Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008164.1 Hibiscus syriacus cultivar Beakdansim tig00110744_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: 2577652
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 11
Found at i:215233 original size:42 final size:42
Alignment explanation
Indices: 215187--215267 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
215177 TATTATCCCC
*
215187 TTGCGGCGTTTGAGGTATAAACGCCACTAATTTACCACTCTA
1 TTGCGGCGTTTGAGGTATAAACGCCACTAAATTACCACTCTA
* * *
215229 TTGCGGCGTTTGTGGTATAAACGTCGCTAAATTACCACT
1 TTGCGGCGTTTGAGGTATAAACGCCACTAAATTACCACT
215268 ATAATGCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (42 bp):
TTGCGGCGTTTGAGGTATAAACGCCACTAAATTACCACTCTA
Found at i:215283 original size:42 final size:42
Alignment explanation
Indices: 215195--215283 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
215185 CCTTGCGGCG
* * * * * *
215195 TTTGAGGTATAAACGCCACTAATTTACCACTCTATTGCGGCG
1 TTTGTGGTATAAACGCCACTAAATTACCACTATAATGCAGCA
* * *
215237 TTTGTGGTATAAACGTCGCTAAATTACCACTATAATGCAGTA
1 TTTGTGGTATAAACGCCACTAAATTACCACTATAATGCAGCA
215279 TTTGT
1 TTTGT
215284 CTAAAACGCC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (42 bp):
TTTGTGGTATAAACGCCACTAAATTACCACTATAATGCAGCA
Found at i:218942 original size:46 final size:46
Alignment explanation
Indices: 218890--219042 Score: 218
Period size: 46 Copynumber: 3.3 Consensus size: 46
218880 ACCATTAATA
** * *
218890 CACTGTTATGTATTTTCATTTGTGGCATCCTTTAATGTCAATTATG
1 CACTGTTATACATTTTCATTTATGGCATCCTTTAATGCCAATTATG
218936 CACTGTTATACATTTTCATTTATGGCATCCTTTCAA-GCCAATTATG
1 CACTGTTATACATTTTCATTTATGGCATCCTTT-AATGCCAATTATG
* * *
218982 CATTGTTATACATTTTCATTTATGGCATCCTTTCATGCCAGTTATG
1 CACTGTTATACATTTTCATTTATGGCATCCTTTAATGCCAATTATG
*
219028 CATTGTTATACATTT
1 CACTGTTATACATTT
219043 AGTCCTTCGT
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
45 1 0.01
46 95 0.97
47 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (46 bp):
CACTGTTATACATTTTCATTTATGGCATCCTTTAATGCCAATTATG
Found at i:219253 original size:81 final size:81
Alignment explanation
Indices: 219060--220105 Score: 1389
Period size: 81 Copynumber: 12.9 Consensus size: 81
219050 CGTCCAGAGC
* * * * * * * **
219060 ATTTAATCTATCAGCTAACTGGCATGATTAACACCTTTAT-TCCAAATGCACAGTTAGGCTTTTA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT-CAAATGCACAGCTAGGCCATT-
*
219124 AATCTTTTA-TCCAAAGGC
64 AATCTTTTACT-CAAAGGT
* * * * * * * **
219142 ATTTAATCTTTCATCTAACTGGTATGATTGACACCTTTCTGCCAAATGCACAACCATGCTTTTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
**
219207 TCTTTTACTCAAAGAC
66 TCTTTTACTCAAAGGT
* ** * * * * *
219223 ATTTAACCTTTCATATAGTTCGAATAATTGACACCTTTCTTTCAAATACACAACTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
*
219288 TATTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* *
219304 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACAACTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
*
219369 TATTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * *
219385 ATTTAACCTTTCATCTGACTGGCAT-ATTGACACATTTTTTTCAAATGCACAGCTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
* *
219449 TCATTTACTCAAATGT
66 TCTTTTACTCAAAGGT
* * * * *
219465 ATTTAACCTTTCATCTAAGTGGCATAATTGACACATTTATGTCAAATGCACAACTAGGCCTTTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
* *
219530 TCATTTACTCAAATGT
66 TCTTTTACTCAAAGGT
* * * *
219546 ATTTAACCTTTCATCTAATTAGCATAATTGACACATTTCTATCAAATGCACAGCTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
*
219611 TATTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * * * * * *
219627 ATTTAACCTTTCAACTAACTGGAATAATTGACTCATTTCTGTCAAATGCACATCAAGGTCAATAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
219692 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * *
219708 ATTTAACCTTTCATCTAACTGGCATAATAGACACCTTTATGTCAAATGCACGGCTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
*
219773 TCTTTTACTCAAAGAT
66 TCTTTTACTCAAAGGT
* *
219789 ATTTAACCTTTCATCTAACTGGCATATTTGACACCTTTCTGTCAAATGCACATCTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
219854 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* *
219870 ATTTAACCTTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGCACAGCTATGG-CATTA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA-GGCCATTA
219934 ATCTTTTACTCAAAGGT
65 ATCTTTTACTCAAAGGT
* *
219951 ATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTATCAAATGCACAGCTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
*
220016 TCTTTTACTCAAATGT
66 TCTTTTACTCAAAGGT
*
220032 ATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGTCAAATGCACAGCTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
220097 TCTTTTACT
66 TCTTTTACT
220106 TAAAAAATTT
Statistics
Matches: 860, Mismatches: 99, Indels: 11
0.89 0.10 0.01
Matches are distributed among these distances:
80 73 0.08
81 732 0.85
82 55 0.06
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (81 bp):
ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
TCTTTTACTCAAAGGT
Found at i:225577 original size:46 final size:46
Alignment explanation
Indices: 225486--225626 Score: 212
Period size: 46 Copynumber: 3.1 Consensus size: 46
225476 CACCTTATGT
* * * * *
225486 ATTTTCATTTGTGGCAT-TTTTAATGTCAATTATGCACTGTTATAC
1 ATTTTCATTTATGGCATCCTTTCATGCCAATTATGCATTGTTATAC
*
225531 ATTTTCATTTATGGCATCCTTTCATGCCACTTATGCATTGTTATAC
1 ATTTTCATTTATGGCATCCTTTCATGCCAATTATGCATTGTTATAC
*
225577 ATTTTCATTTATGACATCCTTTCATGCCAATTATGCATTGTTATAC
1 ATTTTCATTTATGGCATCCTTTCATGCCAATTATGCATTGTTATAC
225623 ATTT
1 ATTT
225627 AGTCATTCGT
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 16 0.18
46 71 0.82
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.48
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCTTTCATGCCAATTATGCATTGTTATAC
Found at i:225730 original size:82 final size:80
Alignment explanation
Indices: 225642--226558 Score: 599
Period size: 81 Copynumber: 11.5 Consensus size: 80
225632 TTCGTCCAGA
** **
225642 GCATTTAACCTTTCATCTAACTTTCATGATTGACACCATTATGCCAAATGCACATTTAGGCTTTT
1 GCATTTAACCTTTCATCTAACTGGCATGATTGACACC-TTATGCCAAATGCACAACTAGGCTTTT
225707 AAATCTTTTA-TCCAAAG
65 -AATCTTTTACT-CAAAG
* * *
225724 GCATTTAACTTTTCATCTAACTGGCATGATTGACACCTTTTGTCAAATGCACAACTAGGCTTTTA
1 GCATTTAACCTTTCATCTAACTGGCATGATTGACACCTTATGCCAAATGCACAACTAGGCTTTTA
*
225789 ATCTTTTACTGAAAG
66 ATCTTTTACTCAAAG
* * * * * * *
225804 GCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATCCACAGCTATGCCATT
1 GCATTTAACCTTTCATCTAACTGGCATGATTGACAC-CTTATGCCAAATGCACAACTA-GGC-TT
225869 TT--TCTTTTACTCAAAG
63 TTAATCTTTTACTCAAAG
** * * * **
225885 GTGTTTAACCTTTCATCTAACTCGCATAATTAACACCTT-T--C---T------CTAGGCCATTA
1 GCATTTAACCTTTCATCTAACTGGCATGATTGACACCTTATGCCAAATGCACAACTAGGCTTTTA
*
225938 ATCTTTTACTTAAAG
66 ATCTTTTACTCAAAG
** * * * * * * **
225953 GTTTTTAACCTTTCATCTAACTAGCATAATTGAAACCTTTCTGTCAAATGCACAACTAGACCATT
1 GCATTTAACCTTTCATCTAACTGGCATGATTGACACC-TTATGCCAAATGCACAACTAGGCTTTT
*
226018 AATCTTTTACTCAAAT
65 AATCTTTTACTCAAAG
* * * * * * * ** **
226034 GTATTTAACCTTTTATCTTACTGGCATAATTGACACATTTATGTCAAATACACAGGTAGGCCATT
1 GCATTTAACCTTTCATCTAACTGGCATGATTGACAC-CTTATGCCAAATGCACAACTAGGCTTTT
*
226099 AATATTTTACTCAAAG
65 AATCTTTTACTCAAAG
* * * * ** * ** *
226115 GTATTTAACCTTTCATCTAACTGGCATAATTGAAACCTTTCTTTCAAATGCACAACTATGCCATC
1 GCATTTAACCTTTCATCTAACTGGCATGATTGACACC-TTATGCCAAATGCACAACTAGGCTTTT
*
226180 AATATTTTACTCAAAG
65 AATCTTTTACTCAAAG
** * * * ** * * * **
226196 ATATTTAACCTTTCATTTAACTGGCATAATTGACACCTTCCTATCAAATGAATAGCTAGGCCATT
1 GCATTTAACCTTTCATCTAACTGGCATGATTGACACCTT-ATGCCAAATGCACAACTAGGCTTTT
* *
226261 AATCTATTACTCAAAA
65 AATCTTTTACTCAAAG
* * * * ** * ** * * ** **
226277 GTATTTAACCTTTCATCTAACTAGTATAATTGACATATTTCTTTCAAATTCACAGCTATACCATT
1 GCATTTAACCTTTCATCTAACTGGCATGATTGACA-CCTTATGCCAAATGCACAACTAGGCTTTT
*
226342 AATCTTTTACTGAAAG
65 AATCTTTTACTCAAAG
* * * * * * **
226358 GTACTTATCCTTTCATCTAACTGTCATAATTGACACCTT-TCAGTCAAATGCACAACTAGGCCAT
1 GCATTTAACCTTTCATCTAACTGGCATGATTGACACCTTAT--GCCAAATGCACAACTAGGCTTT
226422 TAATCTTTTACTCAAAG
64 TAATCTTTTACTCAAAG
* * * * ** * ** * * *
226439 GTATTTAACCTTTCATCTAACTGACCTAATTGACAAATTTCTATCAAATGCGCAGCTAGG-TCAT
1 GCATTTAACCTTTCATCTAACTGGCATGATTGAC-ACCTTATGCCAAATGCACAACTAGGCT-TT
226503 TAATCTTTTACTCAAAG
64 TAATCTTTTACTCAAAG
* *
226520 GTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT
1 GCATTTAACCTTTCATCTAACTGGCATGATTGACACCTT
226559 TCTAAAAAAA
Statistics
Matches: 697, Mismatches: 110, Indels: 58
0.81 0.13 0.07
Matches are distributed among these distances:
66 2 0.00
67 2 0.00
68 49 0.07
69 2 0.00
70 1 0.00
72 1 0.00
74 1 0.00
75 1 0.00
77 1 0.00
79 2 0.00
80 56 0.08
81 533 0.76
82 41 0.06
83 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (80 bp):
GCATTTAACCTTTCATCTAACTGGCATGATTGACACCTTATGCCAAATGCACAACTAGGCTTTTA
ATCTTTTACTCAAAG
Found at i:226079 original size:81 final size:81
Alignment explanation
Indices: 225927--226597 Score: 858
Period size: 81 Copynumber: 8.3 Consensus size: 81
225917 ACACCTTTCT
* * * *
225927 CTAGGCCATTAATCTTTTACTTAAAGGTTTTTAACCTTTCATCTAACTAGCATAATTGAAACCTT
1 CTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT
* *
225992 TCTGTCAAATGCACAA
66 TCTATCAAATGCACAG
* * * * *
226008 CTAGACCATTAATCTTTTACTCAAATGTATTTAACCTTTTATCTTACTGGCATAATTGACACATT
1 CTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT
* * *
226073 TATGTCAAATACACAG
66 TCTATCAAATGCACAG
* * *
226089 GTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAAACCTT
1 CTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT
* *
226154 TCTTTCAAATGCACAA
66 TCTATCAAATGCACAG
* * * * *
226170 CTATGCCATCAATATTTTACTCAAAGATATTTAACCTTTCATTTAACTGGCATAATTGACACCTT
1 CTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT
* * *
226235 CCTATCAAATGAATAG
66 TCTATCAAATGCACAG
* * * * **
226251 CTAGGCCATTAATCTATTACTCAAAAGTATTTAACCTTTCATCTAACTAGTATAATTGACATATT
1 CTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT
* *
226316 TCTTTCAAATTCACAG
66 TCTATCAAATGCACAG
** * * * *
226332 CTATACCATTAATCTTTTACTGAAAGGTACTTATCCTTTCATCTAACTGTCATAATTGACACCTT
1 CTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT
*
226397 TC-AGTCAAATGCACAA
66 TCTA-TCAAATGCACAG
* * **
