Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 37 of 106
Found at i:6931020 original size:15 final size:15
Alignment explanation
Indices: 6930989--6931017 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6930979 AAAATAATAT
6930989 TATTATATTATTTAA
1 TATTATATTATTTAA
6931004 TATTA-ATTATTTAA
1 TATTATATTATTTAA
6931018 ATAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTATATTATTTAA
Found at i:6931022 original size:18 final size:18
Alignment explanation
Indices: 6930980--6931023 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6930970 CTTATTTAGA
6930980 AAATAATATTATTATATT
1 AAATAATATTATTATATT
**
6930998 ATTTAATATTAATTAT-TT
1 AAATAATATT-ATTATATT
6931016 AAATAATA
1 AAATAATA
6931024 AATATTATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATAATATTATTATATT
Found at i:6931028 original size:40 final size:40
Alignment explanation
Indices: 6930971--6931064 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
6930961 AAAAATATTC
* *
6930971 TTATTTAGAA-AAT-AATATTATTATATTAT-TTAATATTAA
1 TTATTTA-AATAATAAATATTATCATA-TATGCTAATATTAA
* *
6931010 TTATTTAAATAATAAATATTATCATATATGCTATTATTTA
1 TTATTTAAATAATAAATATTATCATATATGCTAATATTAA
*
6931050 TTATTAAAATAATAA
1 TTATTTAAATAATAA
6931065 TATAATACTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.04
39 13 0.28
40 32 0.68
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (40 bp):
TTATTTAAATAATAAATATTATCATATATGCTAATATTAA
Found at i:6931518 original size:23 final size:23
Alignment explanation
Indices: 6931473--6931520 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
6931463 AGAAAAATTA
6931473 TAAAAATATTTAATATTGAAATAT
1 TAAAAATATTTAATATT-AAATAT
*
6931497 TAAAAGATTTTTAATATT-AATAT
1 TAAAA-ATATTTAATATTAAATAT
6931520 T
1 T
6931521 TTAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 5 0.23
25 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
TAAAAATATTTAATATTAAATAT
Found at i:6932879 original size:14 final size:14
Alignment explanation
Indices: 6932862--6932909 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
6932852 AACCTTAAAT
6932862 CTAAACTCCAAACA
1 CTAAACTCCAAACA
*
6932876 CTAAAC-CTCAAACC
1 CTAAACTC-CAAACA
6932890 CTAAACTCCAAACA
1 CTAAACTCCAAACA
6932904 CTAAAC
1 CTAAAC
6932910 CTCAAACCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 1 0.03
14 28 0.93
15 1 0.03
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.15
Consensus pattern (14 bp):
CTAAACTCCAAACA
Found at i:6932895 original size:28 final size:28
Alignment explanation
Indices: 6932862--6932917 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
6932852 AACCTTAAAT
6932862 CTAAACTCCAAACACTAAACCTCAAACC
1 CTAAACTCCAAACACTAAACCTCAAACC
6932890 CTAAACTCCAAACACTAAACCTCAAACC
1 CTAAACTCCAAACACTAAACCTCAAACC
6932918 TAACTCAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.14
Consensus pattern (28 bp):
CTAAACTCCAAACACTAAACCTCAAACC
Found at i:6932915 original size:14 final size:14
Alignment explanation
Indices: 6932870--6932920 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
6932860 ATCTAAACTC
6932870 CAAACACTAAACCT
1 CAAACACTAAACCT
*
6932884 CAAACCCTAAA-CT
1 CAAACACTAAACCT
6932897 CCAAACACTAAACCT
1 -CAAACACTAAACCT
6932912 CAAAC-CTAA
1 CAAACACTAA
6932921 CTCAACACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 6 0.18
14 25 0.76
15 2 0.06
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (14 bp):
CAAACACTAAACCT
Found at i:6948535 original size:104 final size:103
Alignment explanation
Indices: 6948300--6948772 Score: 328
Period size: 104 Copynumber: 4.5 Consensus size: 103
6948290 CTTGACCTGA
* * * * *
6948300 GGCTTTATCTCAGTCATCTTTATTTTCTGACTTACAATTTCATCTCTATCATCTTTATTTTCTCA
1 GGCTTCATC-CAGTCATCTTTATTTT-TGACTTTCAGTTTCATCTCGATCATCTTTATTTTCTTA
* * *
6948365 ATTTATAGCTTTGTCCTGGTTGTATTTATTTCTCGA-TTGT
64 ATTTGTAGCTTTGT-CTCGTCGTATTTATTTCTCGACTTGT
* * * * * * *
6948405 GGCTTCATCTAGGTCATCCTTGTTTTTTACTTTCAGTTTCGTTTCGATCATCTTTATTTTCTTGA
1 GGCTTCATCCA-GTCATCTTTATTTTTGACTTTCAGTTTCATCTCGATCATCTTTATTTTCTTAA
* *
6948470 TTTGTGGCTTTGTCTCAGTCGTATTTATTTCTTGACTTGT
65 TTTGTAGCTTTGTCTC-GTCGTATTTATTTCTCGACTTGT
* * * * *
6948510 GGCTCCATCCAGTTATCTTTATTTTTGACTTGC-GACTTCATCACGATCATCTTTATTTT-TTAA
1 GGCTTCATCCAGTCATCTTTATTTTTGACTTTCAG-TTTCATCTCGATCATCTTTATTTTCTTAA
* * * **
6948573 CTTGTAGCTTCGTCTCGATCATCCTTATTTTCTCGACTTGT
65 TTTGTAGCTTTGTCTCG-TCGTATTTA-TTTCTCGACTTGT
* ** * * *
6948614 GACTTCATCCAAGTCATCTTTATACTTAACTTGT-AGTTTCGTCT-GAATCATCTTTATTTTTTT
1 GGCTTCATCC-AGTCATCTTTATTTTTGACTT-TCAGTTTCATCTCG-ATCATCTTTATTTTCTT
* ** * ** * * *
6948677 GATTTACAGCTTCGTACTTATTGTATTTATTTCTCGATTTAT
63 AATTTGTAGCTTTGT-CTCGTCGTATTTATTTCTCGACTTGT
* * * * * *
6948719 GGTTTCATCCTGGTTATCCTTATTTTCTCGACTAGT-AGTTTCATCCCGATCATC
1 GGCTTCATCC-AGTCATCTTTATTTT-T-GACT-TTCAGTTTCATCTCGATCATC
6948773 CTTGTTCTGA
Statistics
Matches: 282, Mismatches: 70, Indels: 30
0.74 0.18 0.08
Matches are distributed among these distances:
102 1 0.00
103 25 0.09
104 117 0.41
105 98 0.35
106 20 0.07
107 20 0.07
108 1 0.00
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.50
Consensus pattern (103 bp):
GGCTTCATCCAGTCATCTTTATTTTTGACTTTCAGTTTCATCTCGATCATCTTTATTTTCTTAAT
TTGTAGCTTTGTCTCGTCGTATTTATTTCTCGACTTGT
Found at i:6948631 original size:36 final size:35
Alignment explanation
Indices: 6948452--6948636 Score: 121
Period size: 35 Copynumber: 5.3 Consensus size: 35
6948442 TTCGTTTCGA
* * **
6948452 TCATCTTTATTTTCTTGATTTGTGGCTTTGTCTC-AG
1 TCATCTTTATTTT-TTGACTTGTGACTTCATC-CAAG
* * * * *
6948488 TCGTATTTATTTCTTGACTTGTGGCTCCATCC-AG
1 TCATCTTTATTTTTTGACTTGTGACTTCATCCAAG
* * *
6948522 TTATCTTTA-TTTTTGACTTGCGACTTCAT-CACG
1 TCATCTTTATTTTTTGACTTGTGACTTCATCCAAG
* * *
6948555 ATCATCTTTATTTTTTAACTTGT-AGCTTCGTCTCGA-
1 -TCATCTTTATTTTTTGACTTGTGA-CTTCATC-CAAG
* *
6948591 TCATCCTTATTTTCTCGACTTGTGACTTCATCCAAG
1 TCATCTTTATTTT-TTGACTTGTGACTTCATCCAAG
6948627 TCATCTTTAT
1 TCATCTTTAT
6948637 ACTTAACTTG
Statistics
Matches: 113, Mismatches: 27, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
32 1 0.01
33 17 0.15
34 18 0.16
35 43 0.38
36 32 0.28
37 2 0.02
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.49
Consensus pattern (35 bp):
TCATCTTTATTTTTTGACTTGTGACTTCATCCAAG
Found at i:6948671 original size:70 final size:69
Alignment explanation
Indices: 6948524--6948674 Score: 191
Period size: 70 Copynumber: 2.2 Consensus size: 69
6948514 CCATCCAGTT
* **
6948524 ATCTTTATTTTTGACTTGCGACTTCATCACGATCATCTTTATTTTTTAACTTGTAGCTTCGTCTC
1 ATCTTTATTTTTGACTTGCGACTTCATCAAGATCATCTTTATTACTTAACTTGTAGCTTCGTCTC
6948589 GATC
66 GATC
* * *
6948593 ATCCTTATTTTCTCGACTTGTGACTTCATCCAAG-TCATCTTTA-TACTTAACTTGTAGTTTCGT
1 ATCTTTATTTT-T-GACTTGCGACTTCAT-CAAGATCATCTTTATTACTTAACTTGTAGCTTCGT
6948656 CT-GAATC
63 CTCG-ATC
6948663 ATCTTTATTTTT
1 ATCTTTATTTTT
6948675 TTGATTTACA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
69 12 0.17
70 33 0.46
71 23 0.32
72 3 0.04
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (69 bp):
ATCTTTATTTTTGACTTGCGACTTCATCAAGATCATCTTTATTACTTAACTTGTAGCTTCGTCTC
GATC
Found at i:6949019 original size:1 final size:1
Alignment explanation
Indices: 6949013--6949100 Score: 59
Period size: 1 Copynumber: 88.0 Consensus size: 1
6949003 CAACACTAAT
* * * * * * * * * * *
6949013 AAAAAAAATAAAAACAAAACAAAACAACAAAAAAAAACAAAAACAAAAACAAAACAAAACAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
6949078 AAAAAAAAACAAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
6949101 GAAGGGAGAA
Statistics
Matches: 61, Mismatches: 26, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:6949031 original size:5 final size:5
Alignment explanation
Indices: 6949023--6949091 Score: 79
Period size: 5 Copynumber: 13.8 Consensus size: 5
6949013 AAAAAAAATA
*
6949023 AAAAC AAAAC AAAAC --AAC AAAAA AAAAC AAAAAC AAAAAC AAAAC AAAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC -AAAAC -AAAAC AAAAC AAAAC
* *
6949073 AAAAT AAAAA AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAA
6949092 AAATAAAAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
3 3 0.05
5 42 0.75
6 11 0.20
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.01
Consensus pattern (5 bp):
AAAAC
Found at i:6949061 original size:35 final size:36
Alignment explanation
Indices: 6949016--6949092 Score: 120
Period size: 35 Copynumber: 2.1 Consensus size: 36
6949006 CACTAATAAA
*
6949016 AAAAATAAAAACAAAACAAAAC-AACAAAAAAAAAC
1 AAAAACAAAAACAAAACAAAACAAACAAAAAAAAAC
*
6949051 AAAAACAAAAACAAAACAAAACAAAATAAAAAAAAAC
1 AAAAACAAAAACAAAACAAAAC-AAACAAAAAAAAAC
6949088 AAAAA
1 AAAAA
6949093 AATAAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 21 0.55
37 17 0.45
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (36 bp):
AAAAACAAAAACAAAACAAAACAAACAAAAAAAAAC
Found at i:6949067 original size:40 final size:39
Alignment explanation
Indices: 6949023--6949100 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
6949013 AAAAAAAATA
6949023 AAAACAAAACAAAACAACAAAAAAA-AACAAAAACAAAAAC
1 AAAACAAAACAAAACAA-AAAAAAACAA-AAAAACAAAAAC
* *
6949063 AAAACAAAACAAAATAAAAAAAAACAAAAAAATAAAAA
1 AAAACAAAACAAAACAAAAAAAAACAAAAAAACAAAAA
6949101 GAAGGGAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 17 0.49
40 18 0.51
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.03
Consensus pattern (39 bp):
AAAACAAAACAAAACAAAAAAAAACAAAAAAACAAAAAC
Found at i:6949092 original size:10 final size:10
Alignment explanation
Indices: 6949013--6949094 Score: 87
Period size: 10 Copynumber: 8.3 Consensus size: 10
6949003 CAACACTAAT
*
6949013 AAAAA-AAAT
1 AAAAACAAAA
6949022 AAAAACAAAA
1 AAAAACAAAA
* *
6949032 CAAAACAACA
1 AAAAACAAAA
*
6949042 AAAAA-AAAC
1 AAAAACAAAA
6949051 AAAAACAAAA
1 AAAAACAAAA
6949061 ACAAAACAAAA
1 A-AAAACAAAA
* *
6949072 CAAAATAAAA
1 AAAAACAAAA
6949082 AAAAACAAAA
1 AAAAACAAAA
6949092 AAA
1 AAA
6949095 TAAAAAGAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
9 12 0.20
10 38 0.64
11 9 0.15
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.02
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:6952676 original size:90 final size:90
Alignment explanation
Indices: 6952564--6952742 Score: 295
Period size: 90 Copynumber: 2.0 Consensus size: 90
6952554 TCATGGGGAA
*
6952564 AAGATAGAAAGTAAAAGCTAAGCCACTATTCCAGGCCCCACCATCCATTTTTATTTGGCTTTAAG
1 AAGATAGAAAGTAAAAGCTAAGCCACTATTCCAGGCCCCACAATCCATTTTTATTTGGCTTTAAG
6952629 CTTGATATAGGCTAACAATAGATAG
66 CTTGATATAGGCTAACAATAGATAG
* * *
6952654 AAGATAGAAAGTAAAAGTTAAGCCATTATTCCATGCCCCACAATCCATTTTTATTTGGCTTTAAG
1 AAGATAGAAAGTAAAAGCTAAGCCACTATTCCAGGCCCCACAATCCATTTTTATTTGGCTTTAAG
* * *
6952719 CTTGATATATGCTGACAATGGATA
