 843
Period size: 230 Copynumber: 2.0 Consensus size: 230
18820520 CCTTCCAGAT
18820530 TAGACATTCAAGGGCTGGGGTTGTTCTGCTTTGTTTGTCAGAGAACCATAATGATGAAGTTGATC
1 TAGACATTCAAGGGCTGGGGTTGTTCTGCTTTGTTTGTCAGAGAACCATAATGATGAAGTTGATC
*
18820595 TATAATCTAATTATAGGGATGTTGAGTTCTTAGTCGCCATAGGGCGTGGCCCCTGCCCTCAGCTG
66 TATAATCTAATTATAGGGATGTTGAGTTCTTAGTCACCATAGGGCGTGGCCCCTGCCCTCAGCTG
*
18820660 GAAAATAACAACATTGTTTTTGGGCCTGTGAAATGATTTATGAAAAGAATTTCCTTTGGGCATTT
131 GAAAATAACAACATTGTTTTTGGGCCTGTGAAATGAATTATGAAAAGAATTTCCTTT-GGCATTT
18820725 GGACTTTTGACTTTGAGCTATTCCATTTTAAATGGG
195 GGACTTTTGACTTTGAGCTATTCCATTTTAAATGGG
*
18820761 TAGACATTCAAGGGCTGGGGTTGTTTTGCTTTGTTTGTCAGAGAACCATAATGAT-AAGTTGATC
1 TAGACATTCAAGGGCTGGGGTTGTTCTGCTTTGTTTGTCAGAGAACCATAATGATGAAGTTGATC
* *
18820825 TATAATCTAATTATAGGGATGTTGATTTCTTAGTCACTATAGGGCGTGGCCCCTGCCCTCAGCTG
66 TATAATCTAATTATAGGGATGTTGAGTTCTTAGTCACCATAGGGCGTGGCCCCTGCCCTCAGCTG
*
18820890 GAAAATAACAACATTGTTTTTGGGCCTGTGAGATGAATTATGAAAAGAATTTCCTTTGGCATTTG
131 GAAAATAACAACATTGTTTTTGGGCCTGTGAAATGAATTATGAAAAGAATTTCCTTTGGCATTTG
*
18820955 GACTTTTGAGTTTGAGCTATTCCATTTTAAATGGG
196 GACTTTTGACTTTGAGCTATTCCATTTTAAATGGG
18820990 T
1 T
18820991 TTTTTATGTT
Statistics
Matches: 223, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
229 43 0.19
230 126 0.57
231 54 0.24
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (230 bp):
TAGACATTCAAGGGCTGGGGTTGTTCTGCTTTGTTTGTCAGAGAACCATAATGATGAAGTTGATC
TATAATCTAATTATAGGGATGTTGAGTTCTTAGTCACCATAGGGCGTGGCCCCTGCCCTCAGCTG
GAAAATAACAACATTGTTTTTGGGCCTGTGAAATGAATTATGAAAAGAATTTCCTTTGGCATTTG
GACTTTTGACTTTGAGCTATTCCATTTTAAATGGG
Found at i:18823044 original size:6 final size:6
Alignment explanation
Indices: 18823007--18823042 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
18822997 CCGCTTAAAA
*
18823007 CCTAGC CCTAGC CCTAGC CCTAGC CCTAGC TCTAGC
1 CCTAGC CCTAGC CCTAGC CCTAGC CCTAGC CCTAGC
18823043 TCACCACTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.47, G:0.17, T:0.19
Consensus pattern (6 bp):
CCTAGC
Found at i:18823596 original size:2 final size:2
Alignment explanation
Indices: 18823585--18823629 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
18823575 TCTCTCTCTC
* *
18823585 TA TA TG TA TA TA TA TG 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
18823627 TA T
1 TA T
18823630 TACCACTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18826352 original size:102 final size:101
Alignment explanation
Indices: 18826125--18826315 Score: 285
Period size: 102 Copynumber: 1.9 Consensus size: 101
18826115 AAACGCTACT
* * * * *
18826125 AAATTTAATATTTAGCGGTATTTTTGAACACAAATGTAGTGGTGTTTTATGATACAAAACGCTAC
1 AAATTCAATATTTGGCGGTATTTTTGAACACAAACGTAGTGGCGTTTTATGATACAAAACACTAC
* **
18826190 TAAAACGTTTTTGAACACAAACGTCACAAGCGCTACT
66 TAAAACGTTTTTGAACACAAACGTCACAA-CACTAAG
*
18826227 AAATTCAATATTTGGCGGTATTTTTGAACACAAACGTAGTGGCGTTTTATGATA-TAAACACTAC
1 AAATTCAATATTTGGCGGTATTTTTGAACACAAACGTAGTGGCGTTTTATGATACAAAACACTAC
18826291 TAAAACGTTTTTGAACACAAACGTC
66 TAAAACGTTTTTGAACACAAACGTC
18826316 TCTAAATTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 33 0.40
102 50 0.60
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (101 bp):
AAATTCAATATTTGGCGGTATTTTTGAACACAAACGTAGTGGCGTTTTATGATACAAAACACTAC
TAAAACGTTTTTGAACACAAACGTCACAACACTAAG
Found at i:18827681 original size:169 final size:159
Alignment explanation
Indices: 18827435--18828386 Score: 692
Period size: 161 Copynumber: 5.9 Consensus size: 159
18827425 TTTGAATAAT
* * * * * * *
18827435 TTTAATATCATGTATTTAATCTATCTAAATTGTTAAAATAGAA-ACATAACCATAAAATTACATT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATA-ATAACAACAAATTTATATT
* * *
18827499 TTTACCCTTTAACAGCACAAAAGTCTTAAACAAACG-AAACATTAACAGCATTTTGCCCTTTCAC
65 TTTACCTTTTAACAGCA-AAAAGTCCTAAACAAACGTAAACAAT-A-A-C---TT----TTTCAC
* ** *
18827563 ACATATCAA-TCATGAAAATCAAATTTAATCATTTGGACAAG
119 ACATATCAACT-ATGAAAACCAAATTTAATCATTTAAAAAAG
18827604 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAACAACAAATTTATATTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAACAACAAATTTATATTT
* * * * * *
18827669 TTACCTTTTAACAG-AAAAAGTCCTAAATAGAGGTAAACAATAACTTTTTCATATATATCAACTG
66 TTACCTTTTAACAGCAAAAAGTCCTAAACAAACGTAAACAATAACTTTTTCACACATATCAACTA
*
18827733 TGAAAACCAAGTTTAATCATTTAAAAAAG
131 TGAAAACCAAATTTAATCATTTAAAAAAG
* * * * *
18827762 TTTAATATTATGTATTGAAGCTATCTAAACTATTAAAATAGAATAATAATAGCAAATTTGTATTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAACAACAAATTTATATTT
* * * * * * *
18827827 TTACCTTTTAACCGCATAAAAAATCCTAAATAGAGGTAAACAA-AA--TTTTCACATATATCAAT
66 TTACCTTTTAACAGC--AAAAAGTCCTAAACAAACGTAAACAATAACTTTTTCACACATATCAAC
* * * * *
18827889 TGTGGAAACCAAGTTCAATCA-TTCAAAAAG
129 TATGAAAACCAAATTTAATCATTTAAAAAAG
* * * * * *
18827919 TTTAGTATCATGTATTAAAGCCATCCAAACTGTTAAAATAGAATAATAATAACAAATTTGTATTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAACAACAAATTTATATTT
* ** * * * * * ** *
18827984 TTATCTTTTAACGATAAAAATAATCTTAAATAGACGTAAACGATAACTTTTTTGCATATATCAA-
66 TTACCTTTTAAC-AGCAAAA-AGTCCTAAACAAACGTAAACAATAACTTTTTCACACATATCAAC
* * **** *
18828048 T-TGTAGAAACCAAGTTCAATCATCCGGACAAG
129 TATG-A-AAACCAAATTTAATCATTTAAAAAAG
* * * * * * * *
18828080 TTTATTATTATGTATTGAAGCTATCTAAATTGTTAAAATAGAATGATAATAGCAAAATTGTATTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAACAACAAATTTATATTT
* * * ** * * * * *
18828145 TTTCCTTTTAACGGTATAAAAAGTCCTAAACAAATATAAACATTAGCTTTTTCACATAAATCAAT
66 TTACCTTTTAACAG--CAAAAAGTCCTAAACAAACGTAAACAATAACTTTTTCACACATATCAAC
* * * *
18828210 TGTGGAAACCAAGTTTAATTA-TTATAAAAAG
129 TATGAAAACCAAATTTAATCATTTA-AAAAAG
* * * * * *
18828241 TTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAATAGAATAATAATAGCAAATTTGTAATT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAACAACAAATTTATATTT
* ** * *
18828306 TTGCCTTTTAAC-GACAAAAATAGTTTTAAATAGACGTAAA-AATAAC-TTTTCACACATATCAA
66 TTACCTTTTAACAG-C-AAAA-AGTCCTAAACAAACGTAAACAATAACTTTTTCACACATATCAA
* *
18828368 CCAT-AGAAACCAAGTTTAA
128 CTATGA-AAACCAAATTTAA
18828387 ACAACTGAGT
Statistics
Matches: 648, Mismatches: 113, Indels: 54
0.80 0.14 0.07
Matches are distributed among these distances:
156 4 0.01
157 96 0.15
158 148 0.23
159 31 0.05
160 41 0.06
161 225 0.35
162 7 0.01
163 2 0.00
165 1 0.00
166 1 0.00
167 15 0.02
168 7 0.01
169 69 0.11
170 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (159 bp):
TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAACAACAAATTTATATTT
TTACCTTTTAACAGCAAAAAGTCCTAAACAAACGTAAACAATAACTTTTTCACACATATCAACTA
TGAAAACCAAATTTAATCATTTAAAAAAG
Found at i:18828095 original size:318 final size:320
Alignment explanation
Indices: 18827601--18828368 Score: 1030
Period size: 318 Copynumber: 2.4 Consensus size: 320
18827591 TCATTTGGAC
* * * *
18827601 AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAACAACAAATTTATA
1 AAGTTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAATAGAATAATAATAACAAATTTGTA
* * * *
18827666 TTTTTACCTTTTAAC-AGAAAA-AGTCCTAAATAGAGGTAAACAATAACTTTTTCATATATATCA
66 TTTTTACCTTTTAACGAAAAAATAGTCTTAAATAGACGTAAACAATAACTTTTTCACATATATCA
* **
18827729 ACTGTGAAAACCAAGTTTAATCATTTAAAAAAGTTTAATATTATGTATTGAAGCTATCTAAACTA
131 ACTGTGAAAACCAAGTTCAATCATCCAAAAAAGTTTAATATTATGTATTGAAGCTATCTAAACTA
* *
18827794 TTAAAATAGAATAATAATAGCAAATTTGTATTTTTACCTTTTAACCGCATAAAAAATCCTAAATA
196 TTAAAATAGAATAATAATAGCAAAATTGTATTTTTACCTTTTAACCGCATAAAAAATCCTAAACA
* * *
18827859 GAGGTAAACA-A-AATTTTCACATATATCAATTGTGGAAACCAAGTTCAATCATT-CAAA
261 AAGATAAACATAGAATTTTCACATAAATCAATTGTGGAAACCAAGTTCAATCATTACAAA
* *
18827916 AAGTTTAGTATCATGTATTAAAGCCATCCAAACTGTTAAAATAGAATAATAATAACAAATTTGTA
1 AAGTTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAATAGAATAATAATAACAAATTTGTA
* * * **
18827981 TTTTTATCTTTTAACGATAAAAATAATCTTAAATAGACGTAAACGATAACTTTTTTGCATATATC
66 TTTTTACCTTTTAACGA-AAAAATAGTCTTAAATAGACGTAAACAATAACTTTTTCACATATATC
* ** * * *
18828046 AATTGT-AGAAACCAAGTTCAATCATCCGGACAAGTTTATTATTATGTATTGAAGCTATCTAAAT
130 AACTGTGA-AAACCAAGTTCAATCATCCAAAAAAGTTTAATATTATGTATTGAAGCTATCTAAAC
* * * * * *
18828110 TGTTAAAATAGAATGATAATAGCAAAATTGTATTTTTTCCTTTTAACGGTATAAAAAGTCCTAAA
194 TATTAAAATAGAATAATAATAGCAAAATTGTATTTTTACCTTTTAACCGCATAAAAAATCCTAAA
* ** * * *
18828175 CAAATATAAACATTAGCTTTTTCACATAAATCAATTGTGGAAACCAAGTTTAATTATTATAAA
259 CAAAGATAAACA-TAGAATTTTCACATAAATCAATTGTGGAAACCAAGTTCAATCATTACAAA
*
18828238 AAGTTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAATAGAATAATAATAGCAAATTTGTA
1 AAGTTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAATAGAATAATAATAACAAATTTGTA
* * * *
18828303 ATTTTGCCTTTTAACGACAAAAATAGTTTTAAATAGACGTAAA-AATAAC-TTTTCACACATATC
66 TTTTTACCTTTTAACGA-AAAAATAGTCTTAAATAGACGTAAACAATAACTTTTTCACATATATC
18828366 AAC
130 AAC
18828369 CATAGAAACC
Statistics
Matches: 390, Mismatches: 55, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
315 73 0.19
316 1 0.00
317 5 0.01
318 153 0.39
320 14 0.04
321 42 0.11
322 102 0.26
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (320 bp):
AAGTTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAATAGAATAATAATAACAAATTTGTA
TTTTTACCTTTTAACGAAAAAATAGTCTTAAATAGACGTAAACAATAACTTTTTCACATATATCA
ACTGTGAAAACCAAGTTCAATCATCCAAAAAAGTTTAATATTATGTATTGAAGCTATCTAAACTA
TTAAAATAGAATAATAATAGCAAAATTGTATTTTTACCTTTTAACCGCATAAAAAATCCTAAACA
AAGATAAACATAGAATTTTCACATAAATCAATTGTGGAAACCAAGTTCAATCATTACAAA
Found at i:18828143 original size:161 final size:159
Alignment explanation
Indices: 18827601--18828367 Score: 918
Period size: 161 Copynumber: 4.8 Consensus size: 159
18827591 TCATTTGGAC
* * *
18827601 AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAACAACAAATTTATA
1 AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAATAGCAAATTTGTA
* * *
18827666 TTTTTACCTTTTAAC-A-GAAAAAGTCCTAAATAGAGGTAAACAATAACTTTTTCATATATATCA
66 TTTTTACCTTTTAACGATAAAAAAGTCCTAAATAGACGTAAAC-ATAACTTTTTCACATATATCA
* * * **
18827729 ACTGTGAAAACCAAGTTTAATCATTTAAAA
130 ATTGTGGAAACCAAGTTCAATCATTCGAAA
* *
18827759 AAGTTTAATATTATGTATTGAAGCTATCTAAACTATTAAAATAGAATAATAATAGCAAATTTGTA
1 AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAATAGCAAATTTGTA
* *
18827824 TTTTTACCTTTTAACCGCATAAAAAA-TCCTAAATAGAGGTAAACA-AA-ATTTTCACATATATC
66 TTTTTACCTTTTAA-CG-ATAAAAAAGTCCTAAATAGACGTAAACATAACTTTTTCACATATATC