226413 CTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACCTAATTGACAAATT
1 CTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT
*
226478 TCTATCAAATGCGCAG
66 TCTATCAAATGCACAG
*
226494 CTAGGTCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT
1 CTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT
**
226559 TCTAAAAAAAATGCACAG
66 TCT--ATCAAATGCACAG
226577 CTAGGCCATTAATCTTTTACT
1 CTAGGCCATTAATCTTTTACT
226598 AAAAACATTT
Statistics
Matches: 500, Mismatches: 86, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
81 469 0.94
82 1 0.00
83 30 0.06
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (81 bp):
CTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT
TCTATCAAATGCACAG
Found at i:235220 original size:12 final size:12
Alignment explanation
Indices: 235203--235233 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
235193 CTGAACATAC
235203 AACTACTGATTT
1 AACTACTGATTT
235215 AACTACTGATTT
1 AACTACTGATTT
235227 AACTACT
1 AACTACT
235234 AAGTAGGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (12 bp):
AACTACTGATTT
Found at i:237076 original size:22 final size:22
Alignment explanation
Indices: 237034--237077 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
237024 ATGTTTGAAT
* *
237034 AAATATTATTTTATATATATAA
1 AAATAATATTATATATATATAA
237056 AAATAATATTATACTATTATAT
1 AAATAATATTATA-TA-TATAT
237078 CATCGATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 2 0.11
24 5 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATATTATATATATATAA
Found at i:237147 original size:22 final size:22
Alignment explanation
Indices: 237122--237177 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 22
237112 AAAATATATA
237122 TATTTATATTGTAAAAATAAGT
1 TATTTATATTGTAAAAATAAGT
*
237144 TATTTATCTAGTGTAAAAATAAGT
1 TATTTA--TATTGTAAAAATAAGT
*
237168 TTTTTATATT
1 TATTTATATT
237178 TAATTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 9 0.31
24 20 0.69
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (22 bp):
TATTTATATTGTAAAAATAAGT
Found at i:237232 original size:17 final size:18
Alignment explanation
Indices: 237210--237249 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
237200 CATGTACAAA
237210 AAATTAA-AATAATTTTT
1 AAATTAATAATAATTTTT
237227 AAATTAATTTAATAATTTTT
1 AAATTAA--TAATAATTTTT
237247 AAA
1 AAA
237250 ATTTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
20 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTAATAATAATTTTT
Found at i:237246 original size:21 final size:20
Alignment explanation
Indices: 237217--237257 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
237207 AAAAAATTAA
*
237217 AATAATTTTTAAATTAATTT
1 AATAATTTTAAAATTAATTT
*
237237 AATAATTTTTAAAATTTATTT
1 AATAA-TTTTAAAATTAATTT
237258 TAGTAGTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATAATTTTAAAATTAATTT
Found at i:243172 original size:79 final size:75
Alignment explanation
Indices: 243020--243172 Score: 225
Period size: 79 Copynumber: 2.0 Consensus size: 75
243010 TGAGTCTCAC
* * * *
243020 TGTCTGGTTTGTTTTCATATATCTTTTATCTGGCTAAGTACTTGTCATTTCTATCATGATATACA
1 TGTCTGGTTTGTTTTCATAAACCTTTTATCTGGCTAAGTACTTATCATTCCTATCATGATATACA
243085 CAGTTTCGGG
66 CAGTTTCGGG
243095 TGTCTGGTTTGTTTTCATAAACCTTTTATCTGGCTAAGTAAGTACTTATCATTCCTATCATGATA
1 TGTCTGGTTTGTTTTCATAAACCTTTTATCTGGC----TAAGTACTTATCATTCCTATCATGATA
*
243160 TATACAGTTTCGG
62 TACACAGTTTCGG
243173 CTCCGGACAG
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
75 32 0.46
79 37 0.54
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.45
Consensus pattern (75 bp):
TGTCTGGTTTGTTTTCATAAACCTTTTATCTGGCTAAGTACTTATCATTCCTATCATGATATACA
CAGTTTCGGG
Found at i:245080 original size:69 final size:69
Alignment explanation
Indices: 244938--245067 Score: 181
Period size: 69 Copynumber: 1.9 Consensus size: 69
244928 TACAGGTTCA
* * * * *
244938 AGTGAATAACAATTCGCAGTTGATGAGACAACAGATTCGAGCATCTGCTCCTTATACAAGTCCAG
1 AGTGAACAACAATCCGCAGTTGATGAGACAACAGATTCCAGCATCAGCTCCATATACAAGTCCAG
245003 CACC
66 CACC
* *
245007 AGTGAACAACAATCCGTAGTTGATGAGAC-ACTGGATTCCAGCATCAGCTCCATATACAAGT
1 AGTGAACAACAATCCGCAGTTGATGAGACAAC-AGATTCCAGCATCAGCTCCATATACAAGT
245068 TGAGCACTAG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
68 2 0.04
69 51 0.96
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (69 bp):
AGTGAACAACAATCCGCAGTTGATGAGACAACAGATTCCAGCATCAGCTCCATATACAAGTCCAG
CACC
Found at i:245676 original size:13 final size:13
Alignment explanation
Indices: 245657--245692 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
245647 TATATATAAT
*
245657 ATATTATTATTGT
1 ATATTATTATTGC
*
245670 TTATTATTATTGC
1 ATATTATTATTGC
245683 ATATTATTAT
1 ATATTATTAT
245693 ATAATATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (13 bp):
ATATTATTATTGC
Found at i:245732 original size:13 final size:13
Alignment explanation
Indices: 245655--245732 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 13
245645 AATATATATA
245655 ATATATTATTATT
1 ATATATTATTATT
* *
245668 GTTTATTATTATT
1 ATATATTATTATT
**
245681 GCATATTATTA-T
1 ATATATTATTATT
245693 ATAATATTTATTATACGT
1 AT-ATA-TTATTAT---T
245711 ATTACTATTATTATT
1 A-TA-TATTATTATT
245726 ATATATT
1 ATATATT
245733 TTGCTTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
12 1 0.02
13 27 0.53
14 8 0.16
15 2 0.04
18 10 0.20
19 3 0.06
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (13 bp):
ATATATTATTATT
Found at i:247556 original size:167 final size:166
Alignment explanation
Indices: 247269--247602 Score: 478
Period size: 167 Copynumber: 2.0 Consensus size: 166
247259 CACATATCTG
* *
247269 ATAAGACACAGATCCAATAATGGGAAAAATCAAGGTGTCCGATCTACCTCATTTGAAATGATCGG
1 ATAAGACACAGATCCAATAATGGGAAAAATCAAGGTATCCGATCTACCTCATTCGAAATGATCGG
*
247334 TGGCAACCCCATCATTTAATCCAAGTCGAAACGTGAATCCGAGACTACCCGAAGGACTGTTGC-A
66 TGGCAACCCCATCATTTAATCCAAGTCGAAACG-GAATCCGAGACTACCCGAAGGACTGTTACGA
*
247398 TCGCTTGGCGACTCCGCTGGGGACTTTGAGGTCAGGC
130 TAGCTTGGCGACTCCGCTGGGGACTTTGAGGTCAGGC
* * *
247435 ATAAGACGCAGATCCAGTAAAT-GGACGAAATCAAGGTATCCGATCTACCTCATTCGAAATGATC
1 ATAAGACACAGATCCAAT-AATGGGA-AAAATCAAGGTATCCGATCTACCTCATTCGAAATGATC
* * * *
247499 GGTGGCAACCCCATTATTTAATCCAAGTCAGAATAC-GAA-CCTGGGACTACTCGAAGGATTGTT
64 GGTGGCAACCCCATCATTTAATCCAAGTC-GAA-ACGGAATCC-GAGACTACCCGAAGGACTGTT
*
247562 ACGATAGCTTGGCGACTCCGTTGGGGACTTTGAGGTCAGGC
126 ACGATAGCTTGGCGACTCCGCTGGGGACTTTGAGGTCAGGC
247603 CAAAATCGAT
Statistics
Matches: 150, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
166 21 0.14
167 88 0.59
168 39 0.26
169 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (166 bp):
ATAAGACACAGATCCAATAATGGGAAAAATCAAGGTATCCGATCTACCTCATTCGAAATGATCGG
TGGCAACCCCATCATTTAATCCAAGTCGAAACGGAATCCGAGACTACCCGAAGGACTGTTACGAT
AGCTTGGCGACTCCGCTGGGGACTTTGAGGTCAGGC
Found at i:248376 original size:15 final size:15
Alignment explanation
Indices: 248358--248545 Score: 54
Period size: 15 Copynumber: 12.4 Consensus size: 15
248348 GAATAAAAGT
248358 AATAAAAATAAAGAA
1 AATAAAAATAAAGAA
* *
248373 AATAAAAAGAAATCAA
1 AATAAAAATAAA-GAA
* *
248389 AGTAAAAATAAAG-G
1 AATAAAAATAAAGAA
*
248403 AA-GAAAATGAACTA-AA
1 AATAAAAAT-AA--AGAA
* *
248419 AATAATAATAATGTACA
1 AATAAAAATAAAG-A-A
* *
248436 TATAATAAATAAA-TA
1 AATAA-AAATAAAGAA
248451 AAT-AAAA-AAAGAA
1 AATAAAAATAAAGAA
248464 TAA-AAAAATAAAG-A
1 -AATAAAAATAAAGAA
* *
248478 GATAAAAATAAATATA
1 AATAAAAATAAAGA-A
*
248494 AA-GAAAATAATAGTAA
1 AATAAAAATAA-AG-AA
* * *
248510 GATAAAGATAAAGGA
1 AATAAAAATAAAGAA
*
248525 AATAAATAA-AAATAA
1 AATAAA-AATAAAGAA
248540 AATAAA
1 AATAAA
248546 GAAAAGGTCA
Statistics
Matches: 121, Mismatches: 31, Indels: 42
0.62 0.16 0.22
Matches are distributed among these distances:
12 3 0.02
13 10 0.08
14 20 0.17
15 41 0.34
16 26 0.21
17 16 0.13
18 5 0.04
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (15 bp):
AATAAAAATAAAGAA
Found at i:248649 original size:10 final size:10
Alignment explanation
Indices: 248634--248707 Score: 75
Period size: 10 Copynumber: 7.6 Consensus size: 10
248624 AAAAGGGGGT
248634 CATATACATA
1 CATATACATA
248644 CATATACATATA
1 CATATAC--ATA
248656 CATATACATA
1 CATATACATA
248666 C--AT--ATA
1 CATATACATA
248672 CATATACATA
1 CATATACATA
248682 CATATACATA
1 CATATACATA
* *
248692 TATATATATA
1 CATATACATA
*
248702 TATATA
1 CATATA
248708 TATAACATGG
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
6 4 0.07
8 4 0.07
10 38 0.68
12 10 0.18
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (10 bp):
CATATACATA
Found at i:248650 original size:6 final size:6
Alignment explanation
Indices: 248641--248711 Score: 87
Period size: 6 Copynumber: 12.5 Consensus size: 6
248631 GGTCATATAC
248641 ATACAT ATACAT ATACAT ATAC-- ATACAT ATACAT ATAC-- ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
* * *
248685 ATACAT ATATAT ATATAT ATATAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATA
248712 ACATGGTGTC
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
4 8 0.13
6 52 0.87
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.37
Consensus pattern (6 bp):
ATACAT
Found at i:248710 original size:16 final size:16
Alignment explanation
Indices: 248634--248715 Score: 112
Period size: 16 Copynumber: 5.2 Consensus size: 16
248624 AAAAGGGGGT
*
248634 CATATACATACATATA
1 CATATACATATATATA
*
248650 CATATACATATACATA
1 CATATACATATATATA
*
248666 CATATACATATACATA
1 CATATACATATATATA
248682 CATATACATATATATA
1 CATATACATATATATA
* *
248698 TATATATATATATA-A
1 CATATACATATATATA
248713 CAT
1 CAT
248716 GGTGTCTAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
15 3 0.05
16 57 0.95
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (16 bp):
CATATACATATATATA
Found at i:251074 original size:85 final size:85
Alignment explanation
Indices: 250946--251156 Score: 234
Period size: 85 Copynumber: 2.5 Consensus size: 85
250936 AACTTGGCAG
** * * * *
250946 CTTTTGTTGACAGATAGATTTTCTCGACTTAAGCTATGTTGTAAATTTGACATG-GCC-TTGAAC
1 CTTTTGTTGACAGATA-ACATTCTCGCCTTGAGTTATGCTGTAAATTTG--ATGTGCCTTTGAAC
251009 TGA--ATGAAATTGAACTCGAAGGT
63 TGAGCAT--AATTGAACTCGAAGGT
* * *
251032 CTTTTGTTAACAGATAACCTTCTCGCCTTGAGTTATGCTGTAAATTTGATGTGCCTTTGAGCTGA
1 CTTTTGTTGACAGATAACATTCTCGCCTTGAGTTATGCTGTAAATTTGATGTGCCTTTGAACTGA
251097 GCATAATTGAACTCGAAGGT
66 GCATAATTGAACTCGAAGGT
* *
