Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4987688
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 20
Found at i:4041338 original size:15 final size:14
Alignment explanation
Indices: 4041308--4041341 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
4041298 TATCCATTTA
4041308 TTATT-TTTTATTC
1 TTATTATTTTATTC
4041321 TTATTATTTTATTAC
1 TTATTATTTTATT-C
4041336 TTATTA
1 TTATTA
4041342 AATTATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 7 0.37
15 7 0.37
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTATTTTATTC
Found at i:4045182 original size:26 final size:24
Alignment explanation
Indices: 4045122--4045182 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
4045112 TACTTTTGTA
*
4045122 TTTGCATTTTGTATTTTTTTTCATT
1 TTTGCA-TTTGTATTTATTTTCATT
* *
4045147 TTTACGTTTGTATTTACATTTTCATT
1 TTTGCATTTGTATTT--ATTTTCATT
4045173 TTTGCATTTG
1 TTTGCATTTG
4045183 CATCTTGGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 9 0.31
25 4 0.14
26 16 0.55
ACGTcount: A:0.15, C:0.10, G:0.10, T:0.66
Consensus pattern (24 bp):
TTTGCATTTGTATTTATTTTCATT
Found at i:4052887 original size:113 final size:111
Alignment explanation
Indices: 4052692--4053551 Score: 865
Period size: 113 Copynumber: 7.5 Consensus size: 111
4052682 TGCCAGGTAG
4052692 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
4052757 AACCTTTTGCTTT-AATTCATTACCCGATGGATTAACGTTGCCAGAGAA
65 AACCTTTT--TTTGAATTCATCACTCGATGGATCAACGTTTCCAGAGAA
* * *
4052805 AGTTCATAATGATAAAAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * *
4052870 AACCTTTTGTTTGAATTCATCATTTGATGGATCCACATTACCATGTAG--
65 AACCTTTT-TTTGAATTCATCACTCGATGGATCAACGTTTCCA-G-AGAA
* * *
4052918 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTTTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
4052983 AACCTTTTTATTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAA
65 AACCTTTTT-TTGAATTCATCACTCGATGGATCAACGTTTCCAGAGAA
*
4053031 AGTTCATAAAGAGAAGAACTCA--TGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * * * * ** *
4053094 ACCTTTATTTG-ATTCTATCCAGAAGGAGATAGATCAGCACCAACATTTGTAGA-AG
66 ACCTTTTTTTGAATTC-AT-C------A-CTCGAT--GGATCAACGTTTCCAGAGAA
* * * *
4053149 TGTTCATAATGAGAAGAACTCATCTGAAGATGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * *
4053214 ACATTTTTCTTGAATTCATCACTCGATGGATGAACTTTTCTAGAGAA
66 ACCTTTTT-TTGAATTCATCACTCGATGGATCAACGTTTCCAGAGAA
4053261 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * * * * *
4053326 ACCTTTTCTTG-ATTCTATCCAGAAGGAGATAGATCAGCACCAACATTTCCAGA-AG
66 ACCTTTTTTTGAATTC-AT-C------A-CTCGAT--GGATCAACGTTTCCAGAGAA
* * * * * * *
4053381 TGTTCATAATGAGAACAACTCATCTGAATATGAAGAAGAAATTCATAATGAGAATAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * *
4053446 ACGTTTTTCTTGAATTCATCACTCGATAGATCAACTTTTCCAGAGGA
66 ACCTTTTT-TTGAATTCATCACTCGATGGATCAACGTTTCCAGAGAA
* * *
4053493 AGTTCATAATAAGAAGAACTCATCTTAAGAGGAAGAAGAAGTTCATAATAAGAAGAACT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACT
4053552 CATTTGAAGA
Statistics
Matches: 619, Mismatches: 92, Indels: 73
0.79 0.12 0.09
Matches are distributed among these distances:
108 4 0.01
109 5 0.01
110 45 0.07
111 37 0.06
112 123 0.20
113 216 0.35
114 3 0.00
115 2 0.00
116 1 0.00
117 4 0.01
118 22 0.04
119 16 0.03
120 111 0.18
121 22 0.04
122 8 0.01
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (111 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTTTTGAATTCATCACTCGATGGATCAACGTTTCCAGAGAA
Found at i:4053187 original size:120 final size:120
Alignment explanation
Indices: 4053032--4053458 Score: 522
Period size: 120 Copynumber: 3.6 Consensus size: 120
4053022 TCCAGAGAAA
* *
4053032 GTTCATAAAGAGAAGAACTCA--TGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
*
4053095 CCTTTAT-TTGATTCTATCCAGAAGGAGATAGATCAGCACCAACATTTGTAGAAGT
66 CCTTT-TCTTGATTCTATCCAGAAGGAGATAGATCAGCACCAACATTTCTAGAAGT
* *
4053150 GTTCATAATGAGAAGAACTCATCTGAAGATGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
1 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
* *** * * **
4053215 CATTTTTCTTGAATTC-AT-C---ACTCGATGGAT--G----AACTTTTCTAGAGAAA
66 C-CTTTTCTTG-ATTCTATCCAGAAGGAGATAGATCAGCACCAACATTTCTAGA-AGT
*
4053262 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
*
4053327 CCTTTTCTTGATTCTATCCAGAAGGAGATAGATCAGCACCAACATTTCCAGAAGT
66 CCTTTTCTTGATTCTATCCAGAAGGAGATAGATCAGCACCAACATTTCTAGAAGT
* * * * *
4053382 GTTCATAATGAGAACAACTCATCTGAATATGAAGAAGAAATTCATAATGAGAATAATTTGTTCAA
1 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
*
4053447 CGTTTTTCTTGA
66 C-CTTTTCTTGA
4053459 ATTCATCACT
Statistics
Matches: 259, Mismatches: 32, Indels: 33
0.80 0.10 0.10
Matches are distributed among these distances:
110 4 0.02
111 20 0.08
112 65 0.25
115 8 0.03
117 8 0.03
118 20 0.08
120 103 0.40
121 27 0.10
122 4 0.02
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (120 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
CCTTTTCTTGATTCTATCCAGAAGGAGATAGATCAGCACCAACATTTCTAGAAGT
Found at i:4053373 original size:232 final size:232
Alignment explanation
Indices: 4052693--4053551 Score: 1208
Period size: 232 Copynumber: 3.7 Consensus size: 232
4052683 GCCAGGTAGA
* *
4052693 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* * * * * * * * *
4052758 ACCTTTTGCTTTAATTCATTACCCGATGGATTAACGTTGCCAGAGAAAGTTCATAATGATAAAAA
66 ACCTTTTTCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
*
4052823 CTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTC
131 CTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TTT-TTTG-ATTC
*** * ** *
4052888 -AT-C---ATTTGATGGATCCA-CATTACCA--TGTAG-A--
192 TATCCAGAAGGAGATAGAT-CAGCACCAACATTTGTAGAAGT
*
4052919 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTTTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* *
4052984 ACCTTTTTATTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAAAGAGAAGAA
66 ACCTTTTTCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
4053049 CTCA--TGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTATTTGATTCTAT
131 CTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT-TTTGATTCTAT
4053112 CCAGAAGGAGATAGATCAGCACCAACATTTGTAGAAGT
195 CCAGAAGGAGATAGATCAGCACCAACATTTGTAGAAGT
*
4053150 GTTCATAATGAGAAGAACTCATCTGAAG-ATGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* * *
4053214 ACATTTTTCTTGAATTCATCACTCGATGGATGAACTTTTCTAGAGAAAGTTCATAATGAGAAGAA
66 ACCTTTTTCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
4053279 CTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCTTGATTCTAT
131 CTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-TTGATTCTAT
**
4053344 CCAGAAGGAGATAGATCAGCACCAACATTTCCAGAAGT
195 CCAGAAGGAGATAGATCAGCACCAACATTTGTAGAAGT
* * * *
4053382 GTTCATAATGAGAACAACTCATCTGAA-TATGAAGAAGAAATTCATAATGAGAATAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
* * * *
4053446 ACGTTTTTCTTGAATTCATCACTCGATAGATCAACTTTTCCAGAGGAAGTTCATAATAAGAAGAA
66 ACCTTTTTCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
* *
4053511 CTCATCTTAAGAGGAAGAAGAAGTTCATAATAAGAAGAACT
131 CTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACT
4053552 CATTTGAAGA
Statistics
Matches: 576, Mismatches: 42, Indels: 24
0.90 0.07 0.04
Matches are distributed among these distances:
221 4 0.01
222 9 0.02
223 40 0.07
224 5 0.01
225 2 0.00
226 131 0.23
228 5 0.01
229 1 0.00
230 98 0.17
231 29 0.05
232 252 0.44
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (232 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
ACCTTTTTCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
CTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTTTGATTCTATC
CAGAAGGAGATAGATCAGCACCAACATTTGTAGAAGT
Found at i:4053579 original size:42 final size:39
Alignment explanation
Indices: 4053491--4053571 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
4053481 TTTTCCAGAG
*
4053491 GAAGTTCATAATAAGAAGAACTCATCTTAAGAGGAAGAA
1 GAAGTTCATAATAAGAAGAACTCATCTTAAGAAGAAGAA
4053530 GAAGTTCATAATAAGAAGAACTCAT-TTGAAGAAGAAGAA
1 GAAGTTCATAATAAGAAGAACTCATCTT-AAGAAGAAGAA
4053569 GAA
1 GAA
4053572 TTTGTTCAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 2 0.05
39 38 0.95
ACGTcount: A:0.51, C:0.09, G:0.21, T:0.20
Consensus pattern (39 bp):
GAAGTTCATAATAAGAAGAACTCATCTTAAGAAGAAGAA
Found at i:4053962 original size:14 final size:15
Alignment explanation
Indices: 4053945--4053979 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
4053935 TTTTATCCAT
*
4053945 TTATTTTTTTATT-C
1 TTATTATTTTATTAC
4053959 TTATTATTTTATTAC
1 TTATTATTTTATTAC
4053974 TTATTA
1 TTATTA
4053980 AATTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTATTTTATTAC
Found at i:4054116 original size:24 final size:24
Alignment explanation
Indices: 4054084--4054133 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
4054074 CTTAGCCCCA
*
4054084 CCGCTGCCTCCCATACCATTCCAG
1 CCGCTGCCTCCCAGACCATTCCAG
*
4054108 CCGCTGCCTCCTAGACCATTCCAG
1 CCGCTGCCTCCCAGACCATTCCAG
4054132 CC
1 CC
4054134 ACCTCTGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.50, G:0.14, T:0.20
Consensus pattern (24 bp):
CCGCTGCCTCCCAGACCATTCCAG
Found at i:4061748 original size:43 final size:45
Alignment explanation
Indices: 4061700--4061811 Score: 147
Period size: 47 Copynumber: 2.5 Consensus size: 45
4061690 GGTAAGTATG
4061700 AAAATAAGCTTACGAGCTTATGAA-T-AATGGCAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGAATTAAATGGCAAGTATATTGAT
* * * * *
4061743 AAAATAAGCTTACAAGCTTGTGGAATTTAAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTAT-GAA-TTAAATGGCAAGTATATTGAT
4061790 AAAATAAGCTTACGAGCTTATG
1 AAAATAAGCTTACGAGCTTATG
4061812 GGACAAATGA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
43 19 0.33
44 3 0.05
46 2 0.03
47 34 0.59
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGAATTAAATGGCAAGTATATTGAT
Found at i:4064655 original size:6 final size:6
Alignment explanation
Indices: 4064636--4064788 Score: 99
Period size: 6 Copynumber: 25.8 Consensus size: 6
4064626 ATATAAGAAA
* *
4064636 AAAAAG AAATAG AAAAAG AAAGAAG AAGAA- AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG
* * * * *
4064684 AAAAAG AGAAAG -AGAAT AAAATG AAAAA- AATGAAA- AAAATG AAGAAA-
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA--AAAG AAAAAG AA-AAAG
* *
4064731 AAAAAG AAAAA- AATGAAG AAAAA- AAAAAG AAAAAC AGAAAAG --AAAG
1 AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG
4064777 AAAAAG AGAAAA
1 AAAAAG A-AAAA
4064789 AAATGAGAGA
Statistics
Matches: 114, Mismatches: 18, Indels: 29
0.71 0.11 0.18
Matches are distributed among these distances:
4 4 0.04
5 20 0.18
6 68 0.60
7 22 0.19
ACGTcount: A:0.78, C:0.01, G:0.17, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:4064670 original size:30 final size:30