18827886 AATTGTGGAAACCAAGTTCAATCATTC-AAA
129 AATTGTGGAAACCAAGTTCAATCATTCGAAA
* * * * *
18827916 AAGTTTAGTATCATGTATTAAAGCCATCCAAACTGTTAAAATAGAATAATAATAACAAATTTGTA
1 AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAATAGCAAATTTGTA
* * * **
18827981 TTTTTATCTTTTAACGATAAAAATAATCTTAAATAGACGTAAACGATAACTTTTTTGCATATATC
66 TTTTTACCTTTTAACGATAAAAA-AGTCCTAAATAGACGTAAAC-ATAACTTTTTCACATATATC
* * * *
18828046 AATTGTAGAAACCAAGTTCAATCATCCGGAC
129 AATTGTGGAAACCAAGTTCAATCATTCGAAA
* * * * *
18828077 AAGTTTATTATTATGTATTGAAGCTATCTAAATTGTTAAAATAGAATGATAATAGCAAAATTGTA
1 AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAATAGCAAATTTGTA
* * * * ** * *
18828142 TTTTTTCCTTTTAACGGTATAAAAAGTCCTAAACAAATATAAACATTAGCTTTTTCACATAAATC
66 TTTTTACCTTTTAACGATA-AAAAAGTCCTAAATAGACGTAAACA-TAACTTTTTCACATATATC
* * **
18828207 AATTGTGGAAACCAAGTTTAATTATTATAAA
129 AATTGTGGAAACCAAGTTCAATCATTCGAAA
* *
18828238 AAGTTTAATATCATGTATTGAAGCCATCCAAACTGTTAAAATAGAATAATAATAGCAAATTTGTA
1 AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAATAGCAAATTTGTA
* * * ** * *
18828303 ATTTTGCCTTTTAACGACAAAAATAGTTTTAAATAGACGTAAAAATAAC-TTTTCACACATATCA
66 TTTTTACCTTTTAACGATAAAAA-AGTCCTAAATAGACGTAAACATAACTTTTTCACATATATCA
18828367 A
130 A
18828368 CCATAGAAAC
Statistics
Matches: 516, Mismatches: 80, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
155 7 0.01
156 3 0.01
157 90 0.17
158 111 0.22
159 19 0.04
160 46 0.09
161 231 0.45
162 9 0.02
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (159 bp):
AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAATAATAATAGCAAATTTGTA
TTTTTACCTTTTAACGATAAAAAAGTCCTAAATAGACGTAAACATAACTTTTTCACATATATCAA
TTGTGGAAACCAAGTTCAATCATTCGAAA
Found at i:18830020 original size:63 final size:63
Alignment explanation
Indices: 18829953--18830075 Score: 160
Period size: 63 Copynumber: 2.0 Consensus size: 63
18829943 ATTAGCTCTA
* *
18829953 ATTTTTATGATGGTATTATTCCAAGGAATTTTTGGCC-AAAAATG-CCTTGAATAATCCCTTCCC
1 ATTTTTATGA-GGGATTATT-CAAGGAATTTTTGGCCAAAAAAAGTCCTTGAATAATCCCTTCCC
* * * *
18830016 ATTTTTTTGAGGGATTATTGAAGGCATTTTTGGCCAAAAAAAGTCCTTGAATAATTCCTT
1 ATTTTTATGAGGGATTATTCAAGGAATTTTTGGCCAAAAAAAGTCCTTGAATAATCCCTT
18830076 ATAAAAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 14 0.27
62 14 0.27
63 24 0.46
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (63 bp):
ATTTTTATGAGGGATTATTCAAGGAATTTTTGGCCAAAAAAAGTCCTTGAATAATCCCTTCCC
Found at i:18830206 original size:188 final size:188
Alignment explanation
Indices: 18829990--18830450 Score: 504
Period size: 188 Copynumber: 2.5 Consensus size: 188
18829980 ATTTTTGGCC
* * * * *
18829990 AAAAATGCCTTGAATAATCCCTTCCCATTTTTTTGAGGGATTATTGAAGGCATTTTTGGCCAAAA
1 AAAAACGCCTTCAATAATCCCCTCCCATTTTTTTGAGGGATTATTCAAGGCATTTTTGGCTAAAA
*
18830055 AAAGTCCTTGAATAATTCCTTATAAAAAAATT-AAATGGGATTATTCAAGGCATTTCTAGGCAAA
66 AAAGTCCTTGAATAATCCCTTA-AAAAAAATTGAAATGGG-TTATTCAAGGCATTT-TAGGCAAA
* * * **
18830119 AATAC-CTCGAATAAAT-TTTTTTAATTTTTATGAAAGGATTATTCAAGGCGTTTTCTG-CC
128 AAAACACTCGAAT-AATCTTTTTCAATTTTTATCAAAGGATTATTCAAGGCGTTTTCTGTAA
* * * * * *
18830178 AAGAACTCCTTCAATAATCCCCTCCCATTTTTTTGAGAGATTATTCAAAGCACTTTTGGCTAGAA
1 AAAAACGCCTTCAATAATCCCCTCCCATTTTTTTGAGGGATTATTCAAGGCATTTTTGGCTAAAA
* * * * * *
18830243 AATG-CCTTAAATAATCCCTTACAAAAAATTGAATTGGGTTATTTAAGGCATTTTTGGCAAAAAA
66 AAAGTCCTTGAATAATCCCTTAAAAAAAATTGAAATGGGTTATTCAAGGCATTTTAGGCAAAAAA
* * * * *
18830307 ACATCTTGAATAATCTTTTTCAATTTTTGTCAGAGGATTATTCAAGGTGTTTTTTGTAA
131 ACA-CTCGAATAATCTTTTTCAATTTTTATCAAAGGATTATTCAAGGCGTTTTCTGTAA
* * * ***
18830366 AAAAACGCATTCAATAATCACCTCTCATTTTTTTTTTGGATTATTCAAGGCATTTTTGGCTAGAA
1 AAAAACGCCTTCAATAATCCCCTCCCATTTTTTTGAGGGATTATTCAAGGCATTTTTGGCTA-AA
*
18830431 AATA-T-CTTGAATAATCCCTT
65 AAAAGTCCTTGAATAATCCCTT
18830451 GGAAAATCTT
Statistics
Matches: 223, Mismatches: 43, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
185 11 0.05
186 25 0.11
187 62 0.28
188 122 0.55
189 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (188 bp):
AAAAACGCCTTCAATAATCCCCTCCCATTTTTTTGAGGGATTATTCAAGGCATTTTTGGCTAAAA
AAAGTCCTTGAATAATCCCTTAAAAAAAATTGAAATGGGTTATTCAAGGCATTTTAGGCAAAAAA
ACACTCGAATAATCTTTTTCAATTTTTATCAAAGGATTATTCAAGGCGTTTTCTGTAA
Found at i:18831939 original size:24 final size:24
Alignment explanation
Indices: 18831875--18831930 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
18831865 TATTTTTTAA
18831875 TTTAATTTTAAGATT-TTAGTATTTTG
1 TTTAA-TTTAAGATTATT--TATTTTG
18831901 TTTAATTTAAGATTATTTATTTTG
1 TTTAATTTAAGATTATTTATTTTG
18831925 -TTAATT
1 TTTAATT
18831931 AATTGATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.21
24 7 0.24
25 9 0.31
26 7 0.24
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (24 bp):
TTTAATTTAAGATTATTTATTTTG
Found at i:18832381 original size:22 final size:22
Alignment explanation
Indices: 18832347--18832399 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
18832337 AAAGTCTTAT
* * *
18832347 AAATCATGTTTGGAGGTCTTGA
1 AAATTATGCTTGGAGGCCTTGA
*
18832369 GAATTATGCTTGGAGGCCTTGA
1 AAATTATGCTTGGAGGCCTTGA
18832391 AAATTATGC
1 AAATTATGC
18832400 CCAAAGGTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.34
Consensus pattern (22 bp):
AAATTATGCTTGGAGGCCTTGA
Found at i:18832416 original size:22 final size:22
Alignment explanation
Indices: 18832391--18832441 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
18832381 GAGGCCTTGA
18832391 AAATTATGCCCAAAGGTCTTAC
1 AAATTATGCCCAAAGGTCTTAC
* * * *
18832413 AAATCATGCCTAGAGGTCTTAT
1 AAATTATGCCCAAAGGTCTTAC
18832435 AAATTAT
1 AAATTAT
18832442 ATCCGGAGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (22 bp):
AAATTATGCCCAAAGGTCTTAC
Found at i:18836101 original size:51 final size:51
Alignment explanation
Indices: 18835985--18836131 Score: 179
Period size: 51 Copynumber: 2.9 Consensus size: 51
18835975 AACCATAATT
** ** *
18835985 GAGAGATTTTTGAAATTTAATTCTAGAATCAATTGGCCTTAAAAATGATGTG
1 GAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATT-AAAATGATGTG
* *
18836037 GAGAGATTGTTGGGATTTAATTCTAGAATTAATTCACATTAAAATGATAG-G
1 GAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAATGAT-GTG
* * *
18836088 GAGAGATTTTTGGGATTTGATTTTAGAATCAATTCTCATTAAAA
1 GAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAA
18836132 CAGAAATCAA
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
51 48 0.59
52 34 0.41
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (51 bp):
GAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAATGATGTG
Found at i:18836445 original size:21 final size:21
Alignment explanation
Indices: 18836419--18836468 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
18836409 TTTGTTGGGT
* * *
18836419 TTTTGAAATTTCTTTGTTAGC
1 TTTTGAAATTTATTCGTTAAC
* *
18836440 TTTTGAGATTTATTCGTTAAT
1 TTTTGAAATTTATTCGTTAAC
18836461 TTTTGAAA
1 TTTTGAAA
18836469 ATCAGTTAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.06, G:0.14, T:0.56
Consensus pattern (21 bp):
TTTTGAAATTTATTCGTTAAC
Found at i:18836767 original size:10 final size:11
Alignment explanation
Indices: 18836747--18836771 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18836737 TTTTAATTGT
18836747 AAAAACAAAAA
1 AAAAACAAAAA
18836758 AAAAACAAAAA
1 AAAAACAAAAA
18836769 AAA
1 AAA
18836772 TCTTTTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:18840877 original size:12 final size:11
Alignment explanation
Indices: 18840860--18840951 Score: 57
Period size: 10 Copynumber: 8.5 Consensus size: 11
18840850 ACGAGGTGTT
18840860 AAAAAAAGTAG-
1 AAAAAAAG-AGA
*
18840871 AAAAAAAG-GC
1 AAAAAAAGAGA
18840881 AAAAAAAGA-A
1 AAAAAAAGAGA
* *
18840891 ACAAAAAGTGA
1 AAAAAAAGAGA
** *
18840902 AAAGAAATTATA
1 AAA-AAAAGAGA
*
18840914 AAAAAAAAAGA
1 AAAAAAAGAGA
*
18840925 AAAAAAGAAAGA
1 AAAAAA-AGAGA
18840937 AAAAAAA-AGA
1 AAAAAAAGAGA
18840947 AAAAA
1 AAAAA
18840952 GGGAGACTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
9 1 0.02
10 23 0.35
11 23 0.35
12 18 0.28
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.05
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:18842258 original size:115 final size:114
Alignment explanation
Indices: 18841665--18842281 Score: 382
Period size: 115 Copynumber: 5.4 Consensus size: 114
18841655 TTATCATCAT
* * * * * * * *
18841665 TCATTCGATCTCGACTTAGTTCAGATTATTTTCTTAACTCATGGTTTTGTCTCAATCATTCATTT
1 TCATTCGATCTTGGCTTAGTCCAAATCATTTTCTTAACTTACGATTTTGTCTCAATCATTCATTT
* * * * * * * ***
18841730 TCAACCTCGACTC-GATCTTGGTTACTTTTAGACTCACGATTTTATCCCGA
66 TTAACCTTGACTCGGTTC-TAGTCACTTTTAGACT-ATGATTTTGTCTTTA
* * * * * * ** ** *
18841780 TTATTCGATCTCGGCTCAGTTCAAATCATTCTCTTGAC-T-CGTAATTTCATCTTGATCATTTAT
1 TCATTCGATCTTGGCTTAGTCCAAATCATTTTCTTAACTTACG--ATTTTGTCTCAATCATTCAT
* * * ** **
18841843 TTTCT-ACCTTGACTC-GATCTTGATCACTTTTAGACTCATGGTTTCATCTCAA
64 TTT-TAACCTTGACTCGGTTCTAG-TCACTTTTAGACT-ATGATTTTGTCTTTA
* * * * * *
18841895 TCATTCGATCTTGGCTTAGTTCAAATCATTTTCTTAACTTGCCATTTCGTTTCGATCATTCATTT
1 TCATTCGATCTTGGCTTAGTCCAAATCATTTTCTTAACTTACGATTTTGTCTCAATCATTCATTT
* ** * * * * * * *
18841960 TCAACCTTGACTCAATCCTGGTCA-TTTTCAGAGTTGTGATTTTATCCTAA
66 TTAACCTTGACTCGGTTCTAGTCACTTTT-AGA-CTATGATTTTGTCTTTA
* * * * * ** * * *
18842010 TCATTTGATCTTGGCTTAATCCAGATCATTCTCCTAACTTGTGATTTTGTCTCAATTATTTAGTT
1 TCATTCGATCTTGGCTTAGTCCAAATCATTTTCTTAACTTACGATTTTGTCTCAATCATTCATTT
* ** * * * *
18842075 TTGACCTCAACTTGGTTCTAGTCACTTTCATACTCATGATTTTGTCTTTG
66 TTAACCTTGACTCGGTTCTAGTCACTTTTAGACT-ATGATTTTGTCTTTA
* * *
18842125 TCATTCAATCTCGGCTTAGTCCAAATCATTTTCTTGACTTACGATTTTGTCTCAATCATTCATTT
1 TCATTCGATCTTGGCTTAGTCCAAATCATTTTCTTAACTTACGATTTTGTCTCAATCATTCATTT
* *
18842190 TTAATCTTGACTCGGTTCTAGTCACTTTTAGACCTATGAGTTTGTCTTTA
66 TTAACCTTGACTCGGTTCTAGTCACTTTTAGA-CTATGATTTTGTCTTTA
** * * *
18842240 TCATTCGATCTTAACTTAGTCCAGATCATTTTTTTGACTTAC
1 TCATTCGATCTTGGCTTAGTCCAAATCATTTTCTTAACTTAC
18842282 AACTTTATCC
Statistics
Matches: 385, Mismatches: 104, Indels: 26
0.75 0.20 0.05
Matches are distributed among these distances:
113 1 0.00
114 7 0.02
115 366 0.95
116 10 0.03
117 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.45
Consensus pattern (114 bp):
TCATTCGATCTTGGCTTAGTCCAAATCATTTTCTTAACTTACGATTTTGTCTCAATCATTCATTT
TTAACCTTGACTCGGTTCTAGTCACTTTTAGACTATGATTTTGTCTTTA
Found at i:18842485 original size:34 final size:34
Alignment explanation