251117 C-TTTGATGACAAATAATCATTCTCGCCTTGAGTTATGCTG
1 CTTTTGTTGACAGATAA-CATTCTCGCCTTGAGTTATGCTG
251157 CACTGGGATG
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
83 3 0.03
84 15 0.14
85 73 0.68
86 15 0.14
87 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (85 bp):
CTTTTGTTGACAGATAACATTCTCGCCTTGAGTTATGCTGTAAATTTGATGTGCCTTTGAACTGA
GCATAATTGAACTCGAAGGT
Found at i:251299 original size:66 final size:63
Alignment explanation
Indices: 251218--251433 Score: 173
Period size: 66 Copynumber: 3.4 Consensus size: 63
251208 TGTTAGGCAC
*
251218 GATAT-CTTCGTCGTGAAGTTGAAATCGTGGATACCTCATTCGTTGTGAAGTTGAACTTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGT-CATACCTCATTCGTTGTGAAGTTG-AC-TTGAATT
251282 G
63 G
* ** * * **
251283 GATATCCTTCGTCGTGAAGTTGAAATC--CA-ATCT-A-GAGATG-GATA-CTG-CTTGTAAGCA
1 GATATCCTTCGTCGTGAAGTTGAAATCGTCATACCTCATTCGTTGTGA-AGTTGACTTG-AA-TT
*
251340 C
63 G
* *
251341 GATATCCTTCGTCGTGAAGTTGAAATCGTATATGACC-CCTTCGTTGTGAAGTTGAGCCTTGAAT
1 GATATCCTTCGTCGTGAAGTTGAAATCGT-CAT-ACCTCATTCGTTGTGAAGTTGA--CTTGAAT
251405 TG
62 TG
251407 GATATCCTTCGTCGTGAAGTTGAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
251434 CAATCTAAAG
Statistics
Matches: 116, Mismatches: 19, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
56 3 0.03
57 3 0.03
58 27 0.23
59 4 0.03
60 4 0.03
61 2 0.02
62 3 0.03
63 3 0.03
64 4 0.03
65 9 0.08
66 48 0.41
67 2 0.02
68 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (63 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTCATACCTCATTCGTTGTGAAGTTGACTTGAATTG
Found at i:251446 original size:124 final size:124
Alignment explanation
Indices: 251213--251805 Score: 754
Period size: 124 Copynumber: 4.8 Consensus size: 124
251203 CGATATGTTA
* * * *
251213 GGCACGATAT-CTTCGTCGTGAAGTTGAAATCGTGGAT-ACCTCATTCGTTGTGAAGTTGAACTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCC-CCTTCGTTGTGAAGTTGAGCCT
* * * *
251276 TGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGATGGATACTGCTT-GTA
65 TGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGCTG-TTGGTG
* ** *
251336 AGCACGATATCCTTCGTCGTGAAGTTGAAATCGTATATGACCCCTTCGTTGTGAAGTTGAGCCTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTT
*
251401 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGTTGGTG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGCTGTTGGTG
* * *
251460 GACAAGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGATCCTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTT
** * * *
251525 GAATCAGATATCCTTCTTCGCGAAGTTGAAATCCAATCTAAAGATGAATGTTGTTGGTG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGCTGTTGGTG
* * *
251584 GGCACGATATCCTTCTTCGTGAAGTTGAAATCGTGGATGGTCCCTTCGTTGTGAATTTGAGCCTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTT
* * * * * *
251649 GAATTGGATATCTTTCGTCGCGAAGTT--AA---AATCTAAGGGTTGCATTGCTGCTT-ATG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAA-AGATG-AATGCTG-TTGGTG
* * * *
251705 GGAACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCCCATTCGTTGTGAAATTGAGCCTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTT
* *
251770 GAATTGGATATCCTTCATCGTGAAGTTAAAATCCAA
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAA
251806 GGGTTCATTG
Statistics
Matches: 413, Mismatches: 46, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
119 7 0.02
120 3 0.01
121 90 0.22
122 4 0.01
123 13 0.03
124 291 0.70
125 3 0.01
126 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (124 bp):
GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTT
GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGCTGTTGGTG
Found at i:251922 original size:64 final size:64
Alignment explanation
Indices: 251821--251983 Score: 290
Period size: 64 Copynumber: 2.5 Consensus size: 64
251811 CATTGTTTCA
* * *
251821 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTAGAAAATCGTTTGTTG
251885 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTAGAAAATCGTTTGTTG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTAGAAAATCGTTTGTTG
*
251949 GGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAC
251984 CCTAAAAGCT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 95 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (64 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTAGAAAATCGTTTGTTG
Found at i:257005 original size:6 final size:6
Alignment explanation
Indices: 256981--257035 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
256971 ATAAATAAAT
* *
256981 AAATAA AAACAA GAATAA AAATAA AAAT-- AAATAA AGAGATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-A-ATAA AAATAA
*
257029 ATATAA A
1 AAATAA A
257036 GGAAATAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
4 4 0.10
6 29 0.73
7 2 0.05
8 5 0.12
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:257022 original size:18 final size:16
Alignment explanation
Indices: 256970--257031 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 16
256960 ATGTACATAT
256970 AATAAATAAATAAATAAA
1 AATAAAT-AA-AAATAAA
*
256988 AACAAGAATAAAAATAAA
1 AA-TA-AATAAAAATAAA
257006 AATAAATAAAGAGATAAA
1 AATAAATAAA-A-ATAAA
257024 AATAAATA
1 AATAAATA
257032 TAAAGGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 6 0.16
17 2 0.05
18 24 0.63
19 3 0.08
20 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (16 bp):
AATAAATAAAAATAAA
Found at i:257034 original size:24 final size:23
Alignment explanation
Indices: 256977--257035 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
256967 TATAATAAAT
256977 AAATAAATA-AAAACAAGAATAA
1 AAATAAATATAAAACAAGAATAA
*
256999 AAATAAAAATAAATA-AAGAGATAA
1 AAATAAATATAAA-ACAAGA-ATAA
257023 AAATAAATATAAA
1 AAATAAATATAAA
257036 GGAAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 8 0.25
23 7 0.22
24 17 0.53
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (23 bp):
AAATAAATATAAAACAAGAATAA
Found at i:257179 original size:2 final size:2
Alignment explanation
Indices: 257174--257206 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
257164 AAAGGGGGCC
257174 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
257207 CACTAGGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:257327 original size:20 final size:20
Alignment explanation
Indices: 257276--257330 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
257266 ATAAAGGAAA
257276 AAATAAAATAA-AAAAATAAC
1 AAAT-AAATAATAAAAATAAC
* *
257296 AAAGAAAGAATAAATAAT-AC
1 AAATAAATAATAAA-AATAAC
257316 AAATAAATAATAAAA
1 AAATAAATAATAAAA
257331 CCAAAGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.21
20 20 0.69
21 3 0.10
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (20 bp):
AAATAAATAATAAAAATAAC
Found at i:257422 original size:2 final size:2
Alignment explanation
Indices: 257417--257448 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
257407 AAAAATAAAT
*
257417 TA TA TA AA 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
257449 AAGTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:259794 original size:2 final size:2
Alignment explanation
Indices: 259787--259841 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
259777 TAATTGGTTT
259787 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
259829 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
259842 TTCACTGGTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:265544 original size:2 final size:2
Alignment explanation
Indices: 265534--265580 Score: 62
Period size: 2 Copynumber: 24.0 Consensus size: 2
265524 TTTTTTTATT
*
265534 TA TA CTA TA TA -A TA TT TA TA -A 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
265575 TA TA TA
1 TA TA TA
265581 ATTGTTGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
1 2 0.05
2 36 0.90
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:265668 original size:17 final size:17
Alignment explanation
Indices: 265646--265688 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
265636 AAACGTGTAT
265646 AATATATAATTTTTGAA
1 AATATATAATTTTTGAA
***
265663 AATATATTGCTTTTGAA
1 AATATATAATTTTTGAA
265680 AA-ATATAAT
1 AATATATAAT
265689 ATGTTATATT
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (17 bp):
AATATATAATTTTTGAA
Found at i:265878 original size:12 final size:12
Alignment explanation
Indices: 265863--265896 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
265853 TATTATATAT
265863 ATTTTT-TTATTA
1 ATTTTTATT-TTA
265875 ATTTTTATTTTA
1 ATTTTTATTTTA
265887 ATTTTTATTT
1 ATTTTTATTT
265897 CAGGTCTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.90
13 2 0.10
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:265895 original size:42 final size:44
Alignment explanation
Indices: 265803--265895 Score: 102
Period size: 45 Copynumber: 2.1 Consensus size: 44
265793 AGTATTATTA
265803 TTTATTATTATTACATTTTATTATATAATATTTATTGTACAAATT
1 TTTATTATTATTACATTTTATTATATAATATTTATTGTA-AAATT
* * * * *
265848 ATTATTATTATATATATTTTTTTAT-TAATTTTTATT-T-TAATT
1 TTTATTATTAT-TACATTTTATTATATAATATTTATTGTAAAATT
265890 TTTATT
1 TTTATT
265896 TCAGGTCTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
42 9 0.22
44 1 0.02
45 20 0.49
46 11 0.27
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (44 bp):
TTTATTATTATTACATTTTATTATATAATATTTATTGTAAAATT
Found at i:268748 original size:29 final size:32
Alignment explanation
Indices: 268663--268748 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 32
268653 CAGATTACAT
*
268663 AACTTTT-TAAAA-TTACACTTTGGTC-TCTA
1 AACTTTTCCAAAATTTACACTTTGGTCATCTA
* * *
268692 AACTTTTCCAAAGTTTATACTTTAGTCAT-TA
1 AACTTTTCCAAAATTTACACTTTGGTCATCTA
*
268723 AAC-TTT-CAAAATTTACATTTTGGTCA
1 AACTTTTCCAAAATTTACACTTTGGTCA
268749 CTAGTCAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 23 0.50
30 6 0.13
31 16 0.35
32 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (32 bp):
AACTTTTCCAAAATTTACACTTTGGTCATCTA
Found at i:271961 original size:68 final size:67
Alignment explanation
Indices: 271850--272044 Score: 246
Period size: 58 Copynumber: 3.0 Consensus size: 67
271840 CAAGATTAAT
* *
271850 GGCCTAACTGTGCATTTGACAGAAAGGTGACAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGTCAGTTAGATGAAAGG-TAAGTGCCTT
271915 TGA
65 TGA
*
271918 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTT--A-G--A--T--GTGCCTTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGTCAGTTAGATGAAAGGTAAGTGCCTTT
