Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005380.1 Hibiscus syriacus cultivar Beakdansim tig00012304_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: 106224
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:5392 original size:3 final size:3
Alignment explanation
Indices: 5384--5426 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
5374 TAATTATATT
* *
5384 TAA TAA TAA TAC TAAA TAA TAA TAA TAA TAC TAA TAA TTAA TA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA -TAA TA
5427 TTAAACAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
3 29 0.85
4 5 0.15
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5408 original size:19 final size:19
Alignment explanation
Indices: 5383--5426 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
5373 GTAATTATAT
5383 TTAATAATAATACTAAATAA
1 TTAATAATAATACT-AATAA
5403 -TAATAATAATACTAATAA
1 TTAATAATAATACTAATAA
5421 TTAATA
1 TTAATA
5427 TTAAACAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAATAATAATACTAATAA
Found at i:5703 original size:79 final size:82
Alignment explanation
Indices: 5566--5738 Score: 253
Period size: 79 Copynumber: 2.1 Consensus size: 82
5556 CCACTCTTTT
* *
5566 TTCAGGGGAGATCAGACTTGATTCGTGCCTCTTTTTCGAGTAGTTAGATCAATTTTGGAAGATGG
1 TTCAGGGGAGATCAGACTTGATTCGTGCCTCTTTTTCGAGTAGTGAGATCAATTTTGGAAGACGG
* *
5631 GTCTACTCTACTATTTA
66 GTCTACTCCACTATTCA
* **
5648 TTCAGGGGAGATGAGACTTG-TTTTTGCCTCTTTTT-G-GTAGTGAGATCAATTTTGGAAGACGG
1 TTCAGGGGAGATCAGACTTGATTCGTGCCTCTTTTTCGAGTAGTGAGATCAATTTTGGAAGACGG
*
5710 GTCTGCTCCACTATTCA
66 GTCTACTCCACTATTCA
5727 TTCAGGGGAGAT
1 TTCAGGGGAGAT
5739 ATGTAACACC
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 50 0.60
80 1 0.01
81 13 0.16
82 19 0.23
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (82 bp):
TTCAGGGGAGATCAGACTTGATTCGTGCCTCTTTTTCGAGTAGTGAGATCAATTTTGGAAGACGG
GTCTACTCCACTATTCA
Found at i:6300 original size:54 final size:54
Alignment explanation
Indices: 6242--6446 Score: 288
Period size: 54 Copynumber: 3.8 Consensus size: 54
6232 TATACGATCA
* * ** * *
6242 TTCATAAACATATTG-TGAATTTCGTGGGTTGCACACATAGTGCCAAAATGGTTG
1 TTCATCAACATA-TGATGAATTCCGTGAATTGCACACTTAGTGCCAAAACGGTTG
* *
6296 TTCATCAACATATGATGAATGT-TGTGAATTGCACACTTAGTGCCGAAACGGTTG
1 TTCATCAACATATGATGAAT-TCCGTGAATTGCACACTTAGTGCCAAAACGGTTG
*
6350 TTCATCAACATATGATGAATTCCGTGAATTACACACTTAGTGCCAAAACGGTTG
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCAAAACGGTTG
*
6404 TTCATCAACATATAATGAATTCCGTGAATTGCACACTTAGTGC
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGC
6447 TTATTTGGTA
Statistics
Matches: 136, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
53 3 0.02
54 132 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (54 bp):
TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCAAAACGGTTG
Found at i:7985 original size:90 final size:87
Alignment explanation
Indices: 7837--9108 Score: 945
Period size: 90 Copynumber: 14.5 Consensus size: 87
7827 AAGAATTTGT
* * *
7837 TCCTCTATTATTCCGGGGAGATCAAACTTGAAATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
*
7902 AATATGTGAAATAAGAAGAATC
66 AATATCTGAAATAAGAAGAATC
* * * * * *
7924 TGCTCTTCTACTCTTCCGGGGAGATCAGACTGGAGATTAATTTTCTTTACTATTCTTTCGTGAAG
1 T-C-C-TCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAG
* * *
7989 GTCAATATCTGACATGAGAAGAATC
63 GCCAATATCTGAAATAAGAAGAATC
* * * *
8014 TCCTCTACTCTTCAGGGGAGATCACACTTGAGATTGATTTGCTTCACTACTCTTTTGTGAAGGCC
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
8079 AATATC-----T-----GAA-C
66 AATATCTGAAATAAGAAGAATC
* ** * * *
8090 TCCTCTACTATTCCGGGGAGATCAGTCTCGAGATTGATTTGCTTCACTACTCTTTCATGAAGGCC
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
* * * *
8155 AATATATGACATGAGAAGAATTTGT
66 AATATCTGAAATAAGAAGAA--T-C
* ** * * * *
8180 TCCACTACTCTTTTGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCTTGAAGGCC
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
* *
8245 AACATCTGAAAAAAGAAGAATCTGC
66 AATATCTGAAATAAGAAGAA--T-C
* * * * * * * * * * *
8270 TCCTCTACTATGCTGGTGAAATCAGACTCGAGATTCATTTGCTTCACTACTCTTTTGGGAAGGCC
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
* *
8335 AACATCTGAAATAAGATGAATATGC
66 AATATCTGAAATAAGAAG-A-AT-C
* * * * *
8360 TCCTCTACTCTTCCGGGGAGATCATACTCGAAATTGATTTGCTTCACTACTC-TTCGGGAAGGCC
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
*
8424 AA-ATCTGACATAAGAAGAATCTGC
66 AATATCTGAAATAAGAAGAA--T-C
* * * * * *
8448 TCCTCTACTCTTTCGGGGAGATCATACTCGAGATT--TGT--TTCACTACTCTTCCATGAAGGCC
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
*
8509 AACATCTGAAATAAGAAGAATTTGC
66 AATATCTGAAATAAGAAGAA--T-C
* * * *
8534 TCTTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCGTGAAGGCC
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
* *
8599 AACATCTGAAATAAAAAGAATATGC
66 AATATCTGAAATAAGAAG-A-AT-C
* * * * * *
8624 TCCTCTACTCTTCCAGGGAGATTAGACTCGAGATTGATTTGCTTCACTACTATTTCGTGAAGGCC
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
*
8689 AACATCTGAAATAAGAAGAATATGC
66 AATATCTGAAATAAGAAG-A-AT-C
* * * ** ** * * * *
8714 TCATCTACTCTTCCGGGGAGATCATACTTGAGATTAATTTGATTTGCTGCTTTTTCAG-AAAGAC
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTC-GTGAAGGC
** *
8778 CAA-ATCTGGCATAAGAAGAATTTGT
65 CAATATCTGAAATAAGAAGAA--T-C
* * * ** *
8803 TCCACTACTCTTTC-GGGAGATCAGACTCAAGATTGATTTGCTTCAC-ACTCTTTCGTGAAGGCC
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
*
8866 AACATCTGAAATAAGAAGAATCTGC
66 AATATCTGAAATAAGAAGAA--T-C
* * * * *
8891 TCCTCTACTGTTTCAGGGG-GATCATACTCGAGATTGATTTACTTCACTACTCTTTCGTGAAGGC
1 TCCTCTACT-CTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGC
*
8955 CAACATCTGAAATAAGAAGAATC
65 CAATATCTGAAATAAGAAGAATC
** * * * ** * * * *
8978 TTCTCTCTACTCTTCATGTGAGATCATACTCGAGATTGATTTGATTTACTGCTTTTTCAG-GATG
1 -TC-CTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTC-GTGAAG
* ** *
9042 ACCAA-ATCTGACCTAAGAAGAATATGT
63 GCCAATATCTGAAATAAGAAG-A-AT-C
* * * *
9069 TCCACTACTATTCCGGGGAGATCAGACTTAAGATTGATTT
1 TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTT
9109 GATGCATCGT
Statistics
Matches: 992, Mismatches: 149, Indels: 86
0.81 0.12 0.07
Matches are distributed among these distances:
76 64 0.06
77 3 0.00
81 1 0.00
82 1 0.00
84 10 0.01
85 11 0.01
86 59 0.06
87 76 0.08
88 127 0.13
89 145 0.15
90 490 0.49
91 3 0.00
92 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (87 bp):
TCCTCTACTCTTCCGGGGAGATCAAACTTGAGATTGATTTCCTTCACTACTCTTTCGTGAAGGCC
AATATCTGAAATAAGAAGAATC
Found at i:8139 original size:76 final size:76
Alignment explanation
Indices: 8013--8159 Score: 231
Period size: 76 Copynumber: 1.9 Consensus size: 76
8003 TGAGAAGAAT
* * **
8013 CTCCTCTACTCTTCAGGGGAGATCACACTTGAGATTGATTTGCTTCACTACTCTTTTGTGAAGGC
1 CTCCTCTACTATTCAGGGGAGATCACACTCGAGATTGATTTGCTTCACTACTCTTTCATGAAGGC
8078 CAATATCTGAA
66 CAATATCTGAA
* **
8089 CTCCTCTACTATTCCGGGGAGATCAGTCTCGAGATTGATTTGCTTCACTACTCTTTCATGAAGGC
1 CTCCTCTACTATTCAGGGGAGATCACACTCGAGATTGATTTGCTTCACTACTCTTTCATGAAGGC
8154 CAATAT
66 CAATAT
8160 ATGACATGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (76 bp):
CTCCTCTACTATTCAGGGGAGATCACACTCGAGATTGATTTGCTTCACTACTCTTTCATGAAGGC
CAATATCTGAA
Found at i:8233 original size:42 final size:43
Alignment explanation
Indices: 8104--8234 Score: 110
Period size: 42 Copynumber: 3.0 Consensus size: 43
8094 CTACTATTCC
*
8104 GGGGAGATCAGTCTCGAGATTGATTTGCTTCACTACTCTTTCAT
1 GGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTT-AT
* * *
8148 GAAGGCCA-ATATATGACAT-GAGA-AGAATTTG-TTCCACTACTCTTT-T
1 G--GG-GAGAT-CA-GAC-TCGAGATTG-ATTTGCTT-CACTACTCTTTAT
8194 GGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTT
1 GGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTT
8235 CTTGAAGGCC
Statistics
Matches: 68, Mismatches: 7, Indels: 26
0.67 0.07 0.26
Matches are distributed among these distances:
41 1 0.01
42 23 0.34
43 5 0.07
44 5 0.07
46 6 0.09
47 5 0.07
48 22 0.32
49 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (43 bp):
GGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTAT
Found at i:8560 original size:354 final size:355
Alignment explanation
Indices: 8089--9146 Score: 1253
Period size: 354 Copynumber: 3.0 Consensus size: 355
8079 AATATCTGAA
* *
8089 CTCCTCTACTATTCCGGGGAGATCAGT-CTCGAGATTGATTTGCTTCACTACTCTTTCATGAAGG
1 CTCCTCTACTCTTTCGGGGAGATCA-TACTC-AGA-TGATTTGCTTCACTACTCTTTCATGAAGG
* * * * * * **
8153 CCAATATATGACATGAGAAGAATTTGTTCCACTACTCTTTTGGGGAGATCAGACTCGAGATTGAT
63 CCAACATCTGAAATAAGAAGAATTTGCTCCTCTACTCTTCAGGGGAGATCAGACTCGAGATTGAT
* *
8218 TTGCTTCACTACTCTTTCTTGAAGGCCAACATCTGAAAAAAGAAGAATCTGCTCCTCTACTATGC
128 TTGCTTCACTACTCTTTCGTGAAGGCCAACATCTGAAAAAAGAAGAATCTGCTCCTCTACTATCC
* *
8283 TGGTGAAATCAGACTCGAGATTCATTTGCTTCACTACTCTTTTGGGAAGGCCAACATCTGAAATA
193 TGGTGAGATCAGACTCGAGATTGATTTGCTTCACTACT-TTTTGGGAAGGCCAACATCTGAAATA
* *
8348 AGATGAATATGCTCCTCTACTCTTCCGGGGAGATCATACTCGAAATTGATTTGCTTCACTAC-TC
257 AGAAGAATATGCTCCTCTACTCTTCCGGGGAGATCATACT-GAAATTGATTTGATTCACTACTTC
* * *
8412 TTCGGGAAGGCCAAATCTGACATAAGAAGAATCTG
321 TTCAGAAAGACCAAATCTGACATAAGAAGAATCTG
* *
8447 CTCCTCTACTCTTTCGGGGAGATCATACTC-GA-GATTTGTTTCACTACTCTTCCATGAAGGCCA
1 CTCCTCTACTCTTTCGGGGAGATCATACTCAGATGATTTGCTTCACTACTCTTTCATGAAGGCCA
* *
8510 ACATCTGAAATAAGAAGAATTTGCTCTTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTG
66 ACATCTGAAATAAGAAGAATTTGCTCCTCTACTCTTCAGGGGAGATCAGACTCGAGATTGATTTG
* * *
8575 CTTCACTACTCTTTCGTGAAGGCCAACATCTGAAATAAA-AAGAATATGCTCCTCTACTCTTCCA
131 CTTCACTACTCTTTCGTGAAGGCCAACATCTGAAA-AAAGAAGAATCTGCTCCTCTACT-ATCCT
* * *
8639 GG-GAGATTAGACTCGAGATTGATTTGCTTCACTACTATTTCGTGAAGGCCAACATCTGAAATAA
194 GGTGAGATCAGACTCGAGATTGATTTGCTTCACTACT-TTTTGGGAAGGCCAACATCTGAAATAA
* * * ** * *
8703 GAAGAATATGCTCATCTACTCTTCCGGGGAGATCATACTTGAGATTAATTTGATTTGCTGCTTTT
258 GAAGAATATGCTCCTCTACTCTTCCGGGGAGATCATAC-TGAAATTGATTTGATTCACTACTTCT
* *
8768 TCAGAAAGACCAAATCTGGCATAAGAAGAATTTG
322 TCAGAAAGACCAAATCTGACATAAGAAGAATCTG
* * * *
8802 TTCCACTACTCTTTC-GGGAGATCAGACTCAAGATTGATTTGCTTCAC-ACTCTTTCGTGAAGGC
1 CTCCTCTACTCTTTCGGGGAGATCATACTC-AGA-TGATTTGCTTCACTACTCTTTCATGAAGGC
* * *
8865 CAACATCTGAAATAAGAAGAATCTGCTCCTCTACTGTTTCAGGGG-GATCATACTCGAGATTGAT
64 CAACATCTGAAATAAGAAGAATTTGCTCCTCTACT-CTTCAGGGGAGATCAGACTCGAGATTGAT
* * * *
8929 TTACTTCACTACTCTTTCGTGAAGGCCAACATCTGAAATAAGAAGAATCTTCT-CTCTACTCTTC
128 TTGCTTCACTACTCTTTCGTGAAGGCCAACATCTGAAAAAAGAAGAATCTGCTCCTCTACT-ATC
* * * * * * * * **
8993 AT-GTGAGATCATACTCGAGATTGATTTGATTTACTGCTTTTTCAGGATGACCAA-ATCTGACCT
192 CTGGTGAGATCAGACTCGAGATTGATTTGCTTCACTACTTTTT-GGGAAGGCCAACATCTGAAAT
* * * * * *
9056 AAGAAGAATATGTTCCACTACTATTCCGGGGAGATCAGACTTAAGATTGATTTGATGCA-T-CGT
256 AAGAAGAATATGCTCCTCTACTCTTCCGGGGAGATCATACTGAA-ATTGATTTGATTCACTAC--
* * *
9119 TTTTTCAGGAAGACCAAATATGACATAA
318 TTCTTCAGAAAGACCAAATCTGACATAA
9147 AAATTCTCTT
Statistics
Matches: 603, Mismatches: 81, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
353 1 0.00
354 260 0.43
355 133 0.22
356 53 0.09
357 112 0.19
358 44 0.07
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (355 bp):
CTCCTCTACTCTTTCGGGGAGATCATACTCAGATGATTTGCTTCACTACTCTTTCATGAAGGCCA
ACATCTGAAATAAGAAGAATTTGCTCCTCTACTCTTCAGGGGAGATCAGACTCGAGATTGATTTG
CTTCACTACTCTTTCGTGAAGGCCAACATCTGAAAAAAGAAGAATCTGCTCCTCTACTATCCTGG
TGAGATCAGACTCGAGATTGATTTGCTTCACTACTTTTTGGGAAGGCCAACATCTGAAATAAGAA
GAATATGCTCCTCTACTCTTCCGGGGAGATCATACTGAAATTGATTTGATTCACTACTTCTTCAG
AAAGACCAAATCTGACATAAGAAGAATCTG
Found at i:8814 original size:89 final size:89
Alignment explanation
Indices: 8089--9111 Score: 1066
Period size: 90 Copynumber: 11.5 Consensus size: 89
8079 AATATCTGAA
* * *
8089 CTCCTCTACTATTCCGGGGAGATCAGT-CTCGAGATTGATTTGCTTCACTACTCTTTCATGAAGG
1 CTCCTCTACTCTTCCGGGGAGATCA-TACTCGAGATTGATTTGATTCACTACTCTTTC-GGAAGG
* * * * *
8153 CCAATATATGACATGAGAAGAATTTG
64 CCAACATCTGAAATAAGAAGAATATG
* * ** * * *
8179 TTCCACTACTCTTTTGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCTTGAAGGC
1 CTCCTCTACTCTTCCGGGGAGATCATACTCGAGATTGATTTGATTCACTACTCTTTC-GGAAGGC
* *
8244 CAACATCTGAAAAAAGAAGAATCTG
65 CAACATCTGAAATAAGAAGAATATG
* * * * * * * * *
8269 CTCCTCTACTATGCTGGTGAAATCAGACTCGAGATTCATTTGCTTCACTACTCTTTTGGGAAGGC
1 CTCCTCTACTCTTCCGGGGAGATCATACTCGAGATTGATTTGATTCACTACTC-TTTCGGAAGGC
*
8334 CAACATCTGAAATAAGATGAATATG
65 CAACATCTGAAATAAGAAGAATATG
* *
8359 CTCCTCTACTCTTCCGGGGAGATCATACTCGAAATTGATTTGCTTCACTACTC-TTCGGGAAGGC
1 CTCCTCTACTCTTCCGGGGAGATCATACTCGAGATTGATTTGATTCACTACTCTTTC-GGAAGGC
* *
8423 CAA-ATCTGACATAAGAAGAATCTG
65 CAACATCTGAAATAAGAAGAATATG
* * * *
8447 CTCCTCTACTCTTTCGGGGAGATCATACTC--GA--GATTTGTTTCACTACTCTTCCATGAAGGC
1 CTCCTCTACTCTTCCGGGGAGATCATACTCGAGATTGATTTGATTCACTACTCTTTC-GGAAGGC
*
8508 CAACATCTGAAATAAGAAGAATTTG
65 CAACATCTGAAATAAGAAGAATATG
* * *
8533 CTCTTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTACTCTTTCGTGAAGGC
1 CTCCTCTACTCTTCCGGGGAGATCATACTCGAGATTGATTTGATTCACTACTCTTTCG-GAAGGC
*
8598 CAACATCTGAAATAAAAAGAATATG
65 CAACATCTGAAATAAGAAGAATATG
* * * * *
8623 CTCCTCTACTCTTCCAGGGAGATTAGACTCGAGATTGATTTGCTTCACTACTATTTCGTGAAGGC
1 CTCCTCTACTCTTCCGGGGAGATCATACTCGAGATTGATTTGATTCACTACTCTTTCG-GAAGGC
8688 CAACATCTGAAATAAGAAGAATATG
65 CAACATCTGAAATAAGAAGAATATG
* * * ** * * * *
8713 CTCATCTACTCTTCCGGGGAGATCATACTTGAGATTAATTTGATTTGCTGCTTTTTCAGAAAGAC
1 CTCCTCTACTCTTCCGGGGAGATCATACTCGAGATTGATTTGATTCACTACTCTTTC-GGAAGGC
** *
8778 CAA-ATCTGGCATAAGAAGAATTTG
65 CAACATCTGAAATAAGAAGAATATG
* * * * * *
8802 TTCCACTACTCTTTC-GGGAGATCAGACTCAAGATTGATTTGCTTCAC-ACTCTTTCGTGAAGGC
1 CTCCTCTACTCTTCCGGGGAGATCATACTCGAGATTGATTTGATTCACTACTCTTTCG-GAAGGC
*
8865 CAACATCTGAAATAAGAAGAATCTG
65 CAACATCTGAAATAAGAAGAATATG
* *
8890 CTCCTCTACTGTTTCAGGGG-GATCATACTCGAGATTGATTT-ACTTCACTACTCTTTCGTGAAG
1 CTCCTCTACT-CTTCCGGGGAGATCATACTCGAGATTGATTTGA-TTCACTACTCTTTCG-GAAG
* *
8953 GCCAACATCTGAAATAAGAAGAATCTT
63 GCCAACATCTGAAATAAGAAGAATATG
** * * * * * *
8980 CT-CTCTACTCTTCATGTGAGATCATACTCGAGATTGATTTGATTTACTGCTTTTTCAGGATGAC
1 CTCCTCTACTCTTCCGGGGAGATCATACTCGAGATTGATTTGATTCACTACTCTTTC-GGAAGGC
**
9044 CAA-ATCTGACCTAAGAAGAATATG
65 CAACATCTGAAATAAGAAGAATATG
* * * * **
9068 TTCCACTACTATTCCGGGGAGATCAGACTTAAGATTGATTTGAT
1 CTCCTCTACTCTTCCGGGGAGATCATACTCGAGATTGATTTGAT
9112 GCATCGTTTT
Statistics
Matches: 789, Mismatches: 123, Indels: 43
0.83 0.13 0.05
Matches are distributed among these distances:
84 16 0.02
85 11 0.01
86 48 0.06
87 13 0.02
88 126 0.16
89 144 0.18
90 427 0.54
91 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (89 bp):
CTCCTCTACTCTTCCGGGGAGATCATACTCGAGATTGATTTGATTCACTACTCTTTCGGAAGGCC
AACATCTGAAATAAGAAGAATATG
Found at i:9350 original size:62 final size:62
Alignment explanation
Indices: 9150--9610 Score: 414
Period size: 62 Copynumber: 7.5 Consensus size: 62
9140 GACATAAAAA
* * * * * *
9150 TTCTCTTCACGAGGAAGTCAAAGATTAACTTTGCTGGGGAGTCAGGGATAACAGAGA-TGTAC
1 TTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTAGGGAGTCAGGGATAACAAAAATTG-AC
* * * * * * * *
9212 TTCACTTCACAAAGAAGCCAAAGATTGGCTCCT-CTGGGGAGTTAGGGATAATAATAAAAATTGA
1 TTCTCTTCACGAGGAAGTCAAAGATTGACT-CTACTAGGGAGTCAGGG---ATAACAAAAATTGA
9276 C
62 C
* * * * * * * *
9277 TTCTCTTCATGAGGAAGTTAAATAATAACTATGCTAGGGAGTCAGGGATAACAAAGATTGAC
1 TTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTAGGGAGTCAGGGATAACAAAAATTGAC
* * * * * * *
9339 TTCTCTTCATGAGAAAGTCAAAGATTGGCTCTTCTAGGGAGTTAGGGATAATAAAAATTAAC
1 TTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTAGGGAGTCAGGGATAACAAAAATTGAC
* * * *
9401 TT-TCTTTACGAGGAAGTCAAAGATTGA--CT-CTGGGGAGTCAGAGATAACAAAGATTGAC
1 TTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTAGGGAGTCAGGGATAACAAAAATTGAC
* * * * ** *
9459 TTCTCTTCACAAGGAAGTCAAGGATTGACTCTACTAGAGAGTTAGAAATAACAAAGATTGAC
1 TTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTAGGGAGTCAGGGATAACAAAAATTGAC
* * * *
9521 TTCTCTTCACGAGGAAGT-AAATGATAGACTCTACTGGGGAGTCAAGGATAATAAAAATTGAC
1 TTCTCTTCACGAGGAAGTCAAA-GATTGACTCTACTAGGGAGTCAGGGATAACAAAAATTGAC
*
9583 TTCTCTTTACGAGGAAGTCAAAGATTGA
1 TTCTCTTCACGAGGAAGTCAAAGATTGA
9611 ATATAGGAAA
Statistics