Indices: 18842428--18842573 Score: 120
Period size: 35 Copynumber: 4.2 Consensus size: 34
18842418 TCTTTCGTTC
* *
18842428 TTACGAATCGAAAAATCCTTGTG-AACTTGAAATCT
1 TTACGAATC-TAAAAT-TTTGTGAAACTTGAAATCT
* *
18842463 TTGCGAATCTAAAACTTTTGTGAAACTTGGAATC-
1 TTACGAATCTAAAA-TTTTGTGAAACTTGAAATCT
* * * *
18842497 TTACGAATATCAAAGTTCTTG-CAAACCTGAAATCT
1 TTACGAATCT-AAAATT-TTGTGAAACTTGAAATCT
* *
18842532 TTACGAATCTAGAATCTTTGTGAAACTTAAAATC-
1 TTACGAATCTAAAAT-TTTGTGAAACTTGAAATCT
18842566 TTACGAAT
1 TTACGAAT
18842574 TTGAAGGTCC
Statistics
Matches: 88, Mismatches: 16, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
34 43 0.49
35 45 0.51
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (34 bp):
TTACGAATCTAAAATTTTGTGAAACTTGAAATCT
Found at i:18842614 original size:69 final size:69
Alignment explanation
Indices: 18842443--18842619 Score: 203
Period size: 69 Copynumber: 2.6 Consensus size: 69
18842433 AATCGAAAAA
* **
18842443 TCCTTGTGAACTTGAAATCTTTGCGAATCTA-AAACTTTTGTGAAACTTGGAATCTTACGAATAT
1 TCCTTGCGAACTTGAAATCTTTGCGAATCTAGAAAC-TTTGTGAAACTTAAAATCTTACGAATAT
18842507 CAAAG
65 CAAAG
* * * * * * *
18842512 TTCTTGCAAACCTGAAATCTTTACGAATCTAGAATCTTTGTGAAACTTAAAATCTTACGAATTTG
1 TCCTTGCGAACTTGAAATCTTTGCGAATCTAGAAACTTTGTGAAACTTAAAATCTTACGAATATC
*
18842577 AAGG
66 AAAG
* * * *
18842581 TCCTTGCGAACTTAAAATCTTTGCAAATTTAGAACCTTT
1 TCCTTGCGAACTTGAAATCTTTGCGAATCTAGAAACTTT
18842620 ACAAAATTAG
Statistics
Matches: 88, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
69 85 0.97
70 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (69 bp):
TCCTTGCGAACTTGAAATCTTTGCGAATCTAGAAACTTTGTGAAACTTAAAATCTTACGAATATC
AAAG
Found at i:18842619 original size:17 final size:17
Alignment explanation
Indices: 18842599--18842641 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
18842589 AACTTAAAAT
18842599 CTTTGCAAATTTAGAAC
1 CTTTGCAAATTTAGAAC
* * *
18842616 CTTTACAAAATTAGAAT
1 CTTTGCAAATTTAGAAC
18842633 C-TTGCAAAT
1 CTTTGCAAAT
18842642 CATCCATTCT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (17 bp):
CTTTGCAAATTTAGAAC
Found at i:18843249 original size:51 final size:51
Alignment explanation
Indices: 18843129--18843277 Score: 174
Period size: 51 Copynumber: 2.9 Consensus size: 51
18843119 AATCGTAATT
* **
18843129 GAGAGATTTTTGAAATTTAATTTTAGAATCAATTGGCATTAAAAATGATGTG
1 GAGAGATTTTTGAGATTTAATTTTAGAATCAATTCACATT-AAAATGATGTG
* * * *
18843181 GAGAGATTGTCGAGATTTAATTTTAGCATTAATTCACATTAAAATGATAG-G
1 GAGAGATTTTTGAGATTTAATTTTAGAATCAATTCACATTAAAATGAT-GTG
* * * *
18843232 GAGAGATTTTTGGGATTTGATTTCAGAATCAATTCTCATTAAAATG
1 GAGAGATTTTTGAGATTTAATTTTAGAATCAATTCACATTAAAATG
18843278 GAAATCAAAC
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
51 47 0.58
52 34 0.42
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (51 bp):
GAGAGATTTTTGAGATTTAATTTTAGAATCAATTCACATTAAAATGATGTG
Found at i:18844627 original size:31 final size:31
Alignment explanation
Indices: 18844568--18844635 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
18844558 AAATTTCTAG
* *
18844568 TTTTTCGATGAATTTTTTTGCTTTGGTTGAA
1 TTTTTCGATGAATTTTTTCGCTTCGGTTGAA
*
18844599 TTTTTCGATGAA-TTTTTCGGTGTCGGTTGAA
1 TTTTTCGATGAATTTTTTCGCT-TCGGTTGAA
18844630 TTTTTC
1 TTTTTC
18844636 AACAAGATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.15, C:0.09, G:0.21, T:0.56
Consensus pattern (31 bp):
TTTTTCGATGAATTTTTTCGCTTCGGTTGAA
Found at i:18845084 original size:12 final size:12
Alignment explanation
Indices: 18845056--18845088 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18845046 ATATTTATTT
18845056 TTAATAAAAA-A
1 TTAATAAAAATA
18845067 -TAATAAAAATA
1 TTAATAAAAATA
18845078 TTAATAAAAAT
1 TTAATAAAAAT
18845089 TTTGAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.45
11 1 0.05
12 10 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
TTAATAAAAATA
Found at i:18848704 original size:34 final size:34
Alignment explanation
Indices: 18848666--18848736 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
18848656 TTGTTATCAT
18848666 TTTAATAAAAGACAAGTTAATGCATTTTATTATA
1 TTTAATAAAAGACAAGTTAATGCATTTTATTATA
*
18848700 TTTAATAAAAGACAAGTTACTGCATTTTATTATA
1 TTTAATAAAAGACAAGTTAATGCATTTTATTATA
18848734 TTT
1 TTT
18848737 TCTCTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (34 bp):
TTTAATAAAAGACAAGTTAATGCATTTTATTATA
Found at i:18849200 original size:10 final size:9
Alignment explanation
Indices: 18849187--18849240 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
18849177 TCAAAGATAG
18849187 AAAAAAGAAA
1 AAAAAAG-AA
18849197 AAAAAAGAA
1 AAAAAAGAA
*
18849206 AGAAAAGCAA
1 AAAAAAG-AA
* *
18849216 AACAAAGGA
1 AAAAAAGAA
18849225 AAAAAAGAA
1 AAAAAAGAA
18849234 AAGAAAA
1 AA-AAAA
18849241 ATTAAATACT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 18 0.50
10 18 0.50
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:18849619 original size:19 final size:19
Alignment explanation
Indices: 18849595--18849649 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
18849585 ATGTGTGAGA
18849595 GAAAAATGGGAAAAAAAAT
1 GAAAAATGGGAAAAAAAAT
18849614 GAAAAAT-GGAGAAAAAAAT
1 GAAAAATGGGA-AAAAAAAT
* *
18849633 GAAAAACGAGAAAAAAA
1 GAAAAATGGGAAAAAAA
18849650 GATAAAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 3 0.09
19 27 0.84
20 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.07
Consensus pattern (19 bp):
GAAAAATGGGAAAAAAAAT
Found at i:18849670 original size:22 final size:22
Alignment explanation
Indices: 18849641--18849701 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
18849631 ATGAAAAACG
* *
18849641 AGAAAAAAAGAT-AAAGATAAA
1 AGAAAAAAAGATAAAAAAAAAA
*
18849662 AGATAAAAAGATAAAAAAAAAA
1 AGAAAAAAAGATAAAAAAAAAA
*
18849684 AGAAAAAAAGAGAAAAAA
1 AGAAAAAAAGATAAAAAA
18849702 GAGAGAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 11 0.32
22 23 0.68
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (22 bp):
AGAAAAAAAGATAAAAAAAAAA
Found at i:18849672 original size:8 final size:8
Alignment explanation
Indices: 18849645--18849700 Score: 59
Period size: 8 Copynumber: 7.6 Consensus size: 8
18849635 AAAACGAGAA
18849645 AAAAAGAT
1 AAAAAGAT
18849653 --AAAGAT
1 AAAAAGAT
18849659 -AAAAGAT
1 AAAAAGAT
18849666 AAAAAGAT
1 AAAAAGAT
18849674 AAAAA-A-
1 AAAAAGAT
*
18849680 AAAAAGAA
1 AAAAAGAT
*
18849688 AAAAAGAG
1 AAAAAGAT
18849696 AAAAA
1 AAAAA
18849701 AGAGAGAGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
6 11 0.26
7 8 0.19
8 24 0.56
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (8 bp):
AAAAAGAT
Found at i:18849706 original size:11 final size:11
Alignment explanation
Indices: 18849666--18849715 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
18849656 GATAAAAGAT
*
18849666 AAAAAGATA-A
1 AAAAAGAGAGA
* *
18849676 AAAAAAAAAGA
1 AAAAAGAGAGA
18849687 AAAAA-AGAGA
1 AAAAAGAGAGA
18849697 AAAAAGAGAGA
1 AAAAAGAGAGA
18849708 GAAAAAGA
1 -AAAAAGA
18849716 AAAAAATGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 16 0.47
11 11 0.32
12 7 0.21
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAAAGAGAGA
Found at i:18849713 original size:43 final size:42
Alignment explanation
Indices: 18849641--18849721 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
18849631 ATGAAAAACG
* *
18849641 AGAAAAAAAGATAAAGATAAAAGATAAAAAGATAAAAAAAAAA
1 AGAAAAAAAGAGAAAGATAAAAGAGAAAAAGA-AAAAAAAAAA
18849684 AGAAAAAAAGAGAAA-A-AAGAGAGAGAAAAAGAAAAAAA
1 AGAAAAAAAGAGAAAGATAA-A-AGAGAAAAAGAAAAAAA
18849722 TGAAAAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 2 0.06
42 8 0.24
43 24 0.71
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (42 bp):
AGAAAAAAAGAGAAAGATAAAAGAGAAAAAGAAAAAAAAAAA
Found at i:18850813 original size:21 final size:22
Alignment explanation
Indices: 18850754--18850828 Score: 93
Period size: 21 Copynumber: 3.5 Consensus size: 22
18850744 TCTTTTGATG
18850754 AGAATCTTTGAGTTTTCAAAT-
1 AGAATCTTTGAGTTTTCAAATA
* * *
18850775 AGGATC-ATGAGTTTTCAAATT
1 AGAATCTTTGAGTTTTCAAATA
*
18850796 AGAATTTTTGAG-TTTCAAATA
1 AGAATCTTTGAGTTTTCAAATA
18850817 AGAATCTTTGAG
1 AGAATCTTTGAG
18850829 ATGTGAAACC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
20 13 0.29
21 28 0.62
22 4 0.09
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (22 bp):
AGAATCTTTGAGTTTTCAAATA
Found at i:18851010 original size:22 final size:22
Alignment explanation
Indices: 18850980--18851071 Score: 64
Period size: 22 Copynumber: 4.2 Consensus size: 22
18850970 AGATAAGAAA
* *
18850980 CTTTGAATTTTTGGATGTGAAT
1 CTTTAAATTTATGGATGTGAAT
* * * *
18851002 CTTTAAATTTTTGAATGAGAAC
1 CTTTAAATTTATGGATGTGAAT
*
18851024 CTTTGAAA-TTAT--ATGTGAAA
1 CTTT-AAATTTATGGATGTGAAT
*
18851044 CTTTAAGATTTATGGAATCTGAAT
1 CTTTAA-ATTTATGG-ATGTGAAT
18851068 CTTT
1 CTTT
18851072 GAACTCAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
19 2 0.04
20 11 0.20
21 4 0.07
22 25 0.45
23 3 0.05
24 10 0.18
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (22 bp):
CTTTAAATTTATGGATGTGAAT
Found at i:18851044 original size:64 final size:67
Alignment explanation
Indices: 18850923--18851071 Score: 153
Period size: 64 Copynumber: 2.3 Consensus size: 67
18850913 AACTTACAAA
* * * * * *
18850923 TTTT-GATGTGAAACTCTAAGATTTATTGAATGTGAATCTTCGAACTTAGATAAGAAACTTTGA-
1 TTTTGGATGTGAATCTTTAAGATTTATTGAATGAGAACCTTCGAAATTAGATAAGAAACTTTAAG
18850986 AT
66 AT
* * **
18850988 TTTTGGATGTGAATCTTTAA-ATTT-TTGAATGAGAACCTTTGAAATTATATGTGAAACTTTAAG
1 TTTTGGATGTGAATCTTTAAGATTTATTGAATGAGAACCTTCGAAATTAGATAAGAAACTTTAAG
18851051 AT
66 AT
* *
18851053 TTATGGAATCTGAATCTTT
1 TTTTGG-ATGTGAATCTTT
18851072 GAACTCAAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
64 30 0.43
65 15 0.22
66 24 0.35
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (67 bp):
TTTTGGATGTGAATCTTTAAGATTTATTGAATGAGAACCTTCGAAATTAGATAAGAAACTTTAAG
AT
Found at i:18851748 original size:44 final size:44
Alignment explanation
Indices: 18851555--18852065 Score: 478
Period size: 43 Copynumber: 11.8 Consensus size: 44
18851545 TTGAGGAGCT
* *
18851555 TTTA-TTTTTCAAAATTGTTGAGCCTCT-ATTTAGAGGAGC---C
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTGA-TTAGAGGAGCTTTA
** * * *
18851595 TTTA-TTTTTCAAAGTCATTGAGCCTTTGTTTAAAGGAGCTTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTA
* **