*
271974 CA
66 GA
* * *
271976 GGCCTAACTGTGCATTTGATAGAAAGGTGTCAATCATGTCAGTTAGATGAAAGGTTAAATGTCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGTCAGTTAGATGAAAGG-TAAGTGCCTT
272041 TGA
65 TGA
272044 G
1 G
272045 TAAAAGACTA
Statistics
Matches: 108, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
58 51 0.47
60 2 0.02
61 1 0.01
63 2 0.02
65 1 0.01
66 2 0.02
68 49 0.45
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (67 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGTCAGTTAGATGAAAGGTAAGTGCCTTT
GA
Found at i:272155 original size:45 final size:45
Alignment explanation
Indices: 272091--272491 Score: 626
Period size: 45 Copynumber: 9.0 Consensus size: 45
272081 TAAAAATGAA
* * *
272091 ATGAAAGAATGCCAAAATAATAATGCATATGGGTGAATTAATGGC
1 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
* ****
272136 ATGAAATGATGCCAAAATAATAATGCATATGGGTGCATTATCAAT
1 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
* * * *
272181 ATAAAAGGATTCCAAAATAATTATGCATATGGGTGCATTATTGAC
1 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
272226 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
1 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
* * *
272271 ATGAAAGGATGCCAAAATAATGATGCATATGGGTGCATTATCGGT
1 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
* *
272316 ATGAAAGGATGCCAAAATAATGATGCATATTGGTGCATTATTGGC
1 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
272361 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
1 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
272406 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
1 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
*
272451 ATGAAA--ATGTCAAAATAATAATGCATATGGGTGCATTATTG
1 ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTG
272492 ACATAATATA
Statistics
Matches: 328, Mismatches: 28, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
43 34 0.10
45 294 0.90
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.28
Consensus pattern (45 bp):
ATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGGC
Found at i:273969 original size:16 final size:17
Alignment explanation
Indices: 273948--273979 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
273938 CTCAAGAAGG
273948 AAATAAAAG-ATTTTAA
1 AAATAAAAGCATTTTAA
273964 AAATAAAAGCATTTTA
1 AAATAAAAGCATTTTA
273980 TTTAACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
AAATAAAAGCATTTTAA
Found at i:281847 original size:58 final size:58
Alignment explanation
Indices: 281779--282110 Score: 426
Period size: 58 Copynumber: 5.8 Consensus size: 58
281769 ATGGCATTAA
*
281779 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * *
281837 GTGTACAAAAAGTTAAGAAATTCATACTAAGTGTATTAATTTTCGTATTGGACACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * * * *
281895 CTGTGCAAAAAGTTAAAAAATTCATACTAAGCGTATGAATTTTCATATCGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
281953 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTA-TGGGTACTAT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * **
282010 GTGT--ACAAA-TCTAACAAATTCATACTAAGTGTATGAATTTCCATA-TGGGCACAAT
1 GTGTGCAAAAAGT-TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
282065 GTGTGC-AAAA-CTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
282111 GGAAATATAT
Statistics
Matches: 238, Mismatches: 32, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
54 1 0.00
55 79 0.33
56 3 0.01
57 11 0.05
58 144 0.61
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (58 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:282433 original size:68 final size:68
Alignment explanation
Indices: 282324--282528 Score: 329
Period size: 68 Copynumber: 3.0 Consensus size: 68
282314 CAAGATTAAT
* *
282324 GGCCTAACTATGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAAATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
282389 TGA
66 TGA
* *
282392 GGCCTAACTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
282457 TGA
66 TGA
* * * * *
282460 GGCCTAACTGTACATTTGACAGAAAGGTGTCAATCATGTCAGTTAGATGAAATGTTAAATGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
282525 TGA
66 TGA
282528 G
1 G
282529 TAAAAGACTA
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 126 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (68 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:282699 original size:45 final size:45
Alignment explanation
Indices: 282574--283053 Score: 660
Period size: 45 Copynumber: 10.7 Consensus size: 45
282564 ATAAAAATAA
* *
282574 CATGAAATGATGCCAAAATAATAATGCATATGGGTGCATTAATGG
1 CATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGG
* *
282619 CATGAAAGGATG-CAAAATAATAATGTATATGGGTGCATTATCGG
1 CATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGG
** * * ***
282663 CATGAAATAAAGCCAAAATAATAATGCATATAGGTGCATTATCAA
1 CATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGG
* * *
282708 CATGAAAGGATGCCCAAATAATAATGCATATGGGCGTATTATTGG
1 CATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGG
* *
282753 CATGAAATGATGCCAAAATAATGATGCATATGGGTGCATTATTGG
1 CATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGG
* *
282798 CATGAAATGATGCCAAAATAATGATGCATATGGGTGCATTATTGG
1 CATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGG
* * *
282843 CATGAAATGATGCCAAAATATTGATGCATATGGGTGCATTATTGG
1 CATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGG
*
282888 CATGAAAGGAATG-CAAAATAATAATGCATATGGGTGCATTATTAG
1 CATGAAAGG-ATGCCAAAATAATAATGCATATGGGTGCATTATTGG
*
282933 TATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGG
1 CATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGG
* * *
282978 CATGAAAGGATGTCAAAATAATAATGCATATGGATGCAGTATTGG
1 CATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGG
* *
283023 CATGATAGAATGCCATAAATGAA-AATGCATA
1 CATGAAAGGATGCCA-AAAT-AATAATGCATA
283054 ATAACGTATT
Statistics
Matches: 390, Mismatches: 40, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
44 41 0.11
45 332 0.85
46 15 0.04
47 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (45 bp):
CATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATTGG
Found at i:285328 original size:16 final size:16
Alignment explanation
Indices: 285307--285373 Score: 93
Period size: 16 Copynumber: 4.3 Consensus size: 16
285297 GTCTCCAACG
285307 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
285323 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
* *
285339 TTTATGTTCGTGGTCG
1 TTTATGTTCGTGTTCA
285355 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
285369 TTTAT
1 TTTAT
285374 TAAATGAACG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
14 5 0.11
15 1 0.02
16 41 0.87
ACGTcount: A:0.10, C:0.10, G:0.21, T:0.58
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:285346 original size:32 final size:32
Alignment explanation
Indices: 285305--285365 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
285295 GGGTCTCCAA
*
285305 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTTCGTGGTCATTTATGTTCGTGTT
*
285337 CGTTTATGTTCGTGGTCGTTTATGTTCGT
1 CGTTTATGTTCGTGGTCATTTATGTTCGT
285366 TTATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.08, C:0.13, G:0.25, T:0.54
Consensus pattern (32 bp):
CGTTTATGTTCGTGGTCATTTATGTTCGTGTT
Found at i:285456 original size:16 final size:16
Alignment explanation
Indices: 285435--285467 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
285425 AAAAAAAATT
285435 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
285451 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
285467 T
1 T
285468 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:292020 original size:70 final size:70
Alignment explanation
Indices: 291907--292053 Score: 294
Period size: 70 Copynumber: 2.1 Consensus size: 70
291897 TACATATGAT
291907 TTTAATTATCTCGGATATAGTAAGTAAACATTAAAAAAGGTAATTCTAATTACAACTCTTATAAA
1 TTTAATTATCTCGGATATAGTAAGTAAACATTAAAAAAGGTAATTCTAATTACAACTCTTATAAA
291972 GGATA
66 GGATA
291977 TTTAATTATCTCGGATATAGTAAGTAAACATTAAAAAAGGTAATTCTAATTACAACTCTTATAAA
1 TTTAATTATCTCGGATATAGTAAGTAAACATTAAAAAAGGTAATTCTAATTACAACTCTTATAAA
292042 GGATA
66 GGATA
292047 TTTAATT
1 TTTAATT
292054 CGGAATAATT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 77 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.36
Consensus pattern (70 bp):
TTTAATTATCTCGGATATAGTAAGTAAACATTAAAAAAGGTAATTCTAATTACAACTCTTATAAA
GGATA
Found at i:302720 original size:23 final size:22
Alignment explanation
Indices: 302659--302729 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
302649 TTGACTTTTT
*
302659 CGGTCAAAGTCAACGGTCAGAC
1 CGGTCAAAGTCAACGATCAGAC
* * *
302681 CAGTCAAAATCAACGATCTGAC
1 CGGTCAAAGTCAACGATCAGAC
302703 CGGTCAACAGTCAACGATCAGAC
1 CGGTCAA-AGTCAACGATCAGAC
302726 CGGT
1 CGGT
302730 TAACGGTTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 24 0.59
23 17 0.41
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.15
Consensus pattern (22 bp):
CGGTCAAAGTCAACGATCAGAC
Found at i:303528 original size:18 final size:17
Alignment explanation
Indices: 303505--303541 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
303495 TATGAAAATG
303505 AAATAAGACAACAATACA
1 AAATAAGACAACAA-ACA
303523 AAATAAGACAACAAACA
1 AAATAAGACAACAAACA
303540 AA
1 AA
303542 CTATACCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.70, C:0.16, G:0.05, T:0.08
Consensus pattern (17 bp):
AAATAAGACAACAAACA
Found at i:309746 original size:21 final size:19
Alignment explanation
Indices: 309712--309766 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 19
309702 AAAAATAGCA
309712 GTTCGAAAAGAAAAAAAACT
1 GTTCGAAAA-AAAAAAAACT
309732 GTTCGCAAGAAAAAAAAAACT
1 GTTCG-AA-AAAAAAAAAACT
309753 GTTCGAAAAAAAAA
1 GTTCGAAAAAAAAA
309767 GACATGAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.21
20 7 0.21
21 17 0.52
22 2 0.06
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (19 bp):
GTTCGAAAAAAAAAAAACT
Found at i:312777 original size:43 final size:40
Alignment explanation
Indices: 312679--312788 Score: 118
Period size: 41 Copynumber: 2.6 Consensus size: 40
312669 ACGTACACTT
*
312679 TATTGTGGCATTTATTACTAAAACGCCACTATGACTGAACC
1 TATTGTGGCATTT-TTAATAAAACGCCACTATGACTGAACC
*