66 CTTGATATAGGCTAACAATAGATA
6952743 ATTGGTTTGA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (90 bp):
AAGATAGAAAGTAAAAGCTAAGCCACTATTCCAGGCCCCACAATCCATTTTTATTTGGCTTTAAG
CTTGATATAGGCTAACAATAGATAG
Found at i:6952998 original size:3 final size:3
Alignment explanation
Indices: 6952983--6953015 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
6952973 AAGAAAAAAT
*
6952983 TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6953016 CACAAATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:6955039 original size:14 final size:13
Alignment explanation
Indices: 6955017--6955072 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 13
6955007 TACCTATTAA
6955017 TTTTAT-TATTTT
1 TTTTATATATTTT
*
6955029 TTATTATTTATTTAT
1 TT-TTATATATTT-T
*
6955044 TTTTAGTATCTTTTT
1 TTTTA-TAT-ATTTT
6955059 TTTTATATATTTT
1 TTTTATATATTTT
6955072 T
1 T
6955073 AATATTCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
12 2 0.06
13 9 0.25
14 11 0.31
15 11 0.31
16 3 0.08
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTATATATTTT
Found at i:6957296 original size:30 final size:30
Alignment explanation
Indices: 6957261--6957326 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
6957251 CTTAAAAAAA
*
6957261 AAAAAAAGAAGAAAAAAG-AAATGGAAAAATG
1 AAAAAAA-TAGAAAAAAGAAAAT-GAAAAATG
*
6957292 AAAAAAATGGAAAAAAGAAAATGAAAAATG
1 AAAAAAATAGAAAAAAGAAAATGAAAAATG
6957322 AAAAA
1 AAAAA
6957327 TTTTGCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.08
Consensus pattern (30 bp):
AAAAAAATAGAAAAAAGAAAATGAAAAATG
Found at i:6957301 original size:17 final size:18
Alignment explanation
Indices: 6957274--6957317 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
6957264 AAAAGAAGAA
*
6957274 AAAAGAAATGGAAAAATG
1 AAAAGAAATGGAAAAAAG
6957292 AAAA-AAATGGAAAAAAG
1 AAAAGAAATGGAAAAAAG
6957309 AAAATGAAA
1 AAAA-GAAA
6957318 AATGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 16 0.70
18 4 0.17
19 3 0.13
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (18 bp):
AAAAGAAATGGAAAAAAG
Found at i:6957319 original size:13 final size:14
Alignment explanation
Indices: 6957271--6957325 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
6957261 AAAAAAAGAA
6957271 GAAAAAAG-AAATG
1 GAAAAAAGAAAATG
*
6957284 GAAAAATGAAAAAAATG
1 G-AAAA--AAGAAAATG
6957301 GAAAAAAGAAAAT-
1 GAAAAAAGAAAATG
*
6957314 GAAAAATGAAAA
1 GAAAAAAGAAAA
6957326 ATTTTGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 12 0.34
14 11 0.31
16 6 0.17
17 6 0.17
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (14 bp):
GAAAAAAGAAAATG
Found at i:6957413 original size:25 final size:25
Alignment explanation
Indices: 6957352--6957607 Score: 284
Period size: 25 Copynumber: 10.2 Consensus size: 25
6957342 GAGTGTTTTA
*
6957352 CATTTCTTGCATATTTTAA-T-TGT
1 CATTTCATGCATATTTTAATTATGT
*
6957375 TATTTCATGCATATTTTAATTATGT
1 CATTTCATGCATATTTTAATTATGT
* * * * *
6957400 AATTTCATGTATATTGTAAATATGA
1 CATTTCATGCATATTTTAATTATGT
* * *
6957425 CATTTCATGGATATTTTAAATGTGT
1 CATTTCATGCATATTTTAATTATGT
6957450 CATTTCATGCATATTTGTAATTATGT
1 CATTTCATGCATATTT-TAATTATGT
* *
6957476 CATTTCATGCATATTGTAGA-TATGA
1 CATTTCATGCATATTTTA-ATTATGT
* *
6957501 CATTTCATGCAAATTTTTAATTATAT
1 CATTTCATGCATA-TTTTAATTATGT
* * *
6957527 CATTTCATGCATATTGTAAATATGA
1 CATTTCATGCATATTTTAATTATGT
* *
6957552 CATTTCATGCAAATTTTTAATTATAT
1 CATTTCATGCATA-TTTTAATTATGT
6957578 CATTTCATGCATATTTTAATTATGT
1 CATTTCATGCATATTTTAATTATGT
6957603 CATTT
1 CATTT
6957608 ATTATATATT
Statistics
Matches: 193, Mismatches: 33, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
23 17 0.09
24 1 0.01
25 113 0.59
26 62 0.32
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.49
Consensus pattern (25 bp):
CATTTCATGCATATTTTAATTATGT
Found at i:6957483 original size:76 final size:76
Alignment explanation
Indices: 6957351--6957607 Score: 308
Period size: 76 Copynumber: 3.4 Consensus size: 76
6957341 TGAGTGTTTT
* * * *
6957351 ACATTTCTTGCATATTTT-AAT-TGTTATTTCATGCATATTT-TAATTATGTAATTTCATGTATA
1 ACATTTCATGCATATTTTAAATATGTCATTTCATGCATATTTGTAATTATGTCATTTCATGCATA
6957413 TTGTAAATATG
66 TTGTAAATATG
* *
6957424 ACATTTCATGGATATTTTAAATGTGTCATTTCATGCATATTTGTAATTATGTCATTTCATGCATA
1 ACATTTCATGCATATTTTAAATATGTCATTTCATGCATATTTGTAATTATGTCATTTCATGCATA
*
6957489 TTGTAGATATG
66 TTGTAAATATG
* * * * * *
6957500 ACATTTCATGCAAATTTTTAATTATATCATTTCATGCATA-TTGTAAATATGACATTTCATGCAA
1 ACATTTCATGCATA-TTTTAAATATGTCATTTCATGCATATTTGTAATTATGTCATTTCATGCAT
* *
6957564 ATTTTTAATTAT-
65 A-TTGTAAATATG
*
6957576 ATCATTTCATGCATATTTTAATTATGTCATTT
1 A-CATTTCATGCATATTTTAAATATGTCATTT
6957608 ATTATATATT
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
73 16 0.10
74 3 0.02
75 18 0.11
76 81 0.51
77 41 0.26
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.49
Consensus pattern (76 bp):
ACATTTCATGCATATTTTAAATATGTCATTTCATGCATATTTGTAATTATGTCATTTCATGCATA
TTGTAAATATG
Found at i:6957490 original size:51 final size:51
Alignment explanation
Indices: 6957352--6957607 Score: 295
Period size: 51 Copynumber: 5.1 Consensus size: 51
6957342 GAGTGTTTTA
* * *
6957352 CATTTCTTGCATATTT-TAA-T-TGTTATTTCATGCATATTTTAATTATGT
1 CATTTCATGCATATTTGTAATTATGTCATTTCATGCATATTTTAAATATGT
* * * * * *
6957400 AATTTCATGTATA-TTGTAAATATGACATTTCATGGATATTTTAAATGTGT
1 CATTTCATGCATATTTGTAATTATGTCATTTCATGCATATTTTAAATATGT
* * *
6957450 CATTTCATGCATATTTGTAATTATGTCATTTCATGCATATTGTAGATATGA
1 CATTTCATGCATATTTGTAATTATGTCATTTCATGCATATTTTAAATATGT
* * * * *
6957501 CATTTCATGCAAATTTTTAATTATATCATTTCATGCATATTGTAAATATGA
1 CATTTCATGCATATTTGTAATTATGTCATTTCATGCATATTTTAAATATGT
* * * *
6957552 CATTTCATGCAAATTTTTAATTATATCATTTCATGCATATTTTAATTATGT
1 CATTTCATGCATATTTGTAATTATGTCATTTCATGCATATTTTAAATATGT
6957603 CATTT
1 CATTT
6957608 ATTATATATT
Statistics
Matches: 180, Mismatches: 24, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
47 2 0.01
48 13 0.07
49 1 0.01
50 34 0.19
51 130 0.72
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.49
Consensus pattern (51 bp):
CATTTCATGCATATTTGTAATTATGTCATTTCATGCATATTTTAAATATGT
Found at i:6960151 original size:219 final size:219
Alignment explanation
Indices: 6959772--6960209 Score: 840
Period size: 219 Copynumber: 2.0 Consensus size: 219
6959762 TAGCACTATT
*
6959772 AGTTGAGTTTAATGTAAAGGAGTGGCCTAGGAATCTTTCAAAGGAATAGTGGATGGTTTTCTTCC
1 AGTTGAGTTCAATGTAAAGGAGTGGCCTAGGAATCTTTCAAAGGAATAGTGGATGGTTTTCTTCC
6959837 AAAGCTTGGAAAGAGAAAGAGTGACCTAGAAAGTATTGTGGATGCCTTGATTTTTTATTCTATAC
66 AAAGCTTGGAAAGAGAAAGAGTGACCTAGAAAGTATTGTGGATGCCTTGATTTTTTATTCTATAC
*
6959902 AATTGTGGAGATTAGTTGTGAGTTTCATTGCCTAGTATTTAAGGAGTTATTAATTATGCACCATT
131 AATTGTGGAGATCAGTTGTGAGTTTCATTGCCTAGTATTTAAGGAGTTATTAATTATGCACCATT
6959967 GATGGTCAGATGATAGTATAGATC
196 GATGGTCAGATGATAGTATAGATC
6959991 AGTTGAGTTCAATGTAAAGGAGTGGCCTAGGAATCTTTCAAAGGAATAGTGGATGGTTTTCTTCC
1 AGTTGAGTTCAATGTAAAGGAGTGGCCTAGGAATCTTTCAAAGGAATAGTGGATGGTTTTCTTCC
6960056 AAAGCTTGGAAAGAGAAAGAGTGACCTAGAAAGTATTGTGGATGCCTTGATTTTTTATTCTATAC
66 AAAGCTTGGAAAGAGAAAGAGTGACCTAGAAAGTATTGTGGATGCCTTGATTTTTTATTCTATAC
* *
6960121 AGTTGTGGAGATCAGTTGTGAGTTTCATTGCCTAGTATTTAGGGAGTTATTAATTATGCACCATT
131 AATTGTGGAGATCAGTTGTGAGTTTCATTGCCTAGTATTTAAGGAGTTATTAATTATGCACCATT
6960186 GATGGTCAGATGATAGTATAGATC
196 GATGGTCAGATGATAGTATAGATC
6960210 CCAGCAATTT
Statistics
Matches: 215, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
219 215 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.35
Consensus pattern (219 bp):
AGTTGAGTTCAATGTAAAGGAGTGGCCTAGGAATCTTTCAAAGGAATAGTGGATGGTTTTCTTCC
AAAGCTTGGAAAGAGAAAGAGTGACCTAGAAAGTATTGTGGATGCCTTGATTTTTTATTCTATAC
AATTGTGGAGATCAGTTGTGAGTTTCATTGCCTAGTATTTAAGGAGTTATTAATTATGCACCATT
GATGGTCAGATGATAGTATAGATC
Found at i:6964312 original size:14 final size:14
Alignment explanation
Indices: 6964277--6964315 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
6964267 GGGGGTATGC
*
6964277 AAAAAAAAAAAAAG
1 AAAAAAAGAAAAAG
* *
6964291 CAAAAAAGAAGAAG
1 AAAAAAAGAAAAAG
6964305 AAAAAAAGAAA
1 AAAAAAAGAAA
6964316 CAAATGGAAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:6964783 original size:20 final size:19
Alignment explanation
Indices: 6964758--6964823 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 19
6964748 AAAGAAAAAG
6964758 GAAAAAATAAGTGAAAGAAT
1 GAAAAAA-AAGTGAAAGAAT
6964778 G--AAAAAAG-GAAAGGAAAT
1 GAAAAAAAAGTGAAA-G-AAT
* *
6964796 GAAAAAAAAAATGAATGAAT
1 G-AAAAAAAAGTGAAAGAAT
6964816 GAAAAAAA
1 GAAAAAAA
6964824 GAAATGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
16 4 0.11
17 4 0.11
18 8 0.21
19 7 0.18
20 5 0.13
21 7 0.18
22 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.11
Consensus pattern (19 bp):
GAAAAAAAAGTGAAAGAAT
Found at i:6964804 original size:22 final size:22
Alignment explanation
Indices: 6964779--6964844 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
6964769 TGAAAGAATG
* *
6964779 AAAAAAGGAAAGGAAATGAAAA
1 AAAAAATGAAATGAAATGAAAA
6964801 AAAAAATG-AATG-AATGAAAA
1 AAAAAATGAAATGAAATGAAAA
6964821 AAAGAAATGAAATGAAA-GAAAA
1 AAA-AAATGAAATGAAATGAAAA
6964843 AA
1 AA
6964845 GAATAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 11 0.28
21 8 0.21
22 18 0.46
23 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (22 bp):
AAAAAATGAAATGAAATGAAAA
Found at i:6964816 original size:38 final size:37
Alignment explanation
Indices: 6964758--6964873 Score: 121
Period size: 38 Copynumber: 3.1 Consensus size: 37
6964748 AAAGAAAAAG
* * * *
6964758 GAAAAAATAAGTGAAAGAATGAAAAAAGGAAAGGAAAT
1 GAAAAAAAAAATGAATGAATGAAAAAA-GAAAAGAAAT
*
6964796 GAAAAAAAAAATGAATGAATGAAAAAAAGAAATGAAAT
1 GAAAAAAAAAATGAATGAATG-AAAAAAGAAAAGAAAT
* *
6964834 GAAAGAAAAAA-GAATAAAAT-AAAAAAGAAAAGAAAT
1 GAAAAAAAAAATGAAT-GAATGAAAAAAGAAAAGAAAT
6964870 -AAAA
1 GAAAA
6964874 GAAATGAATG
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
35 3 0.04
36 15 0.22
37 4 0.06
38 40 0.59
39 6 0.09
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (37 bp):
GAAAAAAAAAATGAATGAATGAAAAAAGAAAAGAAAT
Found at i:6964820 original size:17 final size:18
Alignment explanation
Indices: 6964775--6964881 Score: 84
Period size: 18 Copynumber: 6.1 Consensus size: 18
6964765 TAAGTGAAAG
* *
6964775 AATGAAAAAAGGAAAGGA
1 AATGAAAAAAAGAAATGA
6964793 AATGAAAAAAA-AAATGAA
1 AATGAAAAAAAGAAATG-A
6964811 TGAATGAAAAAAAGAAATGA
1 --AATGAAAAAAAGAAATGA
*
6964831 AATGAAAGAAA-AAA-G-
1 AATGAAAAAAAGAAATGA
6964846 AAT-AAAATAAA-AAA-GA
1 AATGAAAA-AAAGAAATGA
*
6964862 AAAGAAATAAAAGAAATGA
1 AATGAAA-AAAAGAAATGA
6964881 A
1 A
6964882 TGATTGAGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.04
15 10 0.14
16 3 0.04
17 13 0.18
18 25 0.34
19 3 0.04
20 12 0.16
21 5 0.07