18851638 TTTATTTTTT-AAAGTTATTGAGCCTCT-ATTTAGAGGAGCCGTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTGA-TTAGAGGAGCTTTA
* * * * * * *
18851681 TTTACTTTTCCAAAAGTTGTTGAGCATCTAATTATAGGAGCCTTG
1 TTTATTTTTTC-AAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTA
* *
18851726 TTTATTTTTTAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTA
* * * * *
18851770 TTTA-TTTTTCGAAGTTG-GGAAGCCTCTAAATAGAGGAGCATTA
1 TTTATTTTTTCAAAGTTGTTG-AGCCTCTGATTAGAGGAGCTTTA
* *
18851813 TTTA-TTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTG
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTA
* **
18851856 TTTA-TTTTCCAAAGTCATTGAGCCTCT-ATTTAGAGGAGCTTTA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTGA-TTAGAGGAGCTTTA
* *
18851899 TTTATTTTTCCAAAGTCT-TTGAG-CTTTGATTAGAGGAGCTTTA
1 TTTATTTTTTCAAAGT-TGTTGAGCCTCTGATTAGAGGAGCTTTA
* *
18851942 TTTATTTTTTTCAAAGTTGTTGAGCCTCTGATTAAAAGAGCTTTA
1 TTTA-TTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTA
**
18851987 TTTA-TTTTTCTAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTA
1 TTTATTTTTTC-AAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTA
* ** * *
18852031 TTTATTTTTCCAAAGTCATTGAGCCTTTGTTTAGA
1 TTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGA
18852066 AGAGTTTTTA
Statistics
Matches: 393, Mismatches: 58, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
40 32 0.08
42 1 0.00
43 172 0.44
44 127 0.32
45 60 0.15
46 1 0.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (44 bp):
TTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTA
Found at i:18851901 original size:261 final size:258
Alignment explanation
Indices: 18851555--18852040 Score: 667
Period size: 261 Copynumber: 1.9 Consensus size: 258
18851545 TTGAGGAGCT
*
18851555 TTTATTTTTCAAAATTGTTGAGCCTCTATTTAGAGGAGCCTTTATTTTTCAAAGTCATTGAGCCT
1 TTTATTTTTCAAAATTGTTGAGCCTCTATTTAGAGGAGCCTTTATTTTCCAAAGTCATTGAGCCT
* * *
18851620 TTGTTTAAAGGAGCTTTATTTATTTTT-TAAAGT-TATTGAGCCTCT-ATTTAGAGGAGCCGTAT
66 CTATTTAAAGGAGCTTTATTTATTTTTCCAAAGTCT-TTGAG-CTCTGA-TTAGAGGAGCCGTAT
* * * **
18851682 TTA-CTTTTCCAAAAGTTGTTGAGCATCTAATTATAGGAGCCTTGTTTATTTTT-TAAAAGTTGT
128 TTATCTTTTCC-AAAGTTGTTGAGCATCTAATTAAAAGAGCCTTATTTATTTTTCT-AAAGTCAT
18851745 TGAGCCTCTGATTAGAGGAGCCTTATTTATTTTTCGAAGTTGGGAAGCCTCTAAATAGAGGAGCA
191 TGAGCCTCTGATTAGAGGAGCCTTATTTATTTTTCGAAGTTGGGAAGCCTCTAAATAGAGGAGCA
18851810 TTA
256 TTA
* * *
18851813 TTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTCCAAAGTCATTGAG
1 TTTATTTTTCAAAATTGTTGAGCCTCTATTTAGAGGAGC---CTTTATTTTCCAAAGTCATTGAG
* * **
18851878 CCTCTATTTAGAGGAGCTTTATTTATTTTTCCAAAGTCTTTGAGCTTTGATTAGAGGAGCTTTAT
63 CCTCTATTTAAAGGAGCTTTATTTATTTTTCCAAAGTCTTTGAGCTCTGATTAGAGGAGCCGTAT
* * * * *
18851943 TTATTTTTTTCAAAGTTGTTGAGCCTCTGATTAAAAGAGCTTTATTTATTTTTCTAAAGTCATTG
128 TTATCTTTTCCAAAGTTGTTGAGCATCTAATTAAAAGAGCCTTATTTATTTTTCTAAAGTCATTG
*
18852008 AGCCTCTGATTAGAGGAGCTTTATTTATTTTTC
193 AGCCTCTGATTAGAGGAGCCTTATTTATTTTTC
18852041 CAAAGTCATT
Statistics
Matches: 198, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
258 37 0.19
261 143 0.72
262 17 0.09
263 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (258 bp):
TTTATTTTTCAAAATTGTTGAGCCTCTATTTAGAGGAGCCTTTATTTTCCAAAGTCATTGAGCCT
CTATTTAAAGGAGCTTTATTTATTTTTCCAAAGTCTTTGAGCTCTGATTAGAGGAGCCGTATTTA
TCTTTTCCAAAGTTGTTGAGCATCTAATTAAAAGAGCCTTATTTATTTTTCTAAAGTCATTGAGC
CTCTGATTAGAGGAGCCTTATTTATTTTTCGAAGTTGGGAAGCCTCTAAATAGAGGAGCATTA
Found at i:18853474 original size:25 final size:25
Alignment explanation
Indices: 18853398--18853474 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
18853388 ATTACCTAAA
* *
18853398 GATGAGATTCTTAGAAGTTTCAAGT
1 GATGAGTTTCTTAGAAGTTTCAAAT
** * *
18853423 GAAAAATTTCTTAAGAA-TTATCCAAT
1 GATGAGTTTCTT-AGAAGTT-TCAAAT
18853449 GATGAGTTTCTTAGAAGTTTCAAAT
1 GATGAGTTTCTTAGAAGTTTCAAAT
18853474 G
1 G
18853475 GTAAATTCTT
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
25 20 0.51
26 19 0.49
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (25 bp):
GATGAGTTTCTTAGAAGTTTCAAAT
Found at i:18853489 original size:25 final size:24
Alignment explanation
Indices: 18853404--18853485 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
18853394 TAAAGATGAG
* *
18853404 ATTCTTAGAAGTTTCAAGTGAAAA
1 ATTCTTAGAAGTTTCAAATGATAA
* *
18853428 ATTTCTTAAGAA-TTATCCAATGATGAG
1 A-TTCTT-AGAAGTT-TCAAATGAT-AA
* *
18853455 TTTCTTAGAAGTTTCAAATGGTAA
1 ATTCTTAGAAGTTTCAAATGATAA
18853479 ATTCTTA
1 ATTCTTA
18853486 AGAAATCTCT
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
24 8 0.18
25 18 0.41
26 17 0.39
27 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (24 bp):
ATTCTTAGAAGTTTCAAATGATAA
Found at i:18855502 original size:61 final size:61
Alignment explanation
Indices: 18855365--18855503 Score: 199
Period size: 61 Copynumber: 2.3 Consensus size: 61
18855355 CATAATAATT
* ** *
18855365 TAATGATGCATGAATTG-ACAAATGACTGCTTAAATGGATGTATGAGTTAATGTTTGCCTTA
1 TAATGATGCATGAA-TGAACAAATGACTGCATAAATGGATACATGAGTTAATGTTTGCCTCA
* * *
18855426 TAATGATGCCTGAATGAACAAATGACTGCATGAATGGATACATTAGTTAATGTTTGCCTCA
1 TAATGATGCATGAATGAACAAATGACTGCATAAATGGATACATGAGTTAATGTTTGCCTCA
18855487 TAATGATGCATGAATGA
1 TAATGATGCATGAATGA
18855504 TGAATGCACG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 2 0.03
61 67 0.97
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (61 bp):
TAATGATGCATGAATGAACAAATGACTGCATAAATGGATACATGAGTTAATGTTTGCCTCA
Found at i:18857965 original size:10 final size:10
Alignment explanation
Indices: 18857937--18857966 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
18857927 AGCATTAGCA
*
18857937 ATATATATAT
1 ATATATATGT
18857947 ATATATATGT
1 ATATATATGT
18857957 ATATATATGT
1 ATATATATGT
18857967 TGGCCTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (10 bp):
ATATATATGT
Found at i:18858214 original size:48 final size:48
Alignment explanation
Indices: 18858154--18858252 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
18858144 ACCTTCAATT
18858154 CATCAAACTAGTGCTTATGCTAAAGTCAAACCCCAAAATTTTCACACA
1 CATCAAACTAGTGCTTATGCTAAAGTCAAACCCCAAAATTTTCACACA
18858202 CATCAAACTAGTGCTTATGCTAAAGTCAAACCCCAAAATTTTCACACA
1 CATCAAACTAGTGCTTATGCTAAAGTCAAACCCCAAAATTTTCACACA
18858250 CAT
1 CAT
18858253 TAAGTCAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.25
Consensus pattern (48 bp):
CATCAAACTAGTGCTTATGCTAAAGTCAAACCCCAAAATTTTCACACA
Found at i:18868061 original size:23 final size:23
Alignment explanation
Indices: 18868026--18868071 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
18868016 AAAGTTCTTG
*
18868026 ATTGTTTGTTTTTACAATGAATC
1 ATTGTTTGTTTTTACAATAAATC
18868049 ATTGTTTAG-TTTTACAATAAATC
1 ATTGTTT-GTTTTTACAATAAATC
18868072 TTGGATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (23 bp):
ATTGTTTGTTTTTACAATAAATC
Found at i:18868745 original size:29 final size:29
Alignment explanation
Indices: 18868681--18868738 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
18868671 TTGTTATTTG
* **
18868681 TTATCTTTATATTTATAATTGTGTTTATCA
1 TTAT-TTTATATTTATAATTGTATAAATCA
*
18868711 TTATTTTATATTTATCATTGTATAAATC
1 TTATTTTATATTTATAATTGTATAAATC
18868739 CATATTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (29 bp):
TTATTTTATATTTATAATTGTATAAATCA
Found at i:18868779 original size:18 final size:18
Alignment explanation
Indices: 18868758--18868796 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18868748 TTTTATTTTA
18868758 TTATT-TTATTCATTTATC
1 TTATTATTATT-ATTTATC
*
18868776 TTATTATTATTGTTTATC
1 TTATTATTATTATTTATC
18868794 TTA
1 TTA
18868797 AAAAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATTATTATTATTTATC
Found at i:18872835 original size:16 final size:16
Alignment explanation
Indices: 18872814--18872854 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
18872804 CATGGAAGCC
18872814 AAAAAAAAAAAAAGAG
1 AAAAAAAAAAAAAGAG
* *
18872830 AAAAAAAAGAAACGAG
1 AAAAAAAAAAAAAGAG
18872846 AATAAAAAA
1 AA-AAAAAA
18872855 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAG
Found at i:18874384 original size:63 final size:63
Alignment explanation
Indices: 18874282--18874409 Score: 195
Period size: 63 Copynumber: 2.0 Consensus size: 63
18874272 ATCTTTTAAA
*** *
18874282 ATCATTTTCAACTTTGACTCAGTCCAATCATTTTCATTTCAACTTATAGGTTCAGACCAAGTC
1 ATCATTTTCAACCACGACTCAGTCCAATCATTTTCATTTCAACTTATAGGCTCAGACCAAGTC
*
18874345 ATCATTTTCAACCACGACTCAGTCTAATCATCTTT-ATTTCAACTTATAGGCTCAGACCAAGTC
1 ATCATTTTCAACCACGACTCAGTCCAATCAT-TTTCATTTCAACTTATAGGCTCAGACCAAGTC
18874408 AT
1 AT
18874410 TATCTTTGAC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 56 0.95
64 3 0.05
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (63 bp):
ATCATTTTCAACCACGACTCAGTCCAATCATTTTCATTTCAACTTATAGGCTCAGACCAAGTC
Found at i:18874429 original size:63 final size:62
Alignment explanation
Indices: 18874282--18874478 Score: 189
Period size: 63 Copynumber: 3.1 Consensus size: 62
18874272 ATCTTTTAAA
* * * *
18874282 ATCATTTTCAACTTTGACTCAGTCCAATCAT-TTTCATTTCAACTTATAGGTTCAGACCAAGTC
1 ATCATTTT-AACCTTGGCTCAGTCTAATCATCTTT-ATTTCAACTTATAGGCTCAGACCAAGTC
** *
18874345 ATCATTTTCAACCACGACTCAGTCTAATCATCTTTATTTCAACTTATAGGCTCAGACCAAGTC
1 ATCATTTT-AACCTTGGCTCAGTCTAATCATCTTTATTTCAACTTATAGGCTCAGACCAAGTC
* * * ** * ** * * *
18874408 ATTATCTTTGACCTTGGCTCAGTTTGGTCATTTTTATTTTGACTTACAAGCTCATACCAAGTC
1 ATCAT-TTTAACCTTGGCTCAGTCTAATCATCTTTATTTCAACTTATAGGCTCAGACCAAGTC
18874471 ATCATTTT
1 ATCATTTT
18874479 TTACCTTAGC
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
62 3 0.03
63 103 0.92
64 6 0.05
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (62 bp):
ATCATTTTAACCTTGGCTCAGTCTAATCATCTTTATTTCAACTTATAGGCTCAGACCAAGTC
Found at i:18874544 original size:32 final size:32
Alignment explanation
Indices: 18874476--18874544 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
18874466 AAGTCATCAT
*
18874476 TTTTTACCTTAGCTCAATCTGATCACCCTTAT
1 TTTTTACCTTAGCTCAATCTGATCACCCTTAC
18874508 TTTTTACCTT-GACTCAATCT-AGTCA-CCTTCAC
1 TTTTTACCTTAG-CTCAATCTGA-TCACCCTT-AC
18874540 TTTTT
1 TTTTT
18874545 GACTTTGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
31 6 0.18
32 27 0.82
ACGTcount: A:0.20, C:0.28, G:0.06, T:0.46
Consensus pattern (32 bp):
TTTTTACCTTAGCTCAATCTGATCACCCTTAC
Found at i:18874621 original size:33 final size:33