312720 TATTGTGGCGTTTTTAGATACAAACGCCACTATTGA-TGAAACC
1 TATTGTGGCATTTTTA-ATA-AAACGCCACTA-TGACTG-AACC
312763 T-TCTGTGGCATTTTT-ATAAAATCGCC
1 TAT-TGTGGCATTTTTAATAAAA-CGCC
312789 TCTAAATTAC
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
40 6 0.10
41 21 0.35
42 14 0.23
43 19 0.32
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (40 bp):
TATTGTGGCATTTTTAATAAAACGCCACTATGACTGAACC
Found at i:313182 original size:190 final size:187
Alignment explanation
Indices: 312868--313282 Score: 584
Period size: 190 Copynumber: 2.2 Consensus size: 187
312858 CTATATTGTT
* *
312868 GCGTTTTTTGAAGAAACACAACTATTTGATAAACATTAAATTAAATGTATGTATGTACCTATTAC
1 GCGTTTTTTGAAGAAACGCCACTATTTGATAAACATTAAATTAAATGTATGTATGTACCTATTAC
*
312933 GGCATTTTTTTGTAAAAACGCCACGATTGATAAAGCCTATCATGGCGTTTGAAGACAAACGCCGC
66 GG-ATTTTTTTGTAAAAACGCCACGATTGATAAAGCCTATCACGGCGTTT--AGACAAACGCCGC
* *
312998 TAAAGTACACTTTATTGTGACGTTTGTTACTAAAACGCCACTATTAATGAACCTATTGCG
128 TAAAGTACACTTTATTGCGACGTTTGTTACTAAAACGCCACTATAAATGAACCTATTGCG
*
313058 GCGTTTTTTGAAGAAACGCCGCTATTTGATAAACATTAAATTAAATGTATGTATGTATGTACCTA
1 GCGTTTTTTGAAGAAACGCCACTATTTGATAAACATTAAATT-AA---ATGTATGTATGTACCTA
* * * *
313123 TTGCGG-TGTTTTTTGTAAAAACGCCACGATTGATAGAGCCTATCGCGTCGTTT-GACAAACGCC
62 TTACGGAT-TTTTTTGTAAAAACGCCACGATTGATAAAGCCTATCACGGCGTTTAGACAAACGCC
* *
313186 GCTAAAGTACACTTTATTGCGCCGTTTGTTACTAAAACGCCACTATAAATGAACTTATTGCG
126 GCTAAAGTACACTTTATTGCGACGTTTGTTACTAAAACGCCACTATAAATGAACCTATTGCG
* * *
313248 GCATTTTTAGATACAAACGCCACTA-TTGATGAAAC
1 GCGTTTTTTGA-AGAAACGCCACTATTTGAT-AAAC
313283 CTACTGTGTC
Statistics
Matches: 202, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
190 121 0.60
191 17 0.08
192 1 0.00
193 41 0.20
194 22 0.11
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (187 bp):
GCGTTTTTTGAAGAAACGCCACTATTTGATAAACATTAAATTAAATGTATGTATGTACCTATTAC
GGATTTTTTTGTAAAAACGCCACGATTGATAAAGCCTATCACGGCGTTTAGACAAACGCCGCTAA
AGTACACTTTATTGCGACGTTTGTTACTAAAACGCCACTATAAATGAACCTATTGCG
Found at i:314713 original size:42 final size:42
Alignment explanation
Indices: 314625--314731 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
314615 AAATATTATT
** * * *
314625 TATTACGGCATTT-TAGAAATAAACGCCGCTAATTTATCATTA
1 TATTACGGCATTTGT-GGTATAAACGCCACTAATTTATAAATA
* *
314667 TATTATGGCATTTGTGGTATAAACGCCACTAATTTATAAATC
1 TATTACGGCATTTGTGGTATAAACGCCACTAATTTATAAATA
**
314709 TATTACGGTGTTTGTGGTATAAA
1 TATTACGGCATTTGTGGTATAAA
314732 TGTCGCTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 53 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (42 bp):
TATTACGGCATTTGTGGTATAAACGCCACTAATTTATAAATA
Found at i:315223 original size:41 final size:42
Alignment explanation
Indices: 315089--315244 Score: 124
Period size: 42 Copynumber: 3.7 Consensus size: 42
315079 TATTGTATTA
* * * * *
315089 TATTATGGCATTTGTGGTATAAACGCCACT-AATTTACAAATC
1 TATTACGGCGTTTGTGGTATAAACGCCGCTAAATTAAC-ACTC
* * * *
315131 TATTACGACGTTTGTGGTATAAATGTCGCTAAATTAACACTA
1 TATTACGGCGTTTGTGGTATAAACGCCGCTAAATTAACACTC
* *
315173 TATTGCGGCGTTTG-GGCTA-AAACGCCGCTAAA-TATCTACTC
1 TATTACGGCGTTTGTGG-TATAAACGCCGCTAAATTAAC-ACTC
**
315214 TATTACGGCGTTT-TCATTATAAACGCCGCTA
1 TATTACGGCGTTTGT-GGTATAAACGCCGCTA
315245 TTTATTAACA
Statistics
Matches: 90, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
40 3 0.03
41 30 0.33
42 51 0.57
43 6 0.07
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (42 bp):
TATTACGGCGTTTGTGGTATAAACGCCGCTAAATTAACACTC
Found at i:317359 original size:4 final size:4
Alignment explanation
Indices: 317350--317408 Score: 50
Period size: 4 Copynumber: 14.0 Consensus size: 4
317340 AACAAATTCA
*
317350 AAAT AAAT AAAT AAAT AAAGT CGAAAT --AT AAAT AATT CAAAAT AAAT
1 AAAT AAAT AAAT AAAT AAA-T --AAAT AAAT AAAT AAAT --AAAT AAAT
317397 AAAT AAAT AAAT
1 AAAT AAAT AAAT
317409 CAAACAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
2 2 0.04
4 36 0.78
5 1 0.02
6 4 0.09
7 3 0.07
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:318297 original size:31 final size:31
Alignment explanation
Indices: 318252--318321 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
318242 AAACTATAAG
318252 TTTAG-CATCCGATCATTATGAATGTTTTGT
1 TTTAGTCATCCGATCATTATGAATGTTTTGT
*
318282 TTTAGTCATCTGATCATTATGAATGTTTTGT
1 TTTAGTCATCCGATCATTATGAATGTTTTGT
318313 TTTAGTCAT
1 TTTAGTCAT
318322 TCAATTATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 5 0.13
31 33 0.87
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.50
Consensus pattern (31 bp):
TTTAGTCATCCGATCATTATGAATGTTTTGT
Found at i:320336 original size:12 final size:12
Alignment explanation
Indices: 320310--320358 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
320300 AAATAAACAA
320310 ATAT-TATTTAT
1 ATATATATTTAT
*
320321 -TATATATATAT
1 ATATATATTTAT
320332 ATATATATTTAT
1 ATATATATTTAT
* *
320344 TTATTTATTTAT
1 ATATATATTTAT
320356 ATA
1 ATA
320359 AATAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
10 3 0.10
11 6 0.19
12 22 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATATATATTTAT
Found at i:320374 original size:3 final size:3
Alignment explanation
Indices: 320359--320424 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
320349 TATTTATATA
* * **
320359 AAT AAT AAA AAT AAT AAT AAT GA- AAT AAT AATT AA- AGC AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
320402 AA- AAT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
320425 TTGCAAATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
2 8 0.16
3 40 0.78
4 3 0.06
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:321652 original size:3 final size:3
Alignment explanation
Indices: 321644--321700 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
321634 TGTAATTATT
* *
321644 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TATT TAG TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA
321688 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
321701 TTTAATAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 6 0.13
3 35 0.76
4 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:321674 original size:22 final size:24
Alignment explanation
Indices: 321644--321698 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
321634 TGTAATTATT
321644 TAATAATAATATAATATATA-TAA
1 TAATAATAATATAATATATAGTAA
*
321667 T-ATAAT-A-ATAATATTTAGTAA
1 TAATAATAATATAATATATAGTAA
321688 TAATAATAATA
1 TAATAATAATA
321699 ATTTTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 9 0.33
21 5 0.19
22 10 0.37
23 2 0.07
24 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TAATAATAATATAATATATAGTAA
Found at i:321699 original size:22 final size:21
Alignment explanation
Indices: 321644--321704 Score: 83
Period size: 20 Copynumber: 3.0 Consensus size: 21
321634 TGTAATTATT
*
321644 TAATAATAAT-ATAATATATA
1 TAATAATAATAATAATATTTA
321664 TAAT-ATAATAATAATATTTA
1 TAATAATAATAATAATATTTA
321684 GTAATAATAATAATAAT-TTTA
1 -TAATAATAATAATAATATTTA
321705 ATAAAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 5 0.14
20 13 0.35
21 8 0.22
22 11 0.30
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATAATAATAATAATATTTA
Found at i:321953 original size:76 final size:76
Alignment explanation
Indices: 321866--322579 Score: 1320
Period size: 76 Copynumber: 9.4 Consensus size: 76
321856 GAGGTCTTAA
321866 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
321931 AGGCTTTTTAG
66 AGGCTTTTTGG
321942 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
322007 TGGCTTTTTGG
66 AGGCTTTTTGG
322018 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
322083 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
322094 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGGTTTGAAAACATCAAAAACCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
322159 AGGCTTTTTGG
66 AGGCTTTTTGG
*
322170 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
322235 AGGCTTTTTGG
66 AGGCTTTTTGG
* **
322246 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCATA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
322311 AGGCTTTTTGG
66 AGGCTTTTTGG
*
322322 AAACATCATGCACCGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
322387 AGGCTTTTTGG
66 AGGCTTTTTGG
322398 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
322463 AGGCTTTTTGG
66 AGGCTTTTTGG
322474 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
322539 AGGCTTTTTGG
66 AGGCTTTTTGG
**
322550 AAACATCATGCACTATAGGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
322580 TGGGAAATAG
Statistics
Matches: 621, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 621 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:323458 original size:22 final size:22
Alignment explanation
Indices: 323433--323487 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
323423 CATAAAGCTT
*
323433 TCATATTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
323455 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
323477 TCATCTTTGAA
1 TCATCTTTGAA
323488 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:323950 original size:50 final size:54
Alignment explanation
Indices: 323856--324008 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 54
323846 AATCACTGGT
* * * * *
323856 TCGTAAAACATTTGACAATACATTCATCTTTTTCTATGGTTTCTG-TC-GA-GA
1 TCGTAAAACATTTGACAAAACATTCATCCTTTTCTGTAGCTTCTGCTCAGATGA
* *
323907 T-GTAAAACATTTGA-AAACACATTCTTCC-TTTCTTGTAGCTTCTGCTCAGATGT
1 TCGTAAAACATTTGACAAA-ACATTCATCCTTTTC-TGTAGCTTCTGCTCAGATGA
* *
323960 TCGTAAAGCATTTGACAAAACATTCATCCTTTTCTGTGGCTTCTGCTCA
1 TCGTAAAACATTTGACAAAACATTCATCCTTTTCTGTAGCTTCTGCTCA
324009 AATTTCTCAA
Statistics
Matches: 84, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
49 6 0.07
50 29 0.35
51 3 0.04
52 2 0.02
53 2 0.02
54 35 0.42
55 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (54 bp):
TCGTAAAACATTTGACAAAACATTCATCCTTTTCTGTAGCTTCTGCTCAGATGA
Found at i:325012 original size:76 final size:75
Alignment explanation
Indices: 324887--325048 Score: 216
Period size: 76 Copynumber: 2.1 Consensus size: 75
324877 GATGTGGGCC
* *
324887 TTCAGCATGCCCCAACAATTGCTGATACGAACATTCAAAATACATCAACATTCTTCATTCTGATT
1 TTCAGCATGCCCCAACAATTGCTGATACAAACATTCAAAATACATCAACATTCCTCATTCTGATT
324952 GAAAAAGGCT
66 GAAAAAGGCT
* * * * ** *
324962 TTCAGCATGCCCCAGCATTTTGTTGATATAAACATTCAGGATACATCAACATTCCTGATTCTGAT
1 TTCAGCATGCCCCAACA-ATTGCTGATACAAACATTCAAAATACATCAACATTCCTCATTCTGAT
* *
325027 TGAAAAGGGTT
65 TGAAAAAGGCT
325038 TTCAGCATGCC
1 TTCAGCATGCC
325049 ACAATATTCG
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
75 16 0.21
76 59 0.79
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (75 bp):
TTCAGCATGCCCCAACAATTGCTGATACAAACATTCAAAATACATCAACATTCCTCATTCTGATT
GAAAAAGGCT
Found at i:332488 original size:19 final size:17
Alignment explanation
Indices: 332464--332516 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 17
332454 ACATTCATAA
332464 AATAAATAAATAAAATATT
1 AATAAATAAATAAAA-A-T
332483 AATAAAATAATATAAAAAT
1 AAT-AAATAA-ATAAAAAT
*
332502 AATAAGT-AATAAAAA
1 AATAAATAAATAAAAA
332517 ATTTAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 7 0.23
17 1 0.03
18 3 0.10
19 7 0.23
20 7 0.23
21 6 0.19
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (17 bp):
AATAAATAAATAAAAAT
Found at i:332505 original size:25 final size:25
Alignment explanation
Indices: 332460--332524 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
332450 TAATACATTC
*
332460 ATAAAATAA-ATAAATAAAAT-ATTA
1 ATAAAATAATATAAA-AAAATAAGTA
332484 ATAAAATAATATAAAAATAATAAGTA
1 ATAAAATAATATAAAAA-AATAAGTA
*
332510 ATAAAA-AATTTAAAA
1 ATAAAATAATATAAAA
332525 GAAAAGAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
24 11 0.31
25 16 0.44
26 9 0.25
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (25 bp):
ATAAAATAATATAAAAAAATAAGTA
Found at i:334641 original size:3 final size:3
Alignment explanation
Indices: 334633--334701 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
334623 TGTAATTATT
*
334633 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA
**
334677 TAA TAA TAA TAA TTT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
334702 TTAAGTAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 6 0.11
3 44 0.80
4 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:334663 original size:22 final size:24
Alignment explanation
Indices: 334633--334687 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
334623 TGTAATTATT
334633 TAATAATAATATAATATAT-ATAA
1 TAATAATAATATAATATATAATAA
*
334656 T-ATAAT-A-ATAATATTTAATAA
1 TAATAATAATATAATATATAATAA
334677 TAATAATAATA
1 TAATAATAATA
334688 ATTTTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 8 0.30
21 6 0.22
22 10 0.37
23 2 0.07
24 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAATAATAATATAATATATAATAA
Found at i:334666 original size:25 final size:22
Alignment explanation
Indices: 334633--334701 Score: 101
Period size: 21 Copynumber: 3.3 Consensus size: 22
334623 TGTAATTATT
*
334633 TAATAATAAT-ATAATATAT-A
1 TAATAATAATAATAATATTTAA
334653 TAAT-ATAATAATAATATTTAA
1 TAATAATAATAATAATATTTAA
334674 TAATAATAATAATAAT-TTTAA
1 TAATAATAATAATAATATTTAA
334695 TAATAAT
1 TAATAAT
334702 TTAAGTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
19 5 0.11
20 12 0.27
21 17 0.38
22 11 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAATAATAATAATAATATTTAA
Found at i:338151 original size:32 final size:32
Alignment explanation
Indices: 338115--338176 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
338105 TATTACGTTT
*
338115 ACTAACTGATTTATTTTCTTTTGTTTGTGTAC
1 ACTAACTGATTTATTTTCTTTTGATTGTGTAC
*
338147 ACTAACTTATTTATTTTCTTTTGATTGTGT
1 ACTAACTGATTTATTTTCTTTTGATTGTGT
338177 CATTTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.58
Consensus pattern (32 bp):
ACTAACTGATTTATTTTCTTTTGATTGTGTAC
Found at i:340441 original size:27 final size:25
Alignment explanation
Indices: 340402--340451 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
340392 GGATCAATAT
*
340402 TTTTGCATTTGCATTTGCATCTTTTCA
1 TTTTGCATCTGCATTT-CAT-TTTTCA
340429 TTTTGCATCTGCATTTCATTTTT
1 TTTTGCATCTGCATTTCATTTTT
340452 AAGCATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 3 0.14
27 15 0.68
ACGTcount: A:0.14, C:0.18, G:0.10, T:0.58
Consensus pattern (25 bp):
TTTTGCATCTGCATTTCATTTTTCA
Found at i:340975 original size:27 final size:27
Alignment explanation
Indices: 340922--340977 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
340912 AATATTTAAT
* *
340922 GAATTAAGGATTCTTTTAATTTTTCAA
1 GAATTAAGGATTCTTTTAATGTGTCAA
*
340949 GAATTATGGATT-TTTTACATGTGTCAA
1 GAATTAAGGATTCTTTTA-ATGTGTCAA
340976 GA
1 GA
340978 TTAGACCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (27 bp):
GAATTAAGGATTCTTTTAATGTGTCAA
Found at i:342793 original size:36 final size:36
Alignment explanation
Indices: 342746--342818 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
342736 AATGAGTATA
*
342746 TTCACTGCGGAAGAAGATGCTCTGAAAGATGAAACC
1 TTCACTGCGGAAGAAGATGCTCCGAAAGATGAAACC
342782 TTCACTGCGGAAGAAGATGCTCCGAAAGATGAAACC
1 TTCACTGCGGAAGAAGATGCTCCGAAAGATGAAACC
342818 T
1 T
342819 GGAAAATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (36 bp):
TTCACTGCGGAAGAAGATGCTCCGAAAGATGAAACC
Found at i:344582 original size:15 final size:15
Alignment explanation
Indices: 344549--344599 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
344539 TTACACTTGA
*
344549 AGAAGAAGAAG-AAAA
1 AGAA-AAGAAGCAAAG
344564 AGAAAAGAAGCAAAG
1 AGAAAAGAAGCAAAG
* *
344579 AGAAAATAAACAAAG
1 AGAAAAGAAGCAAAG
344594 -GAAAAG
1 AGAAAAG
344600 GGACAAGAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.71, C:0.04, G:0.24, T:0.02
Consensus pattern (15 bp):
AGAAAAGAAGCAAAG
Found at i:345686 original size:22 final size:22
Alignment explanation
Indices: 345658--345700 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
345648 GTATCCTTTG
* *
345658 ATGTTGTTTCTCTTGAAACAAA
1 ATGTTGTCTCGCTTGAAACAAA
*
345680 ATGTTGTCTCGCTTGAGACAA
1 ATGTTGTCTCGCTTGAAACAA
345701 TTTTCTCTCA
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:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (22 bp):
ATGTTGTCTCGCTTGAAACAAA
Found at i:345733 original size:37 final size:38
Alignment explanation
Indices: 345664--345736 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
345654 TTTGATGTTG
** *
345664 TTTCTCTTGAAACAAAATGTTGTCTCGCTTGAGACAAT
1 TTTCTCTCAAAACAAAATGTTGTCTCACTTGAGACAAT
* *
345702 TTTCTCTCAAAAC-AAATTTTGTCTCATTTGAGACA
1 TTTCTCTCAAAACAAAATGTTGTCTCACTTGAGACA
345737 TAAAAAAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 19 0.63
38 11 0.37
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (38 bp):
TTTCTCTCAAAACAAAATGTTGTCTCACTTGAGACAAT
Found at i:345947 original size:33 final size:34
Alignment explanation
Indices: 345864--345956 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 34
345854 CAGTTTTCCT
*
345864 CAAAACACCAAATTATGAGAT-TGTTTCACTCGAAA
1 CAAAA-ACCATATT-TGAGATCTGTTTCACTCGAAA
* * * *
345899 TAAAAATCATCTTTGAG-TCTGTTTCACTGGAAA
1 CAAAAACCATATTTGAGATCTGTTTCACTCGAAA
*
345932 CAACAACCATATTTGAGATC-GTTTC
1 CAAAAACCATATTTGAGATCTGTTTC
345957 TCTTTAAACA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
32 1 0.02
33 35 0.74
34 7 0.15
35 4 0.09
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (34 bp):
CAAAAACCATATTTGAGATCTGTTTCACTCGAAA
Found at i:346165 original size:33 final size:35
Alignment explanation
Indices: 346074--346173 Score: 116
Period size: 35 Copynumber: 2.9 Consensus size: 35
346064 GAGAAATGCC
346074 CATCTTTGAGTCTGTTTCCCTTGAAACAAAACAAA
1 CATCTTTGAGTCTGTTTCCCTTGAAACAAAACAAA
* * **
346109 CATCTTTGAAATC-GTTTCCCTTGAAAC-GAATTAA
1 CATCTTTG-AGTCTGTTTCCCTTGAAACAAAACAAA
**
346143 -ATCTTTGAGTCTGTTTTTCTTGAAACAAAAC
1 CATCTTTGAGTCTGTTTCCCTTGAAACAAAAC
346174 TATGTTTGAG
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
32 3 0.06
33 19 0.36
34 6 0.11
35 22 0.42
36 3 0.06
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (35 bp):
CATCTTTGAGTCTGTTTCCCTTGAAACAAAACAAA
Found at i:346914 original size:13 final size:12
Alignment explanation
Indices: 346898--346935 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
346888 TTTAAAATAA
346898 ATATTTATTAATT
1 ATATTTATT-ATT
346911 ATATTTATTATT
1 ATATTTATTATT
346923 AT-TATTATTATT
1 ATAT-TTATTATT
346935 A
1 A
346936 AATGACACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 1 0.04
12 14 0.58
13 9 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTTATTATT
Found at i:356978 original size:21 final size:23
Alignment explanation
Indices: 356954--356996 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
356944 TTCAATAAAT
356954 GAAA-AAAAA-ATCTAATTATGA
1 GAAATAAAAATATCTAATTATGA
*
356975 GAAATTAAAAATATTTAATTAT
1 GAAA-TAAAAATATCTAATTAT
356997 TTCACCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
23 5 0.28
24 9 0.50
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (23 bp):
GAAATAAAAATATCTAATTATGA
Found at i:366965 original size:26 final size:24
Alignment explanation
Indices: 366910--366968 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
366900 GAAAATTTTA
*
366910 TTATTATT-ATTAAAATATGTTAT
1 TTATTATTAATTAAAATATATTAT
*
366933 TTTTTATTAATCTAAAATATATTAT
1 TTATTATTAAT-TAAAATATATTAT
366958 TTAATTATTAA
1 TT-ATTATTAA
366969 AAATATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.23
24 2 0.07
25 14 0.47
26 7 0.23
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
TTATTATTAATTAAAATATATTAT
Found at i:372544 original size:22 final size:21
Alignment explanation
Indices: 372494--372545 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
372484 AAGGAATAAA
*
372494 AATAATAA-GAATAAAAACAT
1 AATAATAATAAATAAAAACAT
* *
372514 AACAA-AATAAATAAAAATAT
1 AATAATAATAAATAAAAACAT
372534 ATATAATAATAA
1 A-ATAATAATAA
372546 TGAAAGAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 15 0.60
21 3 0.12
22 5 0.20
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (21 bp):
AATAATAATAAATAAAAACAT
Found at i:374575 original size:65 final size:65
Alignment explanation
Indices: 374451--374627 Score: 231
Period size: 65 Copynumber: 2.8 Consensus size: 65
374441 GAAGTTGATC
* * * *
374451 TTTGAATT-AGATATCATTCGTTGTGAAGTTGAAATCCAA---GGA-T-TGTTTCACCAAATTGG
1 TTTGAATTGA-ATATCCTTCGTCGTGAAGTTGAAATCCAATCTTGAGTAAGTTTCACCAAATTGG
374510 T
65 T
* *
374511 TTTGAGTTGAATATGCTTCGTCGTGAAGTTGAAATCCAATCTTGAGTAAGTTTCACCAAATTGGT
1 TTTGAATTGAATATCCTTCGTCGTGAAGTTGAAATCCAATCTTGAGTAAGTTTCACCAAATTGGT
* *
374576 TTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGAGTAAGTT
1 TTTGAATTGAATATCCTTCGTCGTGAAGTTGAAATCCAATCTTGAGTAAGTT
374628 ATGTCACTTC
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
60 33 0.33
61 1 0.01
63 2 0.02
64 1 0.01
65 64 0.63
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.38
Consensus pattern (65 bp):
TTTGAATTGAATATCCTTCGTCGTGAAGTTGAAATCCAATCTTGAGTAAGTTTCACCAAATTGGT
Found at i:380516 original size:22 final size:21
Alignment explanation
Indices: 380489--380568 Score: 72
Period size: 23 Copynumber: 3.7 Consensus size: 21
380479 TATAGGGCCG
380489 AGGGAATCGATACCCCCTTGA
1 AGGGAATCGATACCCCCTTGA
* * *
380510 AGGGGAACCGATTCCCCTTTTGA
1 A-GGGAATCGATACCCC-CTTGA
* *
380533 ATGGGAATCGATTCCCTCCTTTA
1 A-GGGAATCGATACCC-CCTTGA
380556 A-GGAATCGATACC
1 AGGGAATCGATACC
380569 AGCATGAGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 12 0.25
22 13 0.27
23 22 0.46
24 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (21 bp):
AGGGAATCGATACCCCCTTGA
Found at i:382780 original size:21 final size:21
Alignment explanation
Indices: 382756--382809 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
382746 TCCAGAGGGA
382756 ACCGATTCCCCCCAAGGGGGT
1 ACCGATTCCCCCCAAGGGGGT
382777 ACCGATTCCCCCCAAGGGGGT
1 ACCGATTCCCCCCAAGGGGGT
382798 ACCGATTCCCCC
1 ACCGATTCCCCC
382810 TGAATGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.43, G:0.24, T:0.15
Consensus pattern (21 bp):
ACCGATTCCCCCCAAGGGGGT
Found at i:385145 original size:99 final size:98
Alignment explanation
Indices: 384971--385176 Score: 288
Period size: 99 Copynumber: 2.1 Consensus size: 98
384961 GGACATCTCA
* * *
384971 ATATATAATGACCTTTATCATGTTAGCTGAATCTAATCCAAAAAGCCGGAGCGTTTAACCAATTG
1 ATATATAATCACCTTTATCAGGCTAGCTGAATCTAATCCAAAAAGCCGGAGCGTTTAACCAATTG
*
385036 CCTTAGAGGGAAAGCTCAAGCTTTATTGTATAG
66 CCTTAGAGGGAAAGCTCAAGCTTTATTATATAG
* * * *
385069 ATATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACTAATT
1 ATA-TATAATCACCTTTATCAGGCTAGCTGAATCTAATCCAAAAAGCCGGAGCGTTTAACCAATT
* * *
385134 G-CTCTAGAGGGACAGTTCAAGCTTTATTATATAT
65 GCCT-TAGAGGGAAAGCTCAAGCTTTATTATATAG
385168 ATATATAAT
1 ATATATAAT
385177 ATTATAATCT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
98 11 0.12
99 84 0.88
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (98 bp):
ATATATAATCACCTTTATCAGGCTAGCTGAATCTAATCCAAAAAGCCGGAGCGTTTAACCAATTG
CCTTAGAGGGAAAGCTCAAGCTTTATTATATAG
Found at i:389335 original size:18 final size:19
Alignment explanation
Indices: 389300--389336 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
389290 CACGGAATGT
389300 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
389320 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
389337 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:393257 original size:21 final size:22
Alignment explanation
Indices: 393209--393262 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
393199 TGGTCCCAAA
393209 TCAACATTC--TAACTTAAAAT
1 TCAACATTCAATAACTTAAAAT
* *
393229 CCAGCATTCAATAA-TTAAAAT
1 TCAACATTCAATAACTTAAAAT
*
393250 TCAACATTGAATA
1 TCAACATTCAATA
393263 CCCATAATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 7 0.26
21 17 0.63
22 3 0.11
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (22 bp):
TCAACATTCAATAACTTAAAAT
Found at i:394560 original size:13 final size:13
Alignment explanation
Indices: 394542--394567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
394532 AAGGTTTAAA
394542 TGAAGTGAAAATG
1 TGAAGTGAAAATG
394555 TGAAGTGAAAATG
1 TGAAGTGAAAATG
394568 AAAAGTGCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (13 bp):
TGAAGTGAAAATG
Found at i:396816 original size:22 final size:23
Alignment explanation
Indices: 396790--396834 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
396780 TCATTATAAG
*
396790 AATGTTT-TTTTACTTCATTCTC
1 AATGTTTGTTTTACTTCAGTCTC
396812 AATGTTTGTTTTACTTCAGTCTC
1 AATGTTTGTTTTACTTCAGTCTC
396835 TTTTTCAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.56
Consensus pattern (23 bp):
AATGTTTGTTTTACTTCAGTCTC
Found at i:399674 original size:205 final size:202
Alignment explanation
Indices: 399046--399939 Score: 718
Period size: 199 Copynumber: 4.4 Consensus size: 202
399036 ATTAGATACA
** * * * * * * *** *
399046 TAGTATTTAAACTTATCTTTCAATTGAGGCTGATATCAACACATATGAGACATTGTAAATGCGGT
1 TAGTATTGCAACTTATCTTTTAGTTCAGGCTAATATCAGCACATACGAGACATTGTAAACATGAT
* * * ** *
399111 AAAAATCACATTGAAAATGGTTCTAAAGCTTGGTTTTGTGCATGAAGAACAAGCTAATGTGA-CA
66 AAAAATCACGTTGAAAATGGTTC-AAAGCTTGGTTTTGTGCATGAAGAATAAGATAAAAT-ATCT
* * * * * * **
399175 TGATAGGCTTGTTTAGTGGAA-TTTCTGAGGAGTTAATTGGAA----AATTTTATAATTTTTAAG
129 TGATAGGCATGTTTGGAGGAATTTTCAGA-AAGTTAATAGGAAGTTTTTTTTTATAATTTTTAAG
*
399235 CTTAGAGGTG
193 CTTAGAGGCG
* * * * * *
399245 TAGTATTGTAACTTATCTTTCAGTTGAGGCTAACATCAACACATACGAGACATTGTAAACGTGAT
1 TAGTATTGCAACTTATCTTTTAGTTCAGGCTAATATCAGCACATACGAGACATTGTAAACATGAT
* * * * *
399310 AAAAATCACGTTGAAACTGGTTCCAATGCTTGATTTTGTGCATGGAA-AATAAGCTAAAATGTCT
66 AAAAATCACGTTGAAAATGGTT-CAAAGCTTGGTTTTGTGCAT-GAAGAATAAGATAAAATATCT
* *
399374 TGATA-GCTATGTTCTAGG-GGTATTTTC-GAAACGTTAATCAGAAAAG------TTTATAATTT
129 TGATAGGC-ATGTT-T-GGAGGAATTTTCAGAAA-GTTAAT-AG-GAAGTTTTTTTTTATAATTT
* *
399430 TTAAGCTCAGAGGTG
188 TTAAGCTTAGAGGCG
* * * * * * *
399445 TAGCATTGCTACTTATCTTTTAGTTCAGGCAAATATCAGCACAAACAAGACATTGAAAACATGGT
1 TAGTATTGCAACTTATCTTTTAGTTCAGGCTAATATCAGCACATACGAGACATTGTAAACAT-GA
* * * * *
399510 TAAAAATCATGTTGAAAATGGTTCTAAAGGTTGGTTTTATGCATGAAGAATAAGGTAAAATTTCT
65 TAAAAATCACGTTGAAAATGGTTC-AAAGCTTGGTTTTGTGCATGAAGAATAAGATAAAATATCT
399575 TGATAGGCATGTTTGGAGTGAATTTTCAGAAAGTTAATAGGAAGTTTTTTTTTATAATTTTTAAG
129 TGATAGGCATGTTTGGAG-GAATTTTCAGAAAGTTAATAGGAAGTTTTTTTTTATAATTTTTAAG
*
399640 ATTAGAGGCG
193 CTTAGAGGCG
* * * * * * *
399650 TAGTATTGCAACTCATCTTTTAGTTTATGCTAATATCGGTATATATGAGACATTGTAAACGAT-A
1 TAGTATTGCAACTTATCTTTTAGTTCAGGCTAATATCAGCACATACGAGACATTGTAAAC-ATGA
* * *
399714 TAAAAACCACATTGAAAATGGTTGCAAAGCTTGGTTTTGTGCATGAAGAACAAGATAAAATGAT-
65 TAAAAATCACGTTGAAAATGGTT-CAAAGCTTGGTTTTGTGCATGAAGAATAAGATAAAAT-ATC
* * * * *
399778 TTGATAGGTATG-TTCGAGGAGTATTTTCATAAATTTAAT-CG-AGTTTTTTTTTTATAATTTTT
128 TTGATAGGCATGTTTGGAGGA--ATTTTCAGAAAGTTAATAGGAAG-TTTTTTTTTATAATTTTT
*
399840 AAGCTTAAAGGCG
190 AAGCTTAGAGGCG
** * * * * *
399853 TAGTATTATAACTTATCTTTCAATTGAGGCTAATATC-GACACATACGAGACATTATAAGCA-GA
1 TAGTATTGCAACTTATCTTTTAGTTCAGGCTAATATCAG-CACATACGAGACATTGTAAACATGA
*
399916 GTAAAAATCGCGTTGAAAATGGTT
65 -TAAAAATCACGTTGAAAATGGTT
399940 TGAAACTAAA
Statistics
Matches: 567, Mismatches: 95, Indels: 62
0.78 0.13 0.09
Matches are distributed among these distances:
198 2 0.00
199 119 0.21
200 98 0.17
201 81 0.14
202 15 0.03
203 101 0.18
204 78 0.14
205 71 0.13
206 2 0.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (202 bp):
TAGTATTGCAACTTATCTTTTAGTTCAGGCTAATATCAGCACATACGAGACATTGTAAACATGAT
AAAAATCACGTTGAAAATGGTTCAAAGCTTGGTTTTGTGCATGAAGAATAAGATAAAATATCTTG
ATAGGCATGTTTGGAGGAATTTTCAGAAAGTTAATAGGAAGTTTTTTTTTATAATTTTTAAGCTT
AGAGGCG
Found at i:407660 original size:2 final size:2
Alignment explanation
Indices: 407653--407695 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
407643 TTTTGATAAG
407653 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
407695 A
1 A
407696 CATTTGTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:408835 original size:33 final size:31
Alignment explanation
Indices: 408797--408862 Score: 87
Period size: 33 Copynumber: 2.1 Consensus size: 31
408787 GAATTATGCT
* * *
408797 TTATTTATTTATTTTGTTTTTGTAATGTTTTTA
1 TTATTTAATTATTTT-ATTTT-TAATGTTTGTA
408830 TTATTTAATTATTTTATTTTTAATGTTTGTA
1 TTATTTAATTATTTTATTTTTAATGTTTGTA
408861 TT
1 TT
408863 TAATGTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 12 0.40
32 4 0.13
33 14 0.47
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (31 bp):
TTATTTAATTATTTTATTTTTAATGTTTGTA
Found at i:408864 original size:13 final size:13
Alignment explanation
Indices: 408842--408876 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
408832 ATTTAATTAT
*
408842 TTTATTTTTAATG
1 TTTATATTTAATG
*
408855 TTTGTATTTAATG
1 TTTATATTTAATG
408868 TTTATATTT
1 TTTATATTT
408877 TTACTTAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (13 bp):
TTTATATTTAATG
Found at i:410633 original size:172 final size:170
Alignment explanation
Indices: 410341--410899 Score: 562
Period size: 162 Copynumber: 3.3 Consensus size: 170
410331 TAACTTCAAC
*
410341 ATAATTGATTGACAAAAAGGAAAGGCATGTTCCAGGGGAAACACTTTTCCTTTTCT-TAGAGAA-
1 ATAATTGATTGACAAAAAGGAAAGGCATGTT-CAGGGGAAGCACTTTTCCTTTTCTCT-GAGAAT
* * * * *
410404 CTTTTTCCATGTCATAATGTCTCATCCCATCAAACATTACTTTGGTT-TGACGGGAACAGTTCCC
64 C-TCTACCATGTCATAATGTCTCATCCCATCAAACATTA-TATCGTTCTGACGGGAACAATTCCC
* * *
410468 CTACTGCCTACAAATATCTCAACATAATAGATTGAGACTTTCGG
127 CTACTGCCTACAAATATCTCAACATAATGGACTGAGACTTTCAG
* * * *
410512 ATAATTGACTGACAAAAAAGGAAAGACGCA-ATTCAGGGGAAGCATTTTTCCTTTTCTCTGGGAA
1 ATAATTGATTGAC-AAAAAGGAAAG--GCATGTTCAGGGGAAGCACTTTTCCTTTTCTCTGAGAA
* * * * * *
410576 TCTCTACCATATCATAGTTTCTCATCGCATCAAACATTATATCATTCTGATGGGAACAATT---C
63 TCTCTACCATGTCATAATGTCTCATCCCATCAAACATTATATCGTTCTGACGGGAACAATTCCCC
410638 --C--CCTACAAATATCTCAACATAATGGACTGAGACTTAT-AG
128 TACTGCCTACAAATATCTCAACATAATGGACTGAGACTT-TCAG
* * **
410677 ATAA--AATTGACAAAAAGGAAAGGCATGTTCTAGGGGAAGCGCTTTTCCTTTTCTCAAAGAATC
1 ATAATTGATTGACAAAAAGGAAAGGCATGTTC-AGGGGAAGCACTTTTCCTTTTCTCTGAGAATC
** * * *
410740 TCTGTCATGTCATAATGTCTTATCCCATCAAACATTATATCGGTCTGACGGGAATAATTCCCCTA
65 TCTACCATGTCATAATGTCTCATCCCATCAAACATTATATCGTTCTGACGGGAACAATTCCCCTA
* *
410805 CTGCCTATAGATATCTCAACATAATGGACTGAGA-TTTCCAG
130 CTGCCTACAAATATCTCAACATAATGGACTGAGACTTT-CAG
* * * **
410846 ATAA--AATT-AAACAAAAGGAAATGCGCGTTCTAGGGGAAGCACTTTT-CTTTTCTC
1 ATAATTGATTGACA-AAAAGGAAAGGCATGTTC-AGGGGAAGCACTTTTCCTTTTCTC
410900 ATAAAATATC
Statistics
Matches: 324, Mismatches: 45, Indels: 41
0.79 0.11 0.10
Matches are distributed among these distances:
160 3 0.01
161 3 0.01
162 86 0.27
163 5 0.02
165 38 0.12
166 1 0.00
167 3 0.01
168 12 0.04
169 70 0.22
171 16 0.05
172 80 0.25
173 4 0.01
174 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (170 bp):
ATAATTGATTGACAAAAAGGAAAGGCATGTTCAGGGGAAGCACTTTTCCTTTTCTCTGAGAATCT
CTACCATGTCATAATGTCTCATCCCATCAAACATTATATCGTTCTGACGGGAACAATTCCCCTAC
TGCCTACAAATATCTCAACATAATGGACTGAGACTTTCAG
Found at i:414931 original size:13 final size:13
Alignment explanation
Indices: 414913--414961 Score: 89
Period size: 13 Copynumber: 3.8 Consensus size: 13
414903 GTCATAAATC
414913 TATGACGCGCATT
1 TATGACGCGCATT
*
414926 TATGACACGCATT
1 TATGACGCGCATT
414939 TATGACGCGCATT
1 TATGACGCGCATT
414952 TATGACGCGC
1 TATGACGCGC
414962 CATTGAAGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:415870 original size:30 final size:30
Alignment explanation
Indices: 415817--415876 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
415807 CTCACCCACT
* *
415817 CCGCCCCACCCCACTCCGATGTCAATCCCA
1 CCGCCCCACCCCACTCCAATGTCAACCCCA
*
415847 CCGCCCCACTCCAC-CCAATTGTCAACCCCA
1 CCGCCCCACCCCACTCCAA-TGTCAACCCCA
415877 AACAGAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.22, C:0.57, G:0.08, T:0.13
Consensus pattern (30 bp):
CCGCCCCACCCCACTCCAATGTCAACCCCA
Found at i:421342 original size:16 final size:16
Alignment explanation
Indices: 421321--421357 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
421311 GAAATGTACA
*
421321 ATAAATCAGATATCAT
1 ATAAATCAAATATCAT
421337 ATAAATCAAATATCAT
1 ATAAATCAAATATCAT
421353 ATAAA
1 ATAAA
421358 CAATATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.30
Consensus pattern (16 bp):
ATAAATCAAATATCAT
Found at i:425102 original size:17 final size:16
Alignment explanation
Indices: 425080--425113 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
425070 TAAAGACAGT
425080 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
425097 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
425113 A
1 A
425114 TCATCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:425632 original size:24 final size:24
Alignment explanation
Indices: 425588--425634 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
425578 ATAAAGAACC
*
425588 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
425612 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
425635 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:425910 original size:15 final size:15
Alignment explanation
Indices: 425886--425915 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
425876 TATTCCAAGG
*
425886 AAGAAGAAAGAAAAA
1 AAGAAAAAAGAAAAA
425901 AAGAAAAAAGAAAAA
1 AAGAAAAAAGAAAAA
425916 TCTGATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAGAAAAA
Found at i:435812 original size:24 final size:24
Alignment explanation
Indices: 435768--435814 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
435758 ATAAAGAACC
*
435768 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
435792 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
435815 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:439972 original size:3 final size:3
Alignment explanation
Indices: 439964--439989 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
439954 TTCGAGTAAA
439964 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
439990 AACCCTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:440786 original size:18 final size:18
Alignment explanation
Indices: 440740--440787 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
440730 TCAACGCCGA
* *
440740 TCAACAGTCAATGGTTGG
1 TCAACAGTCAACGATTGG
440758 TCAAC-GATCAACGATTGG
1 TCAACAG-TCAACGATTGG
440776 TCAACAGTCAAC
1 TCAACAGTCAAC
440788 AATCGATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (18 bp):
TCAACAGTCAACGATTGG
Found at i:442417 original size:64 final size:64
Alignment explanation
Indices: 442329--442487 Score: 180
Period size: 64 Copynumber: 2.5 Consensus size: 64
442319 TAGACTTGGG
* * * * **
442329 GTGTATCGGTACACTAATTACATTCGATGTTTTAATAAAGCCA-GAGTGTATCGATGCATAGGA-
1 GTGTATCGGTACACAAAATGCATTCGATGTTTAAATAAAAACAGGAGTGTATCGATGCAT--GAC
442392 T
64 T
* *
442393 GTGTATCGGTACACAAAATGCATTCAATGTTTAAATAAAAATAGGAGTGTATCGATGCATGACT
1 GTGTATCGGTACACAAAATGCATTCGATGTTTAAATAAAAACAGGAGTGTATCGATGCATGACT
* *
442457 GTGCATCGGTACATAAAATGGC-TTCGATGTT
1 GTGTATCGGTACACAAAAT-GCATTCGATGTT
442488 GTGTGTGCAT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 2 0.02
64 61 0.75
65 18 0.22
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (64 bp):
GTGTATCGGTACACAAAATGCATTCGATGTTTAAATAAAAACAGGAGTGTATCGATGCATGACT
Found at i:442840 original size:13 final size:13
Alignment explanation
Indices: 442822--442855 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
442812 TAAGATTTTC
*
442822 TTTGAAATTCATT
1 TTTGAAATTCAAT
442835 TTTGAAA-TCAAT
1 TTTGAAATTCAAT
442847 TTTGAAATT
1 TTTGAAATT
442856 ACTCCCCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (13 bp):
TTTGAAATTCAAT
Found at i:444549 original size:14 final size:14
Alignment explanation
Indices: 444522--444557 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
444512 ATGGGCAAAA
*
444522 TTTG-AAAACTATG
1 TTTGAAAAACGATG
444535 TTTGAAAAACGATG
1 TTTGAAAAACGATG
444549 TTTGAAAAA
1 TTTGAAAAA
444558 TCATAATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (14 bp):
TTTGAAAAACGATG
Found at i:445101 original size:44 final size:44
Alignment explanation
Indices: 445034--445147 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 44
445024 CGACGAGTGT
* * *
445034 ATCAGTACACT-GCAGAGCGTATCGATACACATTCAA-GGACTGC
1 ATCAGTACACTATCATAGTGTATCGATACACATTCAAGGGA-TGC
* * *
445077 ATCAGTGCACTTTCATAGTGTATCGATGCACATTCAAGGGATGC
1 ATCAGTACACTATCATAGTGTATCGATACACATTCAAGGGATGC
445121 ATCAGTACACTATCATAGTGTATCGAT
1 ATCAGTACACTATCATAGTGTATCGAT
445148 CCATTGCGCA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 10 0.16
44 49 0.79
45 3 0.05
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
ATCAGTACACTATCATAGTGTATCGATACACATTCAAGGGATGC
Found at i:452697 original size:16 final size:15
Alignment explanation
Indices: 452671--452754 Score: 65
Period size: 16 Copynumber: 5.9 Consensus size: 15
452661 TATGTTTAAT
452671 GTATATATA--TA-A
1 GTATATATACTTATA
452683 GTATATATACTTATA
1 GTATATATACTTATA
*
452698 TGTATATATA--TGT-
1 -GTATATATACTTATA
* *
452711 GTGTATATACTTACA
1 GTATATATACTTATA
*
452726 TGTATACATACTTAT-
1 -GTATATATACTTATA
452741 GTATATATACTTAT
1 GTATATATACTTAT
452755 TTTAGTCACT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
12 17 0.30
14 18 0.32
15 1 0.02
16 20 0.36
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (15 bp):
GTATATATACTTATA
Found at i:452717 original size:28 final size:28
Alignment explanation
Indices: 452669--452754 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
452659 TTTATGTTTA
*
452669 ATGTATATATATAAGTATATATACTTAT
1 ATGTATATATATATGTATATATACTTAT
* * *
452697 ATGTATATATATGTGTGTATATACTTAC
1 ATGTATATATATATGTATATATACTTAT
*
452725 ATGTATACATACTTATGTATATATACTTAT
1 ATGTATATATA--TATGTATATATACTTAT
452755 TTTAGTCACT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 34 0.71
30 14 0.29
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (28 bp):
ATGTATATATATATGTATATATACTTAT
Found at i:452742 original size:14 final size:14
Alignment explanation
Indices: 452725--452754 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
452715 ATATACTTAC
452725 ATGTATACATACTT
1 ATGTATACATACTT
*
452739 ATGTATATATACTT
1 ATGTATACATACTT
452753 AT
1 AT
452755 TTTAGTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (14 bp):
ATGTATACATACTT
Found at i:452782 original size:2 final size:2
Alignment explanation
Indices: 452777--452920 Score: 116
Period size: 2 Copynumber: 69.5 Consensus size: 2
452767 ATTGTGTGTG
* * *
452777 TA TA TA TA TA CA CT- TA TA TA TA TG TT TA TA TA TA TA TA TA CTA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
452820 TA TA GTT TA TA TA CT- TA TA CTA TA TA TA TA TA TA TA TG CA CT-
1 TA TA -TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
*
452862 TA TA TA TA TT TA TA TA CT- 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
452904 TA TA TA CTCA TA TA TA T
1 TA TA TA -T-A TA TA TA T
452921 GCATTATACA
Statistics
Matches: 116, Mismatches: 13, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
1 4 0.03
2 102 0.88
3 9 0.08
4 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:453039 original size:2 final size:2
Alignment explanation
Indices: 453032--453063 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
453022 ATTATAAGTG
453032 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
453064 CATTAATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:453291 original size:56 final size:55
Alignment explanation
Indices: 453198--453316 Score: 150
Period size: 56 Copynumber: 2.1 Consensus size: 55
453188 CTTTATACTT
* * * *
453198 TATATATATATACATCATACATATTTACTTACATCATTGATCAATGATAAGTGTG
1 TATATATATATACATCATACATATATACTTACATCATTGATCAATAATAAGTATA
* * *
453253 TATATATATATATATTCATACTTATATA-TATATATCATTGATCAATAATAAGTATA
1 TATATATATATACA-TCATACATATATACT-TACATCATTGATCAATAATAAGTATA
453309 TATATATA
1 TATATATA
453317 CTTAGGTACA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
55 14 0.25
56 41 0.75
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (55 bp):
TATATATATATACATCATACATATATACTTACATCATTGATCAATAATAAGTATA
Found at i:461914 original size:24 final size:24
Alignment explanation
Indices: 461887--461932 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
461877 ATTTAAATGA
461887 TAAACGAACATAAATAAACAGATG
1 TAAACGAACATAAATAAACAGATG
* *
461911 TAAATGAACATAAATGAACAGA
1 TAAACGAACATAAATAAACAGA
461933 ATAAATGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.13, T:0.17
Consensus pattern (24 bp):
TAAACGAACATAAATAAACAGATG
Found at i:462144 original size:14 final size:14
Alignment explanation
Indices: 462125--462154 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
462115 AATGAGCATA
462125 AACAAACATAAATG
1 AACAAACATAAATG
462139 AACAAACATAAATG
1 AACAAACATAAATG
462153 AA
1 AA
462155 TGTATAACCA
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:0.67, C:0.13, G:0.07, T:0.13
Consensus pattern (14 bp):
AACAAACATAAATG
Found at i:463227 original size:2 final size:2
Alignment explanation
Indices: 463220--463264 Score: 58
Period size: 2 Copynumber: 23.0 Consensus size: 2
463210 CCATCCCAAC
*
463220 AT AT AT AT -T GT AT AT ACT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
463261 AT AT
1 AT AT
463265 TGTAACACCC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