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (18 bp):
AATGAAAAAAAGAAATGA
Found at i:6964846 original size:21 final size:21
Alignment explanation
Indices: 6964758--6964877 Score: 78
Period size: 20 Copynumber: 6.0 Consensus size: 21
6964748 AAAGAAAAAG
* * *
6964758 GAAAAAATAAGTGAAA-GAAT
1 GAAAAAAGAAATGAAATGAAA
*
6964778 GAAAAAAGGAAAGGAAATG--A
1 GAAAAAA-GAAATGAAATGAAA
*
6964798 -AAAAAA-AAATG-AATGAAT
1 GAAAAAAGAAATGAAATGAAA
6964816 GAAAAAAAGAAATGAAATGAAA
1 G-AAAAAAGAAATGAAATGAAA
*
6964838 GAAAAAAG-AATAAAAT-AAA
1 GAAAAAAGAAATGAAATGAAA
* *
6964857 AAAGAAAAGAAAT-AAAAGAAA
1 GAA-AAAAGAAATGAAATGAAA
6964878 TGAATGATTG
Statistics
Matches: 79, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
16 4 0.05
17 4 0.05
19 11 0.14
20 28 0.35
21 24 0.30
22 8 0.10
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (21 bp):
GAAAAAAGAAATGAAATGAAA
Found at i:6964859 original size:15 final size:16
Alignment explanation
Indices: 6964829--6964873 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
6964819 AAAAAGAAAT
* *
6964829 GAAATGAAAGAAAAAA
1 GAAAAGAAATAAAAAA
*
6964845 GAATA-AAATAAAAAA
1 GAAAAGAAATAAAAAA
6964860 GAAAAGAAATAAAA
1 GAAAAGAAATAAAA
6964874 GAAATGAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (16 bp):
GAAAAGAAATAAAAAA
Found at i:6965233 original size:12 final size:12
Alignment explanation
Indices: 6965216--6965246 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6965206 GTGTGATAAT
6965216 AAAAAAAAGAAA
1 AAAAAAAAGAAA
*
6965228 AAAAAAAAGAAG
1 AAAAAAAAGAAA
6965240 AAAAAAA
1 AAAAAAA
6965247 TAATAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:6965240 original size:15 final size:14
Alignment explanation
Indices: 6965216--6965246 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
6965206 GTGTGATAAT
6965216 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
6965230 AAAAAAGAAGAAAAA
1 AAAAAA-AAGAAAAA
6965245 AA
1 AA
6965247 TAATAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAA
Found at i:6967145 original size:30 final size:30
Alignment explanation
Indices: 6967111--6967224 Score: 120
Period size: 30 Copynumber: 3.8 Consensus size: 30
6967101 AAAAGATGAC
6967111 AATTAAGCCCAGTCTAGCTAGCATAAAGAG
1 AATTAAGCCCAGTCTAGCTAGCATAAAGAG
** *
6967141 AATTAAGCTTAGTTTAGCTAGCATAAATGAG
1 AATTAAGCCCAGTCTAGCTAGCATAAA-GAG
* * * * *
6967172 AATTAAGCCTAGTCTAGCTGGTACAAGGAG
1 AATTAAGCCCAGTCTAGCTAGCATAAAGAG
* * *
6967202 AATTAAGCTCAATTTAGCTAGCA
1 AATTAAGCCCAGTCTAGCTAGCA
6967225 CAGAAAAATA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
30 44 0.65
31 24 0.35
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (30 bp):
AATTAAGCCCAGTCTAGCTAGCATAAAGAG
Found at i:6967186 original size:61 final size:61
Alignment explanation
Indices: 6967106--6967224 Score: 166
Period size: 61 Copynumber: 2.0 Consensus size: 61
6967096 TTTGAAAAAG
* * *
6967106 ATGACAATTAAGCCCAGTCTAGCTAGCATAAAGAGAATTAAGCTTAGTTTAGCTAGCATAA
1 ATGACAATTAAGCCCAGTCTAGCTAGCACAAAGAGAATTAAGCTCAATTTAGCTAGCATAA
* * * * *
6967167 ATGAGAATTAAGCCTAGTCTAGCTGGTACAAGGAGAATTAAGCTCAATTTAGCTAGCA
1 ATGACAATTAAGCCCAGTCTAGCTAGCACAAAGAGAATTAAGCTCAATTTAGCTAGCA
6967225 CAGAAAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (61 bp):
ATGACAATTAAGCCCAGTCTAGCTAGCACAAAGAGAATTAAGCTCAATTTAGCTAGCATAA
Found at i:6967251 original size:61 final size:60
Alignment explanation
Indices: 6967111--6967252 Score: 151
Period size: 61 Copynumber: 2.3 Consensus size: 60
6967101 AAAAGATGAC
* * * * * * * *
6967111 AATTAAGCCCAGTCTAGCTAGCATAAAGAGAATTAAGCTTAGTTTAGCTAGCATAAATGAG
1 AATTAAGCCCAGTCTAGCTGGTACAAGGAGAATTAAGCTCAATTTAGCTAGCACAAA-GAA
*
6967172 AATTAAGCCTAGTCTAGCTGGTACAAGGAGAATTAAGCTCAATTTAGCTAGCACAGAA-AA
1 AATTAAGCCCAGTCTAGCTGGTACAAGGAGAATTAAGCTCAATTTAGCTAGCACA-AAGAA
* *
6967232 ATATTAAGCCCATTTTAGCTG
1 A-ATTAAGCCCAGTCTAGCTG
6967253 ACATTAAGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
60 2 0.03
61 63 0.94
62 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (60 bp):
AATTAAGCCCAGTCTAGCTGGTACAAGGAGAATTAAGCTCAATTTAGCTAGCACAAAGAA
Found at i:6967331 original size:31 final size:31
Alignment explanation
Indices: 6967320--6967386 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
6967310 AGCTAGTGTT
*
6967320 AAGAAAAATTAAGTCTAAATTAGATAGTACC
1 AAGAAAAATTAAGCCTAAATTAGATAGTACC
* * *
6967351 AAGAAAAATTAAGCCCAAATTAGTTGGTACC
1 AAGAAAAATTAAGCCTAAATTAGATAGTACC
6967382 -AGAAA
1 AAGAAA
6967387 GGGATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (31 bp):
AAGAAAAATTAAGCCTAAATTAGATAGTACC
Found at i:6971863 original size:12 final size:12
Alignment explanation
Indices: 6971846--6971870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6971836 AAATTGAAAG
6971846 TATCAATTTTCC
1 TATCAATTTTCC
6971858 TATCAATTTTCC
1 TATCAATTTTCC
6971870 T
1 T
6971871 TGAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TATCAATTTTCC
Found at i:6971987 original size:114 final size:115
Alignment explanation
Indices: 6971859--6972189 Score: 346
Period size: 127 Copynumber: 2.8 Consensus size: 115
6971849 CAATTTTCCT
*
6971859 ATCAATTTTCCTTGAAAATAAAAATTTCAAGAAAGTATTTTTAGGAAAAGTTGAAAGTATCAATT
1 ATCAATTTTTCTTGAAAATAAAAATTTCAAGAAAGTATTTTTAGGAAAAGTTGAAAGTATCAATT
*
6971924 TTCTTTGAAAATAAAAATTTCAAAAAATATTTTGA-AAAAAGTTGAAAGC
66 TTCTTTGAAAATAAAAATTTCAAAAAACATTTTGAGAAAAAGTTGAAAGC
*
6971973 ATCAATTTTTCTTGAAAATAAAAATTTCAA-AAAGATATTTCTGAGGAAAAGTTGAAAGTTTGAA
1 ATCAATTTTTCTTGAAAATAAAAATTTCAAGAAAG-TATTT-TTAGGAAAAGTTGAAAG--T---
* * * * * *
6972037 AGTACCAATTTTTTTTGAAATTAAAATTTTAGAAAAAAAACATTTTGAGAAAAAGTTGGAAGT
59 A-T--CAATTTTCTTTGAAAATAAAAATTT---CAAAAAACATTTTGAGAAAAAGTTGAAAGC
* * ** *
6972100 ACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAACATTTTTGAGGAAAATTTGAAAGTATCA
1 ATCAATTTTTCTTGAAAATAAAAATT-TCAAG-AAAGTATTTTT-AGGAAAAGTTGAAAGTATCA
* *
6972165 ATTTTC-TT-AAACTAAAAACTTCAAA
63 ATTTTCTTTGAAAATAAAAATTTCAAA
6972190 TGCTTTAAGG
Statistics
Matches: 179, Mismatches: 20, Indels: 34
0.77 0.09 0.15
Matches are distributed among these distances:
113 4 0.02
114 34 0.19
115 16 0.09
116 3 0.02
117 1 0.01
119 10 0.06
120 3 0.02
121 8 0.04
123 23 0.13
124 1 0.01
126 13 0.07
127 37 0.21
128 5 0.03
129 18 0.10
130 3 0.02
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (115 bp):
ATCAATTTTTCTTGAAAATAAAAATTTCAAGAAAGTATTTTTAGGAAAAGTTGAAAGTATCAATT
TTCTTTGAAAATAAAAATTTCAAAAAACATTTTGAGAAAAAGTTGAAAGC
Found at i:6972103 original size:60 final size:61
Alignment explanation
Indices: 6972027--6972175 Score: 169
Period size: 61 Copynumber: 2.5 Consensus size: 61
6972017 GGAAAAGTTG
** * * *
6972027 AAAGTTTGAAAGTACCAATTTTT-TTTGAAATTAAAATTTTAGAAAAAAAACA-TTTTGAGAA
1 AAAG-TTGAAAGTACCAATTTTTCTTAAAAATAAAAATTAT-CAAAAAAAACATTTTTGAGAA
* * *
6972088 AAAGTTGGAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAACATTTTTGAGGA
1 AAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAAAAAAACATTTTTGAGAA
* *
6972149 AAATTTGAAAGTATCAA-TTTTCTTAAA
1 AAAGTTGAAAGTACCAATTTTTCTTAAA
6972176 CTAAAAACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
60 36 0.48
61 39 0.52
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (61 bp):
AAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAAAAAAACATTTTTGAGAA
Found at i:6976112 original size:13 final size:13
Alignment explanation
Indices: 6976094--6976169 Score: 59
Period size: 13 Copynumber: 5.8 Consensus size: 13
6976084 AATAATAGGT
6976094 AAAAGAAAGAGAA
1 AAAAGAAAGAGAA
*
6976107 AAAAGAAAGAAAA
1 AAAAGAAAGAGAA
6976120 AAAAGGAAAAAAGAGAA
1 AAAA-G---AAAGAGAA
*
6976137 AAAAAAAAG-GAA
1 AAAAGAAAGAGAA
*
6976149 AAAA-AATGA-AA
1 AAAAGAAAGAGAA
*
6976160 AAATGAAAGA
1 AAAAGAAAGA
6976170 ACAAGAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
11 8 0.16
12 11 0.22
13 20 0.39
14 1 0.02
17 11 0.22
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (13 bp):
AAAAGAAAGAGAA
Found at i:6976133 original size:30 final size:31
Alignment explanation
Indices: 6976099--6976162 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
6976089 TAGGTAAAAG
*
6976099 AAAGAGAAAAAAGAAA-GAAAAAAAAGGAAA
1 AAAGAGAAAAAAAAAAGGAAAAAAAAGGAAA
*
6976129 AAAGAGAAAAAAAAAAGGAAAAAAAATGAAA
1 AAAGAGAAAAAAAAAAGGAAAAAAAAGGAAA
6976160 AAA
1 AAA
6976163 TGAAAGAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (31 bp):
AAAGAGAAAAAAAAAAGGAAAAAAAAGGAAA
Found at i:6976193 original size:18 final size:17
Alignment explanation
Indices: 6976115--6976222 Score: 57
Period size: 17 Copynumber: 6.3 Consensus size: 17
6976105 AAAAAAGAAA
6976115 GAAAAAAAAGGAAAAAA-
1 GAAAAAAAA-GAAAAAAT
* *
6976132 G--AGAAAA-AAAAAAG
1 GAAAAAAAAGAAAAAAT
6976146 GAAAAAAAATGAAAAAAT
1 GAAAAAAAA-GAAAAAAT
*
6976164 GAAAGAACAAG-AAAAAT
1 GAAA-AAAAAGAAAAAAT
*
6976181 GAAAAATGAAAGATGAAAGAT
1 GAAAAA--AAAGA--AAAAAT
* *
6976202 GAAAATAGAGAAAAAA-
1 GAAAAAAAAGAAAAAAT
6976218 GAAAA
1 GAAAA
6976223 CTCAAATTGA
Statistics
Matches: 71, Mismatches: 9, Indels: 23
0.69 0.09 0.22
Matches are distributed among these distances:
13 6 0.08
14 1 0.01
15 5 0.07
16 12 0.17
17 15 0.21
18 14 0.20
19 8 0.11
21 10 0.14
ACGTcount: A:0.74, C:0.01, G:0.19, T:0.06
Consensus pattern (17 bp):
GAAAAAAAAGAAAAAAT
Found at i:6976200 original size:25 final size:25
Alignment explanation
Indices: 6976134--6976200 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
6976124 GGAAAAAAGA
*
6976134 GAAAAAA-AAAAG-GAAA-AAAAAT
1 GAAAAAATGAAAGAGAAAGAAAAAT
6976156 GAAAAAATGAAAGA-ACAAGAAAAAT
1 GAAAAAATGAAAGAGA-AAGAAAAAT
6976181 G-AAAAATGAAAGATGAAAGA
1 GAAAAAATGAAAGA-GAAAGA
6976201 TGAAAATAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
22 7 0.18
23 5 0.13
24 14 0.37
25 11 0.29
26 1 0.03
ACGTcount: A:0.73, C:0.01, G:0.18, T:0.07
Consensus pattern (25 bp):
GAAAAAATGAAAGAGAAAGAAAAAT
Found at i:6976220 original size:7 final size:7
Alignment explanation
Indices: 6976094--6976222 Score: 57
Period size: 7 Copynumber: 17.3 Consensus size: 7
6976084 AATAATAGGT
6976094 AAAAG-A
1 AAAAGAA
*
6976100 AAGAGAA
1 AAAAGAA
6976107 AAAAGAA
1 AAAAGAA
6976114 AGAAA-AA
1 A-AAAGAA
*
6976121 AAAGGAA
1 AAAAGAA
6976128 AAAAGAGA
1 AAAAGA-A
6976136 AAAA-AA
1 AAAAGAA
*
6976142 AAAGGAAAA
1 AAA--AGAA
6976151 AAAATGAA
1 AAAA-GAA
6976159 AAAATGAAA
1 AAAA-G-AA
6976168 GAACAAGAA
1 -AA-AAGAA
*
6976177 AAATGAA
1 AAAAGAA
*
6976184 AAATGAA
1 AAAAGAA
* *
6976191 AGATGAA
1 AAAAGAA
* *
6976198 AGATGAA
1 AAAAGAA
6976205 AATAGAGAA
1 AA-A-AGAA
6976214 AAAAGAA
1 AAAAGAA
6976221 AA
1 AA
6976223 CTCAAATTGA
Statistics
Matches: 101, Mismatches: 9, Indels: 25
0.75 0.07 0.19
Matches are distributed among these distances:
6 10 0.10
7 51 0.50
8 21 0.21
9 14 0.14
10 3 0.03
11 2 0.02