Alignment explanation
Indices: 4064634--4064790 Score: 128
Period size: 30 Copynumber: 5.2 Consensus size: 30
4064624 TAATATAAGA
*
4064634 AAAAAAAGAAATAGAAAAAGAAAGAAGAAG
1 AAAAAAAGAAAAAGAAAAAGAAAGAAGAAG
4064664 AAAAAAAGAAAAAGAAAAAGAAA-AAG-AG
1 AAAAAAAGAAAAAGAAAAAGAAAGAAGAAG
* * * *
4064692 AAAGAGAATAAAATGAAAAA-AATGAA-AA-
1 AAA-AAAAGAAAAAGAAAAAGAAAGAAGAAG
* * *
4064720 AAATGAAGAAAAAAAAGAAAAA-AATGAAGAAA
1 AAA--AA-AAGAAAAAGAAAAAGAAAGAAGAAG
* *
4064752 AAAAAAAGAAAAACAGAAAAGAAAGAAAAAG
1 AAAAAAAGAAAAAGA-AAAAGAAAGAAGAAG
4064783 AGAAAAAA
1 A-AAAAAA
4064791 ATGAGAGATG
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
28 10 0.10
29 29 0.28
30 46 0.44
31 10 0.10
32 9 0.09
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.04
Consensus pattern (30 bp):
AAAAAAAGAAAAAGAAAAAGAAAGAAGAAG
Found at i:4064671 original size:18 final size:17
Alignment explanation
Indices: 4064648--4064791 Score: 104
Period size: 17 Copynumber: 8.3 Consensus size: 17
4064638 AAAGAAATAG
4064648 AAAAAGAAAGAAGAAGAA
1 AAAAAGAAA-AAGAAGAA
*
4064666 AAAAAGAAAAAGAAAAA
1 AAAAAGAAAAAGAAGAA
*
4064683 GAAAAAGAGAAAG-AGAA
1 -AAAAAGAAAAAGAAGAA
*
4064700 TAAAATGAAAAA-AATGAA
1 -AAAAAGAAAAAGAA-GAA
4064718 AAAAATGAAGAAA-AA-AA
1 AAAAA-GAA-AAAGAAGAA
*
4064735 AGAAAA-AAATGAAGAAAAA
1 A-AAAAGAAA--AAGAAGAA
*
4064754 AAAAAGAAAAA-CAGAA
1 AAAAAGAAAAAGAAGAA
4064770 AAGAAAGAAAAAG-AGAA
1 AA-AAAGAAAAAGAAGAA
4064787 AAAAA
1 AAAAA
4064792 TGAGAGATGA
Statistics
Matches: 104, Mismatches: 9, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
15 1 0.01
16 10 0.10
17 46 0.44
18 36 0.35
19 11 0.11
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAGAAGAA
Found at i:4064787 original size:36 final size:34
Alignment explanation
Indices: 4064630--4064791 Score: 111
Period size: 35 Copynumber: 4.6 Consensus size: 34
4064620 AATATAATAT
* *
4064630 AAGAAA-AAAAAGAAATAGAAAAAGAAAGAAGAAGAA
1 AAGAAAGAAAAAGAAAAAAAAAAAG-AA-AA-AAGAA
* *
4064666 AA-AAAGAAAAAGAAAAAGAAAAAGAGAAAGAGAA
1 AAGAAAGAAAAAGAAAAAAAAAAAGA-AAAAAGAA
* * *
4064700 TAA-AATGAAAAA-AATGAAAAAAATGAAGAAAA-AA
1 -AAGAAAGAAAAAGAA-AAAAAAAAAGAA-AAAAGAA
*
4064734 AAGAAA-AAAATGAAGAAAAAAAAAAGAAAAACAGAA
1 AAGAAAGAAAAAG-A-AAAAAAAAAAGAAAAA-AGAA
*
4064770 AAGAAAGAAAAAGAGAAAAAAA
1 AAGAAAGAAAAAGAAAAAAAAA
4064792 TGAGAGATGA
Statistics
Matches: 101, Mismatches: 13, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
33 6 0.06
34 14 0.14
35 46 0.46
36 30 0.30
37 5 0.05
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.04
Consensus pattern (34 bp):
AAGAAAGAAAAAGAAAAAAAAAAAGAAAAAAGAA
Found at i:4068641 original size:43 final size:45
Alignment explanation
Indices: 4068586--4068697 Score: 138
Period size: 47 Copynumber: 2.5 Consensus size: 45
4068576 GTAAGTATGA
4068586 AAAATAAGCTTACGAGCTTATGAA-T-AATGGCAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGAATTAAATGGCAAGTATATTGAT
* * * * * *
4068629 AAAATAAACTTACAAGCTTGTGGAATTTAAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTAT-GAA-TTAAATGGCAAGTATATTGAT
4068676 AAAATAAGCTTACGAGCTTATG
1 AAAATAAGCTTACGAGCTTATG
4068698 GGACAAATGA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
43 18 0.32
44 3 0.05
46 2 0.04
47 33 0.59
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGAATTAAATGGCAAGTATATTGAT
Found at i:4071539 original size:17 final size:15
Alignment explanation
Indices: 4071516--4071655 Score: 115
Period size: 17 Copynumber: 8.7 Consensus size: 15
4071506 ACTATAATAT
4071516 AAGAAAAAAA-AAGAA
1 AAGAAAAAAAGAA-AA
*
4071531 ACAGAAAAAAAG-AAG
1 A-AGAAAAAAAGAAAA
4071546 AAGAAAAAAAGAAAA
1 AAGAAAAAAAGAAAA
4071561 AGAGAAAGAAAAAGAGAAA
1 A-AG-AA-AAAAAGA-AAA
*
4071580 GAGAATAAAAAGAAAAA
1 AAGAA-AAAAAG-AAAA
*
4071597 AATGAAAAAAATGAAGA
1 AA-GAAAAAAA-GAAAA
4071614 AA-AAAAAAAGAAAA
1 AAGAAAAAAAGAAAA
4071628 ACAGAAAAGAAAGAAAA
1 A-AGAAAA-AAAGAAAA
4071645 AGAGAAAAAAA
1 A-AGAAAAAAA
4071656 AATGAGAGAT
Statistics
Matches: 104, Mismatches: 8, Indels: 25
0.76 0.06 0.18
Matches are distributed among these distances:
14 15 0.14
15 14 0.13
16 19 0.18
17 39 0.38
18 14 0.13
19 3 0.03
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.02
Consensus pattern (15 bp):
AAGAAAAAAAGAAAA
Found at i:4071549 original size:6 final size:6
Alignment explanation
Indices: 4071519--4071657 Score: 82
Period size: 6 Copynumber: 23.7 Consensus size: 6
4071509 ATAATATAAG
* * *
4071519 AAAA-A AAAAGA AACAGA AAAA-A AGAAGA AGAA-A AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* * *
4071564 GAAAGA AAAAGA GAAAGAGA ATAAA-A AGAAA-A AAATGA AAAA-A ATGAAGA
1 AAAAGA AAAAGA -AAA-AGA A-AAAGA A-AAAGA AAAAGA AAAAGA A-AAAGA
*
4071614 AAAA-A AAAAGA AAAACA GAAAAG- -AAAGA AAAAGA GAAAA-A AAAA
1 AAAAGA AAAAGA AAAAGA -AAAAGA AAAAGA AAAAGA -AAAAGA AAAA
4071658 TGAGAGATGA
Statistics
Matches: 107, Mismatches: 13, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
4 4 0.04
5 25 0.23
6 58 0.54
7 15 0.14
8 5 0.05
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:4071657 original size:67 final size:64
Alignment explanation
Indices: 4071517--4071657 Score: 187
Period size: 66 Copynumber: 2.2 Consensus size: 64
4071507 CTATAATATA
* * * *
4071517 AGAAAAAAAAAGAAACAGAAAAAAAGAAGAAGAAAAAAAGAAAAAGAGAAAGAAAAAGAGAAAG
1 AGAAAAAAAAAGAAAAAGAAAAAAAGAAGAAAAAAAAAAGAAAAACAGAAAGAAAAAGAAAAAG
*
4071581 AGAATAAAAAGAA-AAAAATGAAAAAAATGAAGAAAAAAAAAAGAAAAACAGAAA-AGAAAGAAA
1 AGAA-AAAAA-AAGAAAAA-GAAAAAAA-GAAGAAAAAAAAAAGAAAAACAGAAAGAAAAAGAAA
4071644 AAG
62 AAG
4071647 AGAAAAAAAAA
1 AGAAAAAAAAA
4071658 TGAGAGATGA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
64 6 0.09
65 14 0.21
66 24 0.35
67 24 0.35
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.02
Consensus pattern (64 bp):
AGAAAAAAAAAGAAAAAGAAAAAAAGAAGAAAAAAAAAAGAAAAACAGAAAGAAAAAGAAAAAG
Found at i:4076273 original size:23 final size:23
Alignment explanation
Indices: 4076228--4076275 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
4076218 CATTTAAGAA
* *
4076228 AATAAATTCTTAAATCGATTTTG
1 AATAAATTCTTAAATCAAGTTTG
4076251 AATAAATT-TTAAATCAACGTTTG
1 AATAAATTCTTAAATCAA-GTTTG
4076274 AA
1 AA
4076276 GAGGAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (23 bp):
AATAAATTCTTAAATCAAGTTTG
Found at i:4076678 original size:32 final size:31
Alignment explanation
Indices: 4076637--4076770 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 31
4076627 GTTCTGAAGA
*
4076637 ACATTGGTAATCCTGTCCATATGTCCCAAAGG
1 ACATAGGTAATCCTGTCCATATGTCCCAAA-G
* ** *
4076669 ACATAGGTAATCATGTGTATATGTCCTGAAAG
1 ACATAGGTAATCCTGTCCATATGTCC-CAAAG
*
4076701 ACATAGATAATCCTGTCCATATGTCCCAAAG
1 ACATAGGTAATCCTGTCCATATGTCCCAAAG
4076732 AACATAGGTAATCCTGTCCATATGTCCCGAAAG
1 -ACATAGGTAATCCTGTCCATATGTCCC-AAAG
4076765 ACATAG
1 ACATAG
4076771 ATAACCCTTG
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
31 4 0.05
32 77 0.88
33 7 0.08
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (31 bp):
ACATAGGTAATCCTGTCCATATGTCCCAAAG
Found at i:4076724 original size:64 final size:64
Alignment explanation
Indices: 4076644--4076774 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 64
4076634 AGAACATTGG
* ** *
4076644 TAATCCTGTCCATATGTCCCAAAGGACATAGGTAATCATGTGTATATGTCCTGAAAGACATAGA
1 TAATCCTGTCCATATGTCCCAAAGAACATAGGTAATCATGTCCATATGTCCCGAAAGACATAGA
*
4076708 TAATCCTGTCCATATGTCCCAAAGAACATAGGTAATCCTGTCCATATGTCCCGAAAGACATAGA
1 TAATCCTGTCCATATGTCCCAAAGAACATAGGTAATCATGTCCATATGTCCCGAAAGACATAGA
4076772 TAA
1 TAA
4076775 CCCTTGACTC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (64 bp):
TAATCCTGTCCATATGTCCCAAAGAACATAGGTAATCATGTCCATATGTCCCGAAAGACATAGA
Found at i:4079571 original size:22 final size:23
Alignment explanation
Indices: 4079530--4079573 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4079520 AAAATATTTT
* *
4079530 TAATTTTTTTAATAATTTATAAG
1 TAATTATTTTAATAACTTATAAG
4079553 TAATTATTTT-ATAACTTATAA
1 TAATTATTTTAATAACTTATAA
4079574 TATATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TAATTATTTTAATAACTTATAAG
Found at i:4079653 original size:23 final size:23
Alignment explanation
Indices: 4079627--4079704 Score: 95
Period size: 23 Copynumber: 3.3 Consensus size: 23
4079617 TTCATATGTT
*
4079627 TATTTATTTTTTTAGTAATTTAA
1 TATTTATTTTTTTAATAATTTAA
*
4079650 TATTTATTTTTTTAATATTTTAA
1 TATTTATTTTTTTAATAATTTAA
*
4079673 TATTT-TTTATATTTGAATAATTTTA
1 TATTTATTT-T-TTT-AATAATTTAA
4079698 TATTTAT
1 TATTTAT
4079705 AATTTAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 3 0.06
23 27 0.57
24 3 0.06
25 13 0.28
26 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (23 bp):
TATTTATTTTTTTAATAATTTAA
Found at i:4079684 original size:17 final size:17
Alignment explanation
Indices: 4079657--4079707 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
4079647 TAATATTTAT
4079657 TTTTTTAATATTTTAATA
1 TTTTTT-ATATTTTAATA
*
4079675 TTTTTTATATTTGAATA
1 TTTTTTATATTTTAATA
*
4079692 -ATTTTATATTTATAAT
1 TTTTTTATATTT-TAAT
4079708 TTAAAATAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 10 0.34
17 13 0.45
18 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTTTATATTTTAATA
Found at i:4079708 original size:14 final size:15
Alignment explanation
Indices: 4079637--4079709 Score: 51
Period size: 16 Copynumber: 4.7 Consensus size: 15
4079627 TATTTATTTT
* *
4079637 TTTAGTAATTTAATA
1 TTTAATAATTTTATA
**
4079652 TTT-ATTTTTTTAATA
1 TTTAATAATTTT-ATA
*
4079667 TTTTAATATTTTTTATA
1 -TTTAATA-ATTTTATA
4079684 TTTGAATAATTTTATA
1 TTT-AATAATTTTATA
4079700 TTT-ATAATTT
1 TTTAATAATTT
4079710 AAAATAACTT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
14 11 0.23
15 6 0.13
16 16 0.34
17 9 0.19
18 5 0.11
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTAATAATTTTATA
Found at i:4088217 original size:17 final size:17
Alignment explanation
Indices: 4088195--4088227 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4088185 TATTGATTGA
*
4088195 TGACATAGAGTTGTCAT
1 TGACATAGAGATGTCAT
4088212 TGACATAGAGATGTCA
1 TGACATAGAGATGTCA
4088228 AAATTAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (17 bp):
TGACATAGAGATGTCAT
Found at i:4097779 original size:32 final size:32
Alignment explanation
Indices: 4097714--4097780 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
4097704 AATATCCATG
* *
4097714 TGCATTATCTGAATGCAATGCTAACTCTTCTA
1 TGCATTATCTGAATGCAAAGCTAACTCTACTA
**
4097746 TGCATTATCTGAATGCAACAG-TGGCTCTACTA
1 TGCATTATCTGAATGCAA-AGCTAACTCTACTA
4097778 TGC
1 TGC
4097781 TAGTATATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (32 bp):
TGCATTATCTGAATGCAAAGCTAACTCTACTA
Found at i:4098940 original size:21 final size:21
Alignment explanation
Indices: 4098913--4098985 Score: 119
Period size: 21 Copynumber: 3.5 Consensus size: 21
4098903 CGAGCATCCG
4098913 ATATCGATACTACAACCCTTA
1 ATATCGATACTACAACCCTTA
*
4098934 GTATCGATACTACAACCCTTA
1 ATATCGATACTACAACCCTTA
4098955 ATATCGATACTACAACCCTTA
1 ATATCGATACTACAACCCTTA
* *
4098976 TTATTGATAC
1 ATATCGATAC
4098986 AACCCTTGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.32
Consensus pattern (21 bp):
ATATCGATACTACAACCCTTA
Found at i:4105564 original size:119 final size:119
Alignment explanation
Indices: 4105427--4105665 Score: 363
Period size: 119 Copynumber: 2.0 Consensus size: 119
4105417 AATTAATTAG
* * * * *
4105427 TATATATATATATTCTAGGGTCATTACATAGTGTAAAACTAAAATGTTTTACACCATTTTAGGAT
1 TATATATATATATACTAGGATCACTACATAGTGTAAAACTAAAAAGTTTTACACCATTTTAGGAG
*
4105492 CATTAAATGAGGGAAAA-TCAAAGGTTGAAATTAACAATAGGAAATGAGAAGATA
66 CATTAAATGA-GGAAAACTCAAAGGTTGAAATTAAAAATAGGAAATGAGAAGATA
*
4105546 TATATATATATATACTAGGATCACTACATAGTGTAAAACTAAAAAGTTTTACACTATTTTAGGAG
1 TATATATATATATACTAGGATCACTACATAGTGTAAAACTAAAAAGTTTTACACCATTTTAGGAG
** * *
4105611 CATTGGATGAGGAAAACTTAAAGGTTGAGATTAAAAATAGGAAATGAGAAGATA
66 CATTAAATGAGGAAAACTCAAAGGTTGAAATTAAAAATAGGAAATGAGAAGATA
4105665 T
1 T
4105666 TTATTGAAGA
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
118 6 0.06
119 102 0.94
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (119 bp):
TATATATATATATACTAGGATCACTACATAGTGTAAAACTAAAAAGTTTTACACCATTTTAGGAG
CATTAAATGAGGAAAACTCAAAGGTTGAAATTAAAAATAGGAAATGAGAAGATA
Found at i:4111681 original size:32 final size:32
Alignment explanation
Indices: 4111638--4111699 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
4111628 TTTAAATAGG
4111638 TTTTAGTATTTTAAT-TATGTTTTAGGATATTAT
1 TTTTAGTATTTT-ATCTATGTTTTAGG-TATTAT
*
4111671 TTTTA-TATTTTATCTTTGTTTTAGGTATT
1 TTTTAGTATTTTATCTATGTTTTAGGTATT
4111700 TTAGTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 6 0.22
32 16 0.59
33 5 0.19
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.65
Consensus pattern (32 bp):
TTTTAGTATTTTATCTATGTTTTAGGTATTAT
Found at i:4112548 original size:22 final size:21
Alignment explanation
Indices: 4112511--4112553 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
4112501 TTAATTCATT
*
4112511 ATTTATTATTTTTATTTTTTA
1 ATTTATTATATTTATTTTTTA
4112532 ATTTATATATATTTATTTTTTA
1 ATTTAT-TATATTTATTTTTTA
4112554 TATCTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTATTATATTTATTTTTTA
Found at i:4112549 original size:28 final size:26
Alignment explanation
Indices: 4112483--4112551 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 26
4112473 AAACCCCCTT
**
4112483 TTATATTTATTACTATTTTTAATTCA
1 TTATATTTATTTTTATTTTTAATTCA
* *
4112509 TTATTTATTATTTTTATTTTTTAATTTA
1 TTATAT-TTATTTTTA-TTTTTAATTCA
4112537 TATATATTTATTTTT
1 T-TATATTTATTTTT
4112552 TATATCTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 5 0.14
27 7 0.20
28 19 0.54
29 4 0.11
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (26 bp):
TTATATTTATTTTTATTTTTAATTCA
Found at i:4115414 original size:5 final size:5
Alignment explanation
Indices: 4115404--4115448 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
4115394 TCGTTCTATT
* *
4115404 TTTTA TTTTA TTTTA TTTCA TTTCA TTTTA TTTTCA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTT
4115449 TTAGCAAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 32 0.86
6 5 0.14
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:4115440 original size:11 final size:11
Alignment explanation
Indices: 4115403--4115448 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
4115393 TTCGTTCTAT
*
4115403 TTTTTATTTTA
1 TTTTCATTTTA
*
4115414 TTTT-ATTTCA
1 TTTTCATTTTA
4115424 -TTTCATTTTA
1 TTTTCATTTTA
4115434 TTTTCATTTTA
1 TTTTCATTTTA
4115445 TTTT
1 TTTT
4115449 TTAGCAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 3 0.10
10 10 0.32
11 18 0.58
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCATTTTA
Found at i:4117336 original size:71 final size:73
Alignment explanation
Indices: 4117151--4117339 Score: 240
Period size: 76 Copynumber: 2.6 Consensus size: 73
4117141 TTTATCTTTT
* * * * **
4117151 TATTTTAGTTTAAATAGTTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTTTATATTTTATC
1 TATTTTAGTTTAAATAG-TTTTAGTATTTTAATTAGGATTTAGAATATTATTTTTAAAAATTA--
4117216 TTTGTTTTAGG
63 TTTGTTTTAGG
*
4117227 TATTTTAATTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTA-TTTTAAAAATTA-T
1 TATTTTAGTTTAAATA-GTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTTAAAAATTATT
4117290 T-TTTTAGG
65 TGTTTTAGG
*
4117298 TATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTA
1 TATTTTAGTTTAAATAGTTTT-AGTATTTTAATTAGGATTTA
4117340 AGATGTTTTA
Statistics
Matches: 102, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
70 5 0.05
71 41 0.40
72 2 0.02
75 9 0.09
76 44 0.43
77 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.57
Consensus pattern (73 bp):
TATTTTAGTTTAAATAGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTTAAAAATTATTT
GTTTTAGG
Found at i:4117360 original size:21 final size:20
Alignment explanation
Indices: 4117314--4117354 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
4117304 AGTTTAAATA
4117314 GTTTTAAGTGTTTTAATTAG
1 GTTTTAAGTGTTTTAATTAG
*
4117334 GATTTAAGATGTTTTAGATTA
1 GTTTTAAG-TGTTTTA-ATTA
4117355 TTTTTAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (20 bp):
GTTTTAAGTGTTTTAATTAG
Found at i:4117966 original size:17 final size:17
Alignment explanation
Indices: 4117941--4117974 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4117931 CTTTATCCCA
*
4117941 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
4117958 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
4117975 TTATCTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:4120936 original size:21 final size:21
Alignment explanation
Indices: 4120910--4120964 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
4120900 CGATAAGTTT
4120910 GGGATCTATCCTTCAAACCAA
1 GGGATCTATCCTTCAAACCAA
4120931 GGGATCTATCCTTCAAACCAA
1 GGGATCTATCCTTCAAACCAA
*
4120952 GGGATCGATCCTT
1 GGGATCTATCCTT
4120965 TTTGTGGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (21 bp):
GGGATCTATCCTTCAAACCAA
Found at i:4123278 original size:15 final size:16
Alignment explanation
Indices: 4123258--4123287 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4123248 AATAGAAATC
4123258 AAAGAG-AAGAAAAGA
1 AAAGAGAAAGAAAAGA
4123273 AAAGAGAAAGAAAAG
1 AAAGAGAAAGAAAAG
4123288 TGCTCAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAAGAGAAAGAAAAGA
Found at i:4126366 original size:30 final size:29
Alignment explanation
Indices: 4126291--4126366 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
4126281 GAATCTTATA
* *
4126291 TAAAACAATTAAT-TAAGCCCTCAAAGTTTT
1 TAAAA-AATTAATATTA-CCCTCAAAGTTCT
4126321 TAAAAAATTAATATTACCCTCAAAGTTCT
1 TAAAAAATTAATATTACCCTCAAAGTTCT
*
4126350 TAAAAACTTAAATATTA
1 TAAAAAATT-AATATTA
4126367 TTTTTTGTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
29 27 0.66
30 14 0.34
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.34
Consensus pattern (29 bp):
TAAAAAATTAATATTACCCTCAAAGTTCT
Found at i:4130537 original size:38 final size:38
Alignment explanation
Indices: 4130476--4130585 Score: 184
Period size: 38 Copynumber: 2.9 Consensus size: 38
4130466 GTTAAAATTA
*
4130476 AATTCAATAGGTATAAAAATAAATTTAATATTATTATAG
1 AATT-AATACGTATAAAAATAAATTTAATATTATTATAG
4130515 AATTAATACGTATAAAAATAAATTTAATATTATTATAG
1 AATTAATACGTATAAAAATAAATTTAATATTATTATAG
* *
4130553 AATTGATATGTATAAAAATAAATTTAATATTAT
1 AATTAATACGTATAAAAATAAATTTAATATTAT
4130586 AATATTTTAA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 64 0.94
39 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (38 bp):
AATTAATACGTATAAAAATAAATTTAATATTATTATAG
Found at i:4130541 original size:21 final size:20
Alignment explanation
Indices: 4130468--4130587 Score: 67
Period size: 21 Copynumber: 6.2 Consensus size: 20
4130458 ATATATATGT
* *
4130468 TAAAATTAAATTCAATAGGTA
1 TAAAAATAAATTTAATA-GTA
4130489 TAAAAATAAATTTAATA-T-
1 TAAAAATAAATTTAATAGTA
**
4130507 T-ATTATAGAA-TTAATACGTA
1 TAAAAATA-AATTTAATA-GTA
4130527 TAAAAATAAATTTAATA-T-
1 TAAAAATAAATTTAATAGTA
** *
4130545 T-ATTATAGAA-TTGATATGTA
1 TAAAAATA-AATTTAATA-GTA
*
4130565 TAAAAATAAATTTAATATTA
1 TAAAAATAAATTTAATAGTA
4130585 TAA
1 TAA
4130588 TATTTTAAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 25
0.66 0.12 0.22
Matches are distributed among these distances:
17 19 0.26
18 6 0.08
19 4 0.05
20 11 0.15
21 34 0.46
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (20 bp):
TAAAAATAAATTTAATAGTA
Found at i:4130609 original size:27 final size:26
Alignment explanation
Indices: 4130568--4130633 Score: 105
Period size: 27 Copynumber: 2.5 Consensus size: 26
4130558 ATATGTATAA
4130568 AAATAAATTTAATATTATAATATTTT
1 AAATAAATTTAATATTATAATATTTT
*
4130594 AAATAAAATTTGATATTATAATATTTT
1 AAAT-AAATTTAATATTATAATATTTT
4130621 AAATTAAATTTAA
1 AAA-TAAATTTAA
4130634 GGTTAACTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 4 0.11
27 31 0.86
28 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
AAATAAATTTAATATTATAATATTTT
Found at i:4130756 original size:29 final size:31
Alignment explanation
Indices: 4130701--4130763 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
4130691 TTAAAAAACA
* *
4130701 TAAGATATTATCACTTTCGTTTTTATTTAAT
1 TAAGATATGATCACTTTCGTTTTTATTCAAT
*
4130732 TAAGATATGATCA-TTT-TTTTTTATTCAAT
1 TAAGATATGATCACTTTCGTTTTTATTCAAT
4130761 TAA
1 TAA
4130764 AATGTGGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 14 0.48
30 3 0.10
31 12 0.41
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (31 bp):
TAAGATATGATCACTTTCGTTTTTATTCAAT
Found at i:4130952 original size:26 final size:26
Alignment explanation
Indices: 4130914--4130964 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4130904 ATATATATTT
4130914 TTAAATAAAAATAAAA-AAATTTAAA
1 TTAAATAAAAATAAAATAAATTTAAA
* *
4130939 TTAAATTAATAATAAAATATATTTAA
1 TTAAA-TAAAAATAAAATAAATTTAA
4130965 TAATTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 10 0.45
27 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
TTAAATAAAAATAAAATAAATTTAAA
Found at i:4130954 original size:16 final size:16
Alignment explanation
Indices: 4130935--4130982 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
4130925 TAAAAAAATT
*
4130935 TAAATTAAATTAATAA
1 TAAATTAATTTAATAA
*
4130951 TAAAATATATTTAATAA
1 TAAATTA-ATTTAATAA
* *
4130968 TTATTTAATTTAATA
1 TAAATTAATTTAATA
4130983 TATATGAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATTAATTTAATAA
Found at i:4131406 original size:19 final size:19
Alignment explanation
Indices: 4131382--4131418 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4131372 GGATTCTATT
4131382 TTTAAAATATTAAATTTAA
1 TTTAAAATATTAAATTTAA
4131401 TTTAAAATATTAAATTTA
1 TTTAAAATATTAAATTTA
4131419 TTATTATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAAATATTAAATTTAA
Found at i:4131456 original size:24 final size:24
Alignment explanation
Indices: 4131377--4131458 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 24
4131367 AAAATGGATT
4131377 CTATT-TTTAAAATATTAAATT--
1 CTATTATTTAAAATATTAAATTAA
*
4131398 -TA--ATTTAAAATATTAAATTTA
1 CTATTATTTAAAATATTAAATTAA
* * *
4131419 TTATTATTTCAAATCTTAAATTAA
1 CTATTATTTAAAATATTAAATTAA
4131443 CTA-TATTTTAAAATAT
1 CTATTA-TTTAAAATAT
4131459 ATACATGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
19 16 0.33
20 2 0.04
22 2 0.04
23 2 0.04
24 26 0.54
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (24 bp):
CTATTATTTAAAATATTAAATTAA
Found at i:4132459 original size:2 final size:2
Alignment explanation
Indices: 4132454--4132492 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4132444 TTAATATTAT
4132454 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4132493 TATTTTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4132819 original size:12 final size:12
Alignment explanation
Indices: 4132789--4132835 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
4132779 TTTTAATATT
* *
4132789 TTATTTATTTAT
1 TTATTTTTTTAC
4132801 TTATTTTTTTAC
1 TTATTTTTTTAC
4132813 TTATTTTTATT-C
1 TTATTTTT-TTAC
4132825 TTCATTTTTTT
1 TT-ATTTTTTT
4132836 CATTTATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 23 0.74
13 8 0.26
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTTTTTAC
Found at i:4136014 original size:8 final size:8
Alignment explanation
Indices: 4136001--4136036 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
4135991 GAACATTTCA
*
4136001 TGCATTCT
1 TGCATTTT
4136009 TGCA-TTT
1 TGCATTTT
4136016 TGCATTTT
1 TGCATTTT
4136024 TGCATTTT
1 TGCATTTT
4136032 TGCAT
1 TGCAT
4136037 CTTCATCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (8 bp):
TGCATTTT
Found at i:4136021 original size:15 final size:16
Alignment explanation
Indices: 4136001--4136036 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
4135991 GAACATTTCA
4136001 TGCATTCTTGCA-TTT
1 TGCATTCTTGCATTTT
*
4136016 TGCATTTTTGCATTTT
1 TGCATTCTTGCATTTT
4136032 TGCAT
1 TGCAT
4136037 CTTCATCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (16 bp):
TGCATTCTTGCATTTT
Found at i:4137213 original size:17 final size:15
Alignment explanation
Indices: 4137181--4137214 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
4137171 AGATCCAATC
4137181 AAGAACAAAAAAGAA
1 AAGAACAAAAAAGAA
4137196 AAGAAGCAAAAGAAGAA
1 AAGAA-CAAAA-AAGAA
4137213 AA
1 AA
4137215 AAAAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 5 0.29
17 7 0.41
ACGTcount: A:0.76, C:0.06, G:0.18, T:0.00
Consensus pattern (15 bp):
AAGAACAAAAAAGAA
Found at i:4137224 original size:18 final size:18
Alignment explanation
Indices: 4137181--4137243 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
4137171 AGATCCAATC
* *
4137181 AAGAACAAAAAAG-AAAAG
1 AAGAA-AAAGAAGAAAAAA
*
4137199 AAGCAAAAGAAGAAAAAA
1 AAGAAAAAGAAGAAAAAA
*
4137217 AAGAAAAA-AGAGAAACAA
1 AAGAAAAAGA-AGAAAAAA
4137235 AAGAAAAAG
1 AAGAAAAAG
4137244 GGACAAAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 7 0.19
18 30 0.81
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAGAAAAAA
Found at i:4137241 original size:26 final size:26
Alignment explanation
Indices: 4137181--4137242 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
4137171 AGATCCAATC
*
4137181 AAGAACAAAAAAGAAAAGAAGCAAAAG
1 AAGAA-AAAAAAGAAAAGAAGCAAAAA
*
4137208 AAGAAAAAAAAGAAAA-AAGAGAAACAA
1 AAGAAAAAAAAGAAAAGAAG-CAAA-AA
4137235 AAGAAAAA
1 AAGAAAAA
4137243 GGGACAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 3 0.10
26 14 0.45
27 14 0.45
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (26 bp):
AAGAAAAAAAAGAAAAGAAGCAAAAA
Found at i:4137922 original size:22 final size:22
Alignment explanation
Indices: 4137848--4137924 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
4137838 GCTACCCCAT
*
4137848 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
4137870 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
4137892 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
4137914 CAAACCTTTGA
1 CAAACCTTTGA
4137925 CCAAACATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:4138944 original size:106 final size:106
Alignment explanation
Indices: 4138735--4140215 Score: 2064
Period size: 106 Copynumber: 14.0 Consensus size: 106
4138725 ATATCGTGCC
* * * * *
4138735 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
4138799 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
4138840 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAACAATTTACC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
4138905 AATTTCAGATCTAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
4138946 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTTAATAAACAACTTT-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCC
*
4139010 CAATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
4139052 ACTCCAGACAACACAAGTTCGACTTCACGACGAAGGGACCGCAGATTGTCAACAAACAACTTCGC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
4139117 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
4139158 ACTCCAGACAACGCAAGTTCAACTTCACAACAAAAGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
4139223 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
4139264 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
4139329 AATTTCAGAGCCAACTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * **
4139370 ATTCCAGACAACGCAAGTTCAACTTCACGACGAAGTGACCGCTGGTTGTCAACAAAAAACTTCTA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
**
4139435 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
4139476 ACTCTAGACAATGCAAGTTCAACTTCACGAAGAAGGGACCGTTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
4139541 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
4139582 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGTTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
4139647 AATTTCAGAACCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
4139688 ACTCCAGACAACGCAAGTTCAACTTTACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * * *
4139753 AATTTTAGAGCCAATTTTAACTTTACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
4139794 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
4139859 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
4139900 ACTCAAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * * *
4139965 AATTTTAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * * * *
4140006 AC-CCAAGGGAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAAC-AA-AATTT--
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCC
*
4140066 C-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
4140106 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACATATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
** * * *
4140171 GGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATAATGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
4140212 ACTC
1 ACTC
4140216 AGAACAATGC
Statistics
Matches: 1236, Mismatches: 128, Indels: 23
0.89 0.09 0.02
Matches are distributed among these distances:
100 77 0.06
101 3 0.00
102 6 0.00
104 5 0.00
105 54 0.04
106 1088 0.88
107 3 0.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:4141000 original size:37 final size:37
Alignment explanation
Indices: 4140947--4141043 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
4140937 CCTTTTCGTC
4140947 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
4140984 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* *
4141021 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
4141044 GATATGATCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:4141777 original size:27 final size:26
Alignment explanation
Indices: 4141745--4141809 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
4141735 ATTATATGTA
4141745 TATTTTATATTTGATTTATATATTATT
1 TATTTTATATTTGATTTATAT-TTATT
* * *
4141772 TATTTT-TGTTTTGATTTTTATTTTTT
1 TATTTTAT-ATTTGATTTATATTTATT
4141798 TATTTATATATT
1 TATTT-TATATT
4141810 ATATTTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 10 0.32
27 20 0.65
28 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (26 bp):
TATTTTATATTTGATTTATATTTATT
Found at i:4141871 original size:2 final size:2
Alignment explanation
Indices: 4141864--4141895 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4141854 TATTTTACTC
4141864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4141896 TTTAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4141926 original size:16 final size:15
Alignment explanation
Indices: 4141900--4141983 Score: 55
Period size: 16 Copynumber: 5.5 Consensus size: 15
4141890 ATATATTTTA
*
4141900 ATTTTTCATTTATTT
1 ATTTTTTATTTATTT
*
4141915 ATTTATTTATTTTTTCT
1 ATTT-TTTATTTATT-T
* * *
4141932 TTTATTTTTTTTACTT
1 ATT-TTTTATTTATTT
*
4141948 A-TTTTTATTT-TTC
1 ATTTTTTATTTATTT
*
4141961 ATTTTTTCATTTATTC
1 ATTTTTT-ATTTATTT
4141977 ATTTTTT
1 ATTTTTT
4141984 CCCTCTAATA
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
13 2 0.04
14 12 0.23
15 9 0.17
16 19 0.36
17 10 0.19
18 1 0.02
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTTATTTATTT
Found at i:4141928 original size:24 final size:25
Alignment explanation
Indices: 4141896--4141953 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
4141886 ATATATATAT
*
4141896 TTTAATTTTTCATTTA-TTTATTTA
1 TTTATTTTTTCATTTATTTTATTTA
* *
4141920 TTTATTTTTTCTTTTATTTTTTTTA
1 TTTATTTTTTCATTTATTTTATTTA
*
4141945 CTTATTTTT
1 TTTATTTTT
4141954 ATTTTTCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTATTTTTTCATTTATTTTATTTA
Found at i:4143557 original size:15 final size:14
Alignment explanation
Indices: 4143532--4143562 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4143522 AAATGATTCG
4143532 ATTATAATGTAAGA
1 ATTATAATGTAAGA
4143546 ATTATCAATGTAAGA
1 ATTAT-AATGTAAGA
4143561 AT
1 AT
4143563 CAGCAGACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (14 bp):
ATTATAATGTAAGA
Found at i:4147346 original size:128 final size:128
Alignment explanation
Indices: 4147118--4148126 Score: 1813
Period size: 128 Copynumber: 7.9 Consensus size: 128
4147108 ATCGGAGTAT
4147118 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
4147183 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
* *
4147246 TATTCACATGAAGACGCGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
4147311 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
4147374 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
4147439 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
* * *
4147502 TATTCACATGAAGGCGCGTTCCCGGGGGCGTGCCTTCCATTATTTCGTTAGGGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
4147567 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTTAC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
4147630 TATTCACACGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
* *
4147695 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACATTAGATATATCAGTAGCTATTATTTCAC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
** *
4147758 TATTCACATTCAGGCACGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
4147823 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
4147886 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
1 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
4147951 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
66 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*** * * * *
4148014 -AGGGGACATGAAGGCGCGTTCTCGGGGGGGCGCCTTCCATTATTTTGTCATAGAATATGTTATC
1 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
4148078 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAG
65 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAG
4148127 CAAATCAGGT
Statistics
Matches: 846, Mismatches: 34, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
127 1 0.00
128 845 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
Found at i:4148590 original size:33 final size:33
Alignment explanation
Indices: 4148529--4148628 Score: 128
Period size: 34 Copynumber: 3.0 Consensus size: 33
4148519 AAATTTAATG
*
4148529 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTT-GAATAATATAATTTATATTTTAAAT
* * * *
4148563 TTAAATTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTGAATAATATAATTTATATTTTAAAT
*
4148596 TTAAATTTTGAATAATATAATTTGTATTTTAAA
1 TTAAA-TTTGAATAATATAATTTATATTTTAAA
4148629 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 25 0.45
34 31 0.55
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (33 bp):
TTAAATTTGAATAATATAATTTATATTTTAAAT
Found at i:4149177 original size:21 final size:21
Alignment explanation
Indices: 4149147--4149261 Score: 187
Period size: 21 Copynumber: 5.5 Consensus size: 21
4149137 TATGGTATAA
* *
4149147 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTCGGAATGT
*
4149168 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTCGGAATGT
4149189 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTCGGAATGT
4149210 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTCGGAATGT
4149231 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTCGGAATGT
4149252 AACCCTGCGG
1 AACCCTGCGG
4149262 AGATGGCATA
Statistics
Matches: 90, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
20 3 0.03
21 84 0.93
22 3 0.03
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTCGGAATGT
Found at i:4149285 original size:42 final size:42
Alignment explanation
Indices: 4149151--4149278 Score: 127
Period size: 42 Copynumber: 3.1 Consensus size: 42
4149141 GTATAAAACC
* * * * * *
4149151 CTGCGGGCTAGGCATGTAA-CCTGGCGGGCTAGGAATGTAACC
1 CTGCGGGCTCGGAATGTAACCCT-GCGGGATCGGAATATAACA
* * *
4149193 CTGCGGGCTCGGAATGTAACCCTGCGGGCTCGGAATGTAACC
1 CTGCGGGCTCGGAATGTAACCCTGCGGGATCGGAATATAACA
*
4149235 CTGCGGGCTCGGAATGTAACCCTGCGGAGAT-GGCATATAA-A
1 CTGCGGGCTCGGAATGTAACCCTGCGG-GATCGGAATATAACA
4149276 CTG
1 CTG
4149279 GTGGGCTTGG
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
41 3 0.04
42 69 0.90
43 5 0.06
ACGTcount: A:0.22, C:0.25, G:0.34, T:0.20
Consensus pattern (42 bp):
CTGCGGGCTCGGAATGTAACCCTGCGGGATCGGAATATAACA
Found at i:4149285 original size:63 final size:63
Alignment explanation
Indices: 4149151--4149278 Score: 154
Period size: 63 Copynumber: 2.0 Consensus size: 63
4149141 GTATAAAACC
* * * *
4149151 CTGCGGGCTAGGCATGTAACCTGGCGGGCTAGGAATGTAACCCTGCGGGCTCGGAATGTAACC
1 CTGCGGGCTAGGAATGTAACCTGGCGGGCTAGGAATGTAACCCTGCGGGATCGGAATATAACA
* * *
4149214 CTGCGGGCTCGGAATGTAACCCT-GCGGGCTCGGAATGTAACCCTGCGGAGAT-GGCATATAA-A
1 CTGCGGGCTAGGAATGTAA-CCTGGCGGGCTAGGAATGTAACCCTGCGG-GATCGGAATATAACA
4149276 CTG
1 CTG
4149279 GTGGGCTTGG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
62 3 0.05
63 48 0.86
64 5 0.09
ACGTcount: A:0.22, C:0.25, G:0.34, T:0.20
Consensus pattern (63 bp):
CTGCGGGCTAGGAATGTAACCTGGCGGGCTAGGAATGTAACCCTGCGGGATCGGAATATAACA
Found at i:4149291 original size:21 final size:21
Alignment explanation
Indices: 4149265--4149312 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4149255 CCTGCGGAGA
*
4149265 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
4149286 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
4149307 GGGCAT
1 TGGCAT
4149313 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:4151104 original size:32 final size:31
Alignment explanation
Indices: 4151033--4151136 Score: 95
Period size: 32 Copynumber: 3.3 Consensus size: 31
4151023 TTAATAATTC
* * * * *
4151033 TAAATAAATAATAATTATATAAATATTATTT
1 TAAAAAAATAATATTTACATAAATATTAATA
4151064 TAATAAAAATAATATTTACATAATATATTAATA
1 TAA-AAAAATAATATTTACATAA-ATATTAATA
* *
4151097 TAAAAAAATAACTATTTA-A-AAATACTAACA
1 TAAAAAAATAA-TATTTACATAAATATTAATA
4151127 TAAAATAAAT
1 TAAAA-AAAT
4151137 TTCTTACCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
30 12 0.19
31 9 0.15
32 25 0.40
33 16 0.26
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (31 bp):
TAAAAAAATAATATTTACATAAATATTAATA
Found at i:4151130 original size:30 final size:32
Alignment explanation
Indices: 4151068--4151136 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 32
4151058 TTATTTTAAT
* *
4151068 AAAAATAATATTTACATAATATATTAATATAA
1 AAAAATAATATTTACATAATATACTAACATAA
4151100 AAAAATAACTATTTA-A-AA-ATACTAACATAA
1 AAAAATAA-TATTTACATAATATACTAACATAA
4151130 AATAAAT
1 AA-AAAT
4151137 TTCTTACCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 12 0.36
31 6 0.18
32 9 0.27
33 6 0.18
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (32 bp):
AAAAATAATATTTACATAATATACTAACATAA
Found at i:4155899 original size:95 final size:94
Alignment explanation
Indices: 4155800--4155972 Score: 233
Period size: 94 Copynumber: 1.8 Consensus size: 94
4155790 ACATTGAACC
* * * * * *
4155800 TAATTTTGGAATCGATACCGGAAGGGGGTATC-AGTACCCTAGTATAGTAGTATCGATATCATGG
1 TAATTTTGGAATCGATACC-AAAAGGGGTATCGA-TACCATAGTAGAGTAGAATCGATACCATGG
4155864 TGAGGG-TATCGATACCAAACCTCATCAAAGA
64 T-AGGGATATCGATACCAAACCTCATCAAAGA
* *
4155895 TAATTTTGGTATCGATACCAAAAGGGGTATCGATACCATAGTAGGGTAGAATCGATACCATGGTA
1 TAATTTTGGAATCGATACCAAAAGGGGTATCGATACCATAGTAGAGTAGAATCGATACCATGGTA
4155960 GGGATATCGATAC
66 GGGATATCGATAC
4155973 TGAAGGGCCA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
93 4 0.06
94 45 0.66
95 19 0.28
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (94 bp):
TAATTTTGGAATCGATACCAAAAGGGGTATCGATACCATAGTAGAGTAGAATCGATACCATGGTA
GGGATATCGATACCAAACCTCATCAAAGA
Found at i:4155970 original size:20 final size:20
Alignment explanation
Indices: 4155904--4155972 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 20
4155894 ATAATTTTGG
* *
4155904 TATCGATACCA-A-AAGGGG
1 TATCGATACCATAGTAGGGA
4155922 TATCGATACCATAGTAGGGTA
1 TATCGATACCATAGTAGGG-A
* *
4155943 GAATCGATACCATGGTAGGGA
1 -TATCGATACCATAGTAGGGA
4155964 TATCGATAC
1 TATCGATAC
4155973 TGAAGGGCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
18 11 0.26
19 1 0.02
20 12 0.29
21 1 0.02
22 17 0.40
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (20 bp):
TATCGATACCATAGTAGGGA
Found at i:4156366 original size:59 final size:59
Alignment explanation
Indices: 4156295--4156701 Score: 609
Period size: 59 Copynumber: 6.9 Consensus size: 59
4156285 ATTACCAAAT
* * *
4156295 GGCACTAAGTGTGCTAAAATGGTAAGGAAATCTTACTAAGTGTATGAATTTCTAGATAG
1 GGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* * ** *
4156354 GTCACTTTGTGTGCTAAAATATTAAGGAAATCATACTAAGTGTATGAATTTCCAAATAG
1 GGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* * *
4156413 GGCTCTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAAATAG
1 GGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* *
4156472 GGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAACTGAATGAATTTCCAGATAG
1 GGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* *
4156531 GTCACTTCGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
1 GGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* * *
4156590 GGCACTTAATGTGCTAAAATAGTAAGGAAATCATACTAAGTGTATGAATTTCCAGTTAG
1 GGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
* * *
4156649 GGCACTTCGTGTGCTAAAATGATAAGGAAATCATACTAA-TGGTGTGAATTTCC
1 GGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGT-GTATGAATTTCC
4156702 TATTGAAATT
Statistics
Matches: 316, Mismatches: 31, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
58 1 0.00
59 315 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (59 bp):
GGCACTTAGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAG
Found at i:4163655 original size:95 final size:95
Alignment explanation
Indices: 4163542--4163764 Score: 261
Period size: 95 Copynumber: 2.3 Consensus size: 95
4163532 TACTGATGAG
* * *
4163542 GTAGTATCGATACCATGGTGAGGATATCGATACCAGGTAACATCGAACCTAATTTTGGTAT-TGA
1 GTAGTATCAATACCATGGTGAGGATATCGATACCAAGCAACATCGAACCTAATTTTGGTATAT-A
*
4163606 TACCGGAAGGGGGTATCGGTACCCTAGCATA
65 TACCGGAAGGGGGTATCGATACCCTAGCATA
* * ** * *
4163637 GTAGTATCAATATCATGGTGAGGGTATCGATACCAAGCCTCATCGAAGCTAATTTTTGTATATAT
1 GTAGTATCAATACCATGGTGAGGATATCGATACCAAGCAACATCGAACCTAATTTTGGTATATAT
* * **
4163702 ACCGGAAGGGGGTATCGATACCATAGTAGG
66 ACCGGAAGGGGGTATCGATACCCTAGCATA
** *
4163732 GTAGTATTGATACCATGGT-AGGGGTATCGATAC
1 GTAGTATCAATACCATGGTGA-GGATATCGATAC
4163765 TGAAGGGCCA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
94 1 0.01
95 107 0.98
96 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (95 bp):
GTAGTATCAATACCATGGTGAGGATATCGATACCAAGCAACATCGAACCTAATTTTGGTATATAT
ACCGGAAGGGGGTATCGATACCCTAGCATA
Found at i:4163763 original size:20 final size:20
Alignment explanation
Indices: 4163710--4163764 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
4163700 ATACCGGAAG
4163710 GGGGTATCGATACCATAGTA
1 GGGGTATCGATACCATAGTA
* *
4163730 GGGTAGTATTGATACCATGGTA
1 GGG--GTATCGATACCATAGTA
4163752 GGGGTATCGATAC
1 GGGGTATCGATAC
4163765 TGAAGGGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.40
22 18 0.60
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (20 bp):
GGGGTATCGATACCATAGTA
Found at i:4164163 original size:59 final size:59
Alignment explanation
Indices: 4164095--4164492 Score: 672
Period size: 59 Copynumber: 6.7 Consensus size: 59
4164085 ATGACACTAA
*
4164095 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCTAGATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
*
4164154 GTGTCCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* *
4164213 GTGTGCTAAAATGATAAGGAAATCATACTAAGTGTATGAATTTCCAAATAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
*
4164272 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGGACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* * *
4164331 ATGTGCTAAAATGGTAAGAAAATCATACTAAGTGTATGAATTTCCAGATAGGACACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* *
4164390 GTATGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGTTAGGGCACTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
* *
4164449 GTGTGCTAAAATGATAAGGAAATCATACTAA-TGGTGTGAATTTC
1 GTGTGCTAAAATGGTAAGGAAATCATACTAAGT-GTATGAATTTC
4164493 GTATTGAATT
Statistics
Matches: 318, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
58 1 0.00
59 317 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (59 bp):
GTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGGCACTTC
Found at i:4172043 original size:40 final size:40
Alignment explanation
Indices: 4171988--4172069 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
4171978 TGTAGGTTTA
4171988 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4172028 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4172068 TA
1 TA
4172070 GCACTACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:4175112 original size:32 final size:32
Alignment explanation
Indices: 4175075--4175186 Score: 154
Period size: 32 Copynumber: 3.5 Consensus size: 32
4175065 CTAGTCAGGG
4175075 TGCATTTAGATAATGCACATTATGGTCAGGTT
1 TGCATTTAGATAATGCACATTATGGTCAGGTT
* *
4175107 TGCATTTAGATATTGCATATTATGGTCAGGTT
1 TGCATTTAGATAATGCACATTATGGTCAGGTT
* *
4175139 TGCATTCAAAATAATGCACATTATGGTCAGG-T
1 TGCATT-TAGATAATGCACATTATGGTCAGGTT
* *
4175171 TGTATTCAGATAATGC
1 TGCATTTAGATAATGC
4175187 GCAAGAGTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
31 8 0.11
32 42 0.60
33 20 0.29
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (32 bp):
TGCATTTAGATAATGCACATTATGGTCAGGTT
Found at i:4175143 original size:19 final size:19
Alignment explanation
Indices: 4175088--4175143 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
4175078 ATTTAGATAA
*
4175088 TGCACATTATGGTCAGGTT
1 TGCATATTATGGTCAGGTT
*
4175107 TGCAT-TTA-GAT-A---T
1 TGCATATTATGGTCAGGTT
4175120 TGCATATTATGGTCAGGTT
1 TGCATATTATGGTCAGGTT
4175139 TGCAT
1 TGCAT
4175144 TCAAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 12
0.65 0.07 0.28
Matches are distributed among these distances:
13 6 0.21
14 3 0.11
15 2 0.07
16 2 0.07
17 2 0.07
18 3 0.11
19 10 0.36
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.41
Consensus pattern (19 bp):
TGCATATTATGGTCAGGTT
Found at i:4180775 original size:23 final size:23
Alignment explanation
Indices: 4180749--4180793 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4180739 CCGAAAGACC
*
4180749 ACATAGGTTTGTCCCAAATGACA
1 ACATAAGTTTGTCCCAAATGACA
* *
4180772 ACATAATTTTGTCCCGAATGAC
1 ACATAAGTTTGTCCCAAATGAC
4180794 CATATAGAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (23 bp):
ACATAAGTTTGTCCCAAATGACA
Found at i:4182628 original size:19 final size:20
Alignment explanation
Indices: 4182592--4182630 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4182582 CTGGACATTA
*
4182592 ATGTTAGAGTGTTGAAATTG
1 ATGTTAGAATGTTGAAATTG
4182612 ATGTTAGAATG-TGAAATTG
1 ATGTTAGAATGTTGAAATTG
4182631 GGCCATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.38
Consensus pattern (20 bp):
ATGTTAGAATGTTGAAATTG
Found at i:4182693 original size:21 final size:21
Alignment explanation
Indices: 4182667--4182714 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
4182657 ATCACAAATA
4182667 TGAAAAAATTGGGAACTAAAG
1 TGAAAAAATTGGGAACTAAAG
4182688 TGAAAAAATTGGGAACTAAAG
1 TGAAAAAATTGGGAACTAAAG
4182709 TGAAAA
1 TGAAAA
4182715 TGTTATGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.54, C:0.04, G:0.23, T:0.19
Consensus pattern (21 bp):
TGAAAAAATTGGGAACTAAAG
Found at i:4184126 original size:61 final size:61
Alignment explanation
Indices: 4184051--4184237 Score: 257
Period size: 61 Copynumber: 3.1 Consensus size: 61
4184041 ATATCCAGAT
* * *
4184051 TAGCACTAGAGTGTATACCCAAGGCACGTAGTACAGGTAGTGGGCACGACCTTATGTGTCA
1 TAGCACTAGAGTGTATACCCAAGACACTTAGTACAGGTGGTGGGCACGACCTTATGTGTCA
* * * * *
4184112 TAGCACTAGAGTGTATACCCAAGACACTTAGTATAGGTGGTGGGCATGGCCTTATCTGTCT
1 TAGCACTAGAGTGTATACCCAAGACACTTAGTACAGGTGGTGGGCACGACCTTATGTGTCA
* * * * *
4184173 TATCACTATAGTGTATACCCAAGTCACTTAGTGCAGGTGGTGGACACGACCTTATGTGTCA
1 TAGCACTAGAGTGTATACCCAAGACACTTAGTACAGGTGGTGGGCACGACCTTATGTGTCA
4184234 TAGC
1 TAGC
4184238 TCTATGATGC
Statistics
Matches: 107, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 107 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (61 bp):
TAGCACTAGAGTGTATACCCAAGACACTTAGTACAGGTGGTGGGCACGACCTTATGTGTCA
Found at i:4192324 original size:13 final size:13
Alignment explanation
Indices: 4192306--4192330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4192296 AATGAATTTT
4192306 AAGATTTTCTAAA
1 AAGATTTTCTAAA
4192319 AAGATTTTCTAA
1 AAGATTTTCTAA
4192331 GTATATTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:4193669 original size:95 final size:95
Alignment explanation
Indices: 4193505--4193686 Score: 269
Period size: 95 Copynumber: 1.9 Consensus size: 95
4193495 ATTATACATA
* * * *
4193505 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGAAATTGGTTAAACTCCCTGGCTTTATGGATAAT
1 TATACAATAAAGCTTGAGCTGTCCCTCTAGAGAAATTGGTTAAACTCCCCGACTTTATGGATAAG
* *
4193570 ATTCAGCTAGCCTGATAAAGGTGATTATAT
66 ATTCAACTAACCTGATAAAGGTGATTATAT
*
4193600 TATACAATAAAGCTTGAGCTGTCCCTCTA-AGGCAATTGGTTAAA-TGCCCCGACTTTATGGATA
1 TATACAATAAAGCTTGAGCTGTCCCTCTAGA-GAAATTGGTTAAACT-CCCCGACTTTATGGATA
4193663 AGATTCAACTAACCTGATAAAGGT
64 AGATTCAACTAACCTGATAAAGGT
4193687 ATTTACATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
94 2 0.03
95 76 0.97
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGCTGTCCCTCTAGAGAAATTGGTTAAACTCCCCGACTTTATGGATAAG
ATTCAACTAACCTGATAAAGGTGATTATAT
Found at i:4195062 original size:72 final size:76
Alignment explanation
Indices: 4194977--4195135 Score: 202
Period size: 72 Copynumber: 2.1 Consensus size: 76
4194967 ATCTTACTTG
* * ***
4194977 AGATTGTTATTCTTAAAA-TAGACTTTGTCTCACTTGAGATTGTTTT-ACTCGAAAGAA-G-ATT
1 AGATTGTTTTTCTTAAAACAAGA-TTTGTCTCACTTGAGACCATTTTCACTCGAAAGAAGGCATT
*
4195038 T-ATTTCCCTCA
65 TCATTTCACTCA
* *
4195049 AGATTATTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCATTTTCACTCGAAAGAAGGCATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCATTTTCACTCGAAAGAAGGCATTT
4195114 CATTTCACTCA
66 CATTTCACTCA
4195125 AGATTGTTTTT
1 AGATTGTTTTT
4195136 AAAGAAGATT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
72 35 0.48
73 14 0.19
74 1 0.01
75 4 0.05
76 19 0.26
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (76 bp):
AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCATTTTCACTCGAAAGAAGGCATTT
CATTTCACTCA
Found at i:4195144 original size:72 final size:73
Alignment explanation
Indices: 4194986--4195160 Score: 182
Period size: 72 Copynumber: 2.4 Consensus size: 73
4194976 GAGATTGTTA
* * * *** *
4194986 TTCTTAAAA-TAGACTTTGTCTCACTTGAGATTGTTTTACTCGAAAGAAGATTTATTTCCCTCAA
1 TTCTTAAAACAAGATTTTGTCTCGCTTGAGACCATTTTACTCGAAAGAAGATTTATTTCACTCAA
*
4195050 GATTATTT
66 GATTATGT
4195058 TTCTTAAAACAAGA-TTTGTCTCGCTTGAGACCATTTTCACTCGAAAGAAGGCATTTCATTTCAC
1 TTCTTAAAACAAGATTTTGTCTCGCTTGAGACCATTTT-ACTCGAAAGAA-G-ATTT-ATTTCAC
4195122 TCAAGA-T-TGT
62 TCAAGATTATGT
* *
4195132 TT-TT-AAAGAAGATTTTATCTCGCTTGAGA
1 TTCTTAAAACAAGATTTTGTCTCGCTTGAGA
4195161 TAGTTTCCCT
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
72 35 0.40
73 31 0.35
74 5 0.06
75 5 0.06
76 12 0.14
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (73 bp):
TTCTTAAAACAAGATTTTGTCTCGCTTGAGACCATTTTACTCGAAAGAAGATTTATTTCACTCAA
GATTATGT
Found at i:4195153 original size:73 final size:72
Alignment explanation
Indices: 4195019--4195160 Score: 175
Period size: 73 Copynumber: 2.0 Consensus size: 72
4195009 CTTGAGATTG
* * *
4195019 TTTTACTCGAAAGAAGATTTATTTCCCTCAAGATTATTTTTCTTAAAACAAGATTTGTCTCGCTT
1 TTTTACTCGAAAGAAGATTTATTTCACTCAAGATTATGTTTCTTAAAACAAGATTTATCTCGCTT
4195084 GAGACCA
66 GAGACCA
*
4195091 TTTTCACTCGAAAGAAGGCATTTCATTTCACTCAAGA-T-TGTTT-TT-AAAGAAGATTTTATCT
1 TTTT-ACTCGAAAGAA-G-ATTT-ATTTCACTCAAGATTATGTTTCTTAAAACAAGA-TTTATCT
4195152 CGCTTGAGA
61 CGCTTGAGA
4195161 TAGTTTCCCT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
72 11 0.18
73 28 0.46
74 5 0.08
75 5 0.08
76 12 0.20
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (72 bp):
TTTTACTCGAAAGAAGATTTATTTCACTCAAGATTATGTTTCTTAAAACAAGATTTATCTCGCTT
GAGACCA
Found at i:4195242 original size:37 final size:39
Alignment explanation
Indices: 4195143--4195261 Score: 152
Period size: 39 Copynumber: 3.1 Consensus size: 39
4195133 TTTAAAGAAG
*
4195143 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAAT
* *
4195182 ATTTTATCTCGCTCGAGATAGTTTCCCTTGAAA-TAAA-
1 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAAT
* * * *
4195219 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACA-AAAT
4195259 ATT
1 ATT
4195262 AAAAACATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
37 28 0.41
38 3 0.04
39 34 0.50
40 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (39 bp):
ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAAT
Found at i:4195368 original size:36 final size:36
Alignment explanation
Indices: 4195328--4196051 Score: 643
Period size: 36 Copynumber: 20.3 Consensus size: 36
4195318 AAATTTTGTC
4195328 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* *
4195364 TCTCTTGAAACAAATTTTATCTCCCTTGAGACAGTT
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* *
4195400 TCCCTTGAAACAAATTTTTGTCTCTCTTGAGACAATT
1 TCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTT
4195437 T-TCCTTGAAACAAATTTTGTCTC-CTTTGAGACAGTT
1 TCT-CTTGAAACAAATTTTGTCTCTC-TTGAGACAGTT
* * *
4195473 TCCCTTGATACAAATTTTGTCTCTTTTGAGACAGTT
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
*
4195509 TCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* * *
4195545 TCTCTTGAAACAAATTTTATCTCCCTTGAGACTGTT
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* *
4195581 TCCCTTGAAACAAATTTTTTGTCTCTCTTGAGACAATT
1 TCTCTTGAAACAAA--TTTTGTCTCTCTTGAGACAGTT
* *
4195619 T-TCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTT
1 TCT-CTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* * * *
4195655 TCTTTTAAAACTAAATTTTGTCTCTCTGGAGACAATT
1 TCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTT
*
4195692 TCCCTTGAAACAAATTTTG--TCTC-T----C--TT
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* * ** *
4195719 TCCCTTGAAATAAAATATTTG--AAT-TT--G---TTT
1 TCTCTTGAAA-CAAAT-TTTGTCTCTCTTGAGACAGTT
* * * *
4195749 TC-CTTTAAACAAATTTCGTCTCACTTGAGATAGTT
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* * * *
4195784 TCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAATT
1 TCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTT
* * * *
4195821 T-TCCTTGAAACAAATTTCGTCTCCCTTAAGACATTT
1 TCT-CTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* * * * *
4195857 TCTTTTCAAACTAAGTTTTGTCTCTTTTGAGAGAGTT
1 TCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTT
* * * *
4195894 T-TCCTTGAAATAAATTTTGTCTC-CTTTAAGTCATTT
1 TCT-CTTGAAACAAATTTTGTCTCTC-TTGAGACAGTT
* * *
4195930 TCTTTTCAAACTAAGTTTTGTCTCTCTTGAGACAGTT
1 TCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTT
*
4195967 T-TCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTT
1 TCT-CTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* * *
4196003 TCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTT
1 TCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTT
4196040 TCTCTTGAAACA
1 TCTCTTGAAACA
4196052 CCAATCCTTG
Statistics
Matches: 556, Mismatches: 96, Indels: 72
0.77 0.13 0.10
Matches are distributed among these distances:
27 15 0.03
28 8 0.01
29 13 0.02
30 6 0.01
32 1 0.00
34 4 0.01
35 5 0.01
36 300 0.54
37 173 0.31
38 31 0.06
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.43
Consensus pattern (36 bp):
TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
Found at i:4195407 original size:72 final size:72
Alignment explanation
Indices: 4195331--4196051 Score: 674
Period size: 73 Copynumber: 10.1 Consensus size: 72
4195321 TTTTGTCTCT
* *
4195331 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCCCTTGAGAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGAC
4195396 AGTTTCC
66 AGTTTCC
*
4195403 CTTGAAACAAATTTTTGTCTCTCTTGAGACAATTT-TCCTTGAAACAAATTTTGTCTC-CTTTGA
1 CTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCT-CTTGAAACAAATTTTGTCTCTC-TTGA
4195466 GACAGTTTCC
63 GACAGTTTCC
* * *
4195476 CTTGATACAAATTTTGTCTCTTTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGAC
*
4195541 AGTTTCT
66 AGTTTCC
* * * *
4195548 CTTGAAACAAATTTTATCTCCCTTGAGACTGTTTCCCTTGAAACAAATTTTTTGTCTCTCTTGAG
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA--TTTTGTCTCTCTTGAG
* *
4195613 ACAATTTTC
64 ACAGTTTCC
* * * * *
4195622 CTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTTTTAAAACTAAATTTTGTCTCTCTGGAGA
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGA
*
4195687 CAATTTCC
65 CAGTTTCC
* * **
4195695 CTTGAAACAAATTTTG--TCTC-T----C--TTTCCCTTGAAATAAAATATTTG--AAT-TT---
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA-CAAAT-TTTGTCTCTCTTGAG
*
4195745 ---GTTTTC
64 ACAGTTTCC
* * * * * * *
4195751 CTTTAAACAAATTTCGTCTCACTTGAGATAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGA
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGA
* *
4195816 CAATTTTC
65 CAGTTTCC
* * * * * * * *
4195824 CTTGAAACAAATTTCGTCTCCCTTAAGACATTTTCTTTTCAAACTAAGTTTTGTCTCTTTTGAGA
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGA
* *
4195889 GAGTTTTC
65 CAGTTTCC
* * * * * * *
4195897 CTTGAAATAAATTTTGTCTC-CTTTAAGTCATTTTCTTTTCAAACTAAGTTTTGTCTCTCTTGAG
1 CTTGAAACAAATTTTGTCTCTC-TTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAG
*
4195961 ACAGTTTTC
64 ACAGTTTCC
* * * *
4195970 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGA
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGA
*
4196035 CAGTTTCT
65 CAGTTTCC
4196043 CTTGAAACA
1 CTTGAAACA
4196052 CCAATCCTTG
Statistics
Matches: 549, Mismatches: 69, Indels: 61
0.81 0.10 0.09
Matches are distributed among these distances:
56 18 0.03
58 3 0.01
59 1 0.00
62 1 0.00
63 1 0.00
64 17 0.03
65 16 0.03
66 1 0.00
67 2 0.00
70 1 0.00
71 3 0.01
72 110 0.20
73 311 0.57
74 61 0.11
75 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.43
Consensus pattern (72 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGAC
AGTTTCC
Found at i:4195975 original size:275 final size:275
Alignment explanation
Indices: 4195482--4195989 Score: 691
Period size: 275 Copynumber: 1.8 Consensus size: 275
4195472 TTCCCTTGAT
* **
4195482 ACAAATTTTGTCTCTTTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
1 ACAAATTTCGTCTCACTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
* * * *
4195547 TCTTGAAACAAATTTTATCTCCCTTGAGACTGTTTCCCTTGAAACAAATTTTTTGTCTCTCTTGA
66 TCTTGAAACAAATTTCATCTCCCTTAAGACTGTTTCCCTTCAAACAAATGTTTTGTCTCTCTTGA
*
4195612 GACAATTTTCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTTTTAAAACTAAATTTTGTC
131 GACAATTTTCCTTGAAACAAATTTTGTCTCCCTTAAGATAGTTTCTTTTAAAACTAAATTTTGTC
4195677 TCTCTGGAGACAATTTCCCTTGAAACAAATTTTGTCTCTCTTTCCCTTGAAATAAAATATTTGAA
196 TCTCTGGAGACAATTTCCCTTGAAACAAATTTTGTCTCTCTTTCCCTTGAAATAAAATATTTGAA
4195742 TTTGTTTTCCTTTAA
261 TTTGTTTTCCTTTAA
* ** * * *
4195757 ACAAATTTCGTCTCACTTGAGATAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAATTT
1 ACAAATTTCGTCTCACTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTT
* ** * *
4195822 -TCCTTGAAACAAATTTCGTCTCCCTTAAGACAT-TTTCTTTTCAAACTAA-GTTTTGTCTCTTT
65 CT-CTTGAAACAAATTTCATCTCCCTTAAGAC-TGTTTCCCTTCAAACAAATGTTTTGTCTCTCT
* * * * * * *
4195884 TGAGAGAGTTTTCCTTGAAATAAATTTTGTCTCCTTTAAG-TCATTTTCTTTTCAAACTAAGTTT
128 TGAGACAATTTTCCTTGAAACAAATTTTGTCTCCCTTAAGAT-AGTTTCTTTTAAAACTAAATTT
* * *
4195948 TGTCTCTCTTGAGACAGTTTTCCTTGAAACAAATTTTGTCTC
192 TGTCTCTCTGGAGACAATTTCCCTTGAAACAAATTTTGTCTC
4195990 CCTTGAGACA
Statistics
Matches: 200, Mismatches: 29, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
274 1 0.00
275 136 0.68
276 62 0.31
277 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.44
Consensus pattern (275 bp):
ACAAATTTCGTCTCACTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
TCTTGAAACAAATTTCATCTCCCTTAAGACTGTTTCCCTTCAAACAAATGTTTTGTCTCTCTTGA
GACAATTTTCCTTGAAACAAATTTTGTCTCCCTTAAGATAGTTTCTTTTAAAACTAAATTTTGTC
TCTCTGGAGACAATTTCCCTTGAAACAAATTTTGTCTCTCTTTCCCTTGAAATAAAATATTTGAA
TTTGTTTTCCTTTAA
Found at i:4196032 original size:37 final size:37
Alignment explanation
Indices: 4195766--4196050 Score: 269
Period size: 37 Copynumber: 7.8 Consensus size: 37
4195756 AACAAATTTC
* * *
4195766 GTCTCACTTGAGATAGTTTCTTTTGGAACTAAGTTTT
1 GTCTCTCTTGAGACAGTTTCTTTTGAAACTAAGTTTT
* * * *
4195803 GTCTCTCTTGAGACAATTT-TCCTTGAAAC-AAATTTC
1 GTCTCTCTTGAGACAGTTTCT-TTTGAAACTAAGTTTT
* * * *
4195839 GTCTCCCTTAAGACATTTTCTTTTCAAACTAAGTTTT
1 GTCTCTCTTGAGACAGTTTCTTTTGAAACTAAGTTTT
* * * *
4195876 GTCTCTTTTGAGAGAGTTT-TCCTTGAAA-TAAATTTT
1 GTCTCTCTTGAGACAGTTTCT-TTTGAAACTAAGTTTT
* * * *
4195912 GTCTC-CTTTAAGTCATTTTCTTTTCAAACTAAGTTTT
1 GTCTCTC-TTGAGACAGTTTCTTTTGAAACTAAGTTTT
* *
4195949 GTCTCTCTTGAGACAGTTT-TCCTTGAAAC-AAATTTT
1 GTCTCTCTTGAGACAGTTTCT-TTTGAAACTAAGTTTT
* *
4195985 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTT
1 GTCTCTCTTGAGACAGTTTCTTTTGAAACTAAGTTTT
*
4196022 GTCTCTCTTGAGACAGTTTCTCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCTTTTGAAAC
4196051 ACCAATCCTT
Statistics
Matches: 194, Mismatches: 43, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
36 85 0.44
37 108 0.56
38 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (37 bp):
GTCTCTCTTGAGACAGTTTCTTTTGAAACTAAGTTTT
Found at i:4196874 original size:17 final size:19
Alignment explanation
Indices: 4196852--4196894 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4196842 AAATCGTCGA
4196852 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCATCG
*
4196869 ATGCACTCTTAGTGCATCG
1 ATGCACTCTGAGTGCATCG
4196888 ATGCACT
1 ATGCACT
4196895 AAGGGTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 2 0.09
19 14 0.61
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (19 bp):
ATGCACTCTGAGTGCATCG
Found at i:4205492 original size:17 final size:19
Alignment explanation
Indices: 4205464--4205512 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
4205454 TATTTTAAAT
4205464 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
4205482 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
4205501 CACCGATGCACT
1 CATCGATGCACT
4205513 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:4207689 original size:16 final size:18
Alignment explanation
Indices: 4207668--4207706 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4207658 ATTAAAATAG
*
4207668 TATATTT-ATTAT-TATC
1 TATATTTAATTATATATA
4207684 TATATTTAATTATATATA
1 TATATTTAATTATATATA
4207702 TATAT
1 TATAT
4207707 ATATATTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 5 0.25
18 8 0.40
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTTAATTATATATA
Found at i:4214530 original size:2 final size:2
Alignment explanation
Indices: 4214523--4214559 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4214513 ATAGTAAAGT
4214523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4214560 GATCATAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4226331 original size:21 final size:21
Alignment explanation
Indices: 4226305--4226344 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4226295 CCCCCTTTGA
*
4226305 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
4226326 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
4226345 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:4226387 original size:8 final size:8
Alignment explanation
Indices: 4226374--4226398 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4226364 GGCAAGAACA
4226374 CCCAAAAC
1 CCCAAAAC
4226382 CCCAAAAC
1 CCCAAAAC
4226390 CCCAAAAC
1 CCCAAAAC
4226398 C
1 C
4226399 TATTCCGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (8 bp):
CCCAAAAC
Found at i:4227991 original size:12 final size:12
Alignment explanation
Indices: 4227976--4228016 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
4227966 AGCTGAACCT
*
4227976 GAGCAGGTCGAG
1 GAGCAGCTCGAG
4227988 GAGCAGCTCGAG
1 GAGCAGCTCGAG
*
4228000 GAGCAGCTCGAA
1 GAGCAGCTCGAG
4228012 GAGCA
1 GAGCA
4228017 AGCACAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.41, T:0.07
Consensus pattern (12 bp):
GAGCAGCTCGAG
Found at i:4234945 original size:69 final size:69
Alignment explanation
Indices: 4234826--4234983 Score: 185
Period size: 69 Copynumber: 2.3 Consensus size: 69
4234816 TATGCACCGA
* *
4234826 AGTGCTAAAACCGAATATGACACATAAGGTCATGCCCACCATACAAACTAAGTGT-TTTTAAACA
1 AGTGCT-AAACTGAATATGACACATAAGGTCATGCCCACCATAC-AACTAAGTGTCTTGTAAACA
*
4234890 CACACT
64 CACACC
* * * *
4234896 AGTGCTAAACTGAATATGACACATAATGTCATGCCCACCACCTGC-ACTAAGTGTCTTGTATATA
1 AGTGCTAAACTGAATATGACACATAAGGTCATGCCCACCA--TACAACTAAGTGTCTTGTAAACA
*
4234960 CACTCC
64 CACACC
*
4234966 AGTGCTAAACTGGATATG
1 AGTGCTAAACTGAATATG
4234984 CAACCTGCTG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
69 41 0.54
70 33 0.43
71 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (69 bp):
AGTGCTAAACTGAATATGACACATAAGGTCATGCCCACCATACAACTAAGTGTCTTGTAAACACA
CACC
Found at i:4238122 original size:158 final size:159
Alignment explanation
Indices: 4237950--4238293 Score: 442
Period size: 158 Copynumber: 2.2 Consensus size: 159
4237940 TTTAAGTCCA
* ** * ** *
4237950 TTTTTTACCAAATTTTAACTGCATGCTCCTAAACTATAGAAGAATACTTGTGTACTTTCAATTCC
1 TTTTTTACCAAATTTGAACCACATGCTCCTAAACCATAGAAGAATAAATGTGTACTTTAAATTCC
* *
4238015 TCTTTTTAATAACAAGTTTTTTATTTTTCAATTTAGTCATTCAATTTTTCATAATCTTCTTATTT
66 TCTTTTTAATAACAAGTTTTTTATTTTTCAATTTAGTCATTCAATTTTTCATAATCTCCTTATTC
*
4238080 CTTAAATTCGTCATTTATTTTAAGTTAGT
131 CTTAAATTCGTCATTTATTTGAAGTTAGT
* * * *
4238109 TTTTTTATC-AATTTGAGCCACATGCTCGTAAACCATAGTAGAATAAATGTGTACTTTAAATTCC
1 TTTTTTACCAAATTTGAACCACATGCTCCTAAACCATAGAAGAATAAATGTGTACTTTAAATTCC
* * * * *
4238173 TCTTTTTGATAACAATTTTTTTATTTTTCAATTTAGTCCTTTAATTTTTTATAATCTCCTTATTC
66 TCTTTTTAATAACAAGTTTTTTATTTTTCAATTTAGTCATTCAATTTTTCATAATCTCCTTATTC
* * *
4238238 CTTCAATTTGTGATTTATTTGAAGTCT--T
131 CTTAAATTCGTCATTTATTTGAAGT-TAGT
* *
4238266 TTTTTTACCAAATTTGAACTACGTGCTC
1 TTTTTTACCAAATTTGAACCACATGCTC
4238294 ATATACCACA
Statistics
Matches: 157, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
157 9 0.06
158 139 0.89
159 9 0.06
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.49
Consensus pattern (159 bp):
TTTTTTACCAAATTTGAACCACATGCTCCTAAACCATAGAAGAATAAATGTGTACTTTAAATTCC
TCTTTTTAATAACAAGTTTTTTATTTTTCAATTTAGTCATTCAATTTTTCATAATCTCCTTATTC
CTTAAATTCGTCATTTATTTGAAGTTAGT
Found at i:4238586 original size:4 final size:4
Alignment explanation
Indices: 4238577--4238735 Score: 300
Period size: 4 Copynumber: 39.8 Consensus size: 4
4238567 AATATAATAT
*
4238577 ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
4238625 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
4238673 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
4238721 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
4238736 TATATATATA
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 151 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:4238740 original size:4 final size:4
Alignment explanation
Indices: 4238713--4238784 Score: 108
Period size: 4 Copynumber: 18.0 Consensus size: 4
4238703 ACATACATAC
* * * *
4238713 ATAT ATAC ATAC ATAC ATAC ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
4238761 ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT
4238785 TTGTTAGATA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 66 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (4 bp):
ATAT
Found at i:4240875 original size:23 final size:23
Alignment explanation
Indices: 4240841--4240908 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
4240831 GCACACAAAG
4240841 TGCCATAGTACACAAAGTACTCT
1 TGCCATAGTACACAAAGTACTCT
*
4240864 TGCCATACTACACAAAGTACTAC-
1 TGCCATAGTACACAAAGTACT-CT
*
4240887 T-CCA-AGTAAACAAAGTACTCT
1 TGCCATAGTACACAAAGTACTCT
4240908 T
1 T
4240909 ACGAAAATGC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.03
21 14 0.35
22 3 0.08
23 21 0.52
24 1 0.03
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.25
Consensus pattern (23 bp):
TGCCATAGTACACAAAGTACTCT
Found at i:4254362 original size:44 final size:44
Alignment explanation
Indices: 4254314--4254399 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
4254304 ACACAAAGTG
4254314 CCATAGTACACAAAGTACTACTACAAGTACACAAAGTACTCTAT
1 CCATAGTACACAAAGTACTACTACAAGTACACAAAGTACTCTAT
* * *
4254358 CCATAGTACACAAAGTACTACTCCATGTGCACAAAGTACTCT
1 CCATAGTACACAAAGTACTACTACAAGTACACAAAGTACTCT
4254400 TACAAAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (44 bp):
CCATAGTACACAAAGTACTACTACAAGTACACAAAGTACTCTAT
Found at i:4254369 original size:23 final size:23
Alignment explanation
Indices: 4254314--4254399 Score: 103
Period size: 21 Copynumber: 3.9 Consensus size: 23
4254304 ACACAAAGTG
4254314 CCATAGTACACAAAGTACTACTA-
1 CCATAGTACACAAAGTACT-CTAT
4254337 -CA-AGTACACAAAGTACTCTAT
1 CCATAGTACACAAAGTACTCTAT
4254358 CCATAGTACACAAAGTA--CTACT
1 CCATAGTACACAAAGTACTCTA-T
*
4254380 CCAT-GTGCACAAAGTACTCT
1 CCATAGTACACAAAGTACTCT
4254400 TACAAAAATG
Statistics
Matches: 56, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
20 3 0.05
21 29 0.52
22 9 0.16
23 15 0.27
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (23 bp):
CCATAGTACACAAAGTACTCTAT
Found at i:4256093 original size:31 final size:29
Alignment explanation
Indices: 4256035--4256094 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
4256025 AAATTTTAGC
* * *
4256035 TAGTGACTAAAATATAATTTTTGAAAGTT
1 TAGTGACTAAAATAAAATTTGTAAAAGTT
4256064 TAGTGACTAAAGTATAAAATTTGTAAAAGTT
1 TAGTGACTAAA--ATAAAATTTGTAAAAGTT
4256095 CATAAACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 11 0.42
31 15 0.58
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.38
Consensus pattern (29 bp):
TAGTGACTAAAATAAAATTTGTAAAAGTT
Found at i:4260078 original size:32 final size:32
Alignment explanation
Indices: 4260025--4260097 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
4260015 GATTGTATAT
* *
4260025 ACTTGCACAGATTTACATACCATAACACACAC
1 ACTTACACGGATTTACATACCATAACACACAC
*
4260057 ACTTACACGGATTTACGTACCATAACACACAC
1 ACTTACACGGATTTACATACCATAACACACAC
4260089 ACTTACACG
1 ACTTACACG
4260098 TGATCATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.38, C:0.32, G:0.08, T:0.22
Consensus pattern (32 bp):
ACTTACACGGATTTACATACCATAACACACAC
Found at i:4274370 original size:16 final size:17
Alignment explanation
Indices: 4274338--4274371 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4274328 ATCCATTCAA
*
4274338 ACTTTTCAATGATATTT
1 ACTTTTCAATGACATTT
4274355 ACTTTTC-ATGACATTT
1 ACTTTTCAATGACATTT
4274371 A
1 A
4274372 GATAGATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (17 bp):
ACTTTTCAATGACATTT
Found at i:4276374 original size:12 final size:14
Alignment explanation
Indices: 4276337--4276368 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4276327 TTATAACTTT
4276337 AAAATAAATATATC
1 AAAATAAATATATC
4276351 AAAATAAATATATC
1 AAAATAAATATATC
4276365 AAAA
1 AAAA
4276369 CATATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAATAAATATATC
Found at i:4281106 original size:57 final size:57
Alignment explanation
Indices: 4281035--4281142 Score: 198
Period size: 57 Copynumber: 1.9 Consensus size: 57
4281025 ATGAAGGATT
* *
4281035 TGTATGTTAGTGGTGTTGGAGATTAGTTCTAAAGCCTGTGTAATGACCAAAATGATG
1 TGTATGTTAGTGGTGTTGGAGATTAATTCTAAAGCCTGTGGAATGACCAAAATGATG
4281092 TGTATGTTAGTGGTGTTGGAGATTAATTCTAAAGCCTGTGGAATGACCAAA
1 TGTATGTTAGTGGTGTTGGAGATTAATTCTAAAGCCTGTGGAATGACCAAA
4281143 TTTTGGACTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (57 bp):
TGTATGTTAGTGGTGTTGGAGATTAATTCTAAAGCCTGTGGAATGACCAAAATGATG
Found at i:4282881 original size:17 final size:17
Alignment explanation
Indices: 4282861--4282913 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
4282851 GATTTTTAGT
4282861 TATCATATATTTACAGA
1 TATCATATATTTACAGA
4282878 TATCATAT-TATTACA-A
1 TATCATATAT-TTACAGA
*
4282894 TTATCATATATTTATAGA
1 -TATCATATATTTACAGA
4282912 TA
1 TA
4282914 CCAGATGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 2 0.06
17 27 0.87
18 2 0.06
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (17 bp):
TATCATATATTTACAGA
Found at i:4282898 original size:34 final size:35
Alignment explanation
Indices: 4282860--4282934 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 35
4282850 TGATTTTTAG
* *
4282860 TTATCATATATTTACAGATATCATAT-TATTACAA
1 TTATCATATATTTACAGATACCAGATGTATTACAA
* *
4282894 TTATCATATATTTATAGATACCAGATGTTTTACAA
1 TTATCATATATTTACAGATACCAGATGTATTACAA
4282929 TTATCA
1 TTATCA
4282935 GACACAGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 23 0.64
35 13 0.36
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (35 bp):
TTATCATATATTTACAGATACCAGATGTATTACAA
Found at i:4285674 original size:24 final size:21
Alignment explanation
Indices: 4285615--4285675 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
4285605 AAATCATAAG
4285615 TGTAGTATCGGTACTACCATT
1 TGTAGTATCGGTACTACCATT
* ** *
4285636 TGGAGTATCAATACTACTATT
1 TGTAGTATCGGTACTACCATT
4285657 ATCAGTAGTATCGGTACTA
1 -T--GTAGTATCGGTACTA
4285676 AAAGGGCATC
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 17 0.57
22 1 0.03
24 12 0.40
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (21 bp):
TGTAGTATCGGTACTACCATT
Found at i:4286504 original size:23 final size:23
Alignment explanation
Indices: 4286478--4286525 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
4286468 TTATAATAAG
4286478 ATACTCATAATCTGATTAAGTAA
1 ATACTCATAATCTGATTAAGTAA
4286501 ATACTCATAATCTGATTAAGTAA
1 ATACTCATAATCTGATTAAGTAA
4286524 AT
1 AT
4286526 GGCACTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (23 bp):
ATACTCATAATCTGATTAAGTAA
Found at i:4292459 original size:66 final size:66
Alignment explanation
Indices: 4292353--4292482 Score: 201
Period size: 66 Copynumber: 2.0 Consensus size: 66
4292343 TAGGTCCATA
* **
4292353 AGGAATTACCAGTCGATGTTGAACCTATAAAAGGAATTACCAGC-AGCGACTGAACCTGCCAGAG
1 AGGAATTAACAGTCGATGCAGAACCTATAAAAGGAATTACCAGCAAG-GACTGAACCTGCCAGAG
4292417 AT
65 AT
4292419 AGGAATTAACAGTCGATGCAGAACCTATACAAA-GAATTACCAGCAAGGACTGAACCTGCCAGAG
1 AGGAATTAACAGTCGATGCAGAACCTATA-AAAGGAATTACCAGCAAGGACTGAACCTGCCAGAG
4292483 TCTTCATACC
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
66 54 0.92
67 5 0.08
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (66 bp):
AGGAATTAACAGTCGATGCAGAACCTATAAAAGGAATTACCAGCAAGGACTGAACCTGCCAGAGA
T
Found at i:4297360 original size:17 final size:17
Alignment explanation
Indices: 4297338--4297397 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
4297328 CTAATATTGT
4297338 GGGTACCCGAATTTTGC
1 GGGTACCCGAATTTTGC
* *
4297355 GGGTACTCGTA-TTT-C
1 GGGTACCCGAATTTTGC
* *
4297370 GGGTACCGGGATTTTGC
1 GGGTACCCGAATTTTGC
4297387 GGGTACCCGAA
1 GGGTACCCGAA
4297398 GATACCCGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
15 9 0.26
16 6 0.18
17 19 0.56
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (17 bp):
GGGTACCCGAATTTTGC
Found at i:4299773 original size:16 final size:17
Alignment explanation
Indices: 4299754--4299785 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4299744 TACTACCATA
4299754 ATATTAT-TTTTATATT
1 ATATTATATTTTATATT
4299770 ATATTATATTTTATAT
1 ATATTATATTTTATAT
4299786 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:4300233 original size:2 final size:2
Alignment explanation
Indices: 4300226--4300263 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4300216 GGAATTTTCA
4300226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4300264 GTTCTAGACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.