Alignment explanation
Indices: 18874568--18874646 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
18874558 TCTGACTTCA
*
18874568 ACTAAGTCCTAA-TTGTTTCATTTTCTAACTTTG
1 ACTAAGTCC-AAGTTGCTTCATTTTCTAACTTTG
18874601 ACTAAGTCCAAGTTGCTTCATTTTCTAACTTTG
1 ACTAAGTCCAAGTTGCTTCATTTTCTAACTTTG
18874634 ACTAAGTCCAAGT
1 ACTAAGTCCAAGT
18874647 CATATCATCT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 2 0.05
33 42 0.95
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (33 bp):
ACTAAGTCCAAGTTGCTTCATTTTCTAACTTTG
Found at i:18874693 original size:33 final size:33
Alignment explanation
Indices: 18874628--18874737 Score: 91
Period size: 32 Copynumber: 3.4 Consensus size: 33
18874618 TCATTTTCTA
* * * *
18874628 ACTTTGACTAAGTCCAAGTCATATCA-TCTTTG
1 ACTTCGACTAAGTCCAAATCATATAATTTTTTG
* * * *
18874660 ACTTCGATTAAGTTCAAATCATTTCATTTTTTG
1 ACTTCGACTAAGTCCAAATCATATAATTTTTTG
*
18874693 A-TCTCGACTAAGTCCAAGTCATATAATTTTTT-
1 ACT-TCGACTAAGTCCAAATCATATAATTTTTTG
* *
18874725 ACTTTGGCTAAGT
1 ACTTCGACTAAGT
18874738 TTGAGTCATC
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
32 31 0.50
33 31 0.50
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (33 bp):
ACTTCGACTAAGTCCAAATCATATAATTTTTTG
Found at i:18874736 original size:32 final size:32
Alignment explanation
Indices: 18874585--18874737 Score: 114
Period size: 33 Copynumber: 4.7 Consensus size: 32
18874575 CCTAATTGTT
* *
18874585 TCATTTTCTAACTTTGACTAAGTCCAAGTTGC-T-
1 TCATTTT-TTACTTCGACTAAGTCCAAG-T-CATA
* *
18874618 TCATTTTCTAACTTTGACTAAGTCCAAGTCATA
1 TCATTTT-TTACTTCGACTAAGTCCAAGTCATA
* * * * * *
18874651 TCATCTTTGACTTCGATTAAGTTCAAATCATT
1 TCATTTTTTACTTCGACTAAGTCCAAGTCATA
18874683 TCATTTTTTGA-TCTCGACTAAGTCCAAGTCATA
1 TCATTTTTT-ACT-TCGACTAAGTCCAAGTCATA
* * *
18874716 TAATTTTTTACTTTGGCTAAGT
1 TCATTTTTTACTTCGACTAAGT
18874738 TTGAGTCATC
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
31 1 0.01
32 38 0.38
33 60 0.61
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (32 bp):
TCATTTTTTACTTCGACTAAGTCCAAGTCATA
Found at i:18874752 original size:65 final size:65
Alignment explanation
Indices: 18874633--18874754 Score: 154
Period size: 65 Copynumber: 1.9 Consensus size: 65
18874623 TTCTAACTTT
* * *
18874633 GACTAAGTCCAAGTCATATCATCTTTGACTTCGATTAAGTTCAAATCATTTCATTTTTTGATCTC
1 GACTAAGTCCAAGTCATATAATCTTTGACTTCGACTAAGTTCAAATCATCTCATTTTTTGATCTC
* * * * ** *
18874698 GACTAAGTCCAAGTCATATAATTTTTTACTTTGGCTAAGTTTGAGTCATCTCATTTT
1 GACTAAGTCCAAGTCATATAATCTTTGACTTCGACTAAGTTCAAATCATCTCATTTT
18874755 CAAACTACGG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
65 47 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (65 bp):
GACTAAGTCCAAGTCATATAATCTTTGACTTCGACTAAGTTCAAATCATCTCATTTTTTGATCTC
Found at i:18874789 original size:32 final size:32
Alignment explanation
Indices: 18874751--18874818 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
18874741 AGTCATCTCA
18874751 TTTTCAAACT-ACGGTTAAATCTAAGTCATCAT
1 TTTTC-AACTGACGGTTAAATCTAAGTCATCAT
* **
18874783 TTTTCAACTGATGGTTAGGTCTAAGTCATCAT
1 TTTTCAACTGACGGTTAAATCTAAGTCATCAT
18874815 TTTT
1 TTTT
18874819 AGACTTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 4 0.12
32 28 0.88
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (32 bp):
TTTTCAACTGACGGTTAAATCTAAGTCATCAT
Found at i:18875162 original size:13 final size:14
Alignment explanation
Indices: 18875128--18875169 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
18875118 TATCCATTTT
18875128 TTAATTTTATCTTTA
1 TTAA-TTTATCTTTA
*
18875143 TT-CTTTAT-TTTA
1 TTAATTTATCTTTA
18875155 TTAATTTATCTTTA
1 TTAATTTATCTTTA
18875169 T
1 T
18875170 CCTTGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 5 0.22
15 2 0.09
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (14 bp):
TTAATTTATCTTTA
Found at i:18875179 original size:26 final size:27
Alignment explanation
Indices: 18875123--18875182 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
18875113 ATATATATCC
*
18875123 ATTTT-TTAATTTTATCTTTATTCTTT
1 ATTTTATTAATTTTATCTTTATCCTTT
18875149 ATTTTATTAA-TTTATCTTTATCCTTGT
1 ATTTTATTAATTTTATCTTTATCCTT-T
18875176 -TTTTATT
1 ATTTTATT
18875183 TTACTTCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 26 0.84
27 5 0.16
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (27 bp):
ATTTTATTAATTTTATCTTTATCCTTT
Found at i:18875819 original size:20 final size:20
Alignment explanation
Indices: 18875794--18875832 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18875784 CATTACCGAG
*
18875794 CCACTAAATTACTATAACCA
1 CCACTAAATTACTAGAACCA
18875814 CCACTAAATTACTAGAACC
1 CCACTAAATTACTAGAACC
18875833 TCTACACCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.31, G:0.03, T:0.23
Consensus pattern (20 bp):
CCACTAAATTACTAGAACCA
Found at i:18877276 original size:57 final size:59
Alignment explanation
Indices: 18877163--18877274 Score: 149
Period size: 58 Copynumber: 1.9 Consensus size: 59
18877153 GAAAAATTTT
* *
18877163 AAAATTTTTTAAAAAAAATCTAAAAACAGTTTTTAAATTTTTAAAAATTTAAAAATAAA
1 AAAATTCTTTAAAAAAAATCTAAAAACAGTTTTTAAAATTTTAAAAATTTAAAAATAAA
* *
18877222 AAAATTCTTT-AAAAATATCTAAAAA-ATTTTTTAAAAATTTT-AAAATTCTAAAA
1 AAAATTCTTTAAAAAAAATCTAAAAACAGTTTTT-AAAATTTTAAAAATT-TAAAA
18877275 TATTCAAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 12 0.26
58 26 0.55
59 9 0.19
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (59 bp):
AAAATTCTTTAAAAAAAATCTAAAAACAGTTTTTAAAATTTTAAAAATTTAAAAATAAA
Found at i:18877615 original size:21 final size:22
Alignment explanation
Indices: 18877589--18877632 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
18877579 AATCAATTAA
* *
18877589 TTAATATATAATTTAAT-AAAT
1 TTAATATAAAATTAAATCAAAT
18877610 TTAATATAAAATTAAATCAAAT
1 TTAATATAAAATTAAATCAAAT
18877632 T
1 T
18877633 CACGTACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAATATAAAATTAAATCAAAT
Found at i:18880188 original size:161 final size:160
Alignment explanation
Indices: 18879935--18880291 Score: 393
Period size: 161 Copynumber: 2.2 Consensus size: 160
18879925 TCAAAAGTTT
* * **
18879935 AATTTGTATTTTTGCCTTTAAAAGGCA-AAAATAGTCTAAAATAGACATAAATGATAACTTTTTC
1 AATTTGTATTTTTACCTTT-AACGGCACAAAA-AGTCTAAAATAGACATAAACAATAACTTTTTC
* * *
18879999 ACACATATCAATCGTAGAAATCAAGTTCAAT-CATTTGAACAAGTTTAATATCATATATTGAAGC
64 ACACATATCAATCGTAGAAAACAAGTTCAATAC-TTCGAACAAGTTTAATATCATATATTGAAAC
* * *
18880063 TATCTAAACTATTAAAATAGAACAATAAC-AAC
128 TATCAAAACTATTAAAACAAAACAATAACTAAC
**
18880095 AATTTTGTATTTTTACCTATTAACGGCACAAAAAGTCCT-AAATAGATGTAAACAATAACTTTTT
1 AA-TTTGTATTTTTACCT-TTAACGGCACAAAAAGT-CTAAAATAGACATAAACAATAACTTTTT
** * * *
18880159 CATGCATATCAA-CTGT-GAAAACTAAGTTCAATACTTCGGATAAGTTTAATATCATGTATTGAA
63 CACACATATCAATC-GTAGAAAAC-AAGTTCAATACTTCGAACAAGTTTAATATCATATATTGAA
***
18880222 ACTATCAAAACTATTAAAACAAAACAATAACTGTT
126 ACTATCAAAACTATTAAAACAAAACAATAACTAAC
* *
18880257 AATTTGTATTTTTACCTTTTAACGACACAAGAAGT
1 AATTTGTATTTTTACC-TTTAACGGCACAAAAAGT
18880292 TCATTCATTC
Statistics
Matches: 166, Mismatches: 22, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
160 8 0.05
161 146 0.88
162 12 0.07
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (160 bp):
AATTTGTATTTTTACCTTTAACGGCACAAAAAGTCTAAAATAGACATAAACAATAACTTTTTCAC
ACATATCAATCGTAGAAAACAAGTTCAATACTTCGAACAAGTTTAATATCATATATTGAAACTAT
CAAAACTATTAAAACAAAACAATAACTAAC
Found at i:18886398 original size:62 final size:62
Alignment explanation
Indices: 18886332--18886493 Score: 154
Period size: 62 Copynumber: 2.6 Consensus size: 62
18886322 GACGATAAGA
*
18886332 TTATTATAGGTGTTTTTGACTAAAAACACCTTCACTAATCCACTGAAATTTTTAA-AAAGA-AT
1 TTATTA-AGGTGTTTTTGACTAAAAACACCTTCAATAATCCACTGAAA-TTTTAACAAAGAGAT
* * * ** * *
18886394 TTATTGAAGGCGTTTTTTG-C-ATAATACACTTTCAATAATCCTTTTAAATTTTAACGAAGAGAT
1 TTATT-AAGGTG-TTTTTGACTA-AAAACACCTTCAATAATCCACTGAAATTTTAACAAAGAGAT
* *
18886457 TT-TTAAGGTGTTTTTTACTAAAAACACCTTTAATAAT
1 TTATTAAGGTGTTTTTGACTAAAAACACCTTCAATAAT
18886494 ATCTTTTTCA
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
60 5 0.06
61 27 0.34
62 37 0.46
63 11 0.14
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (62 bp):
TTATTAAGGTGTTTTTGACTAAAAACACCTTCAATAATCCACTGAAATTTTAACAAAGAGAT
Found at i:18887798 original size:28 final size:28
Alignment explanation
Indices: 18887758--18887826 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
18887748 TTAAATAGCG
18887758 TGGTTTGCTGAATAATATTATATGATAT
1 TGGTTTGCTGAATAATATTATATGATAT
* ** *
18887786 TGGTTTACTGAATGGTATTGTATGATAT
1 TGGTTTGCTGAATAATATTATATGATAT
*
18887814 TGGCTTGCTGAAT
1 TGGTTTGCTGAAT
18887827 GGTTTGTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (28 bp):
TGGTTTGCTGAATAATATTATATGATAT
Found at i:18889498 original size:4 final size:4
Alignment explanation
Indices: 18889484--18889534 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
18889474 ATAAGTTTAA
* *
18889484 TATT T-TT TATT TATT TATT ATATT TGTT TATT ATATT TATT GATT TGATT
1 TATT TATT TATT TATT TATT -TATT TATT TATT -TATT TATT TATT T-ATT
18889534 T
1 T
18889535 TAATACTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
3 3 0.08
4 24 0.62
5 12 0.31
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:18889500 original size:18 final size:21
Alignment explanation
Indices: 18889467--18889523 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 21
18889457 GAAGTACGAT
18889467 TTTGTTTA-TA-AGTTTA-ATA
1 TTTGTTTATTATA-TTTATATA
18889486 TTT-TTTATT-TATTTATTATA
1 TTTGTTTATTATATTTA-TATA
18889506 TTTGTTTATTATATTTAT
1 TTTGTTTATTATATTTAT
18889524 TGATTTGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
18 8 0.25
19 5 0.16
20 6 0.19
21 7 0.22
22 6 0.19
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTGTTTATTATATTTATATA
Found at i:18889513 original size:13 final size:13
Alignment explanation
Indices: 18889491--18889524 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
18889481 TAATATTTTT
18889491 TATTTATTTATTA
1 TATTTATTTATTA
*
18889504 TATTTGTTTATTA
1 TATTTATTTATTA
18889517 TATTTATT
1 TATTTATT
18889525 GATTTGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
TATTTATTTATTA
Found at i:18889523 original size:22 final size:20
Alignment explanation
Indices: 18889483--18889524 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
18889473 TATAAGTTTA