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.05
Consensus pattern (7 bp):
AAAAGAA
Found at i:6977560 original size:17 final size:16
Alignment explanation
Indices: 6977540--6977636 Score: 59
Period size: 17 Copynumber: 5.8 Consensus size: 16
6977530 AATATAAAGA
6977540 TCTTGCGAATTTGAAT
1 TCTTGCGAATTTGAAT
* *
6977556 GTCTTACGAATTTCCAAT
1 -TCTTGCGAATTT-GAAT
*
6977574 TCTTGCGAATATGAAAT
1 TCTTGCGAATTTG-AAT
* * **
6977591 TTTTGTGAATCTCCAAT
1 TCTTGCGAAT-TTGAAT
* *
6977608 TCTTGTGAATCTGAAAT
1 TCTTGCGAATTTG-AAT
*
6977625 TCTTGTGAATTT
1 TCTTGCGAATTT
6977637 TTGAATCTTG
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
17 58 0.95
18 3 0.05
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.43
Consensus pattern (16 bp):
TCTTGCGAATTTGAAT
Found at i:6977606 original size:34 final size:34
Alignment explanation
Indices: 6977540--6977634 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 34
6977530 AATATAAAGA
* ** *
6977540 TCTTGCGAATTTG-AATGTCTTACGAATTTCCAAT
1 TCTTGCGAATATGAAAT-TCTTGTGAATCTCCAAT
*
6977574 TCTTGCGAATATGAAATTTTTGTGAATCTCCAAT
1 TCTTGCGAATATGAAATTCTTGTGAATCTCCAAT
* *
6977608 TCTTGTGAATCTGAAATTCTTGTGAAT
1 TCTTGCGAATATGAAATTCTTGTGAAT
6977635 TTTTGAATCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
34 49 0.94
35 3 0.06
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (34 bp):
TCTTGCGAATATGAAATTCTTGTGAATCTCCAAT
Found at i:6978059 original size:86 final size:86
Alignment explanation
Indices: 6977868--6978651 Score: 714
Period size: 86 Copynumber: 9.3 Consensus size: 86
6977858 TCAGTTCAAC
* * * * * * *
6977868 CCAAGTTATTCATTTCAGACTTTGGTTCAATCCAAGTCATTTTATTTTCAGATTTTGGCATATG-
1 CCAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTCTATTTTTAGATTTCGACCTATGC
** *
6977932 CAGATCTTTCTTCAGCTCA-A
66 CAGATCTTTCTTTGGCTCAGT
* *
6977952 CCTAAGTTATTCATTTTAGACTTCGGTTCAATCCAGGTCATTCTATTTTTAAATTTCGACCTATG
1 CC-AAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTCTATTTTTAGATTTCGACCTATG
6978017 CCAGATCTTTCTTTGGCTCAGT
65 CCAGATCTTTCTTTGGCTCAGT
* * * * * *
6978039 CCAAGCTATTCATTTCAGACTTTGGTTCAATCTAGGTCATTCTATTTTTGGATTTCAACATATGC
1 CCAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTCTATTTTTAGATTTCGACCTATGC
* * * *
6978104 CAGATCCTCCTTCGGCTTAGT
66 CAGATCTTTCTTTGGCTCAGT
* * * ** * * *
6978125 CCAAGGTATTCATTTCAGACTTCGGTTTAGTCCAGGTCATT-TGGCTTTTAGATTTTGATCTATT
1 CCAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTCT-ATTTTTAGATTTCGACCTATG
* * *
6978189 TCA-A---ATCTTT--CTCAAT
65 CCAGATCTTTCTTTGGCTCAGT
* * *
6978205 CCAAGTTATTCATTTCA-AGCTTCGGTTCAATCTAGGTCATTATATTTTT-GAATTTTGACCTAT
1 CCAAGTTATTCATTTCAGA-CTTCGGTTCAATCCAGGTCATTCTATTTTTAG-ATTTCGACCTAT
*
6978268 GCCAGATCTTTCTTTGGCTCAAT
64 GCCAGATCTTTCTTTGGCTCAGT
* * * *
6978291 CCAAGTTATTCATTTCAGAATTCGATTCAATCCAGGTC-TTCTATTTTT-GAATTTTGGCCTATG
1 CCAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTCTATTTTTAG-ATTTCGACCTATG
*
6978354 CCAGATCTTTCTTCGGCTCAGT
65 CCAGATCTTTCTTTGGCTCAGT
* * * * *
6978376 CCAAGTTATTCATTTCAGACTTTGGTTCTATCCAGGTCATTCTATTTTTGGATTTCGACATATAC
1 CCAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTCTATTTTTAGATTTCGACCTATGC
* * *** *
6978441 CAAATCCTTCTTCAACTTAGT
66 CAGATCTTTCTTTGGCTCAGT
* * * * * * * *
6978462 CCAAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATT-TGGTTTTTAAATTTCAATCTATT
1 CCAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTCT-ATTTTTAGATTTCGACCTATG
* * *
6978526 TCA-A---ATC-TT-GTTCAGT
65 CCAGATCTTTCTTTGGCTCAGT
** * * *
6978542 CCAAGTTATTC--TTCAGACTTTAGTTCAATCCAGGTTATTTTATTTTTAGATTTCGACCTAAGC
1 CCAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTCTATTTTTAGATTTCGACCTATGC
*
6978605 CA-ATCCTTCTTTGGCTCAGT
66 CAGATCTTTCTTTGGCTCAGT
*
6978625 CCAAGTTATTCATTTCAGGCTTCGGTT
1 CCAAGTTATTCATTTCAGACTTCGGTT
6978652 TAGTCCAAGT
Statistics
Matches: 566, Mismatches: 109, Indels: 49
0.78 0.15 0.07
Matches are distributed among these distances:
78 41 0.07
79 3 0.01
80 70 0.12
81 5 0.01
82 7 0.01
83 17 0.03
84 7 0.01
85 145 0.26
86 267 0.47
87 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (86 bp):
CCAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTCTATTTTTAGATTTCGACCTATGC
CAGATCTTTCTTTGGCTCAGT
Found at i:6978271 original size:166 final size:165
Alignment explanation
Indices: 6977868--6978719 Score: 722
Period size: 171 Copynumber: 5.1 Consensus size: 165
6977858 TCAGTTCAAC
* * * * *
6977868 CCAAGTTATTCATTTCAGACTTTGGTTCAATCCAAGTCATTTTA-TTTTCAGATTTTGGCATATG
1 CCAAGTTATTCATTTCAGACTTTGGTTCAATCCAGGTCATTCTATTTTTGA-ATTTCGACATATG
* * * * * * *
6977932 -CAGATCTTTCTTCAGCTCA-ACCTAAGTTATTCATTTTAGACTTCGGTTCAATCCAGGTCATTC
65 CCAGATCCTTCTTCGGCTCAGTCC-AAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATT-
** * * * ** *
6977995 TATTTTTAAATTTCGACCTATGCCAGATCTTTCTTTGGCTCAGT
128 TGGTTTTAGATTTTGATCTATTTCA-A---ATCTTT--CTCAGT
* * * *
6978039 CCAAGCTATTCATTTCAGACTTTGGTTCAATCTAGGTCATTCTATTTTTGGATTTCAACATATGC
1 CCAAGTTATTCATTTCAGACTTTGGTTCAATCCAGGTCATTCTATTTTTGAATTTCGACATATGC
* * * *
6978104 CAGATCCTCCTTCGGCTTAGTCCAAGGTATTCATTTCAGACTTCGGTTTAGTCCAGGTCATTTGG
66 CAGATCCTTCTTCGGCTCAGTCCAAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATTTGG
*
6978169 CTTTTAGATTTTGATCTATTTCAAATCTTTCTCAAT
131 -TTTTAGATTTTGATCTATTTCAAATCTTTCTCAGT
* * * * *
6978205 CCAAGTTATTCATTTCA-AGCTTCGGTTCAATCTAGGTCATTATATTTTTGAATTTTGACCTATG
1 CCAAGTTATTCATTTCAGA-CTTTGGTTCAATCCAGGTCATTCTATTTTTGAATTTCGACATATG
* * * * * * * *
6978269 CCAGATCTTTCTTTGGCTCAATCCAAGTTATTCATTTCAGAATTCGATTCAATCCAGGTC-TTCT
65 CCAGATCCTTCTTCGGCTCAGTCCAAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATT-T
* * ** ** *
6978333 -ATTTTTGAATTTTGGCCTATGCCAGATCTTTCTTCGGCTCAGT
129 GGTTTTAG-ATTTTGATCTATTTCAAATC--T-TT---CTCAGT
* * *
6978376 CCAAGTTATTCATTTCAGACTTTGGTTCTATCCAGGTCATTCTATTTTTGGATTTCGACATATAC
1 CCAAGTTATTCATTTCAGACTTTGGTTCAATCCAGGTCATTCTATTTTTGAATTTCGACATATGC
* ** *
6978441 CAAATCCTTCTTCAACTTAGTCCAAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATTTGG
66 CAGATCCTTCTTCGGCTCAGTCCAAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATTTGG
* **
6978506 TTTTTAAATTTCAATCTATTTCAAATCTTGT-TCAGT
131 -TTTTAGATTTTGATCTATTTCAAATCTT-TCTCAGT
* * * * *
6978542 CCAAGTTATTC--TTCAGACTTTAGTTCAATCCAGGTTATTTTATTTTT-AGATTTCGACCTAAG
1 CCAAGTTATTCATTTCAGACTTTGGTTCAATCCAGGTCATTCTATTTTTGA-ATTTCGACATATG
* * * * *
6978604 CCA-ATCCTTCTTTGGCTCAGTCCAAGTTATTCATTTCAGGCTTCGGTTTAGTCCAAGT-TTTTC
65 CCAGATCCTTCTTCGGCTCAGTCCAAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATTT-
* * * * * *
6978667 TGTTTTAGA-TTTCAACTTTTGTCAAATCCTTCTTAGT
129 GGTTTTAGATTTTGATCTATT-TCAAATCTTTCTCAGT
6978704 CCAAGTTATTCATTTC
1 CCAAGTTATTCATTTC
6978720 GTATTTTAGT
Statistics
Matches: 551, Mismatches: 106, Indels: 55
0.77 0.15 0.08
Matches are distributed among these distances:
161 8 0.01
162 32 0.06
163 49 0.09
164 53 0.10
165 18 0.03
166 127 0.23
167 1 0.00
168 7 0.01
169 1 0.00
170 2 0.00
171 160 0.29
172 87 0.16
173 6 0.01
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (165 bp):
CCAAGTTATTCATTTCAGACTTTGGTTCAATCCAGGTCATTCTATTTTTGAATTTCGACATATGC
CAGATCCTTCTTCGGCTCAGTCCAAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATTTGG
TTTTAGATTTTGATCTATTTCAAATCTTTCTCAGT
Found at i:6978483 original size:337 final size:338
Alignment explanation
Indices: 6977861--6978642 Score: 1114
Period size: 337 Copynumber: 2.3 Consensus size: 338
6977851 TCCTTTTTCA
* * * *
6977861 GTTCAACCCAAGTTATTCATTTCAGACTTTGGTTCAATCCAAGTCATTTTATTTTCAGATTTTGG
1 GTTCAATCCAAGTTATTCATTTCAGACTTTGGTTCAATCCAGGTCATTTTATTTTTAGATTTTGA
* ** * * *
6977926 CATATG-CAGATCTTTCTTCAGCTCAA-CCTAAGTTATTCATTTTAGACTTCGGTTCAATCCAGG
66 CCTATGCCAGATCTTTCTTTGGCTCAATCC-AAGTTATTCATTTCAGAATTCGATTCAATCCAGG
*
6977989 TCATTCTATTTTTAAATTTCGACCTATGCCAGATCTTTCTTTGGCTCAGTCCAAGCTATTCATTT
130 TCATTCTATTTTTAAATTTCGACCTATGCCAGATCTTTCTTCGGCTCAGTCCAAGCTATTCATTT
* * * **
6978054 CAGACTTTGGTTCAATCTAGGTCATTCTATTTTTGGATTTCAACATATGCCAGATCCTCCTTCGG
195 CAGACTTTGGTTCAATCCAGGTCATTCTATTTTTGGATTTCAACATATACCAAATCCTCCTTCAA
* * * **
6978119 CTTAGTCCAAGGTATTCATTTCAGACTTCGGTTTAGTCCAGGTCATTTGGCTTTTAGATTTTGAT
260 CTTAGTCCAAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATTTGGCTTTTAAATTTCAAT
6978184 CTATTTCAAATCTT
325 CTATTTCAAATCTT
* * *
6978198 -TCTCAATCCAAGTTATTCATTTCA-AGCTTCGGTTCAATCTAGGTCATTATATTTTT-GAATTT
1 GT-TCAATCCAAGTTATTCATTTCAGA-CTTTGGTTCAATCCAGGTCATTTTATTTTTAG-ATTT
6978260 TGACCTATGCCAGATCTTTCTTTGGCTCAATCCAAGTTATTCATTTCAGAATTCGATTCAATCCA
63 TGACCTATGCCAGATCTTTCTTTGGCTCAATCCAAGTTATTCATTTCAGAATTCGATTCAATCCA
* * * *
6978325 GGTC-TTCTATTTTTGAATTTTGGCCTATGCCAGATCTTTCTTCGGCTCAGTCCAAGTTATTCAT
128 GGTCATTCTATTTTTAAATTTCGACCTATGCCAGATCTTTCTTCGGCTCAGTCCAAGCTATTCAT
* * *
6978389 TTCAGACTTTGGTTCTATCCAGGTCATTCTATTTTTGGATTTCGACATATACCAAATCCTTCTTC
193 TTCAGACTTTGGTTCAATCCAGGTCATTCTATTTTTGGATTTCAACATATACCAAATCCTCCTTC
*
6978454 AACTTAGTCCAAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATTTGGTTTTTAAATTTCA
258 AACTTAGTCCAAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATTTGGCTTTTAAATTTCA
6978519 ATCTATTTCAAATCTT
323 ATCTATTTCAAATCTT
* * * *
6978535 GTTCAGTCCAAGTTATTC--TTCAGACTTTAGTTCAATCCAGGTTATTTTATTTTTAGATTTCGA
1 GTTCAATCCAAGTTATTCATTTCAGACTTTGGTTCAATCCAGGTCATTTTATTTTTAGATTTTGA
* * *
6978598 CCTAAGCCA-ATCCTTCTTTGGCTCAGTCCAAGTTATTCATTTCAG
66 CCTATGCCAGATCTTTCTTTGGCTCAATCCAAGTTATTCATTTCAG
6978643 GCTTCGGTTT
Statistics
Matches: 395, Mismatches: 42, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
334 34 0.09
335 43 0.11
336 5 0.01
337 259 0.66
338 52 0.13
339 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (338 bp):
GTTCAATCCAAGTTATTCATTTCAGACTTTGGTTCAATCCAGGTCATTTTATTTTTAGATTTTGA
CCTATGCCAGATCTTTCTTTGGCTCAATCCAAGTTATTCATTTCAGAATTCGATTCAATCCAGGT
CATTCTATTTTTAAATTTCGACCTATGCCAGATCTTTCTTCGGCTCAGTCCAAGCTATTCATTTC
AGACTTTGGTTCAATCCAGGTCATTCTATTTTTGGATTTCAACATATACCAAATCCTCCTTCAAC
TTAGTCCAAGGTATTCATTTCAGACTTCGGTTCAGTCCAAGTCATTTGGCTTTTAAATTTCAATC
TATTTCAAATCTT
Found at i:6980878 original size:60 final size:60
Alignment explanation
Indices: 6980805--6981300 Score: 436
Period size: 60 Copynumber: 8.0 Consensus size: 60
6980795 AAATATATTC
* * *
6980805 AATAAAAACTTCAAAAAAAATATTTTTGAGGAAAAATTAAAAGTATCAATTTTTCTTAAA
1 AATAAAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAA
* *
6980865 AATAAAAATTTCAAAAAAAAATAATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTATCAATTT
1 AATAAAAATTTC-AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT-T-AA---
6980930 TTCTTGA
60 ------A
* * ** *
6980937 AA-ATAAAAATTTCAAAAAAA-GTATTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTCAAA
1 AATAAAAAT-TTCAAAAAAAATAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAA
* * *
6980997 AATAAAAATTTC-AAAAAAATA-TTTTGAAGAAAAGTTGAAAGCATCAATTTTTCTTCAA
1 AATAAAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAA
* *
6981055 AAT-AAAATTTC-AAAAATATATTTTTGAGAAAAAGTTGAAAGTTTGAAAGTACCAATTTTTCTT
1 AATAAAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAG--T---A-T--CAATTTTTCTT
6981118 AAA
58 AAA
* * * * *
6981121 AATAAAAATTATTAAGAAAAACATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-GA
1 AATAAAAATT-TCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAA
* * * * *
6981181 AATTAAAATTT-AAAAAAAAAATATTTTGAGGAAAAGTTGGAAGTACCAATTTTCCTTAAA
1 AATAAAAATTTCAAAAAAAATAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAA
* * *
6981241 AATAAAAATTATCAAGATAAATATTTTTGA-GAAAAGTTGAAAGTATCAAATTTTCTTAAA
1 AATAAAAATT-TCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAA
6981301 CTAAAAACTT
Statistics
Matches: 358, Mismatches: 45, Indels: 66
0.76 0.10 0.14
Matches are distributed among these distances:
57 16 0.04
58 56 0.16
59 45 0.13
60 62 0.17
61 62 0.17
62 9 0.03
63 4 0.01
64 2 0.01
66 16 0.04
67 7 0.02
68 1 0.00
69 31 0.09
70 6 0.02
71 36 0.10
72 5 0.01
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.34
Consensus pattern (60 bp):
AATAAAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAA
Found at i:6980926 original size:12 final size:12
Alignment explanation
Indices: 6980909--6980933 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6980899 AAGTTGAAAG
6980909 TATCAATTTTTC
1 TATCAATTTTTC
6980921 TATCAATTTTTC
1 TATCAATTTTTC
6980933 T
1 T
6980934 TGAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (12 bp):
TATCAATTTTTC
Found at i:6980928 original size:73 final size:71
Alignment explanation
Indices: 6980848--6981054 Score: 246
Period size: 58 Copynumber: 3.1 Consensus size: 71
6980838 AAATTAAAAG
6980848 TATCAATTTTTCTTAAAAATAAAAATTTCAAAAAAAAATAATTTTAAGGAAAAGTTGAAAGTATC
1 TATCAATTTTTCTTAAAAATAAAAATTTC-AAAAAAAAT-ATTTTAAGGAAAAGTTGAAAGTATC
6980913 AATTTTTC
64 AATTTTTC
* * *
6980921 TATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAAGTATTTTGAGGAAAAGTTGAAAGTATCAA
1 TATCAATTTTTCTTAAAAATAAAAATTTCAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAA
6980986 ---TT-
66 TTTTTC
*
6980988 T-TC-----TTC--AAAAATAAAAATTTC-AAAAAAATATTTTGAA-GAAAAGTTGAAAGCATCA
1 TATCAATTTTTCTTAAAAATAAAAATTTCAAAAAAAATATTTT-AAGGAAAAGTTGAAAGTATCA
6981043 ATTTTTC
65 ATTTTTC
6981050 T-TCAA
1 TATCAA
6981055 AATAAAATTT
Statistics
Matches: 120, Mismatches: 7, Indels: 23
0.80 0.05 0.15
Matches are distributed among these distances:
58 30 0.25
59 15 0.12
61 5 0.04
62 3 0.03
66 2 0.02
67 1 0.01
68 2 0.02
71 26 0.22
72 8 0.07
73 28 0.23
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.36
Consensus pattern (71 bp):
TATCAATTTTTCTTAAAAATAAAAATTTCAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAA
TTTTTC
Found at i:6981101 original size:66 final size:69
Alignment explanation
Indices: 6981027--6981165 Score: 196
Period size: 69 Copynumber: 2.1 Consensus size: 69
6981017 ATTTTGAAGA
* * * *
6981027 AAAG-TTGAAAGCATCAATTTTTCTTCAAAAT-AAAATT-TCAA-AAATATATTTTTGAGAAAAA
1 AAAGTTTGAAAGCACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAACATTTTTGAGAAAAA
6981088 GTTG
66 GTTG
* *
6981092 AAAGTTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATTAAGAAAAACATTTTTGAGAAAAA
1 AAAGTTTGAAAGCACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAACATTTTTGAGAAAAA
6981157 GTTG
66 GTTG
6981161 AAAGT
1 AAAGT
6981166 ATCAATTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
65 4 0.06
66 24 0.38
67 6 0.09
68 3 0.05
69 27 0.42
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (69 bp):
AAAGTTTGAAAGCACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAACATTTTTGAGAAAAA
GTTG
Found at i:6984333 original size:3 final size:3
Alignment explanation
Indices: 6984325--6984370 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6984315 TTCTTGTTTC
6984325 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6984371 TTATTATTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6984375 original size:3 final size:3
Alignment explanation
Indices: 6984369--6984419 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
6984359 ATAATAATAA
6984369 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6984417 TAT
1 TAT
6984420 CTGATGATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6985019 original size:18 final size:18
Alignment explanation
Indices: 6984993--6985037 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
6984983 TATGATTTTT
*
6984993 AATTTTAAATAATTATAA
1 AATTATAAATAATTATAA
*
6985011 AATTATAAAATAATTTTAA
1 AATTAT-AAATAATTATAA
6985030 AA-TATAAA
1 AATTATAAA
6985038 ATAAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 8 0.33
19 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTATAAATAATTATAA
Found at i:6985038 original size:18 final size:19
Alignment explanation
Indices: 6984999--6985041 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
6984989 TTTTAATTTT
6984999 AAATAATTATAAAATTATA
1 AAATAATTATAAAATTATA
*
6985018 AAATAATTTTAAAA-TATA
1 AAATAATTATAAAATTATA
6985036 AAATAA
1 AAATAA
6985042 AAATTTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATAATTATAAAATTATA
Found at i:6985359 original size:1 final size:1
Alignment explanation
Indices: 6985344--6985392 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
6985334 CAAGAAAATC
* * * **
6985344 TTTTCTTTTTCTTTTTTTTCTTTGGTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6985393 GCAGATTTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.06, G:0.04, T:0.90
Consensus pattern (1 bp):
T
Found at i:6985373 original size:26 final size:26
Alignment explanation
Indices: 6985344--6985393 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6985334 CAAGAAAATC
6985344 TTTTCTTTTTCTTTTTTTTCTTTGGT
1 TTTTCTTTTTCTTTTTTTTCTTTGGT
* * *
6985370 TTTTTTTTTTTTTTTTTTTTTTTG
1 TTTTCTTTTTCTTTTTTTTCTTTG
6985394 CAGATTTTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (26 bp):
TTTTCTTTTTCTTTTTTTTCTTTGGT
Found at i:6985392 original size:15 final size:15
Alignment explanation
Indices: 6985344--6985392 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
6985334 CAAGAAAATC
*
6985344 TTTTCTTTTTCTTTT
1 TTTTCTTTTTTTTTT
*
6985359 TTTTCTTTGGTTTTTT
1 TTTTCTTT-TTTTTTT
6985375 TTTT-TTTTTTTTTT
1 TTTTCTTTTTTTTTT
6985389 TTTT
1 TTTT
6985393 GCAGATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 10 0.33
15 11 0.37
16 9 0.30
ACGTcount: A:0.00, C:0.06, G:0.04, T:0.90
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:6989650 original size:103 final size:101
Alignment explanation
Indices: 6989441--6989655 Score: 247
Period size: 103 Copynumber: 2.1 Consensus size: 101
6989431 TGAAGTTTGT
* * *
6989441 CTTATAGGATATGTACATCTAGGTATCTATATGTACATCTCATAAGAATGTTAAAATCCTAATTG
1 CTTATAGGATAGGTACATCTAGGTATCTATATGTACATCTCATAAGAATATCAAAATCCTAATTG
* * * *
6989506 ATTATGTTTGTCTTCATATAAGATATATACGTAGTA
66 ATCAAGTTTATCTTCATATAAGATATATACATAGTA
* * *
6989542 GTTATAGGATAGGTACATTTAGGTATAACTATATGTATATCTCATCAA-AATATCAAAATCCTAA
1 CTTATAGGATAGGTACATCTAGGTAT--CTATATGTACATCTCAT-AAGAATATCAAAATCCTAA
* * *
6989606 TTGATCAAGTTTATCTTC-T-TACAGAATATGTATATCGTA
63 TTGATCAAGTTTATCTTCATATA-AG-ATATATACATAGTA
6989645 CTTATAGGATA
1 CTTATAGGATA
6989656 TGTAAATGTA
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
101 25 0.26
102 3 0.03
103 65 0.68
104 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (101 bp):
CTTATAGGATAGGTACATCTAGGTATCTATATGTACATCTCATAAGAATATCAAAATCCTAATTG
ATCAAGTTTATCTTCATATAAGATATATACATAGTA
Found at i:6989721 original size:22 final size:22
Alignment explanation
Indices: 6989661--6989728 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 22
6989651 GGATATGTAA
* *
6989661 ATGTAAATAGTATTTATATGAT
1 ATGTACATAGTATTTATAGGAT
* * *
6989683 ATGCACATATTACTTATAGGAT
1 ATGTACATAGTATTTATAGGAT
*
6989705 ATGTACATAGTGTTTATAGGAT
1 ATGTACATAGTATTTATAGGAT
6989727 AT
1 AT
6989729 ATATATCTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (22 bp):
ATGTACATAGTATTTATAGGAT
Found at i:7001586 original size:23 final size:22
Alignment explanation
Indices: 7001543--7001587 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7001533 ATTCAAAATT
* * *
7001543 AAAAAAGAAAAAAATGTGAAAA
1 AAAAAAAAAAAAAAAGAGAAAA
7001565 AAAAAAAAAAAAAAGAGAGAAAA
1 AAAAAAAAAAAAAA-AGAGAAAA
7001588 GAGAAAAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (22 bp):
AAAAAAAAAAAAAAAGAGAAAA
Found at i:7002901 original size:68 final size:68
Alignment explanation
Indices: 7002815--7002947 Score: 221
Period size: 68 Copynumber: 2.0 Consensus size: 68
7002805 ATTTTTTTAA
* *
7002815 AAATTATTTGTTGACATGATGATAATTAATGTAATAATAATTGAATATTTATAATACATGACATT
1 AAATGATTTGTTGACATGATAATAATTAATGTAATAATAATTGAATATTTATAATACATGACATT
7002880 TTG
66 TTG
* * *
7002883 AAATGATTTGTTGACATGATAATAATTAATGTAATAATAATTTAATATTTATAGTATATGACATT
1 AAATGATTTGTTGACATGATAATAATTAATGTAATAATAATTGAATATTTATAATACATGACATT
7002948 ATTTTATAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (68 bp):
AAATGATTTGTTGACATGATAATAATTAATGTAATAATAATTGAATATTTATAATACATGACATT
TTG
Found at i:7009667 original size:13 final size:14
Alignment explanation
Indices: 7009649--7009677 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7009639 AATTCTTTGC
7009649 TATTTAAA-TATTT
1 TATTTAAATTATTT
7009662 TATTTAAATTATTT
1 TATTTAAATTATTT
7009676 TA
1 TA
7009678 AATATAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTAAATTATTT
Found at i:7009791 original size:22 final size:20
Alignment explanation
Indices: 7009734--7009791 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 20
7009724 TTCATTATTC
7009734 AATT-AATTTAA-AAATTAA
1 AATTAAATTTAATAAATTAA
* * *
7009752 CATTAAATTTGATTAATTAA
1 AATTAAATTTAATAAATTAA
7009772 AATTTTAAATTTAATAAATT
1 AA--TTAAATTTAATAAATT
7009792 TAATTCAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 3 0.10
19 6 0.20
20 7 0.23
22 14 0.47
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
AATTAAATTTAATAAATTAA
Found at i:7014996 original size:1 final size:1
Alignment explanation
Indices: 7014990--7015014 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7014980 AGCAAAACCT
7014990 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
7015015 TTCTAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7018863 original size:31 final size:31
Alignment explanation
Indices: 7018828--7018886 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
7018818 ATTATTAGTA
7018828 AATAAGATGATATCATCTAATTAATGAAGTG
1 AATAAGATGATATCATCTAATTAATGAAGTG
*