Matches: 319, Mismatches: 68, Indels: 24
0.78 0.17 0.06
Matches are distributed among these distances:
58 25 0.08
59 24 0.08
61 25 0.08
62 197 0.62
63 4 0.01
64 1 0.00
65 41 0.13
66 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (62 bp):
TTCTCTTCACGAGGAAGTCAAAGATTGACTCTACTAGGGAGTCAGGGATAACAAAAATTGAC
Found at i:9379 original size:127 final size:125
Alignment explanation
Indices: 9150--9609 Score: 492
Period size: 127 Copynumber: 3.7 Consensus size: 125
9140 GACATAAAAA
* *
9150 TTCTCTTCACGAGGAAGTCAAAGATTAACTTTGCTGGGGAGTCAGGGATAACAGAGA-TGTACTT
1 TTCTCTTCACGAGGAAGTCAAAGAATAAC-TTGCTGGGGAGTCAGGGATAACAAAGATTG-ACTT
* * * * *
9214 CACTTCAC-AAAGAAGCCAAAGATTGGCTCCTCTGGGGAGTTAGGGATAATAATAAAAATTGAC
64 CTCTTCACGAGA-AAGTCAAAGATTGGCTCTTCTAGGGAGTTAGGGA-AATAATAAAAATTGAC
* * * *
9277 TTCTCTTCATGAGGAAGTTAAATAATAACTATGCTAGGGAGTCAGGGATAACAAAGATTGACTTC
1 TTCTCTTCACGAGGAAGTCAAAGAATAACT-TGCTGGGGAGTCAGGGATAACAAAGATTGACTTC
* *
9342 TCTTCATGAGAAAGTCAAAGATTGGCTCTTCTAGGGAGTTAGGG--ATAATAAAAATTAAC
65 TCTTCACGAGAAAGTCAAAGATTGGCTCTTCTAGGGAGTTAGGGAAATAATAAAAATTGAC
* * * *
9401 TT-TCTTTACGAGGAAGTCAAAGATTGAC-T-CTGGGGAGTCAGAGATAACAAAGATTGACTTCT
1 TTCTCTTCACGAGGAAGTCAAAGAATAACTTGCTGGGGAGTCAGGGATAACAAAGATTGACTTCT
* * * * * * * *
9463 CTTCACAAGGAAGTCAAGGATTGACTCTACTAGAGAGTTA--GAAATAACAAAGATTGAC
66 CTTCACGAGAAAGTCAAAGATTGGCTCTTCTAGGGAGTTAGGGAAATAATAAAAATTGAC
* * * *
9521 TTCTCTTCACGAGGAAGT-AAATG-ATAGACTCTACTGGGGAGTCAAGGATAATAAAAATTGACT
1 TTCTCTTCACGAGGAAGTCAAA-GAATA-ACT-TGCTGGGGAGTCAGGGATAACAAAGATTGACT
* *
9584 TCTCTTTACGAGGAAGTCAAAGATTG
63 TCTCTTCACGAGAAAGTCAAAGATTG
9610 AATATAGGAA
Statistics
Matches: 281, Mismatches: 41, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
118 1 0.00
120 82 0.29
121 18 0.06
123 21 0.07
124 65 0.23
126 1 0.00
127 89 0.32
128 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (125 bp):
TTCTCTTCACGAGGAAGTCAAAGAATAACTTGCTGGGGAGTCAGGGATAACAAAGATTGACTTCT
CTTCACGAGAAAGTCAAAGATTGGCTCTTCTAGGGAGTTAGGGAAATAATAAAAATTGAC
Found at i:9603 original size:244 final size:248
Alignment explanation
Indices: 9153--9609 Score: 604
Period size: 244 Copynumber: 1.9 Consensus size: 248
9143 ATAAAAATTC
* *
9153 TCTTCACGAGGAAGTCAAAGATTAACTTTGCTGGGGAGTCAGGGATAACAGAGATGTACTTCACT
1 TCTTCACGAGGAAGTCAAAGATTAAC-TTGCTGGGGAGTCAGAGATAACAAAGATGTACTTCACT
* * * *
9218 TCACAAAGAAGCCAAAGATTGGCTCCTCTGGGGAGTTAGGGATAATAATAAAAATTGACTTCTCT
65 TCACAAAGAAGCCAAAGATTGACTCCTCTAGAGAGTTA-GGATAATAACAAAAATTGACTTCTCT
* * * *
9283 TCATGAGGAAGTTAAATAATAACTATGCTAGGGAGTCAGGGATAACAAAGATTGACTTCTCTTCA
129 TCACGAGGAAGTTAAATAATAACTATACTAGGGAGTCAAGGATAACAAAAATTGACTTCTCTTCA
*
9348 TGAGAAAGTCAAAGATTGGCTCTTCTAGGGAGTTAGGGATAATAAAAATTAACTT
194 CGAGAAAGTCAAAGATTGGCTCTTCTAGGGAGTTAGGGATAATAAAAATTAACTT
* * *
9403 TCTTTACGAGGAAGTCAAAGATTGAC-T-CTGGGGAGTCAGAGATAACAAAGAT-TGACTTCTCT
1 TCTTCACGAGGAAGTCAAAGATTAACTTGCTGGGGAGTCAGAGATAACAAAGATGT-ACTTCACT
* * * *
9465 TCACAAGGAAGTCAAGGATTGACT-CTACTAGAGAGTTA-GA-AATAACAAAGATTGACTTCTCT
65 TCACAAAGAAGCCAAAGATTGACTCCT-CTAGAGAGTTAGGATAATAACAAAAATTGACTTCTCT
* * * * *
9527 TCACGAGGAAG-TAAATGATAGACTCTACTGGGGAGTCAAGGATAATAAAAATTGACTTCTCTTT
129 TCACGAGGAAGTTAAATAATA-ACTATACTAGGGAGTCAAGGATAACAAAAATTGACTTCTCTTC
*
9591 ACGAGGAAGTCAAAGATTG
193 ACGAGAAAGTCAAAGATTG
9610 AATATAGGAA
Statistics
Matches: 180, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
243 8 0.04
244 83 0.46
245 2 0.01
246 3 0.02
247 59 0.33
248 1 0.01
250 24 0.13
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (248 bp):
TCTTCACGAGGAAGTCAAAGATTAACTTGCTGGGGAGTCAGAGATAACAAAGATGTACTTCACTT
CACAAAGAAGCCAAAGATTGACTCCTCTAGAGAGTTAGGATAATAACAAAAATTGACTTCTCTTC
ACGAGGAAGTTAAATAATAACTATACTAGGGAGTCAAGGATAACAAAAATTGACTTCTCTTCACG
AGAAAGTCAAAGATTGGCTCTTCTAGGGAGTTAGGGATAATAAAAATTAACTT
Found at i:11669 original size:98 final size:95
Alignment explanation
Indices: 11501--11713 Score: 302
Period size: 98 Copynumber: 2.2 Consensus size: 95
11491 AGCTATTTTC
*
11501 AGCTTTATTGTATATATATATATACCTTTATCAGGCTAGCTGAATATTATCCATAAAGTCAGGGC
1 AGCTTTATTGTATATATATATATACCTTTATCAGGCTAGCTGAATATTATCCATAAACTCAGGGC
* *
11566 GTTTAACCAATTGCTCTAGAGGGAAAACTCA
66 ATTTAACCAATTGCT-TAGAAGGAAAACTCA
* * *
11597 AGCTTTATTGTATATATATATAATCACCTTTATCAGGTTAGCTGAATCTTATCCATAAAACT-GG
1 AGCTTTATTGTATATATATAT-AT-ACCTTTATCAGGCTAGCTGAATATTATCCAT-AAACTCAG
* *
11661 GGCATTTAACCAATTGCTTAGAAGGACAACTTA
63 GGCATTTAACCAATTGCTTAGAAGGAAAACTCA
*
11694 AGCTTTATTGTATATGTATA
1 AGCTTTATTGTATATATATA
11714 ATATTTATTC
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
96 21 0.20
97 33 0.31
98 47 0.45
99 4 0.04
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (95 bp):
AGCTTTATTGTATATATATATATACCTTTATCAGGCTAGCTGAATATTATCCATAAACTCAGGGC
ATTTAACCAATTGCTTAGAAGGAAAACTCA
Found at i:16502 original size:13 final size:15
Alignment explanation
Indices: 16468--16499 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
16458 AATACCTTTT
16468 AAAATAATTTTAAGA
1 AAAATAATTTTAAGA
16483 AAAATAATTTTAA-A
1 AAAATAATTTTAAGA
16497 AAA
1 AAA
16500 TAAAAATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAATAATTTTAAGA
Found at i:16840 original size:37 final size:38
Alignment explanation
Indices: 16797--16868 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
16787 TTTTAAATAC
16797 AATAAATATAAAAATAAAATAATAAAA-TAATAAATTT
1 AATAAATATAAAAATAAAATAATAAAACTAATAAATTT
* * * *
16834 AATAAATTTAAAGATCAAATTATAAAACTAATAAA
1 AATAAATATAAAAATAAAATAATAAAACTAATAAA
16869 AGATTAAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 23 0.77
38 7 0.23
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (38 bp):
AATAAATATAAAAATAAAATAATAAAACTAATAAATTT
Found at i:17685 original size:12 final size:12
Alignment explanation
Indices: 17668--17697 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
17658 TTCCTCTTCC
17668 TTTTCTTCTATT
1 TTTTCTTCTATT
17680 TTTTC-TCTATT
1 TTTTCTTCTATT
17691 TTTTCTT
1 TTTTCTT
17698 TCTCTCTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTCTTCTATT
Found at i:19699 original size:44 final size:44
Alignment explanation
Indices: 19637--19765 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 44
19627 TATTACAAAT
* * *
19637 CCCAGTAAAAACAATAGAATTAGCGGCGTTTGTGG-TAAAAAAA
1 CCCACTAAAGACAATAGAATTAGCGGCGTTTGTGGCCAAAAAAA
* * *
19680 CCCCACTAAAGACAATAGAATTAGCGACGTTTATGGCCAAAAATA
1 -CCCACTAAAGACAATAGAATTAGCGGCGTTTGTGGCCAAAAAAA
* * * * * *
19725 -TCACTAAAGACAAGATAATTAGCGGTGTTTGTAGACAAAAA
1 CCCACTAAAGACAATAGAATTAGCGGCGTTTGTGGCCAAAAA
19766 TGCTACTATA
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
43 33 0.47
44 31 0.44
45 6 0.09
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (44 bp):
CCCACTAAAGACAATAGAATTAGCGGCGTTTGTGGCCAAAAAAA
Found at i:19736 original size:43 final size:43
Alignment explanation
Indices: 19637--19748 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 43
19627 TATTACAAAT
* * * * *
19637 CCCAGTAAAAACAATAGAATTAGCGGCGTTTGTGGTAAAAAAA
1 CCCACTAAAGACAATAGAATTAGCGACGTTTATGGCAAAAAAA
*
19680 CCCCACTAAAGACAATAGAATTAGCGACGTTTATGGCCAAAAATA
1 -CCCACTAAAGACAATAGAATTAGCGACGTTTATGG-CAAAAAAA
* * *
19725 -TCACTAAAGACAAGATAATTAGCG
1 CCCACTAAAGACAATAGAATTAGCG
19749 GTGTTTGTAG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 21 0.36
44 31 0.53
45 6 0.10
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (43 bp):
CCCACTAAAGACAATAGAATTAGCGACGTTTATGGCAAAAAAA
Found at i:27765 original size:36 final size:35
Alignment explanation
Indices: 27698--27767 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
27688 GACTTAGGTC
* ***
27698 TATAAGGAATTACCAGCTGATCGATGTTGAACCTA
1 TATAAGGAATTACCAGCTGATCAAAACTGAACCTA
27733 TATAAGGAATTACCAGCTTGATCAAAACTGAACCT
1 TATAAGGAATTACCAGC-TGATCAAAACTGAACCT
27768 GCAGAGACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 17 0.57
36 13 0.43
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (35 bp):
TATAAGGAATTACCAGCTGATCAAAACTGAACCTA
Found at i:33328 original size:75 final size:75
Alignment explanation
Indices: 33245--33400 Score: 224
Period size: 75 Copynumber: 2.1 Consensus size: 75
33235 CAGGGTAAGG
* *
33245 GTATCAATA-TCAAGCATCATCGAAACTAAAATTGGTATCGATACTGGAAGAGGGTATCAGTACC
1 GTATCAATACT-AAGCAACATCGAAACTAAAATTGGTATCGATACTGGAAGAGGGTATCAATACC
* *
33309 ATAGTATGGTA
65 ATAGTATAGAA
* * * *
33320 GTATCAATACTAGGCAACATCGAACCTAAAATTGGTATCGATACTGGATGGGGGTATCAATACCA
1 GTATCAATACTAAGCAACATCGAAACTAAAATTGGTATCGATACTGGAAGAGGGTATCAATACCA
33385 TAGTATAGAA
66 TAGTATAGAA
33395 GTATCA
1 GTATCA
33401 GTACCAGGGT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 71 0.99
76 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (75 bp):
GTATCAATACTAAGCAACATCGAAACTAAAATTGGTATCGATACTGGAAGAGGGTATCAATACCA
TAGTATAGAA
Found at i:33820 original size:59 final size:59
Alignment explanation
Indices: 33746--34018 Score: 449
Period size: 59 Copynumber: 4.6 Consensus size: 59
33736 ATTACCAAAT
* *
33746 GGCACTTTGTATGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGG
1 GGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGG
33805 GGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGG
1 GGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT-GG
* * * *
33865 AG-ACTTTGTGCGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTG
1 GGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGG
* **
33923 GGCACTTTGTATGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTA
1 GGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGG
33982 GGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACT
1 GGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACT
34019 TCTGTATTGG
Statistics
Matches: 200, Mismatches: 12, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
58 2 0.01
59 195 0.98
60 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (59 bp):
GGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGG
Found at i:34071 original size:46 final size:46
Alignment explanation
Indices: 33976--34064 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 46
33966 ATGAATTTCC
* * * * *
33976 GTATTAGGCACTTTGTGTGCTAAAATGTTAAGAAATTCATACTTCT
1 GTATTAGGCACTTTATGTGCTAAAAAGATAAGAAACTCATACTACT
*
34022 GTATTGGGCACTTTATGTGC-AAAAAGATAAGAAACTCATACTA
1 GTATTAGGCACTTTATGTGCTAAAAAGATAAGAAACTCATACTA
34065 AGTGTATGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 19 0.51
46 18 0.49
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (46 bp):
GTATTAGGCACTTTATGTGCTAAAAAGATAAGAAACTCATACTACT
Found at i:34484 original size:81 final size:81
Alignment explanation
Indices: 34371--34525 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
34361 GCCTTTGAGG
* * * *
34371 CCTAACTGTGCATTTGGCAGGAAGGCGTCAATTATGCCAGTTAGATGAACAG-TTAAATACTATT
1 CCTAACTGTGCAATTGGAAGAAAGGCGTCAATTATGCCAATTAGATGAACAGTTTAAA-ACTATT
34435 -ACGTAAAAGAATAATGA
65 GA-GTAAAAGAATAATGA
**
34452 CCTAACTGTGCAATTGGAAGAAAGGTTTCAATTATGCCAATTAGATGAACAGTTTAAAACTATTG
1 CCTAACTGTGCAATTGGAAGAAAGGCGTCAATTATGCCAATTAGATGAACAGTTTAAAACTATTG
34517 AGTAAAAGA
66 AGTAAAAGA
34526 TGAATGGTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 60 0.91
82 6 0.09
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (81 bp):
CCTAACTGTGCAATTGGAAGAAAGGCGTCAATTATGCCAATTAGATGAACAGTTTAAAACTATTG
AGTAAAAGAATAATGA
Found at i:34677 original size:20 final size:19
Alignment explanation
Indices: 34650--34687 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
34640 AGGAATTATA
*
34650 ATGTAGTGATATGAATGGC
1 ATGTAGTGATAAGAATGGC
34669 ATGTAAGTGATAAGAATGG
1 ATGT-AGTGATAAGAATGG
34688 ATTATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.29
Consensus pattern (19 bp):
ATGTAGTGATAAGAATGGC
Found at i:34697 original size:2 final size:2
Alignment explanation
Indices: 34690--34736 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
34680 AAGAATGGAT
34690 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34732 TA TA T
1 TA TA T
34737 GTACAATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36545 original size:22 final size:22
Alignment explanation
Indices: 36496--36546 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
36486 TTAATTTTTT
36496 CAGTCAAAGTCAACGGGCAGAC
1 CAGTCAAAGTCAACGGGCAGAC
** * * *
36518 TGGTCACAGTCAACGGTCTGAC
1 CAGTCAAAGTCAACGGGCAGAC
36540 CAGTCAA
1 CAGTCAA
36547 CGATAAAATC
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.16
Consensus pattern (22 bp):
CAGTCAAAGTCAACGGGCAGAC
Found at i:42952 original size:22 final size:22
Alignment explanation
Indices: 42924--42983 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
42914 GACCTGCATC
42924 CATAAGGACTTACCCTTGGGTT
1 CATAAGGACTTACCCTTGGGTT
42946 CATAAGGACTTACCCTTGGGTT
1 CATAAGGACTTACCCTTGGGTT
*
42968 TATAAGGACTTACCCT
1 CATAAGGACTTACCCT
42984 AGTCAAAGCG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (22 bp):
CATAAGGACTTACCCTTGGGTT
Found at i:44842 original size:7 final size:8
Alignment explanation
Indices: 44824--44858 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
44814 CACCCTAACC
*
44824 TTTTTCTT
1 TTTTTCAT
44832 TTTTTCAT
1 TTTTTCAT
44840 TTTTTCAT
1 TTTTTCAT
44848 TTTTTCAT
1 TTTTTCAT
44856 TTT
1 TTT
44859 CTTTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTCAT
Found at i:45821 original size:2 final size:2
Alignment explanation
Indices: 45814--45857 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
45804 AGTTTTGATC
45814 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
45856 AT
1 AT
45858 TAATAGTCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45871 original size:8 final size:7
Alignment explanation
Indices: 45815--45877 Score: 59
Period size: 6 Copynumber: 9.9 Consensus size: 7
45805 GTTTTGATCA
45815 TATATA-
1 TATATAG
45821 TATATA-
1 TATATAG
45827 TATATA-
1 TATATAG
45833 TATATA-
1 TATATAG
45839 TATATA-
1 TATATAG
45845 TATATA-
1 TATATAG
*
45851 TATATAT
1 TATATAG
45858 TA-ATAG
1 TATATAG
45864 TCATATAG
1 T-ATATAG
45872 TATATA
1 TATATA
45878 CAAAATGCAC
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
6 40 0.75
7 8 0.15
8 5 0.09
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (7 bp):
TATATAG
Found at i:48684 original size:12 final size:12
Alignment explanation
Indices: 48667--48692 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48657 CAACAGTTGT
48667 GCAATCTGTTAG
1 GCAATCTGTTAG
48679 GCAATCTGTTAG
1 GCAATCTGTTAG
48691 GC
1 GC
48693 TTATGTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (12 bp):
GCAATCTGTTAG
Found at i:57422 original size:13 final size:11
Alignment explanation
Indices: 57386--57415 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
57376 AATTAAGTTT
*
57386 TAATCTTAAAA
1 TAATTTTAAAA
57397 TAATTTTAAAA
1 TAATTTTAAAA
57408 TAATTTTA
1 TAATTTTA
57416 CAAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:63331 original size:23 final size:23
Alignment explanation
Indices: 63294--63379 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
63284 TTAGTGCAGA
* * *
63294 GGGAATCGATACCCCCCTTGAAG
1 GGGAACCGATTCCCCCCTTAAAG
* * *
63317 GGGAACTGATTCCCCCTTTAAAA
1 GGGAACCGATTCCCCCCTTAAAG
*
63340 GGGAACCGATTCCCCCTTTAAAG
1 GGGAACCGATTCCCCCCTTAAAG
63363 GGGAACCGATTCCCCCC
1 GGGAACCGATTCCCCCC
63380 ACAGGGGAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.20
Consensus pattern (23 bp):
GGGAACCGATTCCCCCCTTAAAG
Found at i:63387 original size:21 final size:22
Alignment explanation
Indices: 63314--63398 Score: 82
Period size: 23 Copynumber: 3.8 Consensus size: 22
63304 ACCCCCCTTG
* *
63314 AAGGGGAACTGATTCCCCCTTTA
1 AAGGGGAACCGATTCCCCC-TCA
* *
63337 AAAGGGAACCGATTCCCCCTTTA
1 AAGGGGAACCGATTCCCCC-TCA
63360 AAGGGGAACCGATTCCCCC-CA
1 AAGGGGAACCGATTCCCCCTCA
* * *
63381 CAGGGGAATCGATACCCC
1 AAGGGGAACCGATTCCCC
63399 ATGAGGGTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
21 16 0.29
23 39 0.71
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (22 bp):
AAGGGGAACCGATTCCCCCTCA
Found at i:69392 original size:21 final size:21
Alignment explanation
Indices: 69367--69419 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
69357 ACAAAGGTAA
69367 TACCAATACTCATTAAAGGAG
1 TACCAATACTCATTAAAGGAG
69388 TACCAATACTCATTAAAGGAG
1 TACCAATACTCATTAAAGGAG
*
69409 TACTAATACTC
1 TACCAATACTC
69420 TCTGTCCTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (21 bp):
TACCAATACTCATTAAAGGAG
Found at i:71256 original size:21 final size:20
Alignment explanation
Indices: 71224--71270 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
71214 AATGATTTTC
* *
71224 TTTTGAAAA--AAAATTAGA
1 TTTTGAAAAGCAAAATGAAA
71242 TTTTGAAAAGCAAAATGAAA
1 TTTTGAAAAGCAAAATGAAA
71262 TTTTGAAAA
1 TTTTGAAAA
71271 ATAATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
20 16 0.64
ACGTcount: A:0.53, C:0.02, G:0.13, T:0.32
Consensus pattern (20 bp):
TTTTGAAAAGCAAAATGAAA
Found at i:71798 original size:22 final size:22
Alignment explanation
Indices: 71765--71814 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
71755 TGTTGAAAAT
*
71765 ATGTTTTGATGAACTTTTTC-TAA
1 ATGTTTTAATG-A-TTTTTCATAA
71788 A-GTTTTAATGATTTTTCATAA
1 ATGTTTTAATGATTTTTCATAA
71809 ATGTTT
1 ATGTTT
71815 GTTCATCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.25
21 5 0.21
22 12 0.50
23 1 0.04
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (22 bp):
ATGTTTTAATGATTTTTCATAA
Found at i:74451 original size:7 final size:7
Alignment explanation
Indices: 74439--76662 Score: 203
Period size: 7 Copynumber: 316.0 Consensus size: 7
74429 AAATGCTTAT
*
74439 GGTTTAG
1 GGTTTAA
74446 GGTTTAA
1 GGTTTAA
74453 GGTTTAA
1 GGTTTAA
* *
74460 GATCTAA
1 GGTTTAA
* *
74467 GATTCATA
1 GGTTTA-A
74475 -GTTTAA
1 GGTTTAA
74481 GGTTT-A
1 GGTTTAA
74487 GAGTTTATA
1 G-GTTTA-A
*
74496 -GTTTAT
1 GGTTTAA
74502 GGTTTAA
1 GGTTTAA
*
74509 GTTTTAA
1 GGTTTAA
74516 GGTTT-A
1 GGTTTAA
*
74522 GGATTTAT
1 GG-TTTAA
*
74530 GGTTTAT
1 GGTTTAA
** *
74537 TATTTAT
1 GGTTTAA
74544 GGTTTAA
1 GGTTTAA
* *
74551 AGTTTAG
1 GGTTTAA
74558 GGTTTAA
1 GGTTTAA
*
74565 TGTTTATA
1 GGTTTA-A
74573 -GTTTAA
1 GGTTTAA
* *
74579 GGTTCAT
1 GGTTTAA
** *
74586 GACTCAA
1 GGTTTAA
*
74593 AGTTTAA
1 GGTTTAA
* *
74600 GGTATAT
1 GGTTTAA
*
74607 GGTAT-A
1 GGTTTAA
74613 GAGTTTAA
1 G-GTTTAA
* *
74621 GGGTTAT
1 GGTTTAA
74628 GGTTTAA
1 GGTTTAA
*
74635 AGTTTAA
1 GGTTTAA
*
74642 GATTTAA
1 GGTTTAA
* *
74649 GATTTAG
1 GGTTTAA
74656 GGTTTATA
1 GGTTTA-A
* *
74664 -ATATAA
1 GGTTTAA
*
74670 GGCTTATA
1 GGTTTA-A
*
74678 -GTTTAT
1 GGTTTAA
* *
74684 GGTTCAT
1 GGTTTAA
*
74691 GATTT-A
1 GGTTTAA
*
74697 -GTATTCAT
1 GGT-TT-AA
*
74705 GATTTAA
1 GGTTTAA
74712 GGTTTAA
1 GGTTTAA
*
74719 GG-TTAT
1 GGTTTAA
74725 GGTTTATA
1 GGTTTA-A
74733 --TTTAA
1 GGTTTAA
**
74738 AATTTAA
1 GGTTTAA
*
74745 GGTTTAG
1 GGTTTAA
74752 GGTTTTAA
1 GG-TTTAA
74760 ---TTAA
1 GGTTTAA
*
74764 GGTTTAG
1 GGTTTAA
74771 GGTTTATA
1 GGTTTA-A
* *
74779 -GATTAT
1 GGTTTAA
74785 GGTTTAA
1 GGTTTAA
74792 GGTTTATA
1 GGTTTA-A
* *
74800 GTTATTTA
1 GGT-TTAA
*
74808 --TTTAT
1 GGTTTAA
*
74813 GGTTTATG
1 GGTTTA-A
74821 GGTTT-A
1 GGTTTAA
*
74827 -GTGGTAA
1 GGT-TTAA
74834 GGTTTATA
1 GGTTTA-A
*
74842 --TTTTA
1 GGTTTAA
74847 GG-TTAA
1 GGTTTAA
* *
74853 TAGTTTAG
1 -GGTTTAA
74861 GGTTTAA
1 GGTTTAA
74868 GGTTTAA
1 GGTTTAA
* *
74875 AGTATATA
1 GGTTTA-A
*
74883 -GTTAAA
1 GGTTTAA
* *
74889 GTTTTAG
1 GGTTTAA
* *
74896 GGTATAT
1 GGTTTAA
* *
74903 GATTTAT
1 GGTTTAA
74910 GGTTTAA
1 GGTTTAA
*
74917 GTTTTAA
1 GGTTTAA
*
74924 GGTTTAT
1 GGTTTAA
* *
74931 GGATTAT
1 GGTTTAA
*
74938 GATTTAA
1 GGTTTAA
* *
74945 AGTTTAG
1 GGTTTAA
74952 GGTTTAA
1 GGTTTAA
74959 GGTTTTAA
1 GG-TTTAA
74967 GGTTTAA
1 GGTTTAA
74974 GGTTTAA
1 GGTTTAA
*
74981 TGTTTAA
1 GGTTTAA
* *
74988 TGTTTAG
1 GGTTTAA
*
74995 GGATTAA
1 GGTTTAA
*
75002 GGTTTAT
1 GGTTTAA
*
75009 GTTTTAA
1 GGTTTAA
*
75016 GGTTCAA
1 GGTTTAA
75023 GG-TTAA
1 GGTTTAA
*
75029 GGGGTTAAA
1 --GGTTTAA
* *
75038 GTTTTAT
1 GGTTTAA
*
75045 GGTTTAG
1 GGTTTAA
75052 GGTTTAGA
1 GGTTTA-A
* *
75060 GTTTTACT
1 GGTTTA-A
** *
75068 TATTTAT
1 GGTTTAA
*
75075 GGTATTAG
1 GGT-TTAA
75083 GGTTTAA
1 GGTTTAA
* *
75090 TGTTTAT
1 GGTTTAA
*
75097 GGTTTTCA
1 GG-TTTAA
**
75105 TATTT-A
1 GGTTTAA
* *
75111 TGTTTAG
1 GGTTTAA
75118 GGTTT-A
1 GGTTTAA
*
75124 GGGTTATA
1 GGTTTA-A
* *
75132 TGTTTAT
1 GGTTTAA
*
75139 GGTTTAT
1 GGTTTAA
75146 GGTTTAA
1 GGTTTAA
* **
75153 TGTACAA
1 GGTTTAA
75160 GGTTTTAA
1 GG-TTTAA
75168 GGTTTTAA
1 GG-TTTAA
75176 GGTTTAA
1 GGTTTAA
*
75183 GGTTTTA
1 GGTTTAA
*
75190 --TTTTA
1 GGTTTAA
*
75195 GGGTTAA
1 GGTTTAA
** *
75202 TATTTAC
1 GGTTTAA
**
75209 TATTTATA
1 GGTTTA-A
**
75217 AATTTAAA
1 GGTTT-AA
*
75225 GGTTTAG
1 GGTTTAA
75232 GGTTTAAA
1 GGTTT-AA
*
75240 TGTTTAA
1 GGTTTAA
** **
75247 TTTTTTG
1 GGTTTAA
75254 GGTTTAA
1 GGTTTAA
*
75261 GATTTAA
1 GGTTTAA
75268 GGTTTATA
1 GGTTTA-A
75276 -GTTTAA
1 GGTTTAA
*
75282 --TCTTCA
1 GGT-TTAA
*
75288 GGTTTTA
1 GGTTTAA
*
75295 GTGGTTAA
1 G-GTTTAA
75303 GGTTT-A
1 GGTTTAA
** **
75309 TTTTTTG
1 GGTTTAA
* *
75316 GGTTCAT
1 GGTTTAA
75323 GGTTTATA
1 GGTTTA-A
*
75331 -ATTT-A
1 GGTTTAA
75336 GGTTTTAA
1 GG-TTTAA
75344 GGTTTTAA
1 GG-TTTAA
*
75352 --TTTAG
1 GGTTTAA
*
75357 GGTTTAT
1 GGTTTAA
*
75364 GATTTAA
1 GGTTTAA
75371 -GTTATAA
1 GGTT-TAA
75378 GGTTTAA
1 GGTTTAA
*
75385 AGTTTATA
1 GGTTTA-A
75393 -GTTTAA
1 GGTTTAA
75399 GGTTTAA
1 GGTTTAA
75406 GGTTTAAA
1 GGTTT-AA
*
75414 GATTTATA
1 GGTTTA-A
* *
75422 -GTTCAT
1 GGTTTAA
75428 GGTTTAA
1 GGTTTAA
*
75435 GGTGTAA
1 GGTTTAA
* *
75442 GATTT-T
1 GGTTTAA
*
75448 GGGTTAA
1 GGTTTAA
75455 GTGTTTAA
1 G-GTTTAA
*
75463 GATTT-A
1 GGTTTAA
*
75469 GACTTTAA
1 G-GTTTAA
*
75477 TGTTT-A
1 GGTTTAA
75483 GGATTTAA
1 GG-TTTAA
75491 GGTTTAA
1 GGTTTAA
*
75498 GGTATAA
1 GGTTTAA
* *
75505 TGATT-A
1 GGTTTAA
75511 GGCTTTAA
1 GG-TTTAA
* *
75519 AGTTTAT
1 GGTTTAA
*
75526 TGTTTAA
1 GGTTTAA
75533 GGTTT-A
1 GGTTTAA
75539 GTGTTTAA
1 G-GTTTAA
75547 GGTTTAA
1 GGTTTAA
75554 GGTTT-A
1 GGTTTAA
*
75560 GGTTTTAT
1 GG-TTTAA
*
75568 TGTTT-A
1 GGTTTAA
*
75574 GAGTTTAT
1 G-GTTTAA
* *
75582 GATTTAT
1 GGTTTAA
75589 GGTTTATA
1 GGTTTA-A
75597 -GTTTAA
1 GGTTTAA
* *
75603 AGATTATA
1 GGTTTA-A
75611 -GTTT-A
1 GGTTTAA
*
75616 GAGATTAA
1 G-GTTTAA
*
75624 GGTTTAG
1 GGTTTAA
*
75631 GGTTTAG
1 GGTTTAA
75638 GGTTTAA
1 GGTTTAA
* *
75645 AGTTCAA
1 GGTTTAA
*
75652 GGTTTAT
1 GGTTTAA
*
75659 GGTTTAT
1 GGTTTAA
75666 GGTTTATA
1 GGTTTA-A
* *
75674 -ATATTAT
1 GGT-TTAA
*
75681 GGTTTAG
1 GGTTTAA
75688 GGTTTTATA
1 GG-TTTA-A
* *
75697 -ATTTAT
1 GGTTTAA
*
75703 GATTTAA
1 GGTTTAA
* *
75710 GATTTTA
1 GGTTTAA
*
75717 TGTTTAA
1 GGTTTAA
75724 GGTTTATA
1 GGTTTA-A
*
75732 -GTTTAT
1 GGTTTAA
75738 GGTTTAA
1 GGTTTAA
*
75745 GCTTT-A
1 GGTTTAA
75751 GTGTTTAA
1 G-GTTTAA
75759 GGTTTATA
1 GGTTTA-A
*
75767 -GTTTAG
1 GGTTTAA
**
75773 GGTTTGT
1 GGTTTAA
**
75780 TATTTAA
1 GGTTTAA
* *
75787 TGTTTAT
1 GGTTTAA
** *
75794 TATATATA
1 GGTTTA-A
*
75802 -GTTTAG
1 GGTTTAA
75808 GGTTTAA
1 GGTTTAA
75815 GAG-TTAA
1 G-GTTTAA
75822 GG-TTAA
1 GGTTTAA
75828 TGGTTTAA
1 -GGTTTAA
75836 GGTTT-A
1 GGTTTAA
* *
75842 GCATTTAT
1 G-GTTTAA
75850 GGTTTAA
1 GGTTTAA
* * *
75857 AGCTTAT
1 GGTTTAA
75864 GGTTTATA
1 GGTTTA-A
75872 -GTTTAA
1 GGTTTAA
75878 GGTTTAA
1 GGTTTAA
** *
75885 AATTCAA
1 GGTTTAA
*
75892 GGCTT-A
1 GGTTTAA
75898 GAGTTTAA
1 G-GTTTAA
75906 GGTTT--
1 GGTTTAA
75911 GGATTTAA
1 GG-TTTAA
*
75919 AGTTTAA
1 GGTTTAA
** *
75926 TATTTAG
1 GGTTTAA
*
75933 GGTTTAT
1 GGTTTAA
*
75940 GGTTTAT
1 GGTTTAA
** * *
75947 CATTCAT
1 GGTTTAA
*
75954 GGTTTTA
1 GGTTTAA
*
75961 GGATTTTAT
1 GG--TTTAA
75970 GGTATTAA
1 GGT-TTAA
* *
75978 GATTTAG
1 GGTTTAA
*
75985 GGTTTTAT
1 GG-TTTAA
75993 GG-TTAA
1 GGTTTAA
* *
75999 GGCTTAT
1 GGTTTAA
* *
76006 GATTT-T
1 GGTTTAA
76012 GTGTTTAA
1 G-GTTTAA
*
76020 GGTTTAT
1 GGTTTAA
*
76027 GGTTTAT
1 GGTTTAA
* *
76034 GCTTTAT
1 GGTTTAA
*
76041 GGTCTAA
1 GGTTTAA
*
76048 AGTTT-A
1 GGTTTAA
*
76054 GG-CTATA
1 GGTTTA-A
76061 GGATTT-A
1 GG-TTTAA
* *
76068 GCATTCAA
1 G-GTTTAA
76076 GGTTTAA
1 GGTTTAA
76083 GGTTT-A
1 GGTTTAA
76089 GGTCTT-A
1 GGT-TTAA
* *
76096 GGATTCAT
1 GG-TTTAA
* *
76104 GTTTTTA
1 GGTTTAA
*
76111 GATTTTAA
1 G-GTTTAA
76119 GGTTTAA
1 GGTTTAA
*
76126 GGTTTAG
1 GGTTTAA
76133 GGTTTATA
1 GGTTTA-A
*
76141 -ATTT-A
1 GGTTTAA
*
76146 -GTATTCCA
1 GGT-TT-AA
*
76154 GGTTTAT
1 GGTTTAA
76161 GGTTTACA
1 GGTTTA-A
*
76169 -GTTTAT
1 GGTTTAA
*
76175 GATTTATA
1 GGTTTA-A
* *
76183 -GTTCAT
1 GGTTTAA
76189 GGTTTAA
1 GGTTTAA
76196 GGTTTAA
1 GGTTTAA
76203 GGTTTATA
1 GGTTTA-A
*
76211 -GTTCAA
1 GGTTTAA
*
76217 GGTTTAT
1 GGTTTAA
*
76224 GGTAATATA
1 GGT-TTA-A
*
76233 -GTTTAT
1 GGTTTAA
76239 GGTTT-A
1 GGTTTAA
* *
76245 -TTTTTA
1 GGTTTAA
76251 GGTTTAA
1 GGTTTAA
* *
76258 GGCTTAT
1 GGTTTAA
76265 GGTTTATA
1 GGTTTA-A
* *
76273 -ATCTAAA
1 GGT-TTAA
* *
76280 GTTTTAG
1 GGTTTAA
76287 GGTTTAA
1 GGTTTAA
76294 GGTTTATA
1 GGTTTA-A
76302 -GTTTATA
1 GGTTTA-A
*
76309 GTTTTAA
1 GGTTTAA
76316 GG-TTATA
1 GGTTTA-A
*
76323 GGATTTTAGT
1 GG--TTTA-A
76333 GGTTTAA
1 GGTTTAA
*
76340 GATTTTAA
1 G-GTTTAA
*
76348 -GTCTTTA
1 GGT-TTAA
76355 GTGTTTAA
1 G-GTTTAA
*
76363 GGTTTAG
1 GGTTTAA
76370 GGTTTAGA
1 GGTTTA-A
**
76378 TTTTTAA
1 GGTTTAA
76385 GGTTTAA
1 GGTTTAA
*
76392 GGTCTAA
1 GGTTTAA
* *
76399 AGTTTAG
1 GGTTTAA
*
76406 GGTTTAG
1 GGTTTAA
*
76413 GGTCTAA
1 GGTTTAA
76420 GGTCTATAA
1 GGT-T-TAA
**
76429 --TTTTT
1 GGTTTAA
*
76434 GGTTTAT
1 GGTTTAA
*
76441 TGTTT-A
1 GGTTTAA
*
76447 GAGTTTAT
1 G-GTTTAA
76455 GGTTTAA
1 GGTTTAA
* *
76462 AGTTTAT
1 GGTTTAA
76469 GGTTTAA
1 GGTTTAA
* *
76476 AGTTTAT
1 GGTTTAA
76483 GGTTT-A
1 GGTTTAA
*
76489 GGTTTTA
1 GGTTTAA
* *
76496 GTTTTTAT
1 G-GTTTAA
76504 GGTTTTAA
1 GG-TTTAA
*
76512 GCTTT-A
1 GGTTTAA
76518 --TTTCAA
1 GGTTT-AA
76524 GGTTTAA
1 GGTTTAA
*
76531 GG-TTAT
1 GGTTTAA
*
76537 GGTTTAT
1 GGTTTAA
*
76544 GTTTTAA
1 GGTTTAA
*
76551 AGTTTAA
1 GGTTTAA
*
76558 AGTTT-A
1 GGTTTAA
* *
76564 TGTTTTA
1 GGTTTAA
*
76571 GAGTTTAG
1 G-GTTTAA
76579 GGTTTAA
1 GGTTTAA
* * *
76586 AGTTCAT
1 GGTTTAA
*
76593 GGTTCAA
1 GGTTTAA
*
76600 GATTTAA
1 GGTTTAA
*
76607 GGTTATTA
1 GGTT-TAA
76615 GG-TTAA
1 GGTTTAA
*
76621 GGCTTATA
1 GGTTTA-A
76629 -GTTTAA
1 GGTTTAA
*
76635 GGTTATTA
1 GGTT-TAA
*
76643 GG-TTAG
1 GGTTTAA
*
76649 GGTTTAG
1 GGTTTAA
76656 GGTTTAA
1 GGTTTAA
76663 AGATTATAGT
Statistics
Matches: 1553, Mismatches: 469, Indels: 390
0.64 0.19 0.16
Matches are distributed among these distances:
4 7 0.00
5 28 0.02
6 129 0.08
7 1127 0.73
8 236 0.15
9 21 0.01
10 5 0.00
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (7 bp):
GGTTTAA
Found at i:74769 original size:26 final size:27
Alignment explanation
Indices: 74708--74776 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
74698 TATTCATGAT
* *
74708 TTAAGGTTTAAGG-TTATGGTTTATAT
1 TTAAGGTTTAAGGTTTAGGGTTTATAA
**
74734 TTAAAATTTAAGGTTTAGGGTTT-TAA
1 TTAAGGTTTAAGGTTTAGGGTTTATAA
*
74760 TTAAGGTTTAGGGTTTA
1 TTAAGGTTTAAGGTTTA
74777 TAGATTATGG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
26 27 0.77
27 8 0.23
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (27 bp):
TTAAGGTTTAAGGTTTAGGGTTTATAA
Found at i:75048 original size:22 final size:22
Alignment explanation
Indices: 75023--75065 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
75013 TAAGGTTCAA
75023 GGTTAAGGGGTTAAAGTTTTAT
1 GGTTAAGGGGTTAAAGTTTTAT
* * *
75045 GGTTTAGGGTTTAGAGTTTTA
1 GGTTAAGGGGTTAAAGTTTTA
75066 CTTATTTATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (22 bp):
GGTTAAGGGGTTAAAGTTTTAT
Found at i:75171 original size:8 final size:8
Alignment explanation
Indices: 75158--75189 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
75148 TTTAATGTAC
75158 AAGGTTTT
1 AAGGTTTT
75166 AAGGTTTT
1 AAGGTTTT
75174 AAGG-TTT
1 AAGGTTTT
75181 AAGGTTTT
1 AAGGTTTT
75189 A
1 A
75190 TTTTAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (8 bp):
AAGGTTTT
Found at i:75181 original size:15 final size:16
Alignment explanation
Indices: 75158--75189 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
75148 TTTAATGTAC
75158 AAGGTTTTAAGGTTTT
1 AAGGTTTTAAGGTTTT
75174 AAGG-TTTAAGGTTTT
1 AAGGTTTTAAGGTTTT
75189 A
1 A
75190 TTTTAGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (16 bp):
AAGGTTTTAAGGTTTT
Found at i:75339 original size:20 final size:20
Alignment explanation
Indices: 75318--75357 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
75308 ATTTTTTGGG
*
75318 TTCATGGTTTATAATTTAGGT
1 TTCAAGGTTT-TAATTTAGGT
*
75339 TTTAAGGTTTTAATTTAGG
1 TTCAAGGTTTTAATTTAGG
75358 GTTTATGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.53
Consensus pattern (20 bp):
TTCAAGGTTTTAATTTAGGT
Found at i:75431 original size:29 final size:29
Alignment explanation
Indices: 75375--75446 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
75365 ATTTAAGTTA
*
75375 TAAGGTTTAAAG-TTTATAGTTTAAGGTT
1 TAAGGTTTAAAGATTTATAGTTCAAGGTT
*
75403 TAAGGTTTAAAGATTTATAGTTCATGGTT
1 TAAGGTTTAAAGATTTATAGTTCAAGGTT
*
75432 TAAGGTGT-AAGATTT
1 TAAGGTTTAAAGATTT
75447 TGGGTTAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 19 0.47
29 21 0.52
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.44
Consensus pattern (29 bp):
TAAGGTTTAAAGATTTATAGTTCAAGGTT
Found at i:75682 original size:22 final size:22
Alignment explanation
Indices: 75654--75717 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
75644 AAGTTCAAGG
*
75654 TTTATGGTTTATGG-TTTATAA
1 TTTATGGTTTAGGGTTTTATAA
75675 TATTATGGTTTAGGGTTTTATAA
1 T-TTATGGTTTAGGGTTTTATAA
* * *
75698 TTTATGATTTAAGATTTTAT
1 TTTATGGTTTAGGGTTTTAT
75718 GTTTAAGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 1 0.03
22 28 0.76
23 8 0.22
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (22 bp):
TTTATGGTTTAGGGTTTTATAA
Found at i:76915 original size:14 final size:14
Alignment explanation
Indices: 76898--76949 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
76888 AGTTTATAGA
76898 TTATGGTTTAGGAT
1 TTATGGTTTAGGAT
76912 TTATGGTTTA-GAT
1 TTATGGTTTAGGAT
* *
76925 TTCAAGGTTTATGA-
1 TT-ATGGTTTAGGAT
76939 TTATGGTTTAG
1 TTATGGTTTAG
76950 TGTTTTATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 12 0.36
14 19 0.58
15 2 0.06
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.50
Consensus pattern (14 bp):
TTATGGTTTAGGAT
Found at i:77004 original size:29 final size:29
Alignment explanation
Indices: 76945--77010 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
76935 ATGATTATGG
*
76945 TTTAGTGTTTTATAGTTATGGTTTATAGT
1 TTTAGTGTTTTATAGTTAGGGTTTATAGT
* *
76974 TTTAGT-TTTTATAATTTAGGGTTTA-AGG
1 TTTAGTGTTTTAT-AGTTAGGGTTTATAGT
77002 TTTA-TGTTT
1 TTTAGTGTTT
77011 AGGGTTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 1 0.03
28 15 0.47
29 16 0.50
ACGTcount: A:0.21, C:0.00, G:0.20, T:0.59
Consensus pattern (29 bp):
TTTAGTGTTTTATAGTTAGGGTTTATAGT
Found at i:77147 original size:15 final size:15
Alignment explanation
Indices: 77129--77189 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
77119 TGATTTATGA
77129 TTTAAGGTTTTAGGG
1 TTTAAGGTTTTAGGG
* *
77144 TTTAAGATTTTAGGA
1 TTTAAGGTTTTAGGG
* *
77159 TTTATGG-TTTAAGG
1 TTTAAGGTTTTAGGG
77173 TTT-A-GTATTTAGGG
1 TTTAAGGT-TTTAGGG
77187 TTT
1 TTT
77190 TTATATTAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
12 1 0.03
14 17 0.47
15 18 0.50
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (15 bp):
TTTAAGGTTTTAGGG
Found at i:77147 original size:22 final size:22
Alignment explanation
Indices: 77122--77189 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
77112 TTATTTATGA
* *
77122 TTTATGATTTAAGGTTTTAGGG
1 TTTAAGATTTAAGGATTTAGGG
* *
77144 TTTAAGATTTTAGGATTTATGG
1 TTTAAGATTTAAGGATTTAGGG
* *
77166 TTTAAGGTTT-AGTATTTAGGG
1 TTTAAGATTTAAGGATTTAGGG
77187 TTT
1 TTT
77190 TTATATTAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 12 0.31
22 27 0.69
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (22 bp):
TTTAAGATTTAAGGATTTAGGG
Found at i:78254 original size:66 final size:66
Alignment explanation
Indices: 78167--78313 Score: 188
Period size: 66 Copynumber: 2.2 Consensus size: 66
78157 TTGTTCGTAG
* * * * * * * *
78167 GGTATCGAAACTTGTATGAGGAGTATCGATACTGGGTCCATTTAGCAAATTCTAGTAGCCAATTT
1 GGTATCGATACTCGTAGGAGGAGTATCGATACCGGATCCATTTAGAAAATTCCAATAGCC-ATTT
78232 T-
65 TA
* *
78233 TGTATCGATGCTCGTAGGAGGAGTATCGATACCGGATCCATTTAGAAAATTCCAATAGCCATTTT
1 GGTATCGATACTCGTAGGAGGAGTATCGATACCGGATCCATTTAGAAAATTCCAATAGCCATTTT
78298 A
66 A
78299 GGTATCGATACTCGT
1 GGTATCGATACTCGT
78314 GGGGGTATCA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
65 5 0.07
66 63 0.93
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (66 bp):
GGTATCGATACTCGTAGGAGGAGTATCGATACCGGATCCATTTAGAAAATTCCAATAGCCATTTT
A
Found at i:79470 original size:22 final size:23
Alignment explanation
Indices: 79444--79559 Score: 77
Period size: 22 Copynumber: 5.2 Consensus size: 23
79434 TGGGTTTGGT
79444 GTTTATGGTTTTAGA-TTTTAGG
1 GTTTATGGTTTTAGAGTTTTAGG
*
79466 GTTTA--GTATTTAGTA-TTTTTGG
1 GTTTATGGT-TTTAG-AGTTTTAGG
79488 GTTT-TAGGTTTT-GAGTTTT-GG
1 GTTTAT-GGTTTTAGAGTTTTAGG
* **
79509 GTGTTA-GGATTTAGAGTTTTATA
1 GT-TTATGGTTTTAGAGTTTTAGG
* * *
79532 GTTTATGGTTTTAGGGATTTATG
1 GTTTATGGTTTTAGAGTTTTAGG
79555 GTTTA
1 GTTTA
79560 ATGCTTAATG
Statistics
Matches: 75, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
20 2 0.03
21 15 0.20
22 33 0.44
23 23 0.31
24 2 0.03
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (23 bp):
GTTTATGGTTTTAGAGTTTTAGG
Found at i:79542 original size:44 final size:44
Alignment explanation
Indices: 79444--79545 Score: 106
Period size: 44 Copynumber: 2.3 Consensus size: 44
79434 TGGGTTTGGT
* *
79444 GTTTATGGTTTTAGATTTTAGGGTTTAGTATTTAGTATTTTTGG
1 GTTTATGGTTTTAGATTTTAGGGTTTAGGATTTAGTATTTTTGA
79488 GTTT-TAGGTTTT-GAGTTTT-GGGTGTTAGGATTTAG-AGTTTTAT-A
1 GTTTAT-GGTTTTAGA-TTTTAGGGT-TTAGGATTTAGTA-TTTT-TGA
79532 GTTTATGGTTTTAG
1 GTTTATGGTTTTAG
79546 GGATTTATGG
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
43 8 0.16
44 38 0.78
45 3 0.06
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (44 bp):
GTTTATGGTTTTAGATTTTAGGGTTTAGGATTTAGTATTTTTGA
Found at i:79851 original size:16 final size:16
Alignment explanation
Indices: 79813--79854 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
79803 AATTTTATTT
* *
79813 TATTATTATTTATTAG
1 TATTATTTTTTATTAC
*
79829 TAATATTTTTTATTAC
1 TATTATTTTTTATTAC
79845 TATTATTTTT
1 TATTATTTTT
79855 CATATAGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTATTTTTTATTAC
Found at i:81026 original size:18 final size:18
Alignment explanation
Indices: 80992--81025 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
80982 TTTTTAGGGT
80992 TTAAAGGGTCATGTTTTA
1 TTAAAGGGTCATGTTTTA
81010 TTAAAGGGTC-TGTTTT
1 TTAAAGGGTCATGTTTT
81026 TGGCATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.47
Consensus pattern (18 bp):
TTAAAGGGTCATGTTTTA
Found at i:83148 original size:15 final size:15
Alignment explanation
Indices: 83128--83181 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
83118 AACTGGGTAT
83128 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
**
83143 CGGGTACCCGAAAAATC
1 CGGGTACCCG-ATTA-C
83160 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
83175 CGGGTAC
1 CGGGTAC
83182 ACGTAACATC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 18 0.55
16 4 0.12
17 11 0.33
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.17
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:83169 original size:32 final size:32
Alignment explanation
Indices: 83128--83196 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
83118 AACTGGGTAT
*
83128 CGGGTACCCGATTACCGGGTACCCGAAAAATC
1 CGGGTACCCGATTACCGGGTACACGAAAAATC
* *
83160 CGGGTACCCGATTACCGGGTACACGTAACATC
1 CGGGTACCCGATTACCGGGTACACGAAAAATC
83192 CGGGT
1 CGGGT
83197 CAGGACACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (32 bp):
CGGGTACCCGATTACCGGGTACACGAAAAATC
Found at i:83942 original size:7 final size:7
Alignment explanation
Indices: 83922--83969 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
83912 TTACGTGATT
83922 TATAAA-
1 TATAAAG
83928 TA-AAAG
1 TATAAAG
83934 TATAAAG
1 TATAAAG
*
83941 TATATA-
1 TATAAAG
83947 TAT-AAG
1 TATAAAG
83953 TATAAAG
1 TATAAAG
83960 TATAAAG
1 TATAAAG
83967 TAT
1 TAT
83970 GAATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
5 4 0.11
6 10 0.28
7 22 0.61
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.33
Consensus pattern (7 bp):
TATAAAG
Found at i:83960 original size:26 final size:26
Alignment explanation
Indices: 83922--83978 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
83912 TTACGTGATT
83922 TATAAATAAAAGTATAAAGTAT-ATA
1 TATAAATAAAAGTATAAAGTATAATA
*
83947 TATAAGTATAAAGTATAAAGTATGAATA
1 TATAAATA-AAAGTATAAAGTAT-AATA
83975 TATA
1 TATA
83979 TTTATATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 7 0.25
26 14 0.50
28 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (26 bp):
TATAAATAAAAGTATAAAGTATAATA
Found at i:83986 original size:6 final size:6
Alignment explanation
Indices: 83975--84003 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
83965 AGTATGAATA
83975 TATATT TATATT TATATT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATAT
84004 ATATGCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:84718 original size:2 final size:2
Alignment explanation
Indices: 84711--84756 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
84701 AAATAAATTG
84711 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
84753 AT AT
1 AT AT
84757 TAAGTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87305 original size:19 final size:18
Alignment explanation
Indices: 87262--87297 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
87252 AATTCAAACA
*
87262 AATAAAAATCTAAAAAAT
1 AATAAAAATATAAAAAAT
87280 AATTAAAAATATAAAAAA
1 AA-TAAAAATATAAAAAA
87298 ATTATAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 2 0.12
19 14 0.88
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AATAAAAATATAAAAAAT
Found at i:87427 original size:45 final size:45
Alignment explanation
Indices: 87357--87454 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
87347 ATTCCAGCAT
* *
87357 CTCCATGTTACAAATTCTAGCAGCTTCCATAACTGCTAGCAGCCC
1 CTCCATGTTACAAATTCCAGCAGCTTCCATAACTGCCAGCAGCCC
* * * * *
87402 CTTCATGTTGCAAATTCCAGTAGCTTCCATCACTGCCAGCAGTCC
1 CTCCATGTTACAAATTCCAGCAGCTTCCATAACTGCCAGCAGCCC
87447 CTCCATGT
1 CTCCATGT
87455 CCCCGTTCCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (45 bp):
CTCCATGTTACAAATTCCAGCAGCTTCCATAACTGCCAGCAGCCC
Found at i:88612 original size:17 final size:17
Alignment explanation
Indices: 88590--88634 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
88580 AAATATATAT
88590 ATTTTTAAT-TTTATTCA
1 ATTTTTAATATTTATT-A
88607 ATTTTTAATATTTATTA
1 ATTTTTAATATTTATTA
*
88624 TTTTTTAATAT
1 ATTTTTAATAT
88635 CGAAGAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTTAATATTTATTA
Found at i:88634 original size:134 final size:135
Alignment explanation
Indices: 88447--88732 Score: 321
Period size: 136 Copynumber: 2.1 Consensus size: 135
88437 TAGTCATATT
*
88447 AATATAT-TATTTGATTAATTTTATAAATTAATAATATTTATTTATTTTAAATAT-TAAGAAAGG
1 AATATATATATTT--TTAATTTTATAAATTAATAATATTTATTTATTTTAAATATCGAAGAAAGG
* * * * *
88510 ACG-ATCTTAAAATAATTAGATGTCCTATTCTGATATTTTTAAATAAATAAATATATTACTTATA
64 -CGTATCTTAAAACAATTAGATGTCATATTCTAATATTTTTAAATAAATAAATACACTACTTATA
88574 AAAACA-A
128 AAAACATA
* ** *
88581 AATATATATATTTTTAATTTTATTCAATTTTTAATATTTA-TTATTTTTTAATATCGAAGAAAGG
1 AATATATATATTTTTAATTTTA-TAAATTAATAATATTTATTTA-TTTTAAATATCGAAGAAAGG
* * * * * *
88645 GGTTGTCTTAAAGCAATTAGATGTCATTTTCTAATATTTTTAAATAAATAAATACCCTATTTATA
64 CG-TATCTTAAAACAATTAGATGTCATATTCTAATATTTTTAAATAAATAAATACACTACTTATA
*
88710 AAACCATA
128 AAAACATA
*
88718 AAAATATATATTTTT
1 AATATATATATTTTT
88733 TAATATATTT
Statistics
Matches: 127, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
133 12 0.09
134 31 0.24
135 13 0.10
136 56 0.44
137 15 0.12
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (135 bp):
AATATATATATTTTTAATTTTATAAATTAATAATATTTATTTATTTTAAATATCGAAGAAAGGCG
TATCTTAAAACAATTAGATGTCATATTCTAATATTTTTAAATAAATAAATACACTACTTATAAAA
ACATA
Found at i:91599 original size:8 final size:7
Alignment explanation
Indices: 91575--91623 Score: 66
Period size: 8 Copynumber: 7.0 Consensus size: 7
91565 TTTTCATACA
91575 TGCATTT
1 TGCATTT
91582 T-CATTT
1 TGCATTT
91588 TGCATCTT
1 TGCAT-TT
91596 TGCATATT
1 TGCAT-TT
91604 TGCATTT
1 TGCATTT
91611 T-CATTT
1 TGCATTT
91617 TGCATTT
1 TGCATTT
91624 GTACTTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
6 12 0.32
7 12 0.32
8 14 0.37
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.57
Consensus pattern (7 bp):
TGCATTT
Found at i:91620 original size:13 final size:13
Alignment explanation
Indices: 91575--91623 Score: 71
Period size: 13 Copynumber: 3.5 Consensus size: 13
91565 TTTTCATACA
91575 TGCATTTTCATTT
1 TGCATTTTCATTT
91588 TGCATCTTTGCATATT
1 TGCAT-TTT-CAT-TT
91604 TGCATTTTCATTT
1 TGCATTTTCATTT
91617 TGCATTT
1 TGCATTT
91624 GTACTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
13 14 0.42
14 6 0.18
15 6 0.18
16 7 0.21
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.57
Consensus pattern (13 bp):
TGCATTTTCATTT
Found at i:93971 original size:24 final size:23
Alignment explanation
Indices: 93921--93976 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
93911 TCTTTTTTTC
93921 TTTTTTTTCTTTTTCGAACATCT
1 TTTTTTTTCTTTTTCGAACATCT
93944 TTTTCTTTTC-TTTTCGAAC-TGCT
1 TTTT-TTTTCTTTTTCGAACAT-CT
*
93967 ATTTTTTTCT
1 TTTTTTTTCT
93977 CTCTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 6 0.21
23 18 0.62
24 5 0.17
ACGTcount: A:0.11, C:0.18, G:0.05, T:0.66
Consensus pattern (23 bp):
TTTTTTTTCTTTTTCGAACATCT
Found at i:98513 original size:17 final size:16
Alignment explanation
Indices: 98482--98523 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
98472 GGAATTTTGG
98482 TAATAAAA-TATTAAA
1 TAATAAAAGTATTAAA
98497 TAATAAAAGTGATTAAA
1 TAATAAAAGT-ATTAAA
98514 TAAGTAAAAG
1 TAA-TAAAAG
98524 CAATTAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.33
16 1 0.04
17 9 0.38
18 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (16 bp):
TAATAAAAGTATTAAA
Found at i:98529 original size:18 final size:17
Alignment explanation
Indices: 98491--98531 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
98481 GTAATAAAAT
**
98491 ATTAAATAATAAAAGTG
1 ATTAAATAATAAAAGCA
98508 ATTAAATAAGTAAAAGCA
1 ATTAAATAA-TAAAAGCA
98526 ATTAAA
1 ATTAAA
98532 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (17 bp):
ATTAAATAATAAAAGCA
Found at i:102494 original size:15 final size:15
Alignment explanation
Indices: 102474--102502 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
102464 TTCTTTCATT
102474 CTTCGATAAAGAAAG
1 CTTCGATAAAGAAAG
102489 CTTCGATAAAGAAA
1 CTTCGATAAAGAAA
102503 TGAGGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (15 bp):
CTTCGATAAAGAAAG
Found at i:104271 original size:55 final size:54
Alignment explanation
Indices: 104187--104341 Score: 235
Period size: 55 Copynumber: 2.9 Consensus size: 54
104177 CTGACGAGAA
104187 ATCTGTGCAGAAGCCACAGGAAAGAATGAATGTGTTGTCAAATGTTTTACGAAAC
1 ATCTGTGCAGAAGCCACAGGAAAGAATGAATGTGTTGTCAAATGTTTTACG-AAC
* * * *
104242 ATCTGGGCAGAAGCCACAGGAAAGAATGAATGTGTTCTTAAATATTTTACGAAC
1 ATCTGTGCAGAAGCCACAGGAAAGAATGAATGTGTTGTCAAATGTTTTACGAAC
*
104296 ATCTGTGCAGAAACCACAGG--A-AATGAATGTGTTGTCAAATGTTTTA
1 ATCTGTGCAGAAGCCACAGGAAAGAATGAATGTGTTGTCAAATGTTTTA
104342 TAAACCAGTG
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
51 22 0.24
52 1 0.01
54 21 0.23
55 47 0.52
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (54 bp):
ATCTGTGCAGAAGCCACAGGAAAGAATGAATGTGTTGTCAAATGTTTTACGAAC
Found at i:105602 original size:73 final size:72
Alignment explanation
Indices: 105428--105683 Score: 380
Period size: 73 Copynumber: 3.6 Consensus size: 72
105418 AGATGTTTTC
* *
105428 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCCTT-AAACAAA---TTT-TCGCTGGAGAAAT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTT-CTTAAAACAAACTGTTTCTCGCTAGA-AAAG
105488 TTTCACTTG
64 TTTCACTTG
105497 AAATAGCAA-TTATCTCACTTGAGATTGTTTTTTCTTAAAACAAACTGTTTCTCGCTAGATAAAG
1 AAATAGCAATTTATCTCACTTGAGATTG-TTTTTCTTAAAACAAACTGTTTCTCGCTAGA-AAAG
105561 TTTCACTTG
64 TTTCACTTG
* * *
105570 AAATAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTTGCTAGAGAAGTT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTAGAAAAGTT
*
105635 TCACTCG
66 TCACTTG
105642 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
105684 TTTCAAGAAG
Statistics
Matches: 172, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
68 21 0.12
69 21 0.12
72 55 0.32
73 57 0.33
74 18 0.10
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (72 bp):
AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTAGAAAAGTT
TCACTTG
Found at i:105747 original size:39 final size:39
Alignment explanation
Indices: 105688--105952 Score: 299
Period size: 39 Copynumber: 6.9 Consensus size: 39
105678 AAAACATTTC
* * * *
105688 AAGAAGGAGTTCATAATCTGAAGAACTTGCCTGAAGAGG
1 AAGAAGAAGTTCATAATCTGAAGAACTCGTCTAAAGAGG
* * *
105727 AATAAGAAGTTCATAGTCTGAAGAACTCATCTAAAGAGG
1 AAGAAGAAGTTCATAATCTGAAGAACTCGTCTAAAGAGG
* *
105766 AAGAAG--GTTCATAATCTGAAGAACTCGTCTAACGAGA
1 AAGAAGAAGTTCATAATCTGAAGAACTCGTCTAAAGAGG
*
105803 AAGAA-AAGTTCATAGTCTGAAGAACTCGTCTAAAGAGG
1 AAGAAGAAGTTCATAATCTGAAGAACTCGTCTAAAGAGG
* * *
105841 AAAAAGGAGTTCATAATCTGAAGAACTCGTCTCAAGAGG
1 AAGAAGAAGTTCATAATCTGAAGAACTCGTCTAAAGAGG
* * * *
105880 AAGAAGAAGTTCATAGTCTGAAGAA--CATATGAAGAGG
1 AAGAAGAAGTTCATAATCTGAAGAACTCGTCTAAAGAGG
* * * *
105917 AATAAGGAGTTCAT-ATCTGAAGAACTCATCTGAAGA
1 AAGAAGAAGTTCATAATCTGAAGAACTCGTCTAAAGA
105953 ACTCATCTGA
Statistics
Matches: 192, Mismatches: 29, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
36 9 0.05
37 53 0.28
38 41 0.21
39 89 0.46
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (39 bp):
AAGAAGAAGTTCATAATCTGAAGAACTCGTCTAAAGAGG
Found at i:105936 original size:114 final size:114
Alignment explanation
Indices: 105688--105952 Score: 322
Period size: 114 Copynumber: 2.3 Consensus size: 114
105678 AAAACATTTC
* * * *
105688 AAGAAGGAGTTCATAATCTGAAGAACTTGCCTGAAGAGGAATAAGAAGTTCATAGTCTGAAGAAC
1 AAGAAGGAGTTCAT-ATCTGAAGAACTCGTCTGAAGAGGAAAAAGAAGTTCATAATCTGAAGAAC
* *
105753 TCATCTAAAGAGGAAGAAGGTTCATAATCTGAAGAACTCGTCTAACGAGA
65 TCATCTAAAGAGGAAGAAGGTTCATAATCTGAAGAACTCATCGAACGAGA
* * *
105803 AAGAA-AAGTTCATAGTCTGAAGAACTCGTCTAAAGAGGAAAAAGGAGTTCATAATCTGAAGAAC
1 AAGAAGGAGTTCATA-TCTGAAGAACTCGTCTGAAGAGGAAAAAGAAGTTCATAATCTGAAGAAC
* * * *
105867 TCGTCTCAAGAGGAAGAAGAAGTTCATAGTCTGAAGAACAT-AT-GAA-GAGG
65 TCATCTAAAGAGGAAGAAG--GTTCATAATCTGAAGAAC-TCATCGAACGAGA
* *
105917 AATAAGGAGTTCATATCTGAAGAACTCATCTGAAGA
1 AAGAAGGAGTTCATATCTGAAGAACTCGTCTGAAGA
105953 ACTCATCTGA
Statistics
Matches: 128, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
113 1 0.01
114 93 0.73
115 15 0.12
116 18 0.14
117 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (114 bp):
AAGAAGGAGTTCATATCTGAAGAACTCGTCTGAAGAGGAAAAAGAAGTTCATAATCTGAAGAACT
CATCTAAAGAGGAAGAAGGTTCATAATCTGAAGAACTCATCGAACGAGA
Found at i:105949 original size:13 final size:13
Alignment explanation
Indices: 105931--105965 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
105921 AGGAGTTCAT
105931 ATCTGAAGAACTC
1 ATCTGAAGAACTC
105944 ATCTGAAGAACTC
1 ATCTGAAGAACTC
105957 ATCTGAAGA
1 ATCTGAAGA
105966 GGAATAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (13 bp):
ATCTGAAGAACTC
Found at i:105969 original size:51 final size:50
Alignment explanation
Indices: 105896--105994 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 50
105886 AAGTTCATAG
*
105896 TCTGAAGAACATATGAAGAGGAATAAGGAGTTCATA-TCTGAAGAACTCA
1 TCTGAAGAACATATGAAGAGGAATAAGAAGTTCATAGTCTGAAGAACTCA
*
105945 TCTGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAGTCTGAAGAACT
1 TCTGAAGAA--CATATGAAGAGGAATAAGAAGTTCATAGTCTGAAGAACT
105995 TATTCAACCT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
49 9 0.20
51 25 0.56
52 11 0.24
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (50 bp):
TCTGAAGAACATATGAAGAGGAATAAGAAGTTCATAGTCTGAAGAACTCA
Done.