Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2603
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: 52205
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:9659 original size:74 final size:73
Alignment explanation
Indices: 9562--9768 Score: 231
Period size: 73 Copynumber: 2.8 Consensus size: 73
9552 ATTTCTGTTC
* ** * *
9562 CAAAGATCAACTTATAGGGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAAATT
1 CAAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC-AA-T
9627 C-TT-TTT-T
64 CGTTGTTTGT
* * * * *
9634 CAAAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGGGCACGGTGAGGAATTTTCAAT
1 C--AAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
9699 CGTTGTTTGT
64 CGTTGTTTGT
* * * *
9709 CAAAAATCAACTCATACTGCCAGAGGAGAGTTAAGCCTCAGGGCACGCTGAGGTATTTTC
1 CAAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
9769 GATTTCCGCT
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
72 3 0.03
73 54 0.48
74 53 0.47
75 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (73 bp):
CAAAAATCAACTTATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATCG
TTGTTTGT
Found at i:10022 original size:89 final size:89
Alignment explanation
Indices: 9855--10111 Score: 351
Period size: 89 Copynumber: 2.9 Consensus size: 89
9845 GCTGAGGTAA
* *
9855 TTTCAATTTCTGTTTGTC--AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCA
1 TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---A
* * *
9917 CATGCTGAGGTCTTTTCAATTTCTATT
63 CACGCTGAGGTATTTTCAATTTCTACT
*
9944 TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
10009 GCTGAGGTATTTTCGATTTCTACT
66 GCTGAGGTATTTTCAATTTCTACT
* * *
10033 TTCCAATTTCTG-TCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGTTC-GTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
10097 CGCTGAGGTAATTTT
65 CGCTGAGGT-ATTTT
10112 GATCTCCGTT
Statistics
Matches: 152, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
88 2 0.01
89 106 0.70
90 5 0.03
91 37 0.24
92 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (89 bp):
TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCTACT
Found at i:10173 original size:72 final size:71
Alignment explanation
Indices: 10056--10313 Score: 322
Period size: 72 Copynumber: 3.5 Consensus size: 71
10046 CTTTCAAAAT
* *
10056 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTGATCTCCGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATCTCTGT
10121 TTTCGAA
66 TTTC-AA
* * *
10128 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAACTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATCTCTGT
10193 TTGTCAAAA
66 TT-TC--AA
* * *
10202 AATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTTTCAATCAT-T
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATC-TCT
10265 GTTTTTCAA
64 G-TTTTCAA
* * * *
10274 GAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGA
1 -AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
10314 TCACACACCG
Statistics
Matches: 161, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
72 64 0.40
73 37 0.23
74 56 0.35
75 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (71 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATCTCTGT
TTTCAA
Found at i:10247 original size:74 final size:72
Alignment explanation
Indices: 10036--10313 Score: 342
Period size: 74 Copynumber: 3.8 Consensus size: 72
10026 TTCTACTTTC
10036 CAATTTCTGTCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 CAATTTCTGT-TTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
10101 GAGGTAATTT
63 GAGGTAATTT
** * * *
10111 TGATCTCCGTTTTCGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 CAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
10176 GTAACTT
66 GTAATTT
* * *
10183 CAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTG
1 CAATTTCTGTTT-TC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
10248 AGGTATTTT
64 AGGTAATTT
* * * * * *
10257 CAATCAT-TGTTTTTCAAGAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGA
1 CAAT-TTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
10314 TCACACACCG
Statistics
Matches: 174, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
72 62 0.36
73 38 0.22
74 64 0.37
75 10 0.06
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (72 bp):
CAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTAATTT
Found at i:10329 original size:14 final size:14
Alignment explanation
Indices: 10310--10339 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10300 ATTGAGCCTC
10310 AGGATCACACACCG
1 AGGATCACACACCG
10324 AGGATCACACACCG
1 AGGATCACACACCG
10338 AG
1 AG
10340 TAAAGAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.33, G:0.23, T:0.07
Consensus pattern (14 bp):
AGGATCACACACCG
Found at i:12514 original size:24 final size:24
Alignment explanation
Indices: 12477--12584 Score: 73
Period size: 24 Copynumber: 4.4 Consensus size: 24
12467 GTATATATTG
*
12477 TATATGTTTTATA-TATGTTATGTA
1 TATAT-TTTTATACCATGTTATGTA
**
12501 TATATTTTTAATATTACTAGTTA--TA
1 TATATTTTT-ATACCA-T-GTTATGTA
12526 TATATTTCTTATA-CAT-TTCCATGTA
1 TATATTT-TTATACCATGTT--ATGTA
* *
12551 CATATTTTTATACCATCTTATGTA
1 TATATTTTTATACCATGTTATGTA
12575 TATATTTTTA
1 TATATTTTTA
12585 AATACTATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
21 2 0.03
23 6 0.09
24 28 0.40
25 25 0.36
26 5 0.07
27 4 0.06
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (24 bp):
TATATTTTTATACCATGTTATGTA
Found at i:12647 original size:36 final size:33
Alignment explanation
Indices: 12568--12650 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 33
12558 TTATACCATC
*
12568 TTATGTATATATTTTTAAATACTATATTGTATA
1 TTATGTATATATTCTTAAATACTATATTGTATA
* *
12601 TGTATATATATATTCTT-AGTACTATATTACGCATATA
1 T-TATGTATATATTCTTAAATACTATATT--G--TATA
12638 TTATGTATATATT
1 TTATGTATATATT
12651 TATTTTTACC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
33 11 0.27
34 13 0.32
35 1 0.02
36 11 0.27
37 5 0.12
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (33 bp):
TTATGTATATATTCTTAAATACTATATTGTATA
Found at i:22245 original size:205 final size:205
Alignment explanation
Indices: 21894--23193 Score: 2073
Period size: 205 Copynumber: 6.4 Consensus size: 205
21884 CAGATGTTAT
*
21894 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATA-CT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
21958 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
*
22023 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGTAGACACATAGCAGATCTCACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
22088 AGATGATTTC
196 AGATGATTTC
* **
22098 ACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGTTTACAAGGAGTAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
22163 GATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATAATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* *
22228 AGAATAAATCGAAGTTTGGCATATTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
22293 AGATGATTTC
196 AGATGATTTC
* *
22303 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATTGAAAACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
22368 GATTTGGCTTTCACGTGATTACGATGAATCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* *
22433 AGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
22498 AGATGATTTC
196 AGATGATTTC
*
22508 ACTGAAGCAGATCCAAGATAGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
22573 GATTTGGCTTTCACATGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* *
22638 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAACAGACACATAGCAGATCTCGCCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
*
22703 AGATTATTTC
196 AGATGATTTC
22713 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
22778 GATTTGGCTTTCAC--G--T--GA--AAGCAAATCTAAGATGATTTGTGGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* * * ** * * *
22835 AGAACAAATCGAAGTCTAGCATCTCCACTTCAATGGAGAGCAGATACATAGCATATCTGACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
*
22900 AGATG-TTTAT
196 AGATGATTT-C
* * *
22910 ACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGC
1 ACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGC
* *
22975 TGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTATGGTCTCTGTATTGTCA
65 TGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCA
* * ** * *
23040 GAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAGCAGATCTAACCTT
130 GAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTT
*
23105 CAGAT-ATTTAT
195 CAGATGATTT-C
* * *
23116 ACTGAAGCAAGATCCAAGATGATTTGGCATCCTTATGCTTACAAGGAACAAATCGAAGACATAGC
1 ACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGC
* *
23181 AGATTTGACTTTC
65 TGATTTGGCTTTC
23194 GGATGTTCCC
Statistics
Matches: 1032, Mismatches: 52, Indels: 22
0.93 0.05 0.02
Matches are distributed among these distances:
196 3 0.00
197 105 0.10
198 68 0.07
199 2 0.00
200 1 0.00
201 1 0.00
202 1 0.00
203 1 0.00
204 62 0.06
205 605 0.59
206 183 0.18
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (205 bp):
ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
AGATGATTTC
Found at i:23381 original size:44 final size:43
Alignment explanation
Indices: 23311--23569 Score: 177
Period size: 44 Copynumber: 5.9 Consensus size: 43
23301 GATCTAAGAT
* * *
23311 GATTTGGCATCTCC-GT-ATTATCAGGGAACAATTTGAAAACAACA
1 GATTTGGCATC-CCTGTGCTTAT-AGGGAACAA-TTGAAGATAACA
* **
23355 GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGTA
1 GATTTGGCATCCCTGTGCTTATAGGGAACA-ATTGAAGATAACA
** * * * * * **
23399 GAACTGACATTCTTGTGCTTA-CGGTGAAGCAGATCGAAGATTTCA
1 GATTTGGCATCCCTGTGCTTATAGG-GAA-CA-ATTGAAGATAACA
*
23444 GCA--TGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAACA
1 G-ATTTGGCATCCCTGTGCTTATAGGGAACAA-TTGAAGATAACA
* * * *
23487 GATTTGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGACAGCA
1 GATTTGGCATCCCTGTGCTTATAGGGAACAA-TTGAAGATAACA
* * *
23531 GATTTGGCATCCCTGTGTTTATGGGGAACAGATCGAAGA
1 GATTTGGCATCCCTGTGCTTATAGGGAACA-ATTGAAGA
23570 AGCAGATCAA
Statistics
Matches: 173, Mismatches: 31, Indels: 22
0.77 0.14 0.10
Matches are distributed among these distances:
42 2 0.01
43 16 0.09
44 132 0.76
45 22 0.13
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (43 bp):
GATTTGGCATCCCTGTGCTTATAGGGAACAATTGAAGATAACA
Found at i:24059 original size:28 final size:30
Alignment explanation
Indices: 24018--24098 Score: 112
Period size: 28 Copynumber: 2.7 Consensus size: 30
24008 GAGAGAAGAG
24018 ATTTTTTTTTAGATTCAAGAAGAGA-TTTT
1 ATTTTTTTTTAGATTCAAGAAGAGATTTTT
* *
24047 -TTTTTTTTTAGATTCAAGAGGGGATTTTT
1 ATTTTTTTTTAGATTCAAGAAGAGATTTTT
24076 ATCTTTTTTTTGAGATTCAAGAA
1 AT-TTTTTTTT-AGATTCAAGAA
24099 CAAAAAATCA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 22 0.49
29 4 0.09
30 1 0.02
31 8 0.18
32 10 0.22
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (30 bp):
ATTTTTTTTTAGATTCAAGAAGAGATTTTT
Found at i:25817 original size:26 final size:26
Alignment explanation
Indices: 25787--25837 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25777 CACCAATGAA
*
25787 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
25813 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
25838 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:25848 original size:102 final size:102
Alignment explanation
Indices: 25653--25914 Score: 449
Period size: 102 Copynumber: 2.6 Consensus size: 102
25643 TAACCGTTAT
* *
25653 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
25718 AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
25755 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
25818 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
*
25857 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACATAGCAACCCC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCC
25915 CTTTCACATT
Statistics
Matches: 153, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
100 28 0.18
101 27 0.18
102 73 0.48
103 25 0.16
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
Found at i:25918 original size:77 final size:76
Alignment explanation
Indices: 25812--25990 Score: 331
Period size: 77 Copynumber: 2.3 Consensus size: 76
25802 TAGCAACCCC
*
25812 TCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATCACGCACTTAGC
1 TCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATCACGCACATAGC
25877 ACCACCAATGAA
66 ACCACCAAT-AA
25889 TCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATCACGCACATAGC
1 TCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATCACGCACATAGC
25954 ACCACCAATAA
66 ACCACCAATAA
*
25965 TCGGGGAATCAGCACACAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
25991 TTTATATACA
Statistics
Matches: 100, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
76 27 0.27
77 73 0.73
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (76 bp):
TCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATCACGCACATAGC
ACCACCAATAA
Found at i:26347 original size:29 final size:29
Alignment explanation
Indices: 26314--26377 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
26304 TAATCCACCA
26314 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
26343 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
26373 CCCAA
1 CCCAA
26378 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:26351 original size:30 final size:30
Alignment explanation
Indices: 26321--26377 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
26311 CCACCCAACT
26321 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
26350 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
26378 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:33466 original size:26 final size:26
Alignment explanation
Indices: 33436--33486 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
33426 CACCAATGAA
*
33436 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
33462 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
33487 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:33519 original size:102 final size:103
Alignment explanation
Indices: 33200--33562 Score: 605
Period size: 101 Copynumber: 3.6 Consensus size: 103
33190 TAACCGTTAT
* *
33200 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGAT-ACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
33265 AATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
33302 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
33366 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
33405 TGGTGGATACGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTC-GGGGA
1 TGGTGGATACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
33468 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
33506 TGGTGGATCACGCACATAGCACCACC-AT-AATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
33563 TTATATACAA
Statistics
Matches: 251, Mismatches: 5, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
100 2 0.01
101 133 0.53
102 94 0.37
103 22 0.09
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:33918 original size:29 final size:29
Alignment explanation
Indices: 33885--33948 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
33875 TAATCCACCA
33885 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
33914 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
33944 CCCAA
1 CCCAA
33949 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:33922 original size:30 final size:30
Alignment explanation
Indices: 33892--33948 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33882 CCACCCAACT
33892 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
33921 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
33949 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:34999 original size:3 final size:3
Alignment explanation
Indices: 34991--35023 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
34981 TGTATTTCTA
34991 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35024 ATGGTAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:35149 original size:16 final size:15
Alignment explanation
Indices: 35118--35160 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
35108 CCTTCATTCC
*
35118 ATTATTATTATTACT
1 ATTATTATTTTTACT
35133 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
35149 ATCATTATTTTT
1 ATTATTATTTTT
35161 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:35283 original size:16 final size:16
Alignment explanation
Indices: 35262--35293 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35252 CTATTGTTAC
35262 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
35278 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
35294 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:35301 original size:3 final size:3
Alignment explanation
Indices: 35293--35412 Score: 61
Period size: 3 Copynumber: 39.7 Consensus size: 3
35283 TTCTCATCAC
* * *
35293 TAT TAT TAT AATT TAT CAT TAT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * *
35339 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT T-T TCAT TAT AACT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT T-AT TAT TA-T
* *
35385 TAA TA- GAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
35413 GCACTACTTT
Statistics
Matches: 90, Mismatches: 16, Indels: 22
0.70 0.12 0.17
Matches are distributed among these distances:
2 9 0.10
3 68 0.76
4 13 0.14
ACGTcount: A:0.34, C:0.08, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:35456 original size:12 final size:13
Alignment explanation
Indices: 35421--35458 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
35411 TAGCACTACT
35421 TTTATTACTATTA
1 TTTATTACTATTA
*
35434 TTTAATA-TATTA
1 TTTATTACTATTA
35446 TTT-TTACTATTA
1 TTTATTACTATTA
35458 T
1 T
35459 CGTCATATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 14 0.64
13 6 0.27
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATTACTATTA
Found at i:36781 original size:10 final size:10
Alignment explanation
Indices: 36753--36782 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
36743 CTAACATTCA
*
36753 CTCTCTCTCT
1 CTCTCTCTTT
36763 CTCTCTCTTT
1 CTCTCTCTTT
36773 CTCTCTCTTT
1 CTCTCTCTTT
36783 TTACTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (10 bp):
CTCTCTCTTT
Found at i:39387 original size:21 final size:22
Alignment explanation
Indices: 39342--39387 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
39332 TTCTTTGGGA
*
39342 TTGAATTCTTTTTATTTAAGAT
1 TTGAATTCTTTTTATTCAAGAT
* *
39364 TTGAATTTTTTTTCTTCAAG-T
1 TTGAATTCTTTTTATTCAAGAT
39385 TTG
1 TTG
39388 TCCCTGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.61
Consensus pattern (22 bp):
TTGAATTCTTTTTATTCAAGAT
Found at i:50828 original size:206 final size:205
Alignment explanation
Indices: 50253--51553 Score: 2066
Period size: 205 Copynumber: 6.4 Consensus size: 205
50243 CAGATGTTAT
*
50253 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATA-CT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
50317 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
*
50382 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGTAGACACATAGCAGATCTCACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
50447 AGATGATTTC
196 AGATGATTTC
* *
50457 ACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
50522 GATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATAATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* * *
50587 AGAATAAATCGAAGTTTGGCATATTCACTTTGATGGATAGCAGACACATAGCAGATCTCACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
50652 AGATGATTTC
196 AGATGATTTC
*
50662 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAAAACATAGC
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCG-AAGACATAGC
* * *
50727 TAATTTGGCTTTCACGTGATTACGATGAATCAAATCTAAGATGATTTGTCGTCTCTATATTGTCA
65 TGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCA
* *
50792 GAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTT
130 GAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTT
50857 CAGATGATTTC
195 CAGATGATTTC
*
50868 ACTGAAGCAGATCCAAGATAGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
50933 GATTTGGCTTTCACATGATTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* *
50998 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAACAGACACATAGCAGATCTCGCCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
*
51063 AGATTATTTC
196 AGATGATTTC
51073 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
51138 GATTTGGCTTTCAC--G--T--GA--AAGCAAATCTAAGATGATTTGTGGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* * * ** * * *
51195 AGAACAAATCGAAGTCTAGCATCTCCACTTCAATGGAGAGCAGATACATAGCATATCTGACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
*
51260 AGATG-TTTAT
196 AGATGATTT-C
* * *
51270 ACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGC
1 ACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGC
*
51335 TGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGGTCTCTGTATTGTCA
65 TGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCA
* * ** * *
51400 GAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAGCAGATCTAACCTT
130 GAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTT
*
51465 CAGATG-TTTAT
195 CAGATGATTT-C
* *
51476 ACTGAAGCAAGATCCAAGATGATTTGGCATCCTTATGTTTACAAGGAACAAATCGAAGACATAGC
1 ACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGC
* *
51541 AGATTTGACTTTC
65 TGATTTGGCTTTC
51554 GGATGTTCCC
Statistics
Matches: 1029, Mismatches: 56, Indels: 22
0.93 0.05 0.02
Matches are distributed among these distances:
196 3 0.00
197 104 0.10
198 68 0.07
199 2 0.00
200 1 0.00
201 1 0.00
202 1 0.00
203 1 0.00
204 63 0.06
205 408 0.40
206 377 0.37
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (205 bp):
ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
AGATGATTTC
Found at i:51013 original size:411 final size:408
Alignment explanation
Indices: 50253--51553 Score: 2032
Period size: 411 Copynumber: 3.2 Consensus size: 408
50243 CAGATGTTAT
*
50253 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATA-CT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
50317 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 AATTTGGCTTTCACGTGATTACGATGAA-CAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* *
50382 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGTAGACACATAGCAGATCTCACCTTC
130 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTTC
* *
50447 AGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGTTTACAAGGAGCAAATCGA
195 AGATGATTTCACTGAAGCAGATCCAAGAT-GTTTGGCATCCTTGTGTTTACAAGGAACAAATCGA
* *
50512 AGACATAGCTGATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATAATTTGTCGTCTCT
259 AGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCT
* * *
50577 GTATTGTCAGAGAATAAATCGAAGTTTGGCATATTCACTTTGATGGATAGCAGACACATAGCAGA
324 GTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGA
50642 TCTCACCTTCAGATGATTTC
389 TCTCACCTTCAGATGATTTC
*
50662 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAAAACATAGC
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCG-AAGACATAGC
*
50727 TAATTTGGCTTTCACGTGATTACGATGAATCAAATCTAAGATGATTTGTCGTCTCTATATTGTCA
65 TAATTTGGCTTTCACGTGATTACGATGAA-CAAATCTAAGATGATTTGTCGTCTCTGTATTGTCA
*
50792 GAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTT
129 GAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTT
50857 CAGATGATTTCACTGAAGCAGATCCAAGATAGTTTGGCATCCTTGTGTTTACAAGGAACAAATCG
194 CAGATGATTTCACTGAAGCAGATCCAAGAT-GTTTGGCATCCTTGTGTTTACAAGGAACAAATCG
* *
50922 AAGACATAGCTGATTTGGCTTTCACATGATTACGATGAAGCAAATCTAAGATGATTTGTCATCTC
258 AAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTC
*
50987 TGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAACAGACACATAGCAG
323 TGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAG
* *
51052 ATCTCGCCTTCAGATTATTTC
388 ATCTCACCTTCAGATGATTTC
51073 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
51138 GATTTGGCTTTCACGTGA--A--A-G--CAAATCTAAGATGATTTGTGGTCTCTGTATTGTCAGA
66 AATTTGGCTTTCACGTGATTACGATGAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * ** * *
51196 GAACAAATCGAAGTCTAGCATCTCCACTTCAATGGAGAGCAGATACATAGCATATCT-GACCTTC
131 GAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCG-CCTTC
* * *
51260 AGATG-TTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTATAAGGAACAAATC
195 AGATGATTT-CACTGAAGC-AGATCCAAGATG-TTTGGCATCCTTGTGTTTACAAGGAACAAATC
*
51324 GAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGGTCT
257 GAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCT
* * ** *
51389 CTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAGCA
322 CTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCA
* *
51454 GATCTAACCTTCAGATG-TTTAT
387 GATCTCACCTTCAGATGATTT-C
* *
51476 ACTGAAGCAAGATCCAAGATGATTTGGCATCCTTATGTTTACAAGGAACAAATCGAAGACATAGC
1 ACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGC
*
51541 -AGATTTGACTTTC
65 TA-ATTTGGCTTTC
51554 GGATGTTCCC
Statistics
Matches: 830, Mismatches: 53, Indels: 23
0.92 0.06 0.03
Matches are distributed among these distances:
401 4 0.00
402 106 0.13
403 184 0.22
404 64 0.08
405 1 0.00
406 1 0.00
408 1 0.00
409 53 0.06
410 34 0.04
411 382 0.46
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (408 bp):
ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
AATTTGGCTTTCACGTGATTACGATGAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTTCA
GATGATTTCACTGAAGCAGATCCAAGATGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAG
ACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGT
ATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATC
TCACCTTCAGATGATTTC
Found at i:51927 original size:44 final size:44
Alignment explanation
Indices: 51670--51934 Score: 192
Period size: 44 Copynumber: 6.1 Consensus size: 44
51660 GATCTAAGAT
* * * *
51670 GATTTGGCATCTCC-GT-ATTATCAGGGAACA-AGTTGAAAACAACA
1 GATTTGGCATC-CCTGTGCTTAT-AGGGAACAGA-TCGAAGACAGCA
* *
51714 GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGTA
1 GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGACAGCA
** * * *
51758 GAACTGACATTCCTGTGCTTA-CGGTGAAGCAGATCGAAGATTCAGC-
1 GATTTGGCATCCCTGTGCTTATAGG-GAA-CAGATCGAAGA--CAGCA
* * * *
51804 -A--TGGAATCCCTGTGCTTATAGGGAACA-AGTTGAAGATAACA
1 GATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGACAGCA
* * *
51845 GATTTGGCATCCCTGTGTTTATAAGGAACA-AGTTGAAGACAGCA
1 GATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGACAGCA
* *
51889 GATTTGGCATCCCTGTGTTTATGGGGAACAGATCGAAGA-AGCA
1 GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGACAGCA
51932 GAT
1 GAT
51935 CAAGAACTCA
Statistics
Matches: 179, Mismatches: 28, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
40 2 0.01
41 1 0.01
42 9 0.05
43 28 0.16
44 119 0.66
45 18 0.10
47 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (44 bp):
GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGACAGCA
Done.