7018859 AATAAGATGATATCATCTCATTAATGAA
1 AATAAGATGATATCATCTAATTAATGAA
7018887 TAAGTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (31 bp):
AATAAGATGATATCATCTAATTAATGAAGTG
Found at i:7019060 original size:24 final size:25
Alignment explanation
Indices: 7019033--7019081 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
7019023 ACAAATTTAT
*
7019033 ATTTGATATACTATTAGT-ATATAG
1 ATTTGATACACTATTAGTAATATAG
* *
7019057 ATTTTATACACTGTTAGTAATATAG
1 ATTTGATACACTATTAGTAATATAG
7019082 GATGATGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (25 bp):
ATTTGATACACTATTAGTAATATAG
Found at i:7019218 original size:248 final size:247
Alignment explanation
Indices: 7018780--7019517 Score: 932
Period size: 248 Copynumber: 3.0 Consensus size: 247
7018770 ATAGAATGAT
* * * * * *
7018780 TTTATATTTGATGTATTATTAGTTTATAGATTTCATATATTATTAGTAA-ATAAGATGATATCAT
1 TTTATATTTGATGTACTATTAGTATATAGATTTTATACATTGTTAGTAATAT-AGATGATACCAT
* *
7018844 CTAATTAATGAAGTGAATAAGATGATATCATCTCATTAATGAA-TAAGTTTTTTAAAAAGTATTA
65 CTAATTAATGAAGTGAATAAGATGATACCATCTCATTAAT-AAGTAAGTTTTTTAAAAAATATTA
7018908 ATTTTTGTATATTTATTTTAAGGGTTGATATTTGCTTATTAATGGAGTATCATCATTTGATTTAC
129 ATTTTTGTATATTTATTTTAAGGGTTGATATTTGCTTATTAAT-GAGTATCATCATTTGATTTAC
*
7018973 TGATAGTATATAGAATTTATACACTGACAATATACAAATATAAACTCATAACAAA
193 TGATAGTATATAAAATTTATACACTGACAATATACAAATATAAACTCATAACAAA
* * *
7019028 TTTATATTTGATATACTATTAGTATATAGATTTTATACACTGTTAGTAATATAGGATGATGCCAT
1 TTTATATTTGATGTACTATTAGTATATAGATTTTATACATTGTTAGTAATATA-GATGATACCAT
* *
7019093 CTAATTAATGAAGTGAATCAGATGATACCACCT-ATTAAT-AGTAAGTTTTTTAAAAAATATTAA
65 CTAATTAATGAAGTGAATAAGATGATACCATCTCATTAATAAGTAAGTTTTTTAAAAAATATTAA
*
7019156 TTTTTGTATATTTATTTTAAAAGGTTGATATTTGCTTATTAATGATGTATCATCATTTGATTTAC
130 TTTTTGTATATTTATTTT-AAGGGTTGATATTTGCTTATTAATGA-GTATCATCATTTGATTTAC
* * * * * **
7019221 TGACATTATATAAAATTTATACATTGACAATGTACAAATATAAACTTATAACGGA
193 TGATAGTATATAAAATTTATACACTGACAATATACAAATATAAACTCATAACAAA
* * * * * *
7019276 TTTAAATTTGATGCACTATCAGTATATAAATTTTATACATTGTTAG-AATATA-ATGATTCTAT-
1 TTTATATTTGATGTACTATTAGTATATAGATTTTATACATTGTTAGTAATATAGATGATACCATC
* * * *
7019338 TAATTAATGAAGTGAATAAAATGATGCTATCTCATTAATAAGTAAGTTTTTAAAAAAATATTAAT
66 TAATTAATGAAGTGAATAAGATGATACCATCTCATTAATAAGTAAGTTTTTTAAAAAATATTAAT
* * * * * * * * *
7019403 TTTTGTATATTTATTTTAAGGGCTAATAGTTGCTCATTAATAAAGTGTCATCATTTAATTTATTA
131 TTTTGTATATTTATTTTAAGGGTTGATATTTGCTTATTAAT-GAGTATCATCATTTGATTTACTG
* * * * **
7019468 ATAGTGTATATAATATATATACCAACAATATATCAAATATAAACTCATAA
195 ATAGTATATAAAATTTATACACTGACAATATA-CAAATATAAACTCATAA
7019518 TAGAATTAAA
Statistics
Matches: 424, Mismatches: 57, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
244 27 0.06
245 72 0.17
246 59 0.14
247 47 0.11
248 178 0.42
249 41 0.10
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (247 bp):
TTTATATTTGATGTACTATTAGTATATAGATTTTATACATTGTTAGTAATATAGATGATACCATC
TAATTAATGAAGTGAATAAGATGATACCATCTCATTAATAAGTAAGTTTTTTAAAAAATATTAAT
TTTTGTATATTTATTTTAAGGGTTGATATTTGCTTATTAATGAGTATCATCATTTGATTTACTGA
TAGTATATAAAATTTATACACTGACAATATACAAATATAAACTCATAACAAA
Found at i:7019361 original size:30 final size:30
Alignment explanation
Indices: 7019321--7019380 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
7019311 TACATTGTTA
* *
7019321 GAATATAATGATTCTAT-TAATTAATGAAGT
1 GAATAAAATGATGCTATCTAATTAAT-AAGT
*
7019351 GAATAAAATGATGCTATCTCATTAATAAGT
1 GAATAAAATGATGCTATCTAATTAATAAGT
7019381 AAGTTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (30 bp):
GAATAAAATGATGCTATCTAATTAATAAGT
Found at i:7024608 original size:13 final size:13
Alignment explanation
Indices: 7024579--7024617 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
7024569 CATGATTACA
*
7024579 TGTATTAAATT-T
1 TGTATTTAATTAT
*
7024591 TGTATTTGATTAT
1 TGTATTTAATTAT
7024604 TGTATTTAATTAT
1 TGTATTTAATTAT
7024617 T
1 T
7024618 ATGAATTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTATTTAATTAT
Found at i:7030913 original size:24 final size:25
Alignment explanation
Indices: 7030886--7030934 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
7030876 ACAAATTTAT
*
7030886 ATTTGATATACTATTAGT-ATATAG
1 ATTTGATACACTATTAGTAATATAG
* *
7030910 ATTTTATACACTGTTAGTAATATAG
1 ATTTGATACACTATTAGTAATATAG
7030935 GATGATTGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (25 bp):
ATTTGATACACTATTAGTAATATAG
Found at i:7031111 original size:247 final size:247
Alignment explanation
Indices: 7030634--7031274 Score: 838
Period size: 247 Copynumber: 2.6 Consensus size: 247
7030624 ATAGAATGAT
* * * * * *
7030634 TTTATATTTGATTTATTATTAGTTTATAGATTTCATATATTATTAGTAA-ATAGATGATATCATC
1 TTTATATTTGATATACTATTAGTATATAGATTTTATACATTGTTAGTAATATAGATGAT-TCATC
* * *
7030698 TAGTTAATGAAGTGAATAAGATGATATCATCTCATTAATGAA-TAAGTTTTTTAAAAAGTATTAA
65 TAATTAATGAAGTGAATAAGATGATACCATCTCATTAAT-AAGTAAGTTTTTTAAAAAATATTAA
*
7030762 TTTTTGTATATTTATTTAAGGGTTGATATTTGCTTATTAATGGAGTATCATCATTTGATTTACTG
129 TTTTTGTATATTTATTTAAAGGTTGATATTTGCTTATTAATGGAGTATCATCATTTGATTTACTG
* *
7030827 ATAGTATATAGAATTTATACACTGACAATAATACAAATATAAACTCATAACAAA
194 ACAGTATATAAAATTTATACACTGACAATAATACAAATATAAACTCATAACAAA
*
7030881 TTTATATTTGATATACTATTAGTATATAGATTTTATACACTGTTAGTAATATAGGATGATTGCAT
1 TTTATATTTGATATACTATTAGTATATAGATTTTATACATTGTTAGTAATATA-GATGATT-CAT
* *
7030946 CTAATT-ATGAAGTGAATCAGATGATACCACCT-ATTAAT-AGTAAGTTTTTTAAAAAATATTAA
64 CTAATTAATGAAGTGAATAAGATGATACCATCTCATTAATAAGTAAGTTTTTTAAAAAATATTAA
7031008 TTTTTGTATATTTATTTAAAAGGTTGATATTTGCTTATTAAT-GATGTATCATCATTTTGATTTA
129 TTTTTGTATATTTATTT-AAAGGTTGATATTTGCTTATTAATGGA-GTATCATCA-TTTGATTTA
* * * * **
7031072 CTGACATTATATAAAATTTATACATTGACAAT-GTACAAATATAAACTTATAACGGA
191 CTGACAGTATATAAAATTTATACACTGACAATAATACAAATATAAACTCATAACAAA
* ** * *
7031128 TTTAAATTTGATGCACTATCAGTATATA-AATTTATACATTGTTAG-AATATA-ATGATTCTAT-
1 TTTATATTTGATATACTATTAGTATATAGATTTTATACATTGTTAGTAATATAGATGATTC-ATC
* * * *
7031189 TAATTAATGAAGTGAATAAAATGATGCTATCTCATTAATAAGTAAGTTTTTAAAAAAATATTTAA
65 TAATTAATGAAGTGAATAAGATGATACCATCTCATTAATAAGTAAGTTTTTTAAAAAATA-TTAA
*
7031254 TTTTTGTATA-TTATTTTAAGG
129 TTTTTGTATATTTATTTAAAGG
7031275 GCTAATAGTT
Statistics
Matches: 348, Mismatches: 34, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
242 6 0.02
243 29 0.08
244 10 0.03
245 32 0.09
246 69 0.20
247 124 0.36
248 64 0.18
249 14 0.04
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.43
Consensus pattern (247 bp):
TTTATATTTGATATACTATTAGTATATAGATTTTATACATTGTTAGTAATATAGATGATTCATCT
AATTAATGAAGTGAATAAGATGATACCATCTCATTAATAAGTAAGTTTTTTAAAAAATATTAATT
TTTGTATATTTATTTAAAGGTTGATATTTGCTTATTAATGGAGTATCATCATTTGATTTACTGAC
AGTATATAAAATTTATACACTGACAATAATACAAATATAAACTCATAACAAA
Found at i:7031212 original size:30 final size:30
Alignment explanation
Indices: 7031172--7031231 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
7031162 TACATTGTTA
* *
7031172 GAATATAATGATTCTAT-TAATTAATGAAGT
1 GAATAAAATGATGCTATCTAATTAAT-AAGT
*
7031202 GAATAAAATGATGCTATCTCATTAATAAGT
1 GAATAAAATGATGCTATCTAATTAATAAGT
7031232 AAGTTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (30 bp):
GAATAAAATGATGCTATCTAATTAATAAGT
Found at i:7031310 original size:247 final size:248
Alignment explanation
Indices: 7030676--7031370 Score: 783
Period size: 247 Copynumber: 2.8 Consensus size: 248
7030666 TCATATATTA
* *
7030676 TTAGTAA-ATAGATGATAT-CATCTAGTTAATGAAGTGAATAAGATGATATCATCTCATTAATGA
1 TTAGTAATATAGATGAT-TGCATCTAATTAATGAAGTGAATAAGATGATCT-ATCTCATTAAT-A
*
7030739 A-TAAGTTTTTTAAAAAGTATTAATTTTTGTATATT-TATTTAAGGGTTGATATTTGCTTATTAA
63 AGTAAGTTTTTTAAAAAATATTAATTTTTGTATATTAT-TTTAAGGGTTGATATTTGCTTATTAA
* * *
7030802 TGGAGTATCATCA-TTTGATTTACTGATAGTATATAGAATTTATACACTGACAATAATACAAATA
127 TGAAGTATCATCATTTTGATTTACTGACAGTATATAAAATTTATACACTGACAATAATACAAATA
* * * *
7030866 TAAACTCATAACAAATTTATATTTGATATACTATTAGTATATAGATTTTATACACTG
192 TAAACTCATAACAAATTTAAATTTGATACACTATCAGTATATAGAATTTATACACTG
* * *
7030923 TTAGTAATATAGGATGATTGCATCTAATT-ATGAAGTGAATCAGATGATACCACCT-ATTAAT-A
1 TTAGTAATATA-GATGATTGCATCTAATTAATGAAGTGAATAAGATGAT-CTATCTCATTAATAA
* *
7030985 GTAAGTTTTTTAAAAAATATTAATTTTTGTATATTTATTTAAAAGGTTGATATTTGCTTATTAAT
64 GTAAGTTTTTTAAAAAATATTAATTTTTGTATA-TTATTTTAAGGGTTGATATTTGCTTATTAAT
* * * *
7031050 GATGTATCATCATTTTGATTTACTGACATTATATAAAATTTATACATTGACAAT-GTACAAATAT
128 GAAGTATCATCATTTTGATTTACTGACAGTATATAAAATTTATACACTGACAATAATACAAATAT
* ** * *
7031114 AAACTTATAACGGATTTAAATTTGATGCACTATCAGTATATA-AATTTATACATTG
193 AAACTCATAACAAATTTAAATTTGATACACTATCAGTATATAGAATTTATACACTG
*
7031169 TTAG-AATATA-ATGATT-CTAT-TAATTAATGAAGTGAATAAAATGATGCTATCTCATTAATAA
1 TTAGTAATATAGATGATTGC-ATCTAATTAATGAAGTGAATAAGATGAT-CTATCTCATTAATAA
* * * * *
7031230 GTAAGTTTTTAAAAAAATATTTAATTTTTGTATATTATTTTAAGGGCTAATAGTTGCTCATTAAA
64 GTAAGTTTTTTAAAAAATA-TTAATTTTTGTATATTATTTTAAGGGTTGATATTTGCTTATT-AA
* * * * * * * * * * **
7031295 TAAAGTGTCCATCA-TTTAATTTATTAATAGTGTATATAATATATATACCAACAAT-ATATCAAA
127 TGAAGTAT-CATCATTTTGATTTACTGACAGTATATAAAATTTATACACTGACAATAATA-CAAA
7031358 TATAAACTCATAA
190 TATAAACTCATAA
7031371 TAGAATTAAA
Statistics
Matches: 379, Mismatches: 53, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
242 6 0.02
243 29 0.08
244 6 0.02
245 48 0.13
246 98 0.26
247 115 0.30
248 63 0.17
249 14 0.04
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (248 bp):
TTAGTAATATAGATGATTGCATCTAATTAATGAAGTGAATAAGATGATCTATCTCATTAATAAGT
AAGTTTTTTAAAAAATATTAATTTTTGTATATTATTTTAAGGGTTGATATTTGCTTATTAATGAA
GTATCATCATTTTGATTTACTGACAGTATATAAAATTTATACACTGACAATAATACAAATATAAA
CTCATAACAAATTTAAATTTGATACACTATCAGTATATAGAATTTATACACTG
Found at i:7036461 original size:13 final size:13
Alignment explanation
Indices: 7036432--7036470 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
7036422 CATGATTACA
*
7036432 TGTATTAAATT-T
1 TGTATTTAATTAT
*
7036444 TGTATTTGATTAT
1 TGTATTTAATTAT
7036457 TGTATTTAATTAT
1 TGTATTTAATTAT
7036470 T
1 T
7036471 ATGAATTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTATTTAATTAT
Found at i:7036517 original size:19 final size:19
Alignment explanation
Indices: 7036493--7036547 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
7036483 ATGTATATTG
7036493 TTATGTATTTTATTTAT-AA
1 TTATGTA-TTTATTTATAAA
7036512 TTATGTATTTATTTATAAA
1 TTATGTATTTATTTATAAA
*
7036531 TTATCT-TTT-TTTATAAA
1 TTATGTATTTATTTATAAA
7036548 ATATTTAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 8 0.24
18 12 0.35
19 14 0.41
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (19 bp):
TTATGTATTTATTTATAAA
Found at i:7040192 original size:71 final size:71
Alignment explanation
Indices: 7040063--7040197 Score: 155
Period size: 71 Copynumber: 1.9 Consensus size: 71
7040053 GTCATTGTTG
* * * ** * * *
7040063 GAACCATGCATTTACATTATTTGGTGAGTATATAGGTCAGTGTTTTGAATGTTGCATTTTCATCT
1 GAACAATGCACTTACATTATTTGGTGAGCATATAGAACAGTGTTTTGAATATTACATTTGCATCT
7040128 TCATTT
66 TCATTT
* * *
7040134 GAACAATGCACTTGCATTATTTGGTGAGCATATAGAACATTGTTTT-AGGTATTACATTTGCATC
1 GAACAATGCACTTACATTATTTGGTGAGCATATAGAACAGTGTTTTGA-ATATTACATTTGCATC
7040198 AATGTATGGA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
70 1 0.02
71 51 0.98
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (71 bp):
GAACAATGCACTTACATTATTTGGTGAGCATATAGAACAGTGTTTTGAATATTACATTTGCATCT
TCATTT
Found at i:7040287 original size:12 final size:13
Alignment explanation
Indices: 7040257--7040294 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
7040247 TTTTGATAAT
7040257 TGCATTTGCATCA
1 TGCATTTGCATCA
*
7040270 TG-ATTTGGA-CA
1 TGCATTTGCATCA
7040281 TGCATTTGCATCA
1 TGCATTTGCATCA
7040294 T
1 T
7040295 TTAGTGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
11 4 0.19
12 12 0.57
13 5 0.24
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (13 bp):
TGCATTTGCATCA
Found at i:7043821 original size:2 final size:2
Alignment explanation
Indices: 7043814--7043841 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7043804 GGTGACTAAT
7043814 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
7043842 ATTGGTGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7044167 original size:27 final size:27
Alignment explanation
Indices: 7044137--7044191 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
7044127 ATATTTAAAT
*
7044137 TCTTGCAAACCTTTGAATTCTTGCAAA
1 TCTTGAAAACCTTTGAATTCTTGCAAA
* * *
7044164 TCTTTAAAATCTTTGAATTCTTGTAAA
1 TCTTGAAAACCTTTGAATTCTTGCAAA
7044191 T
1 T
7044192 TTTTGAATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (27 bp):
TCTTGAAAACCTTTGAATTCTTGCAAA
Found at i:7044176 original size:18 final size:18
Alignment explanation
Indices: 7044130--7044176 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
7044120 CTTACGAATA
7044130 TTTAAATTCTTGCAAACC
1 TTTAAATTCTTGCAAACC
* *
7044148 TTTGAATTCTTGCAAATC
1 TTTAAATTCTTGCAAACC
*
7044166 TTTAAAATCTT
1 TTTAAATTCTT
7044177 TGAATTCTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (18 bp):
TTTAAATTCTTGCAAACC
Found at i:7044183 original size:80 final size:80
Alignment explanation
Indices: 7044095--7044256 Score: 200
Period size: 80 Copynumber: 2.0 Consensus size: 80
7044085 TTTGCGAACT
* * * * *
7044095 TTTGAATTCTTGTGAATTTTTTAATCTTAC-GAATATTTAAATTCTTGCAAACCTTTGAATTCTT
1 TTTGAATTCTTGTAAATTTTTGAAT-TGACTGAATATTTAAATTCTTACAAACCTTTGAATTCCT
*
7044159 GCAAATCTTTAAAATC
65 GCAAATCTTCAAAATC
* * * *
7044175 TTTGAATTCTTGTAAATTTTTGAATTGGCTGAATCTTTAAATTCTTACTAATCTTTGAATTCCTG
1 TTTGAATTCTTGTAAATTTTTGAATTGACTGAATATTTAAATTCTTACAAACCTTTGAATTCCTG
* *
7044240 TAAATCTTCAAATTC
66 CAAATCTTCAAAATC
7044255 TT
1 TT
7044257 GCAAATCATT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
79 2 0.03
80 67 0.97
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.48
Consensus pattern (80 bp):
TTTGAATTCTTGTAAATTTTTGAATTGACTGAATATTTAAATTCTTACAAACCTTTGAATTCCTG
CAAATCTTCAAAATC
Found at i:7044185 original size:18 final size:17
Alignment explanation
Indices: 7044164--7044274 Score: 62
Period size: 18 Copynumber: 6.2 Consensus size: 17
7044154 TTCTTGCAAA
7044164 TCTTTAAAATCTTTGAAT
1 TCTTT-AAATCTTTGAAT
*
7044182 TCTTGTAAATTTTTGAAT
1 TCTT-TAAATCTTTGAAT
*** * *
7044200 TGGCTGAATCTTTAAAT
1 TCTTTAAATCTTTGAAT
7044217 TC-TTACTAATCTTTGAAT
1 TCTTTA--AATCTTTGAAT
* **
7044235 TCCTGTAAATCTTCAAAT
1 T-CTTTAAATCTTTGAAT
* *
7044253 TCTTGCAAATCATTGAAT
1 TCTT-TAAATCTTTGAAT
7044271 TCTT
1 TCTT
7044275 GCAAATTTTA
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
16 1 0.01
17 13 0.19
18 50 0.74
19 2 0.03
20 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (17 bp):
TCTTTAAATCTTTGAAT
Found at i:7044232 original size:35 final size:34
Alignment explanation
Indices: 7044170--7044286 Score: 94
Period size: 36 Copynumber: 3.3 Consensus size: 34
7044160 CAAATCTTTA
* * * *
7044170 AAATCTTTGAATTCTTGTAAATTTTTGAATTGGCTG
1 AAATCTTTAAATTCTTCT-AATCTTTGAATT-CCTG
7044206 -AATCTTTAAATTCTTACTAATCTTTGAATTCCTG
1 AAATCTTTAAATTCTT-CTAATCTTTGAATTCCTG
* * * *
7044240 TAAATCTTCAAATTCTTGCAAATCATTGAATTCTTG
1 -AAATCTTTAAATTCTT-CTAATCTTTGAATTCCTG
7044276 CAAAT-TTTAAA
1 -AAATCTTTAAA
7044287 ATTTTTATGA
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
34 3 0.04
35 30 0.45
36 34 0.51
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.44
Consensus pattern (34 bp):
AAATCTTTAAATTCTTCTAATCTTTGAATTCCTG
Found at i:7044256 original size:27 final size:27
Alignment explanation
Indices: 7044147--7044256 Score: 64
Period size: 27 Copynumber: 4.1 Consensus size: 27
7044137 TCTTGCAAAC
* * * *
7044147 CTTTGAATTCTTGCAAATCTTTAAAAT
1 CTTTGAATTCCTGTAAATCTTCAAATT
* * **
7044174 CTTTGAATTCTTGTAAATTTTTGAATT
1 CTTTGAATTCCTGTAAATCTTCAAATT
*** * *
7044201 GGCTGAA-T-CTTTAAATTCTTACTAA-T
1 CTTTGAATTCCTGTAAA-TCTT-CAAATT
7044227 CTTTGAATTCCTGTAAATCTTCAAATT
1 CTTTGAATTCCTGTAAATCTTCAAATT
7044254 CTT
1 CTT
7044257 GCAAATCATT
Statistics
Matches: 61, Mismatches: 17, Indels: 10
0.69 0.19 0.11
Matches are distributed among these distances:
25 5 0.08
26 12 0.20
27 38 0.62
28 6 0.10
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (27 bp):
CTTTGAATTCCTGTAAATCTTCAAATT
Found at i:7044289 original size:36 final size:36
Alignment explanation
Indices: 7044206--7044289 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
7044196 GAATTGGCTG
* * * *
7044206 AATCTTTAAATTCTTACTAATCTTTGAATTCCTGTA
1 AATCTTAAAATTCTTACAAATCATTGAATTCCTGCA
* * *
7044242 AATCTTCAAATTCTTGCAAATCATTGAATTCTTGCA
1 AATCTTAAAATTCTTACAAATCATTGAATTCCTGCA
*
7044278 AATTTTAAAATT
1 AATCTTAAAATT
7044290 TTTATGAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (36 bp):
AATCTTAAAATTCTTACAAATCATTGAATTCCTGCA
Found at i:7044367 original size:36 final size:36
Alignment explanation
Indices: 7044312--7044449 Score: 116
Period size: 36 Copynumber: 3.8 Consensus size: 36
7044302 TTAATTTTTT
* * *
7044312 AATCTTTAAATTCTCGTGAATTTTTTAATTTTTACA
1 AATCTTTGAATTCTTGTGAATTTTTGAATTTTTACA
* ** * *
7044348 AATCTTTGAATTATTGTGAAACTTT-AAATTCTAGCA
1 AATCTTTGAATTCTTGTGAATTTTTGAATTTTTA-CA
* * * *
7044384 AATCTTTGATTTCTTGTGAAGTTTTGAACTTTTGCA
1 AATCTTTGAATTCTTGTGAATTTTTGAATTTTTACA
* * * *
7044420 AATCATTGAATTTTTTTGAATCTTTGAATT
1 AATCTTTGAATTCTTGTGAATTTTTGAATT
7044450 CATGTGAATC
Statistics
Matches: 79, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
35 6 0.08
36 68 0.86
37 5 0.06
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (36 bp):
AATCTTTGAATTCTTGTGAATTTTTGAATTTTTACA
Found at i:7044445 original size:28 final size:28
Alignment explanation
Indices: 7044405--7044458 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
7044395 TCTTGTGAAG
7044405 TTTTGAACTTTTGCAAATCAT-TGAATTT
1 TTTTGAACTTTTG-AAATCATGTGAATTT
*
7044433 TTTTGAA-TCTTTGAATTCATGTGAAT
1 TTTTGAACT-TTTGAAATCATGTGAAT
7044459 CTTTAAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (28 bp):
TTTTGAACTTTTGAAATCATGTGAATTT
Found at i:7044456 original size:54 final size:54
Alignment explanation
Indices: 7044384--7044490 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
7044374 AATTCTAGCA
* * * * *
7044384 AATCTTTGATTTCTTGTGAAGT-TTTGAA-CTTTTGCAAATCATTGAATTTTTTTG
1 AATCTTTGAATTCATGTGAA-TCTTTAAATCTTTTACAAATC-TTGAAATTTTTTG
7044438 AATCTTTGAATTCATGTGAATCTTTAAATCTTTTACAAATCTTGAAATTTTTT
1 AATCTTTGAATTCATGTGAATCTTTAAATCTTTTACAAATCTTGAAATTTTTT
7044491 ATAAATTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 34 0.74
55 11 0.24
ACGTcount: A:0.28, C:0.10, G:0.11, T:0.50
Consensus pattern (54 bp):
AATCTTTGAATTCATGTGAATCTTTAAATCTTTTACAAATCTTGAAATTTTTTG
Found at i:7044462 original size:72 final size:72
Alignment explanation
Indices: 7044312--7044450 Score: 170
Period size: 72 Copynumber: 1.9 Consensus size: 72
7044302 TTAATTTTTT
* * * *
7044312 AATCTTTAAATTCTCGTGAATTTTTTAATTTTTACAAATCTTTGAATTATTGTGAAACTTTAAAT
1 AATCTTTAAATTCTCGTGAAGTTTTGAACTTTTACAAATCATTGAATTATTGTGAAACTTTAAAT
7044377 TCTAGCA
66 TCTAGCA
* * * * * * * *
7044384 AATCTTTGATTTCTTGTGAAGTTTTGAACTTTTGCAAATCATTGAATTTTTTTGAATCTTTGAAT
1 AATCTTTAAATTCTCGTGAAGTTTTGAACTTTTACAAATCATTGAATTATTGTGAAACTTTAAAT
7044449 TC
66 TC
7044451 ATGTGAATCT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (72 bp):
AATCTTTAAATTCTCGTGAAGTTTTGAACTTTTACAAATCATTGAATTATTGTGAAACTTTAAAT
TCTAGCA
Found at i:7044480 original size:19 final size:19
Alignment explanation
Indices: 7044456--7044528 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 19
7044446 AATTCATGTG
*
7044456 AATCTTTAAATCTTTTACA
1 AATCTTGAAATCTTTTACA
* *
7044475 AATCTTGAAATTTTTTATA
1 AATCTTGAAATCTTTTACA
* * * *
7044494 AAT-TTCAAAACTTTTGCG
1 AATCTTGAAATCTTTTACA
7044512 AATCTTGAAA-CTTTTAC
1 AATCTTGAAATCTTTTAC
7044529 GAACTTTTGA
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
18 18 0.43
19 24 0.57
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (19 bp):
AATCTTGAAATCTTTTACA
Found at i:7044522 original size:18 final size:18
Alignment explanation
Indices: 7044501--7044554 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
7044491 ATAAATTTCA
7044501 AAACTTTTGCGAATCTTG
1 AAACTTTTGCGAATCTTG
* *
7044519 AAACTTTTACGAACTTTTG
1 AAACTTTTGCGAA-TCTTG
* * *
7044538 AATCTCTTGTGAATCTT
1 AAACTTTTGCGAATCTT
7044555 TCTATGAATC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (18 bp):
AAACTTTTGCGAATCTTG
Found at i:7060278 original size:19 final size:18
Alignment explanation
Indices: 7060251--7060297 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
7060241 ACCAATAGGG
7060251 TTTAGGGTTTCATTGAGGA
1 TTTA-GGTTTCATTGAGGA
* *
7060270 TTTATGGTTTCATTTAGGG
1 TTTA-GGTTTCATTGAGGA
7060289 TTTAGGTTT
1 TTTAGGTTT
7060298 TACATATAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (18 bp):
TTTAGGTTTCATTGAGGA
Found at i:7060352 original size:13 final size:13
Alignment explanation
Indices: 7060336--7060383 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
7060326 GATTTGGACA
*
7060336 TAGGGTTTGATTT
1 TAGGGTTTCATTT
7060349 TAGGGTTTCATTTT
1 TAGGGTTTCA-TTT
*
7060363 TAAGGTTTCATTT
1 TAGGGTTTCATTT
*
7060376 CAGGGTTT
1 TAGGGTTT
7060384 TAAGAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 18 0.60
14 12 0.40
ACGTcount: A:0.17, C:0.06, G:0.25, T:0.52
Consensus pattern (13 bp):
TAGGGTTTCATTT
Found at i:7060369 original size:14 final size:14
Alignment explanation
Indices: 7060346--7060375 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7060336 TAGGGTTTGA
*
7060346 TTTTAGGGTTTCAT
1 TTTTAAGGTTTCAT
7060360 TTTTAAGGTTTCAT
1 TTTTAAGGTTTCAT
7060374 TT
1 TT
7060376 CAGGGTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.60
Consensus pattern (14 bp):
TTTTAAGGTTTCAT
Found at i:7060486 original size:3 final size:3
Alignment explanation
Indices: 7060471--7060603 Score: 60
Period size: 3 Copynumber: 44.0 Consensus size: 3
7060461 CTAAACACTA
* * * * * *
7060471 ATT ATT GTT ATT ATT A-T ATT ATT ATT ATT GTT GTT GTT GTT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
7060518 ATT AAT ATT ATT ATT A-T ACTT -TT TTT CTT TTT ATT A-A ATTT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT
* *
7060562 ATT ATT ATTT ATTT ACTT -TT ATT ACTT TTT ATT TTT ATT ATT
1 ATT ATT A-TT A-TT A-TT ATT ATT A-TT ATT ATT ATT ATT ATT
7060604 TAATAATTTC
Statistics
Matches: 103, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
2 9 0.09
3 81 0.79
4 13 0.13
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:7060582 original size:32 final size:33
Alignment explanation
Indices: 7060516--7060605 Score: 89
Period size: 32 Copynumber: 2.8 Consensus size: 33
7060506 GTTGTTATTG
*
7060516 TTATT-AATATTATTATTA-TACTTT-TTTTCTTT
1 TTATTAAAT-TTATTATTATTA-TTTATTTACTTT
7060548 TTATTAAATTTATTATTATTATTTATTTAC-TT
1 TTATTAAATTTATTATTATTATTTATTTACTTT
** *
7060580 TTATTACTTTTTATTTTTATTATTTA
1 TTATTA-AATTTATTATTATTATTTA
7060606 ATAATTTCCC
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
32 25 0.50
33 25 0.50
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (33 bp):
TTATTAAATTTATTATTATTATTTATTTACTTT
Found at i:7060934 original size:16 final size:16
Alignment explanation
Indices: 7060913--7060951 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
7060903 CATAACCTAA
7060913 ATTTTTTATTTATT-T
1 ATTTTTTATTTATTAT
*
7060928 GATTTTTTGTTTATTAT
1 -ATTTTTTATTTATTAT
7060945 ATTTTTT
1 ATTTTTT
7060952 TGTTTAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.95
17 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (16 bp):
ATTTTTTATTTATTAT
Found at i:7062516 original size:13 final size:13
Alignment explanation
Indices: 7062482--7062518 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
7062472 TTCATATTTT
*
7062482 ATTTTTTATTGCC
1 ATTTTTTTTTGCC
*
7062495 TTTTTTTTTTGCC
1 ATTTTTTTTTGCC
7062508 ATTTTTTTTTG
1 ATTTTTTTTTG
7062519 TTTCCTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.08, C:0.11, G:0.08, T:0.73
Consensus pattern (13 bp):
ATTTTTTTTTGCC
Found at i:7064085 original size:4 final size:4
Alignment explanation
Indices: 7064068--7064112 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
7064058 TACCTTTTCT
7064068 TAAA -AAA T-AA TAAA TAAA TAAA -AAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
7064113 GCAATTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 9 0.24
4 29 0.76
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:7064098 original size:19 final size:18
Alignment explanation
Indices: 7064068--7064108 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 18
7064058 TACCTTTTCT
7064068 TAAAAAATAATAAATAAA
1 TAAAAAATAATAAATAAA
7064086 TAAAAAATAAATAAATAAA
1 TAAAAAAT-AATAAATAAA
7064105 TAAA
1 TAAA
7064109 TAAAGCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
TAAAAAATAATAAATAAA
Found at i:7068751 original size:18 final size:18
Alignment explanation
Indices: 7068728--7068768 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
7068718 CTTTTCACAT
7068728 TTTTAAGTTACCCAAATA
1 TTTTAAGTTACCCAAATA
*
7068746 TTTTAAGTTACCCAAGTA
1 TTTTAAGTTACCCAAATA
7068764 TTTTA
1 TTTTA
7068769 TAGTCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (18 bp):
TTTTAAGTTACCCAAATA
Found at i:7071506 original size:2 final size:2
Alignment explanation
Indices: 7071499--7071524 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7071489 CTAAAAGGTT
7071499 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
7071525 AGTAATGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7071640 original size:17 final size:15
Alignment explanation
Indices: 7071618--7071657 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
7071608 TCCAGTCTGA
7071618 TTTATTTGTGAATATAT
1 TTTATTT-TGAA-ATAT
*
7071635 TTTATTTTTAAATAT
1 TTTATTTTGAAATAT
7071650 TTTATTTT
1 TTTATTTT
7071658 TACTTTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.55
16 3 0.14
17 7 0.32
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (15 bp):
TTTATTTTGAAATAT
Found at i:7071651 original size:15 final size:15
Alignment explanation
Indices: 7071631--7071659 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7071621 ATTTGTGAAT
7071631 ATATTTTATTTTTAA
1 ATATTTTATTTTTAA
7071646 ATATTTTATTTTTA
1 ATATTTTATTTTTA
7071660 CTTTAATCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATATTTTATTTTTAA
Found at i:7074074 original size:25 final size:25
Alignment explanation
Indices: 7074046--7074093 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
7074036 TTTTTTGCCT
7074046 ATAAAATGAAAA-GAAAAAAAAAACG
1 ATAAAAT-AAAATGAAAAAAAAAACG
* *
7074071 ATAAGATAAAATTAAAAAAAAAA
1 ATAAAATAAAATGAAAAAAAAAA
7074094 AAACTTCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.12
Consensus pattern (25 bp):
ATAAAATAAAATGAAAAAAAAAACG
Found at i:7074962 original size:3 final size:3
Alignment explanation
Indices: 7074954--7074984 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7074944 TTTCATGTAT
7074954 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7074985 AATGAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7077709 original size:21 final size:21
Alignment explanation
Indices: 7077664--7077709 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7077654 TATAATACTA
*
7077664 AAAAATATTCATAACATCTAT
1 AAAAATATTCATAACATCTAC
*
7077685 AAAAATA-TCTATAACATTTAC
1 AAAAATATTC-ATAACATCTAC
7077706 AAAA
1 AAAA
7077710 GTCATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATATTCATAACATCTAC
Found at i:7080572 original size:18 final size:18
Alignment explanation
Indices: 7080549--7080602 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
7080539 ATTTTTTTGA
7080549 TTGATTGATTTTGATTTT
1 TTGATTGATTTTGATTTT
7080567 TTGATTGA--TTGATTTT
1 TTGATTGATTTTGATTTT
* *
7080583 TT-TTTTATATTTGATTTT
1 TTGATTGAT-TTTGATTTT
7080601 TT
1 TT
7080603 TTTATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 3 0.10
16 10 0.32
18 18 0.58
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (18 bp):
TTGATTGATTTTGATTTT
Found at i:7080588 original size:22 final size:21
Alignment explanation
Indices: 7080533--7080632 Score: 87
Period size: 22 Copynumber: 4.7 Consensus size: 21
7080523 TTTTTTCTTC
*
7080533 TATTTTATTTTTTTGATTGAT
1 TATTTTTTTTTTTTGATTGAT
**
7080554 TGATTTTGATTTTTTGATTGAT
1 T-ATTTTTTTTTTTTGATTGAT
*
7080576 TGATTTTTTTTTTAT-ATTTGAT
1 T-ATTTTTTTTTTTTGA-TTGAT
* *
7080598 TTTTTTTTATTTTTTTATTGA-
1 TATTTTTT-TTTTTTGATTGAT
*
7080619 TATTTTTTATTTTT
1 TATTTTTTTTTTTT
7080633 CATTTTTTGA
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.08
21 15 0.23
22 45 0.68
23 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (21 bp):
TATTTTTTTTTTTTGATTGAT
Found at i:7080597 original size:44 final size:43
Alignment explanation
Indices: 7080549--7080631 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 43
7080539 ATTTTTTTGA
7080549 TTGATTGATTTTGATTTTTTGATTGATTGATTTTTT-TTTTATAT
1 TTGATTGATTTTGATTTTTTGATTGA-T-ATTTTTTATTTTATAT
** * *
7080593 TTGATTTTTTTTTATTTTTTTATTGATATTTTTTATTTT
1 TTGATTGATTTTGATTTTTTGATTGATATTTTTTATTTT
7080632 TCATTTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 7 0.21
43 5 0.15
44 22 0.65
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (43 bp):
TTGATTGATTTTGATTTTTTGATTGATATTTTTTATTTTATAT
Found at i:7080612 original size:29 final size:28
Alignment explanation
Indices: 7080578--7080645 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
7080568 TGATTGATTG
* *
7080578 ATTTTTTT-TTTATATTTGATTT-TTTTTT
1 ATTTTTTTATTGATATTT--TTTATTTTTC
7080606 ATTTTTTTATTGATATTTTTTATTTTTC
1 ATTTTTTTATTGATATTTTTTATTTTTC
*
7080634 ATTTTTTGATTG
1 ATTTTTTTATTG
7080646 CTTTTTCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.09
28 24 0.69
29 8 0.23
ACGTcount: A:0.16, C:0.01, G:0.06, T:0.76
Consensus pattern (28 bp):
ATTTTTTTATTGATATTTTTTATTTTTC
Found at i:7080632 original size:44 final size:44
Alignment explanation
Indices: 7080535--7080632 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 44
7080525 TTTTCTTCTA
*
7080535 TTTTATTTTTTTGATTGATTGATTTTGATTTTTTGATTGATTGAT
1 TTTTATTTTTATGATTGATTGATTTTGATTTTTTGATTGATT-AT
** * *
7080580 TTTT-TTTTTAT-ATTTGATTTTTTTTTATTTTTTTATTGA-TATT
1 TTTTATTTTTATGA-TTGATTGATTTTGATTTTTTGATTGATTA-T
7080623 TTTTATTTTT
1 TTTTATTTTT
7080633 CATTTTTTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.02
43 7 0.16
44 33 0.73
45 4 0.09
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.74
Consensus pattern (44 bp):
TTTTATTTTTATGATTGATTGATTTTGATTTTTTGATTGATTAT
Found at i:7080637 original size:14 final size:13
Alignment explanation
Indices: 7080583--7080640 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 13
7080573 GATTGATTTT
7080583 TTTTTTATATT-TGA
1 TTTTTTAT-TTAT-A
7080597 TTTTTT-TTTAT-
1 TTTTTTATTTATA
*
7080608 TTTTTTATTGATA
1 TTTTTTATTTATA
*
7080621 TTTTTTATTTTTCA
1 TTTTTTATTTAT-A
7080635 TTTTTT
1 TTTTTT
7080641 GATTGCTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 6 0.16
12 6 0.16
13 12 0.32
14 13 0.35
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTTATTTATA
Found at i:7081111 original size:16 final size:16
Alignment explanation
Indices: 7081071--7081115 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
7081061 ATTTAGGTGT
*
7081071 CAGCTGATCTAGACGC
1 CAGCTGATCTAGGCGC
*
7081087 CAGCCGATCTAGGCGC
1 CAGCTGATCTAGGCGC
*
7081103 CAGTTGATCTAGG
1 CAGCTGATCTAGG
7081116 TTTAAGACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.22, C:0.29, G:0.29, T:0.20
Consensus pattern (16 bp):
CAGCTGATCTAGGCGC
Found at i:7081244 original size:23 final size:23
Alignment explanation
Indices: 7081146--7081244 Score: 83
Period size: 23 Copynumber: 4.3 Consensus size: 23
7081136 GACTTAAGCA
* *
7081146 CCAGCTAATTTAGGTTTAAAGTG
1 CCAGCTAATCTAGGCTTAAAGTG
* * *
7081169 TCAGCTAATCTGGGCTTAGA-TG
1 CCAGCTAATCTAGGCTTAAAGTG
* *
7081191 CCATCTAATATAGGCTTAAAGTG
1 CCAGCTAATCTAGGCTTAAAGTG
** * * *
7081214 TTAACTAATCTGGGCTTAAAGTA
1 CCAGCTAATCTAGGCTTAAAGTG
7081237 CCAGCTAA
1 CCAGCTAA
7081245 ACTGAGTTTA
Statistics
Matches: 56, Mismatches: 19, Indels: 2
0.73 0.25 0.03
Matches are distributed among these distances:
22 17 0.30
23 39 0.70
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (23 bp):
CCAGCTAATCTAGGCTTAAAGTG
Done.