18889483 ATATTTTTTATTTATTTATT
1 ATATTTTTTATTTATTTATT
18889503 ATATTTGTTTATTATATTTATT
1 ATATTT-TTTATT-TATTTATT
18889525 GATTTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
21 6 0.30
22 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
ATATTTTTTATTTATTTATT
Found at i:18893964 original size:3 final size:3
Alignment explanation
Indices: 18893958--18894012 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
18893948 AACAACAATA
** * * *
18893958 ACT ACT ACT ACT ACT ACT GTT GCT ACT ACT GCT ACT ACT ACT ATT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
*
18894006 ATT ACT A
1 ACT ACT A
18894013 TTATTATTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.38
Consensus pattern (3 bp):
ACT
Found at i:18894028 original size:6 final size:6
Alignment explanation
Indices: 18893999--18894058 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
18893989 CTACTACTAC
* * * *
18893999 TATTAC TATTAC TATTAT TATTAT TATTAT CATTAT TAATA- TATTTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TA-TTAT
* *
18894047 AATTAT TTTTAT
1 TATTAT TATTAT
18894059 ATGTAATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
5 2 0.05
6 41 0.93
7 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (6 bp):
TATTAT
Found at i:18894429 original size:17 final size:15
Alignment explanation
Indices: 18894382--18894439 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
18894372 GAGAGATTAG
18894382 TAATTTAATATATAGT
1 TAATTTAATATAT-GT
*
18894398 TAATTTTATATTATGT
1 TAATTTAATA-TATGT
18894414 TAAAATTTAATATATG-
1 T--AATTTAATATATGT
18894430 TAATTTAATA
1 TAATTTAATA
18894440 AGAGCATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 9 0.24
16 13 0.35
17 7 0.19
18 8 0.22
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (15 bp):
TAATTTAATATATGT
Found at i:18895986 original size:16 final size:16
Alignment explanation
Indices: 18895965--18896005 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
18895955 ATGTGAAATG
18895965 AAAAAATAA-TATTTTC
1 AAAAAA-AATTATTTTC
18895981 AAAAAAAATTATTTT-
1 AAAAAAAATTATTTTC
18895996 AGAAAAAAAT
1 A-AAAAAAAT
18896006 AGAATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (16 bp):
AAAAAAAATTATTTTC
Found at i:18904612 original size:49 final size:50
Alignment explanation
Indices: 18904495--18904672 Score: 159
Period size: 50 Copynumber: 3.6 Consensus size: 50
18904485 TCTTTTTTAT
* * *
18904495 ATTTTAAAAGTTGCATAGGTTTTATTTAAAAGAGCTTTTTCAAAGACTAG
1 ATTTTTAAAGTTGCATAGCTTTTGTTTAAAAGAGCTTTTTCAAAGACTAG
* * *
18904545 ATTTTTAATGTTGCATAGCCTTTGTTTAAATAGA-CTTTTTCTAAGA-T-G
1 ATTTTTAAAGTTGCATAGCTTTTGTTTAAA-AGAGCTTTTTCAAAGACTAG
* * * * *
18904593 AATTTTTAAAGTTGTATAGCTTTTGATT-AAAGAAGCCTTTTCCACGA-TGAG
1 -ATTTTTAAAGTTGCATAGCTTTTGTTTAAAAG-AGCTTTTTCAAAGACT-AG
* * *
18904644 ATTTTTAAACTTACATAGTTTTTGTTTAA
1 ATTTTTAAAGTTGCATAGCTTTTGTTTAA
18904673 TTAGGTCTCA
Statistics
Matches: 103, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
47 2 0.02
48 4 0.04
49 34 0.33
50 58 0.56
51 5 0.05
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (50 bp):
ATTTTTAAAGTTGCATAGCTTTTGTTTAAAAGAGCTTTTTCAAAGACTAG
Found at i:18907278 original size:10 final size:10
Alignment explanation
Indices: 18907261--18907311 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
18907251 GAAAAATTAT
18907261 TTAA-AAAAA
1 TTAATAAAAA
18907270 TTAATAAAAA
1 TTAATAAAAA
18907280 -T-A-AAAAA
1 TTAATAAAAA
*
18907287 -TATTAAAAA
1 TTAATAAAAA
18907296 TTAATAAAAA
1 TTAATAAAAA
18907306 TTAATA
1 TTAATA
18907312 GAAGGTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
7 6 0.17
8 1 0.03
9 10 0.28
10 19 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TTAATAAAAA
Found at i:18907284 original size:29 final size:27
Alignment explanation
Indices: 18907247--18907306 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 27
18907237 TTTTCATCCC
*
18907247 AAATGAAAAATTATTTAAAAAAATTAATAA
1 AAATGAAAAAATA-TT--AAAAATTAATAA
18907277 AAAT-AAAAAATATTAAAAATTAATAA
1 AAATGAAAAAATATTAAAAATTAATAA
18907303 AAAT
1 AAAT
18907307 TAATAGAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 16 0.55
28 2 0.07
29 7 0.24
30 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (27 bp):
AAATGAAAAAATATTAAAAATTAATAA
Found at i:18907286 original size:17 final size:19
Alignment explanation
Indices: 18907261--18907311 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 19
18907251 GAAAAATTAT
18907261 TTAAAAAAATTAATAAAAA
1 TTAAAAAAATTAATAAAAA
*
18907280 -T-AAAAAA-TATTAAAAA
1 TTAAAAAAATTAATAAAAA
18907296 TTAATAAAAATTAATA
1 TTAA-AAAAATTAATA
18907312 GAAGGTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 8 0.31
17 7 0.27
18 2 0.08
19 5 0.19
20 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TTAAAAAAATTAATAAAAA
Found at i:18909725 original size:11 final size:11
Alignment explanation
Indices: 18909709--18909738 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
18909699 AATTGTATCA
*
18909709 TTTTATATATT
1 TTTTATATAAT
18909720 TTTTATATAAT
1 TTTTATATAAT
18909731 TTTTATAT
1 TTTTATAT
18909739 CATATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATATAAT
Found at i:18913388 original size:9 final size:9
Alignment explanation
Indices: 18913376--18913418 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
18913366 CTTTTCAAAT
18913376 TTTTTTTTA
1 TTTTTTTTA
*
18913385 TTTTTTATA
1 TTTTTTTTA
*
18913394 ATTTTTTTA
1 TTTTTTTTA
* *
18913403 TTTTATCTA
1 TTTTTTTTA
18913412 TTTTTTT
1 TTTTTTT
18913419 ATTAAATTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:18913400 original size:17 final size:18
Alignment explanation
Indices: 18913377--18913421 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
18913367 TTTTCAAATT
*
18913377 TTTTTTTATTTTTTATAA
1 TTTTTTTATTTTATATAA
*
18913395 TTTTTTTATTTTATCT-A
1 TTTTTTTATTTTATATAA
18913412 TTTTTTTATT
1 TTTTTTTATT
18913422 AAATTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTATTTTATATAA
Found at i:18913430 original size:17 final size:17
Alignment explanation
Indices: 18913394--18913433 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
18913384 ATTTTTTATA
**
18913394 ATTTTTTTATTTTATCT
1 ATTTTTTTATTAAATCT
*
18913411 ATTTTTTTATTAAATTT
1 ATTTTTTTATTAAATCT
18913428 ATTTTT
1 ATTTTT
18913434 AAAGCAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTTTTATTAAATCT
Found at i:18919535 original size:2 final size:2
Alignment explanation
Indices: 18919530--18919554 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18919520 AAAAAAAAAA
18919530 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
18919555 CAGGAAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18928440 original size:160 final size:161
Alignment explanation
Indices: 18927948--18929187 Score: 939
Period size: 160 Copynumber: 7.7 Consensus size: 161
18927938 TATTTTTTTG
* * * * * * ** *
18927948 TTTTAACAATTTGGATAGCTTTAACACATCATATTAAATTTGCCT-AGATGATTGAACTTAGTTT
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATCTGA-ATGATTGAACTTGGTTT
* * *
18928012 TCAC-AGTTTATATGTGTGAAAAAGTTA-CTGTTTATATCTTTTTAAGACTTTGTTATGCCATTA
65 TCACGA-TTGATATGTGTGAAAAAGTTATC-ATTTATATCTTTTTAGGACTTTGTTATGCCATTA
* * * * * ** *
18928075 AAGGGCAAAAATTTAATTTTACAATTATATTTATA
128 AAAGACCAAAATGTAATTTTGCGTTTATA-TTCTA
* * * * ** *
18928110 TTTTAACAGTTTAAATAGCTTAAATATATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTGAACTTGGTTTT
* * * * *
18928175 CACAATTG--ATGTGTGAAAAAGTTATTATTTA-AGTCTATTTAGCACTTT-TTATGCCGTTAAA
66 CACGATTGATATGTGTGAAAAAGTTATCATTTATA-TCTTTTTAGGACTTTGTTATGCCATTAAA
** * * *
18928236 AGGTCAAAATGTAAATTTGCTTTTAT-TATCTTG
130 AGACCAAAATGTAATTTTGCGTTTATAT-TC-TA
* * * *
18928269 TTTTAACAGTTTAGATAGCATT-AATAAATAATATTAAACTTATTTGAATGATTGAACTTAGTTT
1 TTTTAACAGTTTAGATAGC-TTCAATACATGATATTAAACTTATCTGAATGATTGAACTTGGTTT
* * * * * * * *
18928333 GCACGGTTGAAATGTGTGAAAAAGTTATCGTTTATACCTATTTAGGA-TTT-TTGTGCTATTAAA
65 TCACGATTGATATGTGTGAAAAAGTTATCATTTATATCTTTTTAGGACTTTGTTATGCCATTAAA
*
18928396 AGACCAAAATGCAATTTTGCGTTTATTATTCTA
130 AGACCAAAATGTAATTTTGCGTTTA-TATTCTA
* * * * * *
18928429 TTTTAACAGTTTAGATAGTTTCAATACATAATATTAAACTTATCCGGATAATTGAACTTGGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTGAACTTGGTTTT
* ** ** * * * **
18928494 CACTATTGATAACTACGAAAAAATTATCGTTTATGTCTTTTTAGGACTTTGTTATGCTGTTAAAA
66 CACGATTGATATGTGTGAAAAAGTTATCATTTATATCTTTTTAGGACTTTGTTATGCCATT-AAA
* *
18928559 AGTA--AAAATGTCAGTTTGCAG-TTATATT-TA
130 AG-ACCAAAATGTAATTTTGC-GTTTATATTCTA
* * * * * *
18928589 TGTTTTAATAGTTTAGATAGTTTAAATACATGATATTAAACTTTTTTGAATGATTGATCTTGGTT
1 --TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTGAACTTGGTT
* * * * * * * * *
18928654 TTCATGATTGATATATGTGAAAAAATTGTCATTTATGTCTGTTTA-CACTTT-TTGTGCCTTTAA
64 TTCACGATTGATATGTGTGAAAAAGTTATCATTTATATCTTTTTAGGACTTTGTTATGCCATTAA
* * * *
18928717 AAGGCCAAAATATAAATTTGTGTTTATTATTCTA
129 AAGACCAAAATGTAATTTTGCGTTTA-TATTCTA
* * * *
18928751 TTTTAATAGTTTAGATAACTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTT
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTGAACTTGGTTTT
* * *
18928816 CACGATTGATATGTGTGAAAATGTTACCATTTATGTCTTTTTAGGACTTTGTTATGCCATTAAAG
66 CACGATTGATATGTGTGAAAAAGTTATCATTTATATCTTTTTAGGACTTTGTTATGCCATTAAA-
* * *
18928881 TGTA--AAAATGTAATTTTGTAG-TTATATTTATA
130 AG-ACCAAAATGTAATTTTG-CGTTTATA-TTCTA
* * * * *
18928913 TTTTTACAATTTAGATAGCTTCAATACATGATATTAAACCTATCTAAATGATTGAACTTGGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTGAACTTGGTTTT
* * * * * * * * *
18928978 CACAATTGTTATGTGTGAAAACGGTATCATTTATGTC-TTTTAGGACTTTATTGTACCACT-AAA
66 CACGATTGATATGTGTGAAAAAGTTATCATTTATATCTTTTTAGGACTTTGTTATGCCATTAAAA
* * * * *
18929041 GGCAAAAATATAATTTTACAG-TTATATTTATA
131 GACCAAAATGTAATTTTGC-GTTTATA-TTCTA
* * * * * *
18929073 TTTTAACAATTTAGATAGCTTGAATACATGATATAAAACTTGT-TCAAATGATTGAATTTGG-TT
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATCT-GAATGATTGAACTTGGTTT
* * * * *
18929136 TCACGATTTGATATGTATGAATAATTTA-CGATTTATGTCTGTTTAGGACTTT
65 TCACGA-TTGATATGTGTGAAAAAGTTATC-ATTTATATCTTTTTAGGACTTT
18929188 TTGTAATGTT
Statistics
Matches: 874, Mismatches: 166, Indels: 77
0.78 0.15 0.07
Matches are distributed among these distances:
157 1 0.00
158 1 0.00
159 108 0.12
160 377 0.43
161 86 0.10
162 290 0.33
163 10 0.01
164 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (161 bp):
TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTGAACTTGGTTTT
CACGATTGATATGTGTGAAAAAGTTATCATTTATATCTTTTTAGGACTTTGTTATGCCATTAAAA
GACCAAAATGTAATTTTGCGTTTATATTCTA
Found at i:18928631 original size:322 final size:320
Alignment explanation
Indices: 18927995--18929187 Score: 1143
Period size: 322 Copynumber: 3.7 Consensus size: 320
18927985 ATTTGCCTAG
* * *
18927995 ATGATTGAACTTAGTTTTCACAGTTTATATGTGTGAAAAAGTTA-CTGTTTATATCTTTTTAAGA
1 ATGATTGAACTTAGTTTTCACGGTTGATATGTGTGAAAAAGTTATC-GTTTATATCTATTT-AGA
* * * * * * ** *
18928059 CTTTGTTATGCCATTAAAGGGCAAAAATTTAATTTTACAATTA-TATTTATATTTTAACAGTTTA
64 CTTT-TTGTGCTATTAAAAGGCCAAAATATAATTTTGCGTTTATTA-TTCTATTTTAACAGTTTA
* * * *
18928123 AATAGCTTAAATATATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCACAATTGAT-GT
127 GATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCACAATTGATAGT
* * * * * *
18928187 GTGAAAAAGTTATTATTTAAGTCTATTTAGCACTTT-TTATGCCGTTAAAAGGTCAAAATGTAAA
192 GTGAAAAAGTTATCATTTATGTCTTTTTAGGACTTTGTTATGCCGTTAAAAAGTAAAAATGTAAA
** * * *
18928251 TTTGCTTTTATTATCT-TGTTTTAACAGTTTAGATAGCATTAATAAATAATATTAAACTTATTTG
257 TTTGCAGTTA-TATTTATGTTTTAACAGTTTAGATAG-ATTAATACATGATATTAAACTTATTTG
18928315 A
320 A
* * *
18928316 ATGATTGAACTTAGTTTGCACGGTTGAAATGTGTGAAAAAGTTATCGTTTATACCTATTTAGGA-
1 ATGATTGAACTTAGTTTTCACGGTTGATATGTGTGAAAAAGTTATCGTTTATATCTATTTA-GAC
* **
18928380 TTTTTGTGCTATTAAAAGACCAAAATGCAATTTTGCGTTTATTATTCTATTTTAACAGTTTAGAT
65 TTTTTGTGCTATTAAAAGGCCAAAATATAATTTTGCGTTTATTATTCTATTTTAACAGTTTAGAT
* * * * * * * **
18928445 AGTTTCAATACATAATATTAAACTTATCCGGATAATTGAACTTGGTTTCCACTATTGATAACTAC
130 AGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCACAATTGAT-AGTGT
* * * * *
18928510 GAAAAAATTATCGTTTATGTCTTTTTAGGACTTTGTTATGCTGTTAAAAAGTAAAAATGTCAGTT
194 GAAAAAGTTATCATTTATGTCTTTTTAGGACTTTGTTATGCCGTTAAAAAGTAAAAATGTAAATT
* * *
18928575 TGCAGTTATATTTATGTTTTAATAGTTTAGATAGTTTAAATACATGATATTAAACTTTTTTGA
259 TGCAGTTATATTTATGTTTTAACAGTTTAGATAGATT-AATACATGATATTAAACTTATTTGA
* * * * * * * * * * *
18928638 ATGATTGATCTTGGTTTTCATGATTGATATATGTGAAAAAATTGTCATTTATGTCTGTTTACACT
1 ATGATTGAACTTAGTTTTCACGGTTGATATGTGTGAAAAAGTTATCGTTTATATCTATTTAGACT
* * *
18928703 TTTTGTGCCT-TTAAAAGGCCAAAATATAAATTTGTGTTTATTATTCTATTTTAATAGTTTAGAT
66 TTTTGTG-CTATTAAAAGGCCAAAATATAATTTTGCGTTTATTATTCTATTTTAACAGTTTAGAT
* * * * *
18928767 AACTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTTCACGATTGATATGTGT
130 AGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCACAATTGATA-GTGT
* * * ** *
18928832 GAAAATGTTACCATTTATGTCTTTTTAGGACTTTGTTATGCCATTAAAGTGTAAAAATGTAATTT
194 GAAAAAGTTATCATTTATGTCTTTTTAGGACTTTGTTATGCCGTTAAAAAGTAAAAATGTAAATT
* * * * * * * *
18928897 TGTAGTTATATTTATATTTTTACAATTTAGATAGCTTCAATACATGATATTAAACCTATCTAA
259 TGCAGTTATATTTATGTTTTAACAGTTTAGATAGATT-AATACATGATATTAAACTTATTTGA
* * ** * * * * *
18928960 ATGATTGAACTTGGTTTCCACAATTGTTATGTGTGAAAACGGTATCATTTATGTCT-TTTAGGAC
1 ATGATTGAACTTAGTTTTCACGGTTGATATGTGTGAAAAAGTTATCGTTTATATCTATTTA-GAC
* * * * * * *
18929024 TTTATTGTACCACT-AAAGGCAAAAATATAATTTTACAG-TTA-TATTTATATTTTAACAATTTA
65 TTT-TTGTGCTATTAAAAGGCCAAAATATAATTTTGC-GTTTATTA-TTCTATTTTAACAGTTTA
* * * * * *
18929086 GATAGCTTGAATACATGATATAAAACTTGTTCAAATGATTGAATTTGGTTT-CACGATTTGATAT
127 GATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCAC-AATTGATA-
* * * *
18929150 GTATGAATAATTTA-CGATTTATGTCTGTTTAGGACTTT
190 GTGTGAAAAAGTTATC-ATTTATGTCTTTTTAGGACTTT
18929188 TTGTAATGTT
Statistics
Matches: 715, Mismatches: 139, Indels: 35
0.80 0.16 0.04
Matches are distributed among these distances:
319 97 0.14
320 6 0.01
321 101 0.14
322 503 0.70
323 8 0.01
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (320 bp):
ATGATTGAACTTAGTTTTCACGGTTGATATGTGTGAAAAAGTTATCGTTTATATCTATTTAGACT
TTTTGTGCTATTAAAAGGCCAAAATATAATTTTGCGTTTATTATTCTATTTTAACAGTTTAGATA
GCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCACAATTGATAGTGTGA
AAAAGTTATCATTTATGTCTTTTTAGGACTTTGTTATGCCGTTAAAAAGTAAAAATGTAAATTTG
CAGTTATATTTATGTTTTAACAGTTTAGATAGATTAATACATGATATTAAACTTATTTGA
Found at i:18930523 original size:41 final size:41
Alignment explanation
Indices: 18930478--18930562 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
18930468 TTTAGTAATG
* * * **
18930478 TTTCTCGACACAAATGCCCCTAAATGATGAATTTAGTGGCA
1 TTTCTCGACACAAATACCACTAAAGGATGAATTTAACGGCA
18930519 TTTCTCGACACAAATACCACTAAAGGATGAATTTAACGGCA
1 TTTCTCGACACAAATACCACTAAAGGATGAATTTAACGGCA
18930560 TTT
1 TTT
18930563 GTGCTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (41 bp):
TTTCTCGACACAAATACCACTAAAGGATGAATTTAACGGCA
Found at i:18945370 original size:32 final size:32
Alignment explanation
Indices: 18945313--18945396 Score: 105
Period size: 32 Copynumber: 2.5 Consensus size: 32
18945303 GGTTGTTTTT
**
18945313 TTTTTTCTCTTTTTTCTCTTATTTCATTTTGCTAC
1 TTTTTT-TC-TTTTT-TCTTATTTCATTCCGCTAC
18945348 TTTTTTTCTTTTTTCTTATTTCATTCCGCTAC
1 TTTTTTTCTTTTTTCTTATTTCATTCCGCTAC
* *
18945380 TCTTTCTCTTTTTTCTT
1 TTTTTTTCTTTTTTCTT
18945397 TTCTTTCTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
32 32 0.71
33 5 0.11
34 2 0.04
35 6 0.13
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.69
Consensus pattern (32 bp):
TTTTTTTCTTTTTTCTTATTTCATTCCGCTAC
Found at i:18946769 original size:14 final size:15
Alignment explanation
Indices: 18946745--18946784 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
18946735 CTCATTTTCC
18946745 TTTTTCTTTTCTCTT
1 TTTTTCTTTTCTCTT
*
18946760 TTTTTC-TTTCTTTT
1 TTTTTCTTTTCTCTT
18946774 TTTTTCCTTTT
1 TTTTT-CTTTT
18946785 TTTTTCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 12 0.55
15 7 0.32
16 3 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTCTCTT
Found at i:18946769 original size:19 final size:18
Alignment explanation
Indices: 18946700--18946798 Score: 53
Period size: 19 Copynumber: 5.3 Consensus size: 18
18946690 TCCTTATTTG
*
18946700 TTTTTTCCTTTTTTTCTC
1 TTTTTTTCTTTTTTTCTC
* *
18946718 TTTTTTATGTTTTTATGCTC
1 TTTTTT-TCTTTTT-TTCTC
*
18946738 ATTTTCCTTT-TTCTTTTCTC
1 -TTTT--TTTCTTTTTTTCTC
18946758 TTTTTTTCTTTCTTTT-T-
1 TTTTTTTCTTT-TTTTCTC
*
18946775 TTTTCCTTT-TTTTTTCCTC
1 TTTT--TTTCTTTTTTTCTC
18946794 TTTTT
1 TTTTT
18946799 CCCTCATAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 23
0.68 0.08 0.25
Matches are distributed among these distances:
17 11 0.17
18 13 0.21
19 20 0.32
20 8 0.13
21 8 0.13
22 1 0.02
23 2 0.03
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTCTC
Found at i:18946788 original size:15 final size:14
Alignment explanation
Indices: 18946745--18946789 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
18946735 CTCATTTTCC
*
18946745 TTTTTCTTTTCTCTT
1 TTTTTCTTTT-TTTT
18946760 TTTTTCTTTCTTTTT
1 TTTTTCTTT-TTTTT
*
18946775 TTTTCCTTTTTTTT
1 TTTTTCTTTTTTTT
18946789 T
1 T
18946790 CCTCTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 20 0.74
16 1 0.04
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTTTTTT
Found at i:18946791 original size:11 final size:11
Alignment explanation
Indices: 18946739--18946798 Score: 75
Period size: 12 Copynumber: 5.1 Consensus size: 11
18946729 TTTATGCTCA
18946739 TTTTCCTTTTT
1 TTTTCCTTTTT
18946750 CTTTTCTCTTTTT
1 -TTTTC-CTTTTT
*
18946763 TTCTTTCTTTTT
1 TT-TTCCTTTTT
18946775 TTTTCCTTTTT
1 TTTTCCTTTTT
18946786 TTTTCCTCTTTT
1 TTTTCCT-TTTT
18946798 T
1 T
18946799 CCCTCATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
11 15 0.35
12 20 0.47
13 8 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCCTTTTT
Found at i:18961184 original size:47 final size:49
Alignment explanation
Indices: 18961108--18961205 Score: 146
Period size: 48 Copynumber: 2.0 Consensus size: 49
18961098 TCAAATTTTG
*
18961108 TTTCCCCTATATTTTATAAATTTTGAT-AAAATATAAAATTAAAATTTA
1 TTTCCCCTATATTTTATAAATTTTAATAAAAATATAAAATTAAAATTTA
* * *
18961156 TTTCTCCTATA-TTTATAACTTTTAATAAAAATATAAAATTAAATTTTA
1 TTTCCCCTATATTTTATAAATTTTAATAAAAATATAAAATTAAAATTTA
18961204 TT
1 TT
18961206 AAAAATAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 13 0.29
48 32 0.71
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.48
Consensus pattern (49 bp):
TTTCCCCTATATTTTATAAATTTTAATAAAAATATAAAATTAAAATTTA
Found at i:18969238 original size:6 final size:6
Alignment explanation
Indices: 18969227--18969290 Score: 55
Period size: 6 Copynumber: 10.7 Consensus size: 6
18969217 AATATTATTT
*
18969227 TAAATA TAAATA TAAA-A TTAAATA TATAA-A TATATA TATAAT- TAAATA
1 TAAATA TAAATA TAAATA -TAAATA TA-AATA TAAATA TA-AATA TAAATA
18969275 TATAAT- TAAATA TAAA
1 TA-AATA TAAATA TAAA
18969291 ATTAAAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
5 8 0.17
6 32 0.67
7 8 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAATA
Found at i:18969289 original size:10 final size:12
Alignment explanation
Indices: 18969233--18969296 Score: 92
Period size: 12 Copynumber: 5.3 Consensus size: 12
18969223 ATTTTAAATA
*
18969233 TAAATATAAAAT
1 TAAATATATAAT
*
18969245 TAAATATATAAA
1 TAAATATATAAT
*
18969257 TATATATATAAT
1 TAAATATATAAT
18969269 TAAATATATAAT
1 TAAATATATAAT
*
18969281 TAAATATAAAAT
1 TAAATATATAAT
18969293 TAAA
1 TAAA
18969297 AAAATAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAATATATAAT
Found at i:18969303 original size:24 final size:24
Alignment explanation
Indices: 18969233--18969305 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
18969223 ATTTTAAATA
*
18969233 TAAATATAAAATTAAATATATAAA
1 TAAATATAAAATTAAATATATAAT
* *
18969257 TATATATATAATTAAATATATAAT
1 TAAATATAAAATTAAATATATAAT
* *
18969281 TAAATATAAAATTAAAAAAATAAT
1 TAAATATAAAATTAAATATATAAT
18969305 T
1 T
18969306 TTTTTATATA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAATATAAAATTAAATATATAAT
Found at i:18969304 original size:36 final size:36
Alignment explanation
Indices: 18969233--18969305 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
18969223 ATTTTAAATA
* * *
18969233 TAAATATAAAATTAAATATATAAATATATATATAAT
1 TAAATATAAAATTAAATATATAAATAAAAAAATAAT
*
18969269 TAAATATATAATTAAATATA-AAATTAAAAAAATAAT
1 TAAATATAAAATTAAATATATAAA-TAAAAAAATAAT
18969305 T
1 T
18969306 TTTTTATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 3 0.09
36 29 0.91
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (36 bp):
TAAATATAAAATTAAATATATAAATAAAAAAATAAT
Found at i:18970068 original size:22 final size:22
Alignment explanation
Indices: 18970024--18970068 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18970014 GAATTAAAAT
* * *
18970024 TTTAATAAAAATTATATACATA
1 TTTAATAAAAATAAAAAACATA
*
18970046 TTTAATAAAAATAAAAAATATA
1 TTTAATAAAAATAAAAAACATA
18970068 T
1 T
18970069 ATTTTATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAATAAAAATAAAAAACATA
Found at i:18971621 original size:3 final size:3
Alignment explanation
Indices: 18971613--18971647 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18971603 CACAATTATT
18971613 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
18971648 GCATTTGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18973730 original size:2 final size:2
Alignment explanation
Indices: 18973723--18973782 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
18973713 ACTTCATTTG
18973723 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
18973765 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
18973783 AAGCTGAGCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18979755 original size:39 final size:39
Alignment explanation
Indices: 18979711--18979812 Score: 143
Period size: 39 Copynumber: 2.6 Consensus size: 39
18979701 ATCTAATTGA
* * * *
18979711 ATGTTTTGGACTTGAAAAGGAGTTGGCGGATTTGGTTGG
1 ATGTTTTGGACTTGAAAGGGAGTTAGAGGATCTGGTTGG
*
18979750 ATGTTTTGGACATGAAAGGGAGTTAGAGGATCTGGTTGG
1 ATGTTTTGGACTTGAAAGGGAGTTAGAGGATCTGGTTGG
18979789 ATGTTTTGGA-TCTGAAAGGGAGTT
1 ATGTTTTGGACT-TGAAAGGGAGTT
18979813 TGAGAAGTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.24, C:0.05, G:0.37, T:0.34
Consensus pattern (39 bp):
ATGTTTTGGACTTGAAAGGGAGTTAGAGGATCTGGTTGG
Found at i:18983714 original size:89 final size:84
Alignment explanation
Indices: 18983563--18983730 Score: 246
Period size: 89 Copynumber: 1.9 Consensus size: 84
18983553 CATTTTACTC
* *
18983563 GTTTCAGGATCAAACTTTTATTTGTTCTCAAGATCTAACCTTGAGGATATATCTAACAGAAAATG
1 GTTTCAGGATCAAACTTTTATTTGTTCTCAAGATCTAACCTTGAGGATACATCTAACAGAAAATA
*
18983628 TAGTATGATTACACGAGCT
66 TAGCATGATTACACGAGCT
* *
18983647 GTTTTAGGATCAAACTTTTTATTTGTTCCAAATCAAGATCTAACCTTGAGGGTACATCTAACAGA
1 GTTTCAGGATCAAAC-TTTTATTTGTT-C---TCAAGATCTAACCTTGAGGATACATCTAACAGA
18983712 AAATATAGCATGATTACAC
61 AAATATAGCATGATTACAC
18983731 AAGCCATTAA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
84 14 0.19
85 11 0.15
86 1 0.01
89 48 0.65
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (84 bp):
GTTTCAGGATCAAACTTTTATTTGTTCTCAAGATCTAACCTTGAGGATACATCTAACAGAAAATA
TAGCATGATTACACGAGCT
Found at i:18983754 original size:4 final size:4
Alignment explanation
Indices: 18983745--18983771 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18983735 CATTAACTCT
18983745 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
18983772 TGGATAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:18989896 original size:20 final size:20
Alignment explanation
Indices: 18989873--18990018 Score: 65
Period size: 20 Copynumber: 7.4 Consensus size: 20
18989863 AAACTTTTAT
*
18989873 CGAATCTTTGATTTCTTTTG
1 CGAATCTTTGAATTCTTTTG
18989893 CGAAT-TTTGGAATTCTTTTG
1 CGAATCTTT-GAATTCTTTTG
* **
18989913 TGAA-CTTTGAAACCTTTTTG
1 CGAATCTTTGAATTC-TTTTG
*
18989933 CAAATC-TT--ATATCTTTTG
1 CGAATCTTTGAAT-TCTTTTG
* *
18989951 CAAAT-TTTGGAATTCTTTTA
1 CGAATCTTT-GAATTCTTTTG
* * *
18989971 TGAATC-TAGAACTT-TTTTA
1 CGAATCTTTGAA-TTCTTTTG
* *
18989990 TGAATCTTTGGAACTCTTTTG
1 CGAATCTTT-GAATTCTTTTG
*
18990011 CTAATCTT
1 CGAATCTT
18990019 GAAACTCTTT
Statistics
Matches: 95, Mismatches: 17, Indels: 27
0.68 0.12 0.19
Matches are distributed among these distances:
18 13 0.14
19 22 0.23
20 44 0.46
21 16 0.17
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.49
Consensus pattern (20 bp):
CGAATCTTTGAATTCTTTTG
Found at i:18990017 original size:40 final size:41
Alignment explanation
Indices: 18989956--18990035 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 41
18989946 TTTTGCAAAT
* *
18989956 TTTGGAATTCTTTTATGAATCTAG-AACTTTTTTATGAATC
1 TTTGGAACTCTTTTATGAATCTAGAAACTCTTTTATGAATC
* * *
18989996 TTTGGAACTCTTTTGCT-AATCTTGAAACTCTTTTGTGAAT
1 TTTGGAACTCTTTT-ATGAATCTAGAAACTCTTTTATGAAT
18990036 ATTAGACTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
40 19 0.58
41 14 0.42
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (41 bp):
TTTGGAACTCTTTTATGAATCTAGAAACTCTTTTATGAATC
Found at i:18990028 original size:60 final size:58
Alignment explanation
Indices: 18989944--18990088 Score: 140
Period size: 60 Copynumber: 2.6 Consensus size: 58
18989934 AAATCTTATA
* * *
18989944 TCTTTTGCAAATTTTGGAATTCTTTTATGAAT-CTAGAACTTTTTTATGAATCTTTGGAAC
1 TCTTTTGCAAATCTTGAAACTCTTTTATGAATACTAG-AC--TTTTATGAATCTTTGGAAC
* * * *
18990004 TCTTTTGCTAATCTTGAAACTCTTTTGTGAATATTAGACTTTTATGAATCTTT--AAA
1 TCTTTTGCAAATCTTGAAACTCTTTTATGAATACTAGACTTTTATGAATCTTTGGAAC
* *
18990060 T-TTTTGTAAATCTTTAAACT-TTTT-TGAAT
1 TCTTTTGCAAATCTTGAAACTCTTTTATGAAT
18990089 CTTCCAACTC
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
53 5 0.07
54 4 0.05
55 16 0.22
56 3 0.04
58 14 0.19
60 29 0.39
61 3 0.04
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (58 bp):
TCTTTTGCAAATCTTGAAACTCTTTTATGAATACTAGACTTTTATGAATCTTTGGAAC
Found at i:18990089 original size:18 final size:19
Alignment explanation
Indices: 18989984--18990091 Score: 82
Period size: 18 Copynumber: 5.7 Consensus size: 19
18989974 ATCTAGAACT
* *
18989984 TTTTTATGAATCTTTGGAAC
1 TTTTTGTGAATCTTT-AAAC
*
18990004 TCTTTTGCT-AATCTTGAAAC
1 T-TTTTG-TGAATCTTTAAAC
* *
18990024 TCTTTTGTGAAT-ATTAGAC
1 T-TTTTGTGAATCTTTAAAC
*
18990043 -TTTTATGAATCTTTAAA-
1 TTTTTGTGAATCTTTAAAC
*
18990060 TTTTTGTAAATCTTTAAAC
1 TTTTTGTGAATCTTTAAAC
18990079 TTTTT-TGAATCTT
1 TTTTTGTGAATCTT
18990092 CCAACTCTTG
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
17 9 0.13
18 26 0.37
19 10 0.14
20 14 0.20
21 10 0.14
22 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.52
Consensus pattern (19 bp):
TTTTTGTGAATCTTTAAAC
Found at i:18990273 original size:20 final size:20
Alignment explanation
Indices: 18990219--18990273 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
18990209 ACTTGCTAAT
*
18990219 CTTTAAATTTATTT-ATGAA
1 CTTTTAATTTATTTGATGAA
*
18990238 CTTTTAATTAATTTTGA-GAA
1 CTTTTAATTTA-TTTGATGAA
18990258 CTTTTGAATTTATTTG
1 CTTTT-AATTTATTTG
18990274 CGAGTCTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 9 0.30
20 15 0.50
21 6 0.20
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (20 bp):
CTTTTAATTTATTTGATGAA
Found at i:18990933 original size:2 final size:2
Alignment explanation
Indices: 18990926--18990952 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18990916 TATTTGTAAG
18990926 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18990953 CATGTAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18991081 original size:6 final size:6
Alignment explanation
Indices: 18991070--18991104 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
18991060 AAAATAACAA
*
18991070 AATAGT AATAGT AACAGT AATAGT AATAGT AATAG
1 AATAGT AATAGT AATAGT AATAGT AATAGT AATAG
18991105 AAAAAAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (6 bp):
AATAGT
Found at i:18992941 original size:28 final size:26
Alignment explanation
Indices: 18992894--18992945 Score: 61
Period size: 27 Copynumber: 1.9 Consensus size: 26
18992884 CAATAAATAT
18992894 AGAAATTAAAGTAAAAATTAGAATAAA
1 AGAAATTAAAGTAAAAATTA-AATAAA
*
18992921 AGAAGATTAAA-TAAATGATTAAATA
1 AGAA-ATTAAAGTAAA-AATTAAATA
18992946 TTTGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (26 bp):
AGAAATTAAAGTAAAAATTAAATAAA
Found at i:19018301 original size:59 final size:60
Alignment explanation
Indices: 19018202--19018423 Score: 308
Period size: 59 Copynumber: 3.7 Consensus size: 60
19018192 CTTGTGCAGA
* *
19018202 GAAATTTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAA-TTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAACTTTATTTTCAAG
* *
19018260 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTTAGAAAACTTTGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTT-GGAAACTTT-ATTTTCAAG
* * *
19018323 AAAAATTGATACTTTCAACTTTTCCTC-AAAA-ATTTTTTTTGGAAACTTTTATTTTCAAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAAC-TTTATTTTCAAG
*
19018382 GAAAATTGATACTTTCAACTTTTCCCCTAAAATATTTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
19018424 TATTTTTATT
Statistics
Matches: 145, Mismatches: 11, Indels: 13
0.86 0.07 0.08
Matches are distributed among these distances:
58 32 0.22
59 38 0.26
60 22 0.15
61 14 0.10
62 7 0.05
63 32 0.22
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.46
Consensus pattern (60 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAACTTTATTTTCAAG
Found at i:19018396 original size:122 final size:121
Alignment explanation
Indices: 19018207--19018425 Score: 368
Period size: 122 Copynumber: 1.8 Consensus size: 121
19018197 GCAGAGAAAT
* *
19018207 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTAAGGAAAATTGATAC
1 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTCAAAGAAAATTGATAC
*
19018272 TTTCAACTTTTTCCCAAAAATATTTTTTTTTAGAAAACTTTGATTTTCAAGAAAAA
66 TTTCAACTTTTCCCCAAAAATATTTTTTTTTAGAAAACTTTGATTTTCAAGAAAAA
*
19018328 TTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGGAAACTTTTATTTTCAAAGAAAATTGAT
1 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAA--TTTATTTTCAAAGAAAATTGAT
*
19018392 ACTTTCAACTTTTCCCCTAAAATATTTTTTTTTA
64 ACTTTCAACTTTTCCCCAAAAATATTTTTTTTTA
19018426 TTTTTATTTA
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
120 12 0.13
121 27 0.30
122 52 0.57
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (121 bp):
TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTCAAAGAAAATTGATAC
TTTCAACTTTTCCCCAAAAATATTTTTTTTTAGAAAACTTTGATTTTCAAGAAAAA
Found at i:19018581 original size:10 final size:10
Alignment explanation
Indices: 19018550--19018588 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
19018540 AACATAATCT
*
19018550 AATAAATAGA
1 AATAAATAAA
*
19018560 AAGAAA-AAA
1 AATAAATAAA
19018569 AATAAATAAA
1 AATAAATAAA
19018579 AATAAATAAA
1 AATAAATAAA
19018589 TAACCTGGCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (10 bp):
AATAAATAAA
Done.