Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008647.1 Hibiscus syriacus cultivar Beakdansim tig00111634_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: 1422586
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:7188 original size:71 final size:72
Alignment explanation
Indices: 7030--7190 Score: 227
Period size: 71 Copynumber: 2.2 Consensus size: 72
7020 TGGAGAAAGT
* *
7030 CAATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAATAGTG
1 CAATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGTG
*
7095 AAGCAAT
66 AAGCAAA
* * *
7102 CAATCTGAAGCCTTCACCGGAGAATAGTGAAGC-AACCATCAT-AAGTCTTCACCAGAGAGTAGT
1 CAATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATC-TGAAGCCTTCACCAGAGAATAGT
7165 GAAGCAAA
65 GAAGCAAA
* *
7173 CCATCTTAAGTCTTCACC
1 CAATCTTAAGCCTTCACC
7191 AAAAAGTAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
71 47 0.59
72 32 0.41
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (72 bp):
CAATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCAGAGAATAGTG
AAGCAAA
Found at i:7191 original size:36 final size:36
Alignment explanation
Indices: 7036--7224 Score: 229
Period size: 36 Copynumber: 5.2 Consensus size: 36
7026 AAGTCAATCC
7036 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * *
7072 GAAGCCTTCACCGGAGAATAGTGAAGCAATCAATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* *
7108 GAAGCCTTCACCGGAGAATAGTGAAGC-AACCATCA
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * *
7143 TAAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * * * *
7179 TAAGTCTTCACC-AAAAAGTAGTGAAGCAGATCCATTT
1 TAAGCCTTCACCGGAGAA-TAGTGAAGCA-AACCATCT
7216 TAAGCCTTC
1 TAAGCCTTC
7225 TCAGAAGAGT
Statistics
Matches: 133, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
35 30 0.23
36 89 0.67
37 14 0.11
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (36 bp):
TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
Found at i:7201 original size:71 final size:71
Alignment explanation
Indices: 7037--7224 Score: 200
Period size: 71 Copynumber: 2.6 Consensus size: 71
7027 AGTCAATCCT
* * * *
7037 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAT
1 AAGCCTTCACCGAAAAATAGTGAAGC-AACCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAA
7102 CAATCTG
65 CAATCTG
* * * *
7109 AAGCCTTCACCGGAGAATAGTGAAGCAACCATCAT-AAGTCTTCACCAGAGAGTAGTGAAGCAAA
1 AAGCCTTCACCGAAAAATAGTGAAGCAACCATC-TGAAGCCTTCACCAGAGAATAGTGAAGCAAA
* *
7173 CCATCTT
65 CAATCTG
* * *
7180 AAGTCTTCACC-AAAAAGTAGTGAAGCAGATCCATTTTAAGCCTTC
1 AAGCCTTCACCGAAAAA-TAGTGAAGCA-A-CCATCTGAAGCCTTC
7225 TCAGAAGAGT
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
70 3 0.03
71 57 0.57
72 29 0.29
73 11 0.11
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (71 bp):
AAGCCTTCACCGAAAAATAGTGAAGCAACCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAAC
AATCTG
Found at i:7747 original size:51 final size:51
Alignment explanation
Indices: 7592--8270 Score: 627
Period size: 51 Copynumber: 12.9 Consensus size: 51
7582 GTGAAGAAAA
* * * *
7592 TGAAGATTATTTGAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTT
1 TGAAGA-TATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * * * *
7644 TGAAGAT-GTC-CGTTCCATACTCCCTAGAGAAAGA-AGAGCGAACCCGTG
1 TGAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * *
7692 TGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * *
7743 TGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * *
7794 TGAAGAGATGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTG
1 TGAAGATAT-TC-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
*
7847 TGAAGATATCCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
1 TGAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * *
7898 TGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTT
1 TGAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* *
7949 TGAAGAATATGTTCGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT
1 TGAAG-ATA--TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TT
* * * * *
8004 TCAGAAGATTGTTCGAGTTCTATACTTCCTGGAA-AAAGAGCGAAGCGAACCCGTAAGA
1 T--GAAGA-TATTCGAGTTCTATACTCCCT-AAAGAAAGAG-GGAGCGAACCCGT---T
* * * * *
8062 AGAAGATCTTCGAGTTTTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTT
1 TGAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TT
* *
8114 TCAGAAGATCATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTT
1 T--GAAGAT-ATTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTT
* * * **
8169 TCCAAAAGATTATTCGAGTTCTATACTCCTTAAAGAAA-A---AGGGAATTCGCTT
1 T---GAAGA-TATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TT
* * *
8221 ACAGAAGATTATTCAAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACC
1 --TGAAGA-TATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACC
8271 TGTAAGAAGA
Statistics
Matches: 524, Mismatches: 71, Indels: 61
0.80 0.11 0.09
Matches are distributed among these distances:
48 19 0.04
49 23 0.04
50 21 0.04
51 193 0.37
52 14 0.03
53 44 0.08
54 57 0.11
55 84 0.16
56 63 0.12
57 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (51 bp):
TGAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
Found at i:7870 original size:155 final size:157
Alignment explanation
Indices: 7604--8318 Score: 698
Period size: 155 Copynumber: 4.5 Consensus size: 157
7594 AAGATTATTT
* * *
7604 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTG-A-AGATGTC--CGTTCCATACT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
* *
7665 CCCTAGAGAAAGA-AGAGCGAACCCGTGT-GAAGA-TATGCGAGTTCTATACTCCTTAAAGAAAG
66 CCCTAGAGAAAGAGGGAGCGAACCCGTGTCGAAGATTATTCGAGTTCTATACTCCTTAAAGAAAG
*
7727 AAGGAGCGAACCCGTTTGAAGATGTTC
131 AAGGAGCGAACCCGTTAGAAGATGTTC
* * * *
7754 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
* *
7819 CCCTAGAGAAAGAGGGAGCGAACCCGTGT-GAAGA-TATCCGAGTTCTATACTCCCTAAAGAAAG
66 CCCTAGAGAAAGAGGGAGCGAACCCGTGTCGAAGATTATTCGAGTTCTATACTCCTTAAAGAAAG
* *
7882 AGGGAGCGAACCCGTTTGAAGATGTTC
131 AAGGAGCGAACCCGTTAGAAGATGTTC
* *
7909 GAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGT-TCGAGTTCCATA
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-AGATGTCT-GAGTTCCATA
* * **
7973 CTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTTCAGAAGATTGTTCGAGTTCTATACTTCCTGGA
64 CTCCCTAG-AGAAAGAGGGAGCGAACCCG-TGTC-GAAGATTATTCGAGTTCTATAC-TCCTTAA
* *
8037 A-AAAG-AGCGAAGCGAACCCGTAAGAAGAAGATCTTC
125 AGAAAGAAG-G-AGCGAACCCGT---TAGAAGATGTTC
* * * *
8073 GAGTTTTATACTCCCT-GAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCAT-TC-GAGTTCT
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCG-TTT--GAAGA-GATGTCTGAGTTCC
* * * * *
8135 ATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTCGAGTTCTATACTCCTT
61 ATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTGT-C-GAAGATTATTCGAGTTCTATACTCCTT
** *
8200 AAAGAAA-AA-G-G-GAATTCGCTTACAGAAGATTATTC
123 AAAGAAAGAAGGAGCGAACCCG-TT--AGAAGA-TGTTC
* * **
8235 AAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTAAGAAGAAGATGT-TCGAGTTCCATA
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-AGATGTCT-GAGTTCCATA
* *
8299 ATCCCTAGAGAAATAGGGAG
64 CTCCCTAGAGAAAGAGGGAG
8319 TAGACCCGAT
Statistics
Matches: 474, Mismatches: 53, Indels: 66
0.80 0.09 0.11
Matches are distributed among these distances:
150 38 0.08
151 1 0.00
152 7 0.01
154 23 0.05
155 114 0.24
156 41 0.09
157 2 0.00
159 12 0.03
160 33 0.07
161 41 0.09
162 38 0.08
163 2 0.00
164 43 0.09
165 26 0.05
166 47 0.10
167 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (157 bp):
GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
CCCTAGAGAAAGAGGGAGCGAACCCGTGTCGAAGATTATTCGAGTTCTATACTCCTTAAAGAAAG
AAGGAGCGAACCCGTTAGAAGATGTTC
Found at i:8085 original size:110 final size:109
Alignment explanation
Indices: 7593--8318 Score: 646
Period size: 110 Copynumber: 6.9 Consensus size: 109
7583 TGAAGAAAAT
* * * * **
7593 GAAGATTATTTGAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGT---TTGAAGATG-TC
1 GAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTC
* * * * *
7654 -CGTTCCATACTCCCTAGAGAAAGA-AGAGCGAACCCG-TGT--
66 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
* * * **
7693 GAAGATATG--CGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT---TTGAAGATGTT
1 GAAGAT-TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTT
* * * **
7753 CGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAA
65 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
* * * *
7798 G-AGA-TG-TCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT--G-TGAAGATATC
1 GAAGATTGTTC-GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTT
7857 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTT--
65 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
* ** *
7899 GAAGA-TGTTCGAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGTTC
1 GAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTC
* *
7963 GAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTTCA
66 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
* * * * *
8007 GAAGATTGTTCGAGTTCTATACTTCCTGGAAAAAGAGCGAAGCGAACCCGTAAGAAGAAGATCTT
1 GAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAG-GGAGCGAACCCGTAAGAAGAAGATGTT
* * *
8072 CGAGTTTTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCA
65 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
** * * * *** *
8117 GAAGATCATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAA-AAGATTA
1 GAAGATTGTTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCG-TAAGAAGAAGA-TG
* * ** * *
8181 TTCGAGTTCTATACTCCTTAAAGAAA-A---AGGGAATTCGCTTACA
63 TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
* * *
8224 GAAGATTATTCAAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCTGTAAGAAGAAGATGTTC
1 GAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTC
* * * *
8289 GAGTTCCATAATCCCTAGAGAAATAGGGAG
66 GAGTTCTATACTCCCTAAAGAAAGAGGGAG
8319 TAGACCCGAT
Statistics
Matches: 521, Mismatches: 77, Indels: 47
0.81 0.12 0.07
Matches are distributed among these distances:
99 43 0.08
100 8 0.02
101 23 0.04
102 55 0.11
103 6 0.01
104 83 0.16
105 70 0.13
106 27 0.05
107 34 0.07
108 5 0.01
109 29 0.06
110 104 0.20
111 34 0.07
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (109 bp):
GAAGATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTC
GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTCA
Found at i:8369 original size:55 final size:54
Alignment explanation
Indices: 8310--9508 Score: 1193
Period size: 55 Copynumber: 22.1 Consensus size: 54
8300 TCCCTAGAGA
* * * *
8310 AATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAAAG
1 AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG-AAG
* * * *
8365 AATAGGGAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAAG
1 AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG-AAG
* * * *
8420 AATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
1 AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAA-G
* * * * * *
8475 AATAGGGAGCATACACG-TT-TTCAAAAGATT-TTCGAGT-TCTATACTCCCTGGAG
1 AATAGGGGGCAGACGCGATTGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGAAG
* * * *
8528 AA-AGAGGGAACGAACCCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGAAG
1 AATAGGGGGCA-G-ACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
* * * *
8581 AAATAGGGGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGAAG
1 -AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
* *
8636 AAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 -AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
** * *
8691 AAATAGGGGGCAGACGTAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAG
1 -AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
* *
8744 AATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
* * *
8798 AAGTAGGGGGCAGACGCAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAG
1 AA-TAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
* * *
8851 AAATAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 -AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
* * *
8906 AAATAGGGGGCAGATGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAG
1 -AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
* * ** *
8959 AAAAAGGGGGCAGACGCAATCATTGAAGTTTGTTCG-GATCTTATACTCTCTGAAG
1 -AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAG-TCTTATACTCTCTGAAG
* * * *
9014 AAATAGGGGGCAGATGCGATTGATGAAGATT-AT-GGGTCTTATACTCTCTGAAAG
1 -AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG-AAG
* * * *
9068 AATAGGGAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAAG
1 AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG-AAG
* * * *
9123 AATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
1 AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAA-G
* * * * * *
9178 AATAGGGAGCATACACG-TT-TTCAAAAGATT-TTCGAGT-TCTATACTCCCTGGAG
1 AATAGGGGGCAGACGCGATTGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGAAG
* * * *
9231 AA-AGAGGGAACGAACCCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGAAG
1 AATAGGGGGCA-G-ACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
* * * * *
9284 AAATAGGGGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTTAAG
1 -AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
* *
9339 AAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 -AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
* * * *
9394 AAATAGGGGGCAGACGCAATTTTTGAAGATTATTCGAGTCTCATACTCTCTGAAAG
1 -AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG-AAG
* * * * *
9450 AATAGGGAGTAAACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
1 AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAA-G
9505 AATA
1 AATA
9509 AGGAGCAGGC
Statistics
Matches: 988, Mismatches: 113, Indels: 86
0.83 0.10 0.07
Matches are distributed among these distances:
52 38 0.04
53 222 0.22
54 111 0.11
55 610 0.62
56 7 0.01
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (54 bp):
AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
Found at i:8906 original size:108 final size:108
Alignment explanation
Indices: 8307--9508 Score: 1229
Period size: 108 Copynumber: 11.1 Consensus size: 108
8297 TAATCCCTAG
* * * * *
8307 AGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAAAGAATAGGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG-AAGAATAGGG
* * * * *
8372 AGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGA
65 GGCAGACGCGATTGTTGAAGATT-GTCGGGTCTTATACTCTCTGA
* * * * *
8417 A-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGG
1 AGA-AATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAA-GAATAGG
* * * * * * * *
8481 GAGCATACACG-TT-TTCAAAAGATTTTCGAGT-TCTATACTCCCTGG
64 GGGCAGACGCGATTGTT--GAAGATTGTCGGGTCT-TATACTCTCTGA
* ** * * *
8526 AGAAAGAGGGAAC-GAACCCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGG
1 AGAAATAGGGGGCAG-ACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG-AATAGG
* * *
8588 GGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
64 GGGCAGACGCGATTGTTGAAGATTG-TCGGGTCTTATACTCTCTGA
*
8634 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG-AATAGGG
** *
8699 GGCAGACGTAATTGATGAAGATTGT-GGGTCTTATACTCTCTGA
65 GGCAGACGCGATTGTTGAAGATTGTCGGGTCTTATACTCTCTGA
*
8742 AG-AATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAGTAGGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAA-TAGGG
* *
8806 GGCAGACGCAATTGATGAAGATTGT-GGGTCTTATACTCTCTGA
65 GGCAGACGCGATTGTTGAAGATTGTCGGGTCTTATACTCTCTGA
* *
8849 AGAAATAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG-AATAGGG
* *
8914 GGCAGATGCGATTGATGAAGATTGT-GGGTCTTATACTCTCTGA
65 GGCAGACGCGATTGTTGAAGATTGTCGGGTCTTATACTCTCTGA
* ** *
8957 AGAAAAAGGGGGCAGACGCAATCATTGAAGTTTGTTCG-GATCTTATACTCTCTGAAGAAATAGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAG-TCTTATACTCTCTGAAG-AATAGG
* * *
9021 GGGCAGATGCGATTGATGAAGATTAT-GGGTCTTATACTCTCTGA
64 GGGCAGACGCGATTGTTGAAGATTGTCGGGTCTTATACTCTCTGA
* * * * *
9065 A-AGAATAGGGAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAAGAATAGG
1 AGA-AATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG-AAGAATAGG
* * * * *
9129 GAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
64 GGGCAGACGCGATTGTTGAAGATTG-TCGGGTCTTATACTCTCTGA
* * * * * * * *
9175 AGGAATAGGGAGCATACAC-GTT-TTCAAAAGATT-TTCGAGT-TCTATACTCCCTGGAGAA-AG
1 AGAAATAGGGGGCAGACGCAATTGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGAAGAATAG
* * *
9235 AGGGAACGAACCCGATTGTTGAAGATTGT-GGGTCTTATACTCTCTGA
63 GGGGCA-G-ACGCGATTGTTGAAGATTGTCGGGTCTTATACTCTCTGA
* * * *
9282 AGAAATAGGGGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTTAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG-AATAGGG
* * *
9347 GGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
65 GGCAGACGCGATTGTTGAAGATTG-TCGGGTCTTATACTCTCTGA
* * *
9392 AGAAATAGGGGGCAGACGCAATTTTTGAAGATTATTCGAGTCTCATACTCTCTGAAAGAATAGGG
1 AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG-AAGAATAGGG
* * * * * *
9457 AGTAAACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
65 GGCAGACGCGATTGTTGAAGATTG-TCGGGTCTTATACTCTCTGA
*
9502 AGGAATA
1 AGAAATA
9509 AGGAGCAGGC
Statistics
Matches: 945, Mismatches: 108, Indels: 78
0.84 0.10 0.07
Matches are distributed among these distances:
106 3 0.00
107 181 0.19
108 376 0.40
109 103 0.11
110 279 0.30
111 3 0.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (108 bp):
AGAAATAGGGGGCAGACGCAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAATAGGGG
GCAGACGCGATTGTTGAAGATTGTCGGGTCTTATACTCTCTGA
Found at i:9664 original size:53 final size:53
Alignment explanation
Indices: 9528--9679 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 53
9518 CACGTCTTCA
**
9528 AAAGATTTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGAGAACCCGTTTGC
1 AAAGATTTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGAGAACCCGTAGGC
* *
9581 AGAAGATTTTCAAGTTCTATACTCCCTGAAGAAAGAGGGA-ACGAACCCGTAGGC
1 A-AAGATTTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGA-GAACCCGTAGGC
* * * * *
9635 AAAGATTGTACGAGTT-TCTACTCCATGAAGGAATAGGGAGTGAAC
1 AAAGATT-TTCGAGTTCTATACTCCCTGAAGAAATAGGGAGAGAAC
9680 ATGTTTTCCA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
53 31 0.37
54 53 0.63
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (53 bp):
AAAGATTTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGAGAACCCGTAGGC
Found at i:16317 original size:148 final size:149
Alignment explanation
Indices: 16026--16329 Score: 452
Period size: 150 Copynumber: 2.0 Consensus size: 149
16016 GAGTCGAGGG
* * * * * *
16026 TCTATGCGGTCCTTCGGGACATATGTATATTCTTTGAAACATTTATGAGGTCTTTGAGGCACATA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGAAACATGTATGAAGTCTTTAAGGCACATA
* *
16091 CTTGGTCCTTAGTATATATATATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATT
66 CTTGATCCCTAG-ATATATATATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATT
16156 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
* *
16176 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTATGAAGTCTTGTAAGAG-ACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGAAACATGTATGAAGTCTT-TAAG-GCACA
*
16240 TACTTGATCCCTAG-TATATGTATATGATTCTTAAGGAATGATATGT-GTCCTTATGGACATTAT
64 TACTTGATCCCTAGATATATATATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTAT
*
16303 TATATGGCACTACGGTGTAAT
129 TATATGGCACTACGGTGCAAT
16324 TCTACG
1 TCTACG
16330 TGCACTTCGG
Statistics
Matches: 140, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
148 43 0.31
149 31 0.22
150 47 0.34
151 18 0.13
152 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGAAACATGTATGAAGTCTTTAAGGCACATA
CTTGATCCCTAGATATATATATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:16570 original size:20 final size:19
Alignment explanation
Indices: 16525--16571 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
16515 GATGATAATG
*
16525 ATAGA-GATAATGATAATA
1 ATAGATGATAATGATAAAA
* *
16543 ATATATGATAATGCTAAGAA
1 ATAGATGATAATGATAA-AA
16563 ATAGATGAT
1 ATAGATGAT
16572 GATATATGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 4 0.17
19 10 0.43
20 9 0.39
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.30
Consensus pattern (19 bp):
ATAGATGATAATGATAAAA
Found at i:19697 original size:64 final size:64
Alignment explanation
Indices: 19622--19764 Score: 175
Period size: 64 Copynumber: 2.2 Consensus size: 64
19612 ATTGTTTAAG
*
19622 GTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTATGCATCGATGCATAAG-G
1 GTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGATTTATGCATCGATGCAT-AGTG
19685 -A
63 TA
* * * * *
19686 GTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTATGCATCGATGTATGGTGTA
1 GTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTTATGCATCGATGCATAGTGTA
19751 GTGCATCGATGCAT
1 GTGCATCGATGCAT
19765 ACCTTCATTA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
63 1 0.01
64 46 0.67
65 21 0.30
66 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTTATGCATCGATGCATAGTGTA
Found at i:21351 original size:146 final size:145
Alignment explanation
Indices: 21110--21407 Score: 449
Period size: 146 Copynumber: 2.0 Consensus size: 145
21100 GAGTCGAGGG
* * * * *
21110 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATTTATGAGCTCTTTGAGGCACATA
1 TCTACGCGGTCCTTCGGGA-ATATATATATTCTGTGGAACATGTATGAGCTCTTTAAGACACATA
* *
21175 CTTGGTCCTTAGTATGTATATGATTCTTAAGGAATGATATGTGGTCCTTAT-GACATTATTATAT
65 CTTGATCCCTAGTATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTATAT
21239 GGCACTACGGTGCAAT
130 GGCACTACGGTGCAAT
*
21255 TCTACGCGGTCCTTCGGG-ATATATATATTCTGTGGAACATGTGTGAAG-TCTTATAAGACACAT
1 TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTATG-AGCTCTT-TAAGACACAT
21318 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
64 ACTTGATCCCTAG--TATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
*
21383 TATGGCACTACGGTGTAAT
127 TATGGCACTACGGTGCAAT
21402 TCTACG
1 TCTACG
21408 TGCACTTCGG
Statistics
Matches: 139, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
143 27 0.19
144 21 0.15
145 18 0.13
146 39 0.28
147 34 0.24
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (145 bp):
TCTACGCGGTCCTTCGGGAATATATATATTCTGTGGAACATGTATGAGCTCTTTAAGACACATAC
TTGATCCCTAGTATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTATATG
GCACTACGGTGCAAT
Found at i:21643 original size:21 final size:21
Alignment explanation
Indices: 21619--21679 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
21609 ATAAATAATT
*
21619 TGATGATAATGATAGA-GATAA
1 TGATAATAAT-ATAGATGATAA
*
21640 TGATAATAATATATATGATAA
1 TGATAATAATATAGATGATAA
* * *
21661 TGCTAAGAAAATAGATGAT
1 TGATAATAATATAGATGAT
21680 GATATATGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.31
Consensus pattern (21 bp):
TGATAATAATATAGATGATAA
Found at i:21685 original size:33 final size:33
Alignment explanation
Indices: 21621--21686 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
21611 AAATAATTTG
*
21621 ATGATAATGATAGAGATAATGATAATAATATAT
1 ATGATAATGATAGAGAAAATGATAATAATATAT
* * *
21654 ATGATAATGCTA-AGAAAATAGATGATGATATAT
1 ATGATAATGATAGAGAAAAT-GATAATAATATAT
21687 GTACATGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGATAATGATAGAGAAAATGATAATAATATAT
Found at i:24448 original size:2 final size:2
Alignment explanation
Indices: 24441--24467 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24431 AGCGAAATTG
24441 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
24468 GTTTAACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28910 original size:22 final size:24
Alignment explanation
Indices: 28885--28931 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
28875 ATTTATACTC
28885 ATTCACGTATA-CAT-TAACATAT
1 ATTCACGTATATCATATAACATAT
*
28907 ATTCATGTATATCATATAACATAT
1 ATTCACGTATATCATATAACATAT
28931 A
1 A
28932 CAATAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
23 3 0.14
24 9 0.41
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (24 bp):
ATTCACGTATATCATATAACATAT
Found at i:32008 original size:13 final size:13
Alignment explanation
Indices: 31990--32016 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31980 GTGGCCGATG
31990 TGGTTAATCAACA
1 TGGTTAATCAACA
32003 TGGTTAATCAACA
1 TGGTTAATCAACA
32016 T
1 T
32017 TCGTTGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGGTTAATCAACA
Found at i:32400 original size:29 final size:29
Alignment explanation
Indices: 32366--32421 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
32356 CCTAAATTAA
32366 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
32395 TTTGATGTCATTGCTTACATCAATTTA
1 TTTGATGTCATTGCTTACATCAATTTA
32422 ATTAGGTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.48
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:37080 original size:29 final size:29
Alignment explanation
Indices: 37046--37104 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
37036 CCTAAATTAA
37046 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
37075 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
37104 T
1 T
37105 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:47892 original size:25 final size:26
Alignment explanation
Indices: 47863--47916 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
47853 AAAAACAAAG
*
47863 CTTG-AAAATAAAAGAAAACTGAAAA
1 CTTGAAAAATAAAAGAAAACGGAAAA
* *
47888 CTTGAAAAATAAAATAAAAGGGAAAA
1 CTTGAAAAATAAAAGAAAACGGAAAA
47914 CTT
1 CTT
47917 TAATAAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.61, C:0.07, G:0.13, T:0.19
Consensus pattern (26 bp):
CTTGAAAAATAAAAGAAAACGGAAAA
Found at i:53328 original size:21 final size:21
Alignment explanation
Indices: 53302--53355 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
53292 TATTAATATA
*
53302 AATTTCAAGTTTCTTGTTATG
1 AATTTCAAGTTTCATGTTATG
*
53323 AATTTCAAGTTTGATGTTATG
1 AATTTCAAGTTTCATGTTATG
* *
53344 GATGTCAAGTTT
1 AATTTCAAGTTT
53356 ATTGAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (21 bp):
AATTTCAAGTTTCATGTTATG
Found at i:53551 original size:43 final size:42
Alignment explanation
Indices: 53451--54001 Score: 541
Period size: 43 Copynumber: 12.9 Consensus size: 42
53441 GTATTTGTAT
* * *
53451 AAAAACGCCGCTATAGATATGACCTTTTACGACGTTTGTTCC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
* * * *
53493 AAAAACGACGCTATAGATATGGCTTTTTGCGGCGTTTGTATCC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGT-TCC
*
53536 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCT
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
* * * * **
53578 AAAAATGACGCTATCGATCTGACCTTTTGCGGCGTTTATTTT
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
* * * * * *
53620 GAAAACGCCGCTATATATCTTGATCTTTTGTGGTGTTTGTTCT
1 AAAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTTGTTCC
* * ** **
53663 GAAAACGCCGCTATAGATATTGACCTTTTGCGATGTTT-TTGGA
1 AAAAACGCCGCTATAGAT-CTGACCTTTTGCGGCGTTTGTT-CC
53706 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTATCC
1 AAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGT-TCC
* * ** *
53750 AAAAACGCCGCTATAGATCTGACCTTTTACGGTGTTTGAGAACA
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTT--GTTCC
*
53794 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCG-TTGTATCT
1 AAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGT-TCC
* * *
53837 AAAAACGCCGCTATAGATCTGACCTTTTGTGGCATTTGTTCA
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
* ** * * **
53879 AAAAATGATGCTATTGATCTGACCTTTTGCGGCATTT-TTGG
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
* *
53920 AAAAACGCCGTTATAAATCTCGACCTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCC
* * *
53963 AAAAAACGACGCAATAGATCTTGACCTATTGCGGCGTTT
1 -AAAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTT
54002 TTTGTTCTCA
Statistics
Matches: 421, Mismatches: 72, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
41 16 0.04
42 153 0.36
43 162 0.38
44 75 0.18
45 15 0.04
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
Found at i:53606 original size:85 final size:84
Alignment explanation
Indices: 53451--54001 Score: 568
Period size: 85 Copynumber: 6.4 Consensus size: 84
53441 GTATTTGTAT
* * * * * * *
53451 AAAAACGCCGCTATAGATATGACCTTTTACGACGTTTGTTCCAAAAACGACGCTATAGATATGGC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGCCGCTATAGATCTGAC
* *
53516 TTTTTGCGGCGTTTGTATCC
66 CTTTTGCGGCGTTTGT-TCA
* * *
53536 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAATGACGCTATCGATCTGAC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGCCGCTATAGATCTGAC
* **
53601 CTTTTGCGGCGTTTATTTT
66 CTTTTGCGGCGTTTGTTCA
* * * * * * *
53620 GAAAACGCCGCTATATATCTTGATCTTTTGTGGTGTTTGTTCTGAAAACGCCGCTATAGATATTG
1 AAAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTTGTTCTAAAAACGCCGCTATAGAT-CTG
** *
53685 ACCTTTTGCGATGTTT-TTGGA
64 ACCTTTTGCGGCGTTTGTT-CA
*
53706 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTG
1 AAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGT-TCTAAAAACGCCGCTATAGATCTG
* * **
53771 ACCTTTTACGGTGTTTGAGAACA
64 ACCTTTTGCGGCGTTT--GTTCA
53794 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCG-TTGTATCTAAAAACGCCGCTATAGATCTG
1 AAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGT-TCTAAAAACGCCGCTATAGATCTG
* *
53858 ACCTTTTGTGGCATTTGTTCA
64 ACCTTTTGCGGCGTTTGTTCA
* ** * * ** * *
53879 AAAAATGATGCTATTGATCTGACCTTTTGCGGCATTT-TTGGAAAAACGCCGTTATAAATCTCGA
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGCCGCTATAGATCT-GA
53943 CCTTTTGCGGCGTTTGTTCCA
65 CCTTTTGCGGCGTTTGTT-CA
* * *
53964 AAAAACGACGCAATAGATCTTGACCTATTGCGGCGTTT
1 AAAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTT
54002 TTTGTTCTCA
Statistics
Matches: 391, Mismatches: 63, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
83 19 0.05
84 50 0.13
85 146 0.37
86 81 0.21
87 59 0.15
88 36 0.09
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (84 bp):
AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGCCGCTATAGATCTGAC
CTTTTGCGGCGTTTGTTCA
Found at i:53926 original size:214 final size:214
Alignment explanation
Indices: 53451--54001 Score: 632
Period size: 214 Copynumber: 2.6 Consensus size: 214
53441 GTATTTGTAT
* * * ** * *
53451 AAAAACGCCGCTATAGATA-TGACCTTTTACGACGTTTGTT-CCAAAAACGACGCTATAGATAT-
1 AAAAACGACGCTATAGATACTGACCTTTTGCGACATTT-TTGGAAAAAACGCCGCTATAGATCTC
* * * ** *
53513 GGCTTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCT
65 GACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTACGGCGTTTGAACA
* * * * *
53578 AAAAATGACGCTATCGATCTGACCTTTTGCGGCGTTTATTTTGAAAACGCCGCTATATATCTTGA
130 AAAAACGACGCTATAGATCTGACCTTTTGCGGCGTTTATTCTAAAAACGCCGCTATAGATCTTGA
* ** *
53643 TCTTTTGTGGTGTTTGTTCT
195 CCTTTTGTGGCATTTGTTCA
* * * **
53663 GAAAACGCCGCTATAGATATTGACCTTTTGCGATGTTTTTGGAAAAAACGCCGCTATAGATCTCG
1 AAAAACGACGCTATAGATACTGACCTTTTGCGACATTTTTGGAAAAAACGCCGCTATAGATCTCG
*
53728 ACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTACGGTGTTTGAGAAC
66 ACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTACGGCGTTT--GAAC
*
53793 AAAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTGTA-TCTAAAAACGCCGCTATAGATC-
129 AAAAAACGACGCTATAGATCT-GACCTTTTGCGGCGTT-TATTCTAAAAACGCCGCTATAGATCT
53856 TGACCTTTTGTGGCATTTGTTCA
192 TGACCTTTTGTGGCATTTGTTCA
* * * * * *
53879 AAAAATGATGCTATTGAT-CTGACCTTTTGCGGCATTTTTGG-AAAAACGCCGTTATAAATCTCG
1 AAAAACGACGCTATAGATACTGACCTTTTGCGACATTTTTGGAAAAAACGCCGCTATAGATCTCG
* * * *
53942 ACCTTTTGCGGCGTTTGT-TCCAAAAAACGACGCAATAGATCTTGACCTATTGCGGCGTTT
66 ACCTTTTGCGGCGTTTGTATCC-AAAAACGCCGCTATAGATC-TGACCTTTTACGGCGTTT
54002 TTTGTTCTCA
Statistics
Matches: 290, Mismatches: 40, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
212 20 0.07
213 37 0.13
214 111 0.38
215 34 0.12
216 51 0.18
217 35 0.12
218 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (214 bp):
AAAAACGACGCTATAGATACTGACCTTTTGCGACATTTTTGGAAAAAACGCCGCTATAGATCTCG
ACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTACGGCGTTTGAACAA
AAAACGACGCTATAGATCTGACCTTTTGCGGCGTTTATTCTAAAAACGCCGCTATAGATCTTGAC
CTTTTGTGGCATTTGTTCA
Found at i:64681 original size:60 final size:60
Alignment explanation
Indices: 64617--64793 Score: 155
Period size: 60 Copynumber: 3.0 Consensus size: 60
64607 ACAACTGATT
** *
64617 ATATTACTTTATTAAGT-TTATTTATTATTAAGAA-TTATAAAA-TAGTCATTTGATTATAAA
1 ATATTACTTTATTAAGTCTT-TCGACTATTAA-AAGTTATAAAATTA-TCATTTGATTATAAA
* * *
64677 ATATTATTTTGTTGAGTCTTTCGACTATTAAAAGTTATAAAATTATCATTTGATTATAAA
1 ATATTACTTTATTAAGTCTTTCGACTATTAAAAGTTATAAAATTATCATTTGATTATAAA
* * * ** * * * *
64737 A-AGTTATTTTGTTGAGTCTTTTAACTATTAAGAGTTATAAAATGATCACTCGATTAT
1 ATA-TTACTTTATTAAGTCTTTCGACTATTAAAAGTTATAAAATTATCATTTGATTAT
64794 TCATTTTGTT
Statistics
Matches: 101, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
59 3 0.03
60 94 0.93
61 4 0.04
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.46
Consensus pattern (60 bp):
ATATTACTTTATTAAGTCTTTCGACTATTAAAAGTTATAAAATTATCATTTGATTATAAA
Found at i:67697 original size:7 final size:7
Alignment explanation
Indices: 67685--67734 Score: 77
Period size: 7 Copynumber: 7.4 Consensus size: 7
67675 GTCAAAGAAA
67685 GTCAACG
1 GTCAACG
67692 GTCAACG
1 GTCAACG
67699 GTC-ACG
1 GTCAACG
67705 GTCAACG
1 GTCAACG
67712 GTC-ACG
1 GTCAACG
*
67718 GTCAATG
1 GTCAACG
67725 GTCAACG
1 GTCAACG
67732 GTC
1 GTC
67735 GGTTTGGGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 12 0.31
7 27 0.69
ACGTcount: A:0.24, C:0.28, G:0.30, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:67707 original size:13 final size:13
Alignment explanation
Indices: 67689--67734 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
67679 AAGAAAGTCA
67689 ACGGTCAACGGTC
1 ACGGTCAACGGTC
67702 ACGGTCAACGGTC
1 ACGGTCAACGGTC
*
67715 ACGGTCAATGGTC
1 ACGGTCAACGGTC
67728 AACGGTC
1 -ACGGTC
67735 GGTTTGGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
13 25 0.81
14 6 0.19
ACGTcount: A:0.24, C:0.28, G:0.30, T:0.17
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:67710 original size:20 final size:20
Alignment explanation
Indices: 67685--67734 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
67675 GTCAAAGAAA
67685 GTCAACGGTCAACGGTC-ACG
1 GTCAACGGTC-ACGGTCAACG
*
67705 GTCAACGGTCACGGTCAATG
1 GTCAACGGTCACGGTCAACG
67725 GTCAACGGTC
1 GTCAACGGTC
67735 GGTTTGGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.24, C:0.28, G:0.30, T:0.18
Consensus pattern (20 bp):
GTCAACGGTCACGGTCAACG
Found at i:67746 original size:17 final size:17
Alignment explanation
Indices: 67724--67780 Score: 78
Period size: 17 Copynumber: 3.4 Consensus size: 17
67714 CACGGTCAAT
*
67724 GGTCAACGGTCGGTTTG
1 GGTCAACGGTCGGGTTG
* *
67741 GGTCAACGGTTGGGTCG
1 GGTCAACGGTCGGGTTG
*
67758 GGTCAACAGTCGGGTTG
1 GGTCAACGGTCGGGTTG
67775 GGTCAA
1 GGTCAA
67781 ACCGGTTCAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.16, C:0.18, G:0.42, T:0.25
Consensus pattern (17 bp):
GGTCAACGGTCGGGTTG
Found at i:67796 original size:10 final size:10
Alignment explanation
Indices: 67777--67826 Score: 59
Period size: 9 Copynumber: 5.1 Consensus size: 10
67767 TCGGGTTGGG
67777 TCAAACCGGT
1 TCAAACCGGT
*
67787 TCAGACCGG-
1 TCAAACCGGT
67796 TCAAACCGGT
1 TCAAACCGGT
*
67806 TCAAAACTGG-
1 TC-AAACCGGT
67816 TCAAACCGGT
1 TCAAACCGGT
67826 T
1 T
67827 TTCCAGCAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 14 0.42
10 13 0.39
11 6 0.18
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:67799 original size:19 final size:20
Alignment explanation
Indices: 67775--67826 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
67765 AGTCGGGTTG
*
67775 GGTCAAACCGGTTC-AGACC
1 GGTCAAACCGGTTCAAAACC
*
67794 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTCAAAACC
67814 GGTCAAACCGGTT
1 GGTCAAACCGGTT
67827 TTCCAGCAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.19
Consensus pattern (20 bp):
GGTCAAACCGGTTCAAAACC
Found at i:71626 original size:30 final size:30
Alignment explanation
Indices: 71592--71713 Score: 109
Period size: 30 Copynumber: 4.0 Consensus size: 30
71582 CTGCTGCTCC
*
71592 TGTAAATGTAGCTTGTGCGACTGCAGTTCA
1 TGTAAATGCAGCTTGTGCGACTGCAGTTCA
* * * *
71622 TGTAAATGCAGCACCTTCTGCAATTGCAGTTCG
1 TGTAAATGCAG---CTTGTGCGACTGCAGTTCA
* * *
71655 GGTAAATGCAACTTGTGTGACTGCAGTTCA
1 TGTAAATGCAGCTTGTGCGACTGCAGTTCA
* ** *
71685 TGTAAGTGCAGCTCATGCGACTGCTGTTC
1 TGTAAATGCAGCTTGTGCGACTGCAGTTC
71714 GTGCTCAAGC
Statistics
Matches: 70, Mismatches: 19, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
30 46 0.66
33 24 0.34
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (30 bp):
TGTAAATGCAGCTTGTGCGACTGCAGTTCA
Found at i:71751 original size:63 final size:63
Alignment explanation
Indices: 71684--71931 Score: 363
Period size: 63 Copynumber: 3.9 Consensus size: 63
71674 ACTGCAGTTC
*
71684 ATGTAAGTGCAGCTCATGCGACTGCTGTTCGTGCTCAAGCTGCTGCACAATCCCGAAATCACG
1 ATGTAAGTGCAGCTCATGCGACTGCTGTTCGTGTTCAAGCTGCTGCACAATCCCGAAATCACG
* * *
71747 ATGTACGTGCAGCTCATGCGACTGCTGTTTGTGTTCAAGCTGCTGCACAATCCCAAAATCACG
1 ATGTAAGTGCAGCTCATGCGACTGCTGTTCGTGTTCAAGCTGCTGCACAATCCCGAAATCACG
* ** *
71810 ATGTAAGTGCAGCTCATGCGACTTCTGTTCGTGTTCAAGCTGCTGCACAATCCCGAAATGGCA
1 ATGTAAGTGCAGCTCATGCGACTGCTGTTCGTGTTCAAGCTGCTGCACAATCCCGAAATCACG
* * * * *
71873 ATGTAAGTGCTGCTCATGC-AGCTGCTGTTCATGTTCGAGCTGTTGCACGATCCCGAAAT
1 ATGTAAGTGCAGCTCATGCGA-CTGCTGTTCGTGTTCAAGCTGCTGCACAATCCCGAAAT
71932 GGCAATGCTT
Statistics
Matches: 167, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
62 1 0.01
63 166 0.99
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (63 bp):
ATGTAAGTGCAGCTCATGCGACTGCTGTTCGTGTTCAAGCTGCTGCACAATCCCGAAATCACG
Found at i:77817 original size:35 final size:36
Alignment explanation
Indices: 77735--77821 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
77725 TACCAAAATT
* *
77735 TTACCAAACTTTG-AAAAACATTTTTCAAAGAAACAT
1 TTACCAAACTTTGAAAAAACATTTTCCAAAG-AACAG
***
77771 TTACCAAACTTTGAAAAAACATTTTCCAAAG-TTGG
1 TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
77806 TTACCAAACTTTGAAA
1 TTACCAAACTTTGAAA
77822 CTTTTAACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 16 0.36
36 13 0.29
37 16 0.36
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (36 bp):
TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
Found at i:79888 original size:3 final size:3
Alignment explanation
Indices: 79877--79928 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
79867 TTTTTGTTAC
*
79877 TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
79924 TAT TA
1 TAT TA
79929 AATAAATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:86527 original size:2 final size:2
Alignment explanation
Indices: 86520--86569 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
86510 TTATCCTTTA
86520 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86562 AT AT AT AT
1 AT AT AT AT
86570 CCTTTGTTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86888 original size:12 final size:11
Alignment explanation
Indices: 86867--86897 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
86857 TCCAGCAAAG
86867 AAAGAAAAAAA
1 AAAGAAAAAAA
*
86878 AAGGAAAAAAA
1 AAAGAAAAAAA
86889 AAAGAAAAA
1 AAAGAAAAA
86898 GGAAAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:89256 original size:115 final size:115
Alignment explanation
Indices: 89047--89273 Score: 355
Period size: 115 Copynumber: 2.0 Consensus size: 115
89037 AAGTGCCATG
*
89047 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATC
** * * * *
89112 TGATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTT
66 TGATTCAGTAGGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTT
* *
89162 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATC
* *
89227 TGATTCAGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TGATTCAGTAGGAACCCCAAAACCAATCATTGGAATTGAAAGATGAA
89274 CTGCATGATC
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
115 101 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (115 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATC
TGATTCAGTAGGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTT
Found at i:91564 original size:54 final size:54
Alignment explanation
Indices: 91482--91634 Score: 191
Period size: 59 Copynumber: 2.7 Consensus size: 54
91472 TGGAAAAAGT
* *
91482 CACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA-CAGAAGC
1 CACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATC-CAAGCAGAAAC
* *
91536 CACAGGAAAGGATGAATGTGTTGTCAAATGCTTCCTTGACCAATAATCCAAGCAGAAAC
1 CACAGGAAAGGATGAATGTGTTGTCAAATG-TT--TT-ACGAA-CATCCAAGCAGAAAC
* *
91595 CACAGGAAAAGATGAATGTATTGTCAAATGTTTTACGAAC
1 CACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
91635 CAGTGATTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
54 30 0.35
55 6 0.07
56 2 0.02
57 2 0.02
58 8 0.09
59 37 0.44
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (54 bp):
CACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCCAAGCAGAAAC
Found at i:92838 original size:165 final size:163
Alignment explanation
Indices: 92519--92839 Score: 466
Period size: 165 Copynumber: 2.0 Consensus size: 163
92509 AGAATGAGTA
* *
92519 TTATCTTGAGATTGGGGCATGTTACCCAATTAACATGTTATTTCAAAAACATAATGAGAAAACGA
1 TTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAACATAATGAGAAAACGA
** * * ***
92584 TTTCCATAGTTTCTCATTTTATCTTTTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTTTT
66 TTTCCATAGTTTCTCATTCAATCTTTTAAAATAAAATTGTTGAAAAGTAAGAAAACAATTTCCAT
* *
92649 AGTTTTTTACTTATTAAACTATTTCCAACAACC
131 AGTTTCTTACTTAGTAAACTATTTCCAACAACC
* *
92682 TTATCTGGAGATTGGGGCATGTTACCTAATCAACATGTTATCTT-GAAAA-ATAATGAGAAAACG
1 TTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTAT-TTCAAAAACATAATGAGAAAACG
*
92745 ATTTCCATAGTTTCTCATTCAATCTTTTCTGAAAATAAAATTGTTGAATAGTAAGAAAACAATTT
65 ATTTCCATAGTTTCTCATTCAATC-TTT-T-AAAATAAAATTGTTGAAAAGTAAGAAAACAATTT
92810 CCATAGTTTCTTACTTAGTAAACTATTTCC
127 CCATAGTTTCTTACTTAGTAAACTATTTCC
92840 CACATCTGTA
Statistics
Matches: 140, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
162 36 0.26
163 45 0.32
164 3 0.02
165 56 0.40
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (163 bp):
TTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAACATAATGAGAAAACGA
TTTCCATAGTTTCTCATTCAATCTTTTAAAATAAAATTGTTGAAAAGTAAGAAAACAATTTCCAT
AGTTTCTTACTTAGTAAACTATTTCCAACAACC
Found at i:92968 original size:76 final size:76
Alignment explanation
Indices: 92842--93298 Score: 842
Period size: 76 Copynumber: 6.0 Consensus size: 76
92832 CTATTTCCCA
*
92842 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
92907 AGCCTTCGGGT
66 AGCCTTCGGGT
92918 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
92983 AGCCTTTGGGT
66 AGCCTTCGGGT
92994 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
93059 AGCCTTCGGGT
66 AGCCTTCGGGT
*
93070 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGGTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
93135 AGCCTTCGGGT
66 AGCCTTCGGGT
*
93146 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
93211 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
93222 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTCCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC--
93287 AAAGCCTTCGGG
64 AAAGCCTTCGGG
93299 AGCTTTTTGA
Statistics
Matches: 372, Mismatches: 7, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
76 360 0.97
78 12 0.03
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:93279 original size:31 final size:31
Alignment explanation
Indices: 93244--93327 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
93234 CTTCAGTGCA
*
93244 TGATGTTTCCAAAAAGCCTTTGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
93275 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
93306 TGATGTTTTC-AAAA-CCTTCGGG
1 TGATGTTTCCAAAAAGCCTTCGGG
93328 TCATCTGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 8 0.16
30 4 0.08
31 39 0.76
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:93285 original size:183 final size:183
Alignment explanation
Indices: 93092--93478 Score: 672
Period size: 183 Copynumber: 2.1 Consensus size: 183
93082 CTTCAGTGCA
* * *
93092 TGATGTTTCCAAAAAGCCTTCGGGAGGTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
* * *
93157 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACCTTCGGGT
* * *
93222 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTT
131 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCATCGGGAGCTTTT
93275 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
93340 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACCTTCGGGT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACCTTCGGGT
93405 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCATCGGGAGCTTTT
131 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCATCGGGAGCTTTT
93458 TGATGTTT-C--AAAGCCTTCGGG
1 TGATGTTTCCAAAAAGCCTTCGGG
93479 TCATCTGTAA
Statistics
Matches: 195, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
180 12 0.06
182 1 0.01
183 182 0.93
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (183 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACCTTCGGGT
CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCATCGGGAGCTTTT
Found at i:93300 original size:107 final size:107
Alignment explanation
Indices: 93168--93403 Score: 404
Period size: 107 Copynumber: 2.2 Consensus size: 107
93158 CTTCAGTGCA
* * *
93168 TGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
* *
93233 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTT
93275 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
93340 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTT
*
93382 TGATGTTTTC-AAAA-CCTTCGGG
1 TGATGTTTCCAAAAAGCCTTCGGG
93404 TCATCTGTAA
Statistics
Matches: 123, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
105 8 0.07
106 4 0.03
107 111 0.90
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (107 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTT
Found at i:93326 original size:259 final size:258
Alignment explanation
Indices: 93016--93545 Score: 970
Period size: 259 Copynumber: 2.1 Consensus size: 258
93006 CTTCAGTGCA
* *
93016 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
* *
93081 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGGTTTTTGATGTTTTCAAAGCCTTCGGGT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACCTTCGGGT
* * *
93146 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
131 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCATCGGGAGCTTTTTGATG-TTTCAA
*
93211 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTT
195 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
93275 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
93340 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACCTTCGGGT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACCTTCGGGT
93405 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCATCGGGAGCTTTTTGATGTTTCAAA
131 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCATCGGGAGCTTTTTGATGTTTCAAA
93470 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
196 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
93533 TGATGTTTTCAAA
1 TGATGTTTCCAAA
93546 TCCTTCGGGT
Statistics
Matches: 262, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
258 81 0.31
259 181 0.69
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (258 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACCTTCGGGT
CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCATCGGGAGCTTTTTGATGTTTCAAA
GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:93355 original size:76 final size:76
Alignment explanation
Indices: 93275--94317 Score: 1894
Period size: 76 Copynumber: 13.8 Consensus size: 76
93265 GGGAGCTTTT
* *
93275 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
93340 CCTTCAGTGCA
66 CCTTCAGTGCA
* *
93351 TGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
*
93416 CCTCCAGTGCA
66 CCTTCAGTGCA
*
93427 TGATGTTTCCAAAAAGCCATCGGGAGCTTTTTGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
93491 CCTTCAGTGCA
66 CCTTCAGTGCA
*
93502 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
*
93567 CCTCCAGTGCA
66 CCTTCAGTGCA
*
93578 TGATGTTTCCAAAAAGCCGTCGGGAGCTTTTTGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
93642 CCTTCAGTGCA
66 CCTTCAGTGCA
93653 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
93718 CCTTCAGTGCA
66 CCTTCAGTGCA
* *
93729 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTTGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
93794 CCTTCAGTGCA
66 CCTTCAGTGCA
*
93805 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
93870 CCTTCAGTGCA
66 CCTTCAGTGCA
93881 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
93946 CCTTCAGTGCA
66 CCTTCAGTGCA
* *
93957 TGATGTTTCCAAAAAGCCTTCAGGAGGTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
94022 CCTTCAGTGCA
66 CCTTCAGTGCA
*
94033 TGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
94098 CCTTCAGTGCA
66 CCTTCAGTGCA
*
94109 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
94174 CCTTCAGTGCA
66 CCTTCAGTGCA
*
94185 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
94250 CCTTCAGTGCA
66 CCTTCAGTGCA
*
94261 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA-CCCTCAGGGTCAT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC-GGGTCAT
94318 TCATAAGACC
Statistics
Matches: 938, Mismatches: 26, Indels: 6
0.97 0.03 0.01
Matches are distributed among these distances:
75 148 0.16
76 790 0.84
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
CCTTCAGTGCA
Found at i:94488 original size:3 final size:3
Alignment explanation
Indices: 94478--94527 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
94468 TTTTTCTTAC
94478 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
94523 TAT TA
1 TAT TA
94528 AATAAATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:94536 original size:22 final size:22
Alignment explanation
Indices: 94492--94538 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
94482 TTATTATTAT
* *
94492 TATTATTATTATTATTATTATA
1 TATTATTATTATTAATATAATA
94514 TATTATTATTATTAA-ATAAATA
1 TATTATTATTATTAATAT-AATA
94536 TAT
1 TAT
94539 ATATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTATTATTATTAATATAATA
Found at i:94541 original size:28 final size:28
Alignment explanation
Indices: 94482--94544 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
94472 TCTTACTATT
* * *
94482 TTAT-TATTATTATTATTATTATTATTA
1 TTATATATTATTATTATTATAATAAATA
94509 TTATATATTATTATTATTA-AATAAATA
1 TTATATATTATTATTATTATAATAAATA
94536 TATATATAT
1 T-TATATAT
94545 ATATACAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TTATATATTATTATTATTATAATAAATA
Found at i:98668 original size:13 final size:13
Alignment explanation
Indices: 98623--98671 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
98613 AAAGTTGAGT
98623 TATTATATTCAAA
1 TATTATATTCAAA
* * *
98636 TATTTTTTTGAAA
1 TATTATATTCAAA
98649 TAAATTATATTCAAA
1 T--ATTATATTCAAA
98664 TATTATAT
1 TATTATAT
98672 AAAAAAATAG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
13 18 0.64
15 10 0.36
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTATATTCAAA
Found at i:99626 original size:17 final size:17
Alignment explanation
Indices: 99598--99633 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
99588 TTAAATTATA
99598 TAAAAGCCCCAAAATACC
1 TAAAAGCCCCAAAAT-CC
99616 TAAAA-CCCCAAAATCC
1 TAAAAGCCCCAAAATCC
99632 TA
1 TA
99634 TCCTTAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 9 0.50
18 5 0.28
ACGTcount: A:0.50, C:0.33, G:0.03, T:0.14
Consensus pattern (17 bp):
TAAAAGCCCCAAAATCC
Found at i:99730 original size:34 final size:34
Alignment explanation
Indices: 99685--99756 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
99675 GCAACTGTCC
*
99685 TAGTCCCTGACATCCTCCTAATCATATGTCATCG
1 TAGTCCCTGACATCCTCCTAATCATATGCCATCG
*
99719 TAGTCCTTGACATCCTCCTAATCATATGCCATCG
1 TAGTCCCTGACATCCTCCTAATCATATGCCATCG
99753 TAGT
1 TAGT
99757 TGTCGTCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.24, C:0.31, G:0.12, T:0.33
Consensus pattern (34 bp):
TAGTCCCTGACATCCTCCTAATCATATGCCATCG
Found at i:100786 original size:21 final size:21
Alignment explanation
Indices: 100762--100824 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
100752 TCAATGAAAG
100762 GACTTAACATTTTGATTAAAA
1 GACTTAACATTTTGATTAAAA
** * * *
100783 GACTTCTCCTTTTGATGAAAG
1 GACTTAACATTTTGATTAAAA
* *
100804 GGCTTAACATTTTCA-TAAAA
1 GACTTAACATTTTGATTAAAA
100824 G
1 G
100825 GATTTAATCT
Statistics
Matches: 30, Mismatches: 12, Indels: 1
0.70 0.28 0.02
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (21 bp):
GACTTAACATTTTGATTAAAA
Found at i:107100 original size:3 final size:3
Alignment explanation
Indices: 107092--107122 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
107082 TCTCCATGTT
*
107092 AAG AAG AAG AAG AAG AAG AAG GAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
107123 GAGATAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:117500 original size:103 final size:103
Alignment explanation
Indices: 117316--117541 Score: 373
Period size: 103 Copynumber: 2.2 Consensus size: 103
117306 GTCGAGGATC
117316 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTAAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTAAGACACATAC
* *
117381 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
117419 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTAAGACACATAC
* * *
117484 TTGATCCCTAGTATATGTATATGATTTTTAAGGAATGG
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
117522 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
117542 TATTATATGG
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTAAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:123331 original size:103 final size:103
Alignment explanation
Indices: 123147--123364 Score: 357
Period size: 103 Copynumber: 2.1 Consensus size: 103
123137 GTCGAGGGTC
*
123147 TATATGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
1 TATATGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
* *
123212 TTGATCCTTGGCATATGTATATGATTCTTAAGGAAT-G
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATCG
*
123249 ATATATGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 -TATATGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATA
* *
123314 CTTGATCCCTAGTATATGTATATGATTTTTAAGGAATCG
65 CTTGATCCCTAGCATATGTATATGATTCTTAAGGAATCG
*
123353 TATGTGGTCCTT
1 TATATGGTCCTT
123365 ATGGACATTA
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 106 0.99
104 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (103 bp):
TATATGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATCG
Found at i:123407 original size:23 final size:22
Alignment explanation
Indices: 123374--123448 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 22
123364 TATGGACATT
*
123374 ATTATAT--GGCACTACGGTGTA
1 ATTATATGCGGCACT-CGGTGCA
*
123395 ATTCTATGCGGCACTCTGGTGCA
1 ATTATATGCGGCACTC-GGTGCA
*
123418 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGCGGCAC-TCGGTGCA
123441 ATTATATG
1 ATTATATG
123449 AGCTGTGGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.13
22 1 0.02
23 37 0.80
24 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (22 bp):
ATTATATGCGGCACTCGGTGCA
Found at i:132294 original size:20 final size:20
Alignment explanation
Indices: 132265--132303 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
132255 AGAGCTCATA
*
132265 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
132285 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
132304 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:136980 original size:12 final size:12
Alignment explanation
Indices: 136965--136989 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
136955 CAAAGAAAAT
136965 ATGTAAGAGTAA
1 ATGTAAGAGTAA
136977 ATGTAAGAGTAA
1 ATGTAAGAGTAA
136989 A
1 A
136990 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
ATGTAAGAGTAA
Found at i:138728 original size:9 final size:9
Alignment explanation
Indices: 138714--138743 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
138704 TATTTATTTA
138714 TTTTTTATT
1 TTTTTTATT
138723 TTTTTTATT
1 TTTTTTATT
138732 TTTTTTAATT
1 TTTTTT-ATT
138742 TT
1 TT
138744 GAGGGGAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTATT
Found at i:138734 original size:10 final size:10
Alignment explanation
Indices: 138706--138743 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
138696 TCAACTCATA
138706 TTTATTTATTT
1 TTTATTT-TTT
138717 TTTA-TTTTT
1 TTTATTTTTT
138726 TTTATTTTTT
1 TTTATTTTTT
*
138736 TTAATTTT
1 TTTATTTT
138744 GAGGGGAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 7 0.28
10 14 0.56
11 4 0.16
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:144675 original size:26 final size:27
Alignment explanation
Indices: 144623--144677 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
144613 TTAAAAGTCA
*
144623 ATAATTTTTTAAAAATATATGAAATTT
1 ATAATTTTTTAAAAATATATAAAATTT
*
144650 ATAA-TTTTTAAAATTATA-AAATATTT
1 ATAATTTTTTAAAAATATATAAA-ATTT
144676 AT
1 AT
144678 CATCATCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 19 0.76
27 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
ATAATTTTTTAAAAATATATAAAATTT
Found at i:149114 original size:21 final size:21
Alignment explanation
Indices: 149090--149133 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
149080 TTTTTGTTTT
*
149090 ATTTTAGTATTATTTTTCAAA
1 ATTTTAGTATCATTTTTCAAA
149111 ATTTTAGTATCATTTTTCAAA
1 ATTTTAGTATCATTTTTCAAA
149132 AT
1 AT
149134 CTAACATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTTAGTATCATTTTTCAAA
Found at i:150065 original size:29 final size:29
Alignment explanation
Indices: 150032--150087 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
150022 ATGCGAGGGT
150032 AGGTCGCCCGGAGGGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
*
150061 AGGTCGCCCGGAGGGCATTGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
150088 TGTGTTGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:157926 original size:20 final size:19
Alignment explanation
Indices: 157897--158029 Score: 133
Period size: 20 Copynumber: 6.7 Consensus size: 19
157887 AAATGACCAA
*
157897 CAAATTCGCAACGCGAATT
1 CAAATTCGCAACGCGAAGT
* *
157916 CAAATTTCGCAAC-CTAGGT
1 CAAA-TTCGCAACGCGAAGT
*
157935 ACCAAATTCGCAACGTGAAAGT
1 --CAAATTCGCAACGCG-AAGT
*
157957 CAAATTCGCAATGCGAAAGT
1 CAAATTCGCAACGCG-AAGT
*
157977 CAAATTCGCAACACAGAAGT
1 CAAATTCGCAACGC-GAAGT
*
157997 CAAATTCGCAACACAGAAGT
1 CAAATTCGCAACGC-GAAGT
158017 CAAATTCGCAACG
1 CAAATTCGCAACG
158030 TGAACTCCAA
Statistics
Matches: 97, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
19 7 0.07
20 82 0.85
21 5 0.05
22 3 0.03
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (19 bp):
CAAATTCGCAACGCGAAGT
Found at i:158083 original size:20 final size:20
Alignment explanation
Indices: 158060--158127 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
158050 CAGTTTCCAG
*
158060 ATTCGCAACACGATTATCAA
1 ATTCGCAACGCGATTATCAA
*
158080 ATTCGCAATGCGA-TAGTCGAA
1 ATTCGCAACGCGATTA-TC-AA
* *
158101 AATCGCAACGCGATT-TTAA
1 ATTCGCAACGCGATTATCAA
158120 ATTCGCAA
1 ATTCGCAA
158128 TGCATTTGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
19 11 0.28
20 14 0.36
21 13 0.33
22 1 0.03
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (20 bp):
ATTCGCAACGCGATTATCAA
Found at i:159140 original size:20 final size:20
Alignment explanation
Indices: 159099--159235 Score: 143
Period size: 20 Copynumber: 6.8 Consensus size: 20
159089 GAATCTTAAA
159099 TCGCGTTGCGAATTTCGACTT
1 TCGCGTTGCGAATTT-GACTT
** *
159120 TCGTATTGTGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
*
159140 TCGCGTTGCAAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
* *
159160 TTGCATTGCGAATTTGAC-T
1 TCGCGTTGCGAATTTGACTT
* *
159179 TCTGTGTTGCGAATTTGACTG
1 TC-GCGTTGCGAATTTGACTT
*
159200 TCGCGTTGTC-AATTTGACAT
1 TCGCGTTG-CGAATTTGACTT
*
159220 TCACGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
159236 GAACATGGGT
Statistics
Matches: 94, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
19 3 0.03
20 76 0.81
21 15 0.16
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTT
Found at i:159179 original size:60 final size:60
Alignment explanation
Indices: 159104--159235 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
159094 TTAAATCGCG
* * * **
159104 TTGCGAATTTCGACTT-TCGTATTGTGAATTTGACTTTCGCGTTG-CAAATTTGACTTTTGCA
1 TTGCGAATTT-GACTTCT-GTATTGCGAATTTGACTGTCGCGTTGTC-AATTTGACATTCACA
* *
159165 TTGCGAATTTGACTTCTGTGTTGCGAATTTGACTGTCGCGTTGTCAATTTGACATTCACG
1 TTGCGAATTTGACTTCTGTATTGCGAATTTGACTGTCGCGTTGTCAATTTGACATTCACA
159225 TTGCGAATTTG
1 TTGCGAATTTG
159236 GAACATGGGT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
60 50 0.81
61 12 0.19
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (60 bp):
TTGCGAATTTGACTTCTGTATTGCGAATTTGACTGTCGCGTTGTCAATTTGACATTCACA
Found at i:162905 original size:34 final size:34
Alignment explanation
Indices: 162862--162936 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
162852 AAAATGACTG
162862 GATTTTCTATTGGACAACCCAGGCTCAAATTTGA
1 GATTTTCTATTGGACAACCCAGGCTCAAATTTGA
* *
162896 GATTTTCTATTGGACACCCCAGGCTCAAATTTGG
1 GATTTTCTATTGGACAACCCAGGCTCAAATTTGA
162930 GATTTTC
1 GATTTTC
162937 GTTGAAAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (34 bp):
GATTTTCTATTGGACAACCCAGGCTCAAATTTGA
Found at i:163839 original size:11 final size:11
Alignment explanation
Indices: 163825--163862 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
163815 TTATTATAAA
163825 AATAATAAAAT
1 AATAATAAAAT
163836 AATAATAAAAT
1 AATAATAAAAT
* *
163847 -TTAATATAAT
1 AATAATAAAAT
163857 AATAAT
1 AATAAT
163863 TTTAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:163857 original size:15 final size:15
Alignment explanation
Indices: 163837--163879 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
163827 TAATAAAATA
163837 ATAATAAAATTTAAT
1 ATAATAAAATTTAAT
163852 ATAATAATAATTTTAAT
1 ATAATAA-AA-TTTAAT
*
163869 AT-TTAAAATTT
1 ATAATAAAATTT
163880 GTACATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 5 0.20
17 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATAAAATTTAAT
Found at i:163857 original size:18 final size:17
Alignment explanation
Indices: 163834--163870 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
163824 AAATAATAAA
163834 ATAATAATAAAATTTAAT
1 ATAATAAT-AAATTTAAT
*
163852 ATAATAATAATTTTAAT
1 ATAATAATAAATTTAAT
163869 AT
1 AT
163871 TTAAAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATAATAAATTTAAT
Found at i:165301 original size:28 final size:27
Alignment explanation
Indices: 165270--165349 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 27
165260 GGTTTTTTGG
**
165270 GTTAAAATGGTTTTTGGTTATTTTTTA
1 GTTAAAATGGTTTAAGGTTATTTTTTA
* *
165297 TGTTAAAATGGTTTAAGGGT-TTTTTGA
1 -GTTAAAATGGTTTAAGGTTATTTTTTA
*
165324 GTTAAAATGGTTTAGGGTTATTTTTT
1 GTTAAAATGGTTTAAGGTTATTTTTT
165350 TTATGTTGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 17 0.39
27 11 0.25
28 16 0.36
ACGTcount: A:0.24, C:0.00, G:0.23, T:0.54
Consensus pattern (27 bp):
GTTAAAATGGTTTAAGGTTATTTTTTA
Found at i:165321 original size:55 final size:55
Alignment explanation
Indices: 165237--165375 Score: 165
Period size: 54 Copynumber: 2.5 Consensus size: 55
165227 TTTAGTTTAG
* * * * **
165237 TTTTCTGTTAGAATGATTTAGGGGGTTTTTTGGGTTAAAATGGTTTTTGGTTA-TT
1 TTTTATGTTAGAATGGTTTA-AGGGTTTTTTGAGTTAAAATGGTTTAGGGTTATTT
*
165292 TTTTATGTTAAAATGGTTTAAGGGTTTTTTGAGTTAAAATGGTTTAGGGTTATTTT
1 TTTTATGTTAGAATGGTTTAAGGGTTTTTTGAGTTAAAATGGTTTAGGGTTA-TTT
* *
165348 TTTTATGTTGGAATGGTTT-AGAGTTTTT
1 TTTTATGTTAGAATGGTTTAAGGGTTTTT
165376 AGAATGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
54 28 0.39
55 25 0.35
56 19 0.26
ACGTcount: A:0.21, C:0.01, G:0.25, T:0.53
Consensus pattern (55 bp):
TTTTATGTTAGAATGGTTTAAGGGTTTTTTGAGTTAAAATGGTTTAGGGTTATTT
Found at i:165327 original size:26 final size:25
Alignment explanation
Indices: 165259--165347 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 25
165249 ATGATTTAGG
* *
165259 GGGTTTTTTGGGTTAAAATGGTTTTT
1 GGGTTTTTTGAGTTAAAATGG-TTTA
* *
165285 GGTTATTTTTTATGTTAAAATGGTTTAA
1 GGGT-TTTTTGA-GTTAAAATGGTTT-A
165313 GGGTTTTTTGAGTTAAAATGGTTTA
1 GGGTTTTTTGAGTTAAAATGGTTTA
165338 GGGTTATTTT
1 GGGTT-TTTT
165348 TTTTATGTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
25 6 0.11
26 20 0.38
27 14 0.26
28 13 0.25
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (25 bp):
GGGTTTTTTGAGTTAAAATGGTTTA
Found at i:165579 original size:23 final size:23
Alignment explanation
Indices: 165535--165595 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
165525 GTTTAAGGTT
*
165535 TTTAAAGTGATTTAGAGAATTTTG
1 TTTAAA-TGGTTTAGAGAATTTTG
* *
165559 TTTAAATGGTTTAGGGTATTTTG
1 TTTAAATGGTTTAGAGAATTTTG
165582 TTTAAATGGTTTAG
1 TTTAAATGGTTTAG
165596 TGTTTTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 28 0.82
24 6 0.18
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (23 bp):
TTTAAATGGTTTAGAGAATTTTG
Found at i:174900 original size:23 final size:22
Alignment explanation
Indices: 174874--174917 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
174864 AAAATGTAAA
*
174874 TTAAACCCTTCAAAAATTTTAAT
1 TTAAA-CCTCCAAAAATTTTAAT
*
174897 TTAAACCTCCAAAATTTTTAA
1 TTAAACCTCCAAAAATTTTAA
174918 AATTTTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAACCTCCAAAAATTTTAAT
Found at i:185889 original size:31 final size:31
Alignment explanation
Indices: 185851--185973 Score: 194
Period size: 31 Copynumber: 4.0 Consensus size: 31
185841 GGGTCGAGGG
*
185851 TTACCTATGTTCTTCGGGACATATTGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
185882 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
185913 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
185944 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
185974 GTCCTTCGGG
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 86 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:187634 original size:17 final size:18
Alignment explanation
Indices: 187604--187639 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
187594 ATTTTGAAAA
187604 AAAAATAATGAAAGGATT
1 AAAAATAATGAAAGGATT
*
187622 AAAAATGAT-AAAGGATT
1 AAAAATAATGAAAGGATT
187639 A
1 A
187640 TAAGGAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (18 bp):
AAAAATAATGAAAGGATT
Found at i:190002 original size:31 final size:31
Alignment explanation
Indices: 189964--190055 Score: 141
Period size: 31 Copynumber: 3.0 Consensus size: 31
189954 GGGTCGAGGG
*
189964 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGA
189995 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
* *
190026 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
190056 GTCCTTCGGG
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 56 0.98
32 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGA
Found at i:192358 original size:32 final size:32
Alignment explanation
Indices: 192286--192438 Score: 195
Period size: 32 Copynumber: 4.8 Consensus size: 32
192276 GAGTCGAGGG
* * *
192286 TTACCTATGT-CTTTCGAGACATATGGATA-GT
1 TTACCTATGTCCTTT-GGGACATATGGACAGGA
192317 TTACCTATGTCCTTTGGGACATATGGACAGGA
1 TTACCTATGTCCTTTGGGACATATGGACAGGA
* * *
192349 TTACCTATGTCCTTCGAGACATATGGACAAGA
1 TTACCTATGTCCTTTGGGACATATGGACAGGA
192381 TTACCTATGTCCTTTGGGACATATGGACAGG-
1 TTACCTATGTCCTTTGGGACATATGGACAGGA
* * *
192412 TTACCTATGTTCTTCGGAACATATGGA
1 TTACCTATGTCCTTTGGGACATATGGA
192439 TAGGTCATTC
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
31 46 0.43
32 62 0.57
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (32 bp):
TTACCTATGTCCTTTGGGACATATGGACAGGA
Found at i:192416 original size:63 final size:62
Alignment explanation
Indices: 192284--192438 Score: 240
Period size: 63 Copynumber: 2.5 Consensus size: 62
192274 AAGAGTCGAG
* * *
192284 GGTTACCTATGTCTTTCGAGACATATGGATAGTTTACCTATGTCCTTTGGGACATATGGACA
1 GGTTACCTATGTCCTTCGAGACATATGGAAAGATTACCTATGTCCTTTGGGACATATGGACA
192346 GGATTACCTATGTCCTTCGAGACATATGGACAAGATTACCTATGTCCTTTGGGACATATGGACA
1 GG-TTACCTATGTCCTTCGAGACATATGGA-AAGATTACCTATGTCCTTTGGGACATATGGACA
*
192410 GGTTACCTATGTTCTTCG-GAACATATGGA
1 GGTTACCTATGTCCTTCGAG-ACATATGGA
192439 TAGGTCATTC
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
62 3 0.03
63 50 0.58
64 33 0.38
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (62 bp):
GGTTACCTATGTCCTTCGAGACATATGGAAAGATTACCTATGTCCTTTGGGACATATGGACA
Found at i:193201 original size:2 final size:2
Alignment explanation
Indices: 193196--193258 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
193186 AGTTATGTTA
193196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
193238 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
193259 GATGAGTAGG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:193361 original size:18 final size:18
Alignment explanation
Indices: 193340--193374 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
193330 TAATAAGAAC
* *
193340 AAGATTGATAATTATAAG
1 AAGATTAATAATGATAAG
193358 AAGATTAATAATGATAA
1 AAGATTAATAATGATAA
193375 TGTAAATGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (18 bp):
AAGATTAATAATGATAAG
Found at i:198936 original size:58 final size:58
Alignment explanation
Indices: 198857--198973 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
198847 AATTTCAACT
198857 TATTTTAGTTGAGGACTTGATCAGATGCTTAGTCTATCACTTGGACAGAATTGCGTTC
1 TATTTTAGTTGAGGACTTGATCAGATGCTTAGTCTATCACTTGGACAGAATTGCGTTC
198915 TATTTTAGTTGAGGACTTGATCAGATGCTTAGTCTATCACTTGGACAGAATTGCGTTC
1 TATTTTAGTTGAGGACTTGATCAGATGCTTAGTCTATCACTTGGACAGAATTGCGTTC
198973 T
1 T
198974 TAACTTTTGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (58 bp):
TATTTTAGTTGAGGACTTGATCAGATGCTTAGTCTATCACTTGGACAGAATTGCGTTC
Found at i:202581 original size:27 final size:24
Alignment explanation
Indices: 202538--202623 Score: 86
Period size: 24 Copynumber: 3.5 Consensus size: 24
202528 AAATTGAACG
202538 ACCGGTTTTTTTACCGGATAAAAA
1 ACCGGTTTTTTTACCGGATAAAAA
202562 ACCGGTTTTTTTCAAACCGGATAAAAA
1 ACCGGTTTTTTT---ACCGGATAAAAA
** *
202589 ATTGG-TTTTTTATCC-GAAAAAAA
1 ACCGGTTTTTTTA-CCGGATAAAAA
202612 ATCCGGTTTTTT
1 A-CCGGTTTTTT
202624 AAAAAAACTG
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
23 9 0.18
24 16 0.31
25 5 0.10
26 6 0.12
27 15 0.29
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (24 bp):
ACCGGTTTTTTTACCGGATAAAAA
Found at i:202650 original size:39 final size:40
Alignment explanation
Indices: 202584--202662 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 40
202574 CAAACCGGAT
* *
202584 AAAAAATTGGTTTTTTATCCGAAAAAAAATCCGGTTTTTTA
1 AAAAAACTGGATTTTTATCCG-AAAAAAATCCGGTTTTTTA
202625 AAAAAACTGGATTTTTATCCG-AAAAAATCCGGTTTTTT
1 AAAAAACTGGATTTTTATCCGAAAAAAATCCGGTTTTTT
202663 TTTTAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 17 0.47
41 19 0.53
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (40 bp):
AAAAAACTGGATTTTTATCCGAAAAAAATCCGGTTTTTTA
Found at i:202663 original size:41 final size:41
Alignment explanation
Indices: 202584--202682 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 41
202574 CAAACCGGAT
*
202584 AAAAAATTGGTTTTTTATCCGAAAAAAAATCCGG-TTTTTTA
1 AAAAAACTGGTTTTTTATCCG-AAAAAAATCCGGTTTTTTTA
* *
202625 AAAAAACTGGATTTTTATCCG-AAAAAATCCGGTTTTTTTTTT
1 AAAAAACTGGTTTTTTATCCGAAAAAAATCCGG--TTTTTTTA
*
202667 AAAAAACCGGTTTTTT
1 AAAAAACTGGTTTTTT
202683 TGTAAACCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
39 11 0.22
41 19 0.38
42 20 0.40
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.40
Consensus pattern (41 bp):
AAAAAACTGGTTTTTTATCCGAAAAAAATCCGGTTTTTTTA
Found at i:204123 original size:13 final size:13
Alignment explanation
Indices: 204105--204199 Score: 50
Period size: 13 Copynumber: 8.0 Consensus size: 13
204095 AAAATTATAT
204105 TATAATAAATAAA
1 TATAATAAATAAA
204118 TATAAT-AAT--A
1 TATAATAAATAAA
204128 T-TAAGT-AAT-AA
1 TATAA-TAAATAAA
* *
204139 TATTAATTATTAAA
1 TA-TAATAAATAAA
*
204153 TGTAATAAAT-AA
1 TATAATAAATAAA
204165 T-T-A-AAATAAA
1 TATAATAAATAAA
*
204175 -ATAATATATAAA
1 TATAATAAATAAA
*
204187 TATAATAATTAAA
1 TATAATAAATAAA
204200 ATAGAAATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 22
0.69 0.08 0.24
Matches are distributed among these distances:
9 7 0.11
10 10 0.16
11 4 0.06
12 13 0.20
13 27 0.42
14 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (13 bp):
TATAATAAATAAA
Found at i:204125 original size:16 final size:16
Alignment explanation
Indices: 204101--204195 Score: 57
Period size: 16 Copynumber: 5.6 Consensus size: 16
204091 TCCAAAAATT
*
204101 ATATTATAATAAATAA
1 ATATAATAATAAATAA
204117 ATATAATAATATTAAGT-A
1 ATATAATAATA--AA-TAA
* * *
204135 ATAATATTAATTATTAA
1 AT-ATAATAATAAATAA
* *
204152 ATGTAATAAATAATTAAA
1 ATATAAT-AATAAAT-AA
* *
204170 ATAAAATAATATATAA
1 ATATAATAATAAATAA
204186 ATATAATAAT
1 ATATAATAAT
204196 TAAAATAGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
16 25 0.42
17 15 0.25
18 12 0.20
19 8 0.13
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
ATATAATAATAAATAA
Found at i:204178 original size:14 final size:14
Alignment explanation
Indices: 204159--204230 Score: 67
Period size: 14 Copynumber: 5.0 Consensus size: 14
204149 TAAATGTAAT
204159 AAATAATTAAAATA
1 AAATAATTAAAATA
204173 AAATAATATATAAATA
1 AAATAAT-TA-AAATA
*
204189 TAATAATTAAAATA
1 AAATAATTAAAATA
*
204203 GAAAT-TTTATAAA-A
1 -AAATAATTA-AAATA
*
204217 AAATAATTATAATA
1 AAATAATTAAAATA
204231 TATTTCTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 6 0.13
14 20 0.43
15 10 0.21
16 11 0.23
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (14 bp):
AAATAATTAAAATA
Found at i:204185 original size:21 final size:21
Alignment explanation
Indices: 204155--204194 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
204145 TTATTAAATG
*
204155 TAATAAATAATTAAAATAAAA
1 TAATAAATAAATAAAATAAAA
* *
204176 TAATATATAAATATAATAA
1 TAATAAATAAATAAAATAA
204195 TTAAAATAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
TAATAAATAAATAAAATAAAA
Found at i:204259 original size:42 final size:43
Alignment explanation
Indices: 204159--204259 Score: 98
Period size: 42 Copynumber: 2.3 Consensus size: 43
204149 TAAATGTAAT
204159 AAATAATTAAAATAAAATAATATATAAATATAATAATTAAAATAG
1 AAATAA-TAAAA-AAAATAATATATAAATATAATAATTAAAATAG
** * ** *
204204 AAATTTTATAAAAAAATAAT-TAT-AATATATTTCTTAAAATTTG
1 AAATAATA-AAAAAAATAATATATAAATATAATAATTAAAA-TAG
204247 AAATAATAAAAAA
1 AAATAATAAAAAA
204260 TTGTATTATA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
42 18 0.39
43 11 0.24
44 10 0.22
45 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (43 bp):
AAATAATAAAAAAAATAATATATAAATATAATAATTAAAATAG
Found at i:204350 original size:47 final size:49
Alignment explanation
Indices: 204248--204350 Score: 121
Period size: 47 Copynumber: 2.2 Consensus size: 49
204238 TAAAATTTGA
204248 AATAATAAAA--AATTGTATTATAATAAATAAATATAATAATCATAATT
1 AATAATAAAATTAATTGTATTATAATAAATAAATATAATAATCATAATT
*
204295 ATTAATAAAATTAATTGTTATATATAATAAAT-AAT-TAA-AAT-ATAA-T
1 AATAATAAAATTAATTG-TAT-TATAATAAATAAATATAATAATCATAATT
204341 AATACATAAA
1 AATA-ATAAA
204351 TATAGTAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
46 4 0.08
47 18 0.37
48 3 0.06
49 8 0.16
50 6 0.12
51 10 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (49 bp):
AATAATAAAATTAATTGTATTATAATAAATAAATATAATAATCATAATT
Found at i:204362 original size:164 final size:164
Alignment explanation
Indices: 204094--204491 Score: 579
Period size: 165 Copynumber: 2.4 Consensus size: 164
204084 TTTATAATCC
* * * *
204094 AAAAATTATATTATAATAAATAAATATAATAATAT--TAAGTAATAATATTAATTATTAAATGTA
1 AAAAATTATATTATAATAAATAAATATAATAATATAATTATTAATAAAATTAATTATTAAATATA
*
204157 ATAAATAATTAAAATAAAATAATATATAAATATAATAATTAAAATAGAAATTTTAT-AAAAAAAT
66 ATAAATAATTAAAATAAAATAATACATAAATATAATAATTAAAATAGAAATTTTATAAAAAAAAT
204221 AATTATAATATATTTCT-TAAAATTTGAAATAATA
131 AATTATAATATATTT-TGTAAAATTTGAAATAATA
* * *
204255 AAAAATTGTATTATAATAAATAAATATAATAATCATAATTATTAATAAAATTAATTGTTATATAT
1 AAAAATTATATTATAATAAATAAATATAATAAT-ATAATTATTAATAAAATTAATTATTAAATAT
* * *
204320 AATAAATAATTAAAATATAATAATACATAAATATAGTAATTAAAATAGATATTTTATAAAAAAAA
65 AATAAATAATTAAAATAAAATAATACATAAATATAATAATTAAAATAGAAATTTTATAAAAAAAA
* *
204385 TAATTATAATATATTTTGTAAATTTTGAAATAATG
130 TAATTATAATATATTTTGTAAAATTTGAAATAATA
* * *
204420 AAAAATTATATTATAATAAATAAATATAATAATATTAATTATTAAATATAATAAATAATTAAAAT
1 AAAAATTATATTATAATAAATAAATATAATAATA-TAATTATT-AATAAAATTAATTATT-AAAT
204485 ATAATAA
63 ATAATAA
204492 TATATAAACA
Statistics
Matches: 210, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
161 32 0.15
162 2 0.01
164 76 0.36
165 78 0.37
166 12 0.06
167 10 0.05
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (164 bp):
AAAAATTATATTATAATAAATAAATATAATAATATAATTATTAATAAAATTAATTATTAAATATA
ATAAATAATTAAAATAAAATAATACATAAATATAATAATTAAAATAGAAATTTTATAAAAAAAAT
AATTATAATATATTTTGTAAAATTTGAAATAATA
Found at i:204449 original size:13 final size:13
Alignment explanation
Indices: 204431--204491 Score: 54
Period size: 13 Copynumber: 4.6 Consensus size: 13
204421 AAAATTATAT
204431 TATAATAAATAAA
1 TATAATAAATAAA
*
204444 TATAATAATATTAA
1 TATAATAA-ATAAA
*
204458 T-TATTAAATATAA
1 TATAATAAATA-AA
*
204471 TA-AATAATTAAAA
1 TATAATAAAT-AAA
204484 TATAATAA
1 TATAATAA
204492 TATATAAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
12 2 0.05
13 25 0.66
14 11 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATAATAAATAAA
Found at i:204576 original size:149 final size:147
Alignment explanation
Indices: 204279--204576 Score: 345
Period size: 149 Copynumber: 2.0 Consensus size: 147
204269 AATAAATAAA
* * * *
204279 TATAATAATCATAATTATTAATAAAATTAATTGTTATATATAATAAATAATTAAAATATAATAAT
1 TATAATAA--ATAAATA-TAATAATATTAATTATTAAATATAATAAATAATTAAAATATAATAAT
* * *
204344 ACATAAATATAGTAATTAAAATAGATATTTTATAAAAAAAATAATTATAATATATTTTGTAAATT
63 ATATAAA-ATA-TAATTAAAATAAATATTTTAT--AAAAAATAATTATAATATATTTT-AAAATT
*
204409 TTGAAA--T-AATGAA-AAATTATAT
123 TTGAAATTTGAAT-AATGAATTATAT
204431 TATAATAAATAAATATAATAATATTAATTATTAAATATAATAAATAATTAAAATATAATAATATA
1 TATAATAAATAAATATAATAATATTAATTATTAAATATAATAAATAATTAAAATATAATAATATA
* * *
204496 TAAACATAGTAATTAAAATACATATTTTATAAAAAATAATTGTAATATATTTTGGAAATTTTGAA
66 TAAA-ATA-TAATTAAAATAAATATTTTATAAAAAATAATTATAATATATTTT-AAAATTTTGAA
*
204561 ATTTGAAT-TTGAATTA
128 ATTTGAATAATGAATTA
204577 AAGCAATCTC
Statistics
Matches: 131, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
147 34 0.26
149 80 0.61
150 9 0.07
152 8 0.06
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (147 bp):
TATAATAAATAAATATAATAATATTAATTATTAAATATAATAAATAATTAAAATATAATAATATA
TAAAATATAATTAAAATAAATATTTTATAAAAAATAATTATAATATATTTTAAAATTTTGAAATT
TGAATAATGAATTATAT
Found at i:216262 original size:124 final size:124
Alignment explanation
Indices: 216042--216290 Score: 498
Period size: 124 Copynumber: 2.0 Consensus size: 124
216032 ATCTAAGCAT
216042 AGTCAGTGTGATGGTATGCACCAATGAAAAATACTGAGGCAATATGTGTTGGTCGGGATGGAATG
1 AGTCAGTGTGATGGTATGCACCAATGAAAAATACTGAGGCAATATGTGTTGGTCGGGATGGAATG
216107 ATAGTCTGATGTGGTAGCAAATAGAGATTTAGTGACAAACTAGATGGAAATGTCATGGC
66 ATAGTCTGATGTGGTAGCAAATAGAGATTTAGTGACAAACTAGATGGAAATGTCATGGC
216166 AGTCAGTGTGATGGTATGCACCAATGAAAAATACTGAGGCAATATGTGTTGGTCGGGATGGAATG
1 AGTCAGTGTGATGGTATGCACCAATGAAAAATACTGAGGCAATATGTGTTGGTCGGGATGGAATG
216231 ATAGTCTGATGTGGTAGCAAATAGAGATTTAGTGACAAACTAGATGGAAATGTCATGGC
66 ATAGTCTGATGTGGTAGCAAATAGAGATTTAGTGACAAACTAGATGGAAATGTCATGGC
216290 A
1 A
216291 AAATAAAGTG
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 125 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (124 bp):
AGTCAGTGTGATGGTATGCACCAATGAAAAATACTGAGGCAATATGTGTTGGTCGGGATGGAATG
ATAGTCTGATGTGGTAGCAAATAGAGATTTAGTGACAAACTAGATGGAAATGTCATGGC
Found at i:217691 original size:21 final size:21
Alignment explanation
Indices: 217654--217798 Score: 107
Period size: 21 Copynumber: 6.8 Consensus size: 21
217644 TATAAAATTA
217654 TCCCGAAGGA-CATCATATATG
1 TCCCGAAGGACCA-CATATATG
*
217675 TCCCGAAGGACCACATAGAATTG
1 TCCCGAAGGACCACATA-TA-TG
* ** * *
217698 TCCCTAAATACCGCATATATA
1 TCCCGAAGGACCACATATATG
* ** *
217719 TTCC-AGAGGATTAAATATATG
1 TCCCGA-AGGACCACATATATG
*
217740 TCCTGAAGGACCACATATATG
1 TCCCGAAGGACCACATATATG
* *
217761 TTCCC-AAGGATCAAATATATG
1 -TCCCGAAGGACCACATATATG
217782 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
217799 GAACCCTCGA
Statistics
Matches: 92, Mismatches: 25, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
20 5 0.05
21 64 0.70
22 8 0.09
23 15 0.16
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (21 bp):
TCCCGAAGGACCACATATATG
Found at i:217757 original size:42 final size:42
Alignment explanation
Indices: 217711--217798 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
217701 CTAAATACCG
* *
217711 CATATATATT-CCAGAGGATTAAATATATGTCCTGAAGGACCA
1 CATATATATTCCCA-AGGATCAAATATATGTCCCGAAGGACCA
*
217753 CATATATGTTCCCAAGGATCAAATATATGTCCCGAAGGACCA
1 CATATATATTCCCAAGGATCAAATATATGTCCCGAAGGACCA
217795 CATA
1 CATA
217799 GAACCCTCGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (42 bp):
CATATATATTCCCAAGGATCAAATATATGTCCCGAAGGACCA
Found at i:220119 original size:14 final size:14
Alignment explanation
Indices: 220100--220129 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
220090 TTTATATTTT
*
220100 TTAAAATTACATTA
1 TTAAAAATACATTA
220114 TTAAAAATACATTA
1 TTAAAAATACATTA
220128 TT
1 TT
220130 GATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:220313 original size:13 final size:14
Alignment explanation
Indices: 220288--220349 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 14
220278 ACCTCAAAAT
220288 CTAAATCATAAACC
1 CTAAATCATAAACC
220302 CTAAAT-ATAAACC
1 CTAAATCATAAACC
* * *
220315 ATAAATCCTAAACT
1 CTAAATCATAAACC
* * *
220329 ATAAACCTTAAACC
1 CTAAATCATAAACC
220343 CTAAATC
1 CTAAATC
220350 TGATTATATG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
13 12 0.31
14 27 0.69
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (14 bp):
CTAAATCATAAACC
Found at i:220333 original size:21 final size:20
Alignment explanation
Indices: 220284--220348 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
220274 CTAAACCTCA
* *
220284 AAATCTAAATCATAAACCCT
1 AAATATAAACCATAAACCCT
*
220304 AAATATAAACCATAAATCCT
1 AAATATAAACCATAAACCCT
*
220324 AAACTATAAACCTTAAACCCT
1 AAA-TATAAACCATAAACCCT
220345 AAAT
1 AAAT
220349 CTGATTATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 21 0.54
21 18 0.46
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATATAAACCATAAACCCT
Found at i:222758 original size:12 final size:12
Alignment explanation
Indices: 222741--222820 Score: 58
Period size: 12 Copynumber: 6.8 Consensus size: 12
222731 GTTGAACTTG
222741 AATCGAGCTTAA
1 AATCGAGCTTAA
**
222753 AATCGAGC-TCG
1 AATCGAGCTTAA
* *
222764 AATTGAGCTCAA
1 AATCGAGCTTAA
* *
222776 AATCGAACTT-G
1 AATCGAGCTTAA
*
222787 AATCGAGCTCAA
1 AATCGAGCTTAA
*
222799 AATTGAG-TTCAA
1 AATCGAGCTT-AA
222811 AATCGAGCTT
1 AATCGAGCTT
222821 GAATCGAATA
Statistics
Matches: 48, Mismatches: 16, Indels: 7
0.68 0.23 0.10
Matches are distributed among these distances:
11 17 0.35
12 29 0.60
13 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (12 bp):
AATCGAGCTTAA
Found at i:222766 original size:23 final size:23
Alignment explanation
Indices: 222740--222819 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
222730 CGTTGAACTT
*
222740 GAATCGAGCTTAAAATCGAGCTC
1 GAATCGAGCTCAAAATCGAGCTC
* * *
222763 GAATTGAGCTCAAAATCGAACTT
1 GAATCGAGCTCAAAATCGAGCTC
* *
222786 GAATCGAGCTCAAAATTGAGTTC
1 GAATCGAGCTCAAAATCGAGCTC
*
222809 AAAATCGAGCT
1 -GAATCGAGCT
222820 TGAATCGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
23 37 0.80
24 9 0.20
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (23 bp):
GAATCGAGCTCAAAATCGAGCTC
Found at i:222780 original size:35 final size:35
Alignment explanation
Indices: 222741--222827 Score: 113
Period size: 35 Copynumber: 2.5 Consensus size: 35
222731 GTTGAACTTG
*
222741 AATCGAGCTTAAAATCGAGCTC-GAATTGAGCTCAA
1 AATCGAGCTT-AAATCGAGCTCAAAATTGAGCTCAA
* * *
222776 AATCGAACTTGAATCGAGCTCAAAATTGAGTTCAA
1 AATCGAGCTTAAATCGAGCTCAAAATTGAGCTCAA
*
222811 AATCGAGCTTGAATCGA
1 AATCGAGCTTAAATCGA
222828 ATACAAAATC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 10 0.22
35 36 0.78
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (35 bp):
AATCGAGCTTAAATCGAGCTCAAAATTGAGCTCAA
Found at i:222835 original size:35 final size:35
Alignment explanation
Indices: 222764--222842 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
222754 ATCGAGCTCG
*
222764 AATTGAGCTCAAAATCGAACTTGAATCGAGCTCAA
1 AATTGAGCTCAAAATCGAACTTGAATCGAGATCAA
* *
222799 AATTGAGTTCAAAATCGAGCTTGAATCGA-ATACAA
1 AATTGAGCTCAAAATCGAACTTGAATCGAGAT-CAA
*
222834 AATCGAGCT
1 AATTGAGCT
222843 GCAATCGAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 1 0.03
35 37 0.97
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (35 bp):
AATTGAGCTCAAAATCGAACTTGAATCGAGATCAA
Found at i:222871 original size:24 final size:24
Alignment explanation
Indices: 222839--222901 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
222829 TACAAAATCG
*
222839 AGCTGCAATCGAGCTTGAGTCTCA
1 AGCTTCAATCGAGCTTGAGTCTCA
*
222863 AGCTTCAATCGAGCTTGAGTCTCG
1 AGCTTCAATCGAGCTTGAGTCTCA
222887 AGCTTCAATCGAGCT
1 AGCTTCAATCGAGCT
222902 CTTGAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (24 bp):
AGCTTCAATCGAGCTTGAGTCTCA
Found at i:235214 original size:18 final size:18
Alignment explanation
Indices: 235200--235261 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
235190 TTTTTACAGC
235200 TATCAGACATTTTACAAT
1 TATCAGACATTTTACAAT
* *
235218 TATCAGACGTTTTTCAAT
1 TATCAGACATTTTACAAT
* * *
235236 TATCATATATTTTACAGT
1 TATCAGACATTTTACAAT
235254 TATCAGAC
1 TATCAGAC
235262 GTAGATTAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (18 bp):
TATCAGACATTTTACAAT
Found at i:241110 original size:28 final size:29
Alignment explanation
Indices: 241079--241133 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
241069 GTTTGAATTA
241079 TGATGGAAGTA-CGA-TTTAGTTTTTATAT
1 TGATGGAAGTATCGATTTTA-TTTTTATAT
**
241107 TGATTTAAGTATCGATTTTATTTTTAT
1 TGATGGAAGTATCGATTTTATTTTTAT
241134 CGAATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.39
29 10 0.43
30 4 0.17
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (29 bp):
TGATGGAAGTATCGATTTTATTTTTATAT
Found at i:241136 original size:15 final size:16
Alignment explanation
Indices: 241116--241148 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
241106 TTGATTTAAG
*
241116 TATCG-ATTTTATTTT
1 TATCGAATTTTATATT
241131 TATCGAATTTTATATT
1 TATCGAATTTTATATT
241147 TA
1 TA
241149 AGTTTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TATCGAATTTTATATT
Found at i:251933 original size:21 final size:21
Alignment explanation
Indices: 251908--251947 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
251898 TAGGGTTTGG
*
251908 TCACTTATTTAGTGGCTTTCA
1 TCACTTATTTAGTAGCTTTCA
*
251929 TCACTTGTTTAGTAGCTTT
1 TCACTTATTTAGTAGCTTT
251948 AGTCTGTAGA
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:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (21 bp):
TCACTTATTTAGTAGCTTTCA
Found at i:252922 original size:45 final size:44
Alignment explanation
Indices: 252873--252982 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 44
252863 TAAATCTTAT
252873 TTTTTTTACCTTTATAATTGAGATC-CT-ATTATTATTCAATCTCAC
1 TTTTTTTACCTTTATAATTGAGATCTCTAATT-TTATTCAAT-TC-C
* * * *
252918 --TTTTTATCTTTATAATTGAAATCTCTAATTTTTTTCTATTCC
1 TTTTTTTACCTTTATAATTGAGATCTCTAATTTTATTCAATTCC
*
252960 TTTTTTTCACATTTATAATTGAG
1 TTTTTTT-ACCTTTATAATTGAG
252983 TCCCCTAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.02
43 23 0.43
44 14 0.26
45 15 0.28
ACGTcount: A:0.25, C:0.15, G:0.05, T:0.55
Consensus pattern (44 bp):
TTTTTTTACCTTTATAATTGAGATCTCTAATTTTATTCAATTCC
Found at i:253085 original size:44 final size:44
Alignment explanation
Indices: 252971--253116 Score: 165
Period size: 44 Copynumber: 3.4 Consensus size: 44
252961 TTTTTTCACA
* * * *
252971 TTTATAATTGAGTCCCCTAA-TTTTGT-AATCTCACTTT-TAAA
1 TTTATAATTGAGGCCCTTAAGTTTTTTCAATCTCACTTTCTAAC
** *
253012 TTTATAATTGAGGCTTTTAAGTTTGTTTCAATCTCACTTTCTACC
1 TTTATAATTGAGGCCCTTAAGTTT-TTTCAATCTCACTTTCTAAC
*
253057 TTT-TCAATTGAGGCCCTTAAGTTTTTTCAATCACACTTTCTAAC
1 TTTAT-AATTGAGGCCCTTAAGTTTTTTCAATCTCACTTTCTAAC
*
253101 TTTATAATTAAGGCCC
1 TTTATAATTGAGGCCC
253117 CTATTTCAAC
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
41 16 0.18
42 3 0.03
43 2 0.02
44 43 0.49
45 23 0.26
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (44 bp):
TTTATAATTGAGGCCCTTAAGTTTTTTCAATCTCACTTTCTAAC
Found at i:254579 original size:14 final size:14
Alignment explanation
Indices: 254560--254589 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
254550 ACCCATATCC
254560 CTTGTATATTAATA
1 CTTGTATATTAATA
*
254574 CTTGTATATTATTA
1 CTTGTATATTAATA
254588 CT
1 CT
254590 CCAAAGAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (14 bp):
CTTGTATATTAATA
Found at i:260791 original size:46 final size:47
Alignment explanation
Indices: 260724--260845 Score: 160
Period size: 47 Copynumber: 2.6 Consensus size: 47
260714 TTCCGGTAAA
*
260724 GCGCTACTTAAAACATTATTTTTTCTACCTT-AAATGTTAATATTGG
1 GCGCTACCTAAAACATTATTTTTTCTACCTTGAAATGTTAATATTGG
*
260770 GCGCTACCTAAAACATTATTTTTT-T-CTTTTGGAAATGTTAATATTGG
1 GCGCTACCTAAAACATTATTTTTTCTAC-CTT-GAAATGTTAATATTGG
* **
260817 GCGCTAACTAAAATGTTATTTTTTCTACC
1 GCGCTACCTAAAACATTATTTTTTCTACC
260846 AGAAATTAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
44 1 0.02
45 3 0.05
46 23 0.35
47 36 0.55
48 1 0.02
49 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (47 bp):
GCGCTACCTAAAACATTATTTTTTCTACCTTGAAATGTTAATATTGG
Found at i:266915 original size:5 final size:5
Alignment explanation
Indices: 266898--266931 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
266888 AATAACAAAG
*
266898 TAAAC TAAA- TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
266932 CGAAGCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (5 bp):
TAAAT
Found at i:268801 original size:107 final size:107
Alignment explanation
Indices: 268615--268828 Score: 403
Period size: 107 Copynumber: 2.0 Consensus size: 107
268605 ATTGATTTTT
268615 TGTTCTAATTTATGTGTTTTAGTCGATAGAGTTCAACAATTACAGCCCCAATACACCATCTACAA
1 TGTTCTAATTTATGTGTTTTAGTCGATAGAGTTCAACAATTACAGCCCCAATACACCATCTACAA
268680 GCTCAAAGGTTTCCTATAACAGTCCCATGTGTGAACATCATA
66 GCTCAAAGGTTTCCTATAACAGTCCCATGTGTGAACATCATA
*
268722 TGTTCTAATTTATGTGTTTTAGTTGATAGAGTTCAAC-ATCTACAGCCCCAATACACCATCTACA
1 TGTTCTAATTTATGTGTTTTAGTCGATAGAGTTCAACAAT-TACAGCCCCAATACACCATCTACA
268786 AGCTCAAAGGTTTCCTATAACAGTCCCATGTGTGAACATCATA
65 AGCTCAAAGGTTTCCTATAACAGTCCCATGTGTGAACATCATA
268829 GAAGATGTTC
Statistics
Matches: 105, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
106 2 0.02
107 103 0.98
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.32
Consensus pattern (107 bp):
TGTTCTAATTTATGTGTTTTAGTCGATAGAGTTCAACAATTACAGCCCCAATACACCATCTACAA
GCTCAAAGGTTTCCTATAACAGTCCCATGTGTGAACATCATA
Found at i:284911 original size:3 final size:3
Alignment explanation
Indices: 284899--284930 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
284889 TATAAATATC
284899 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
284931 TAACTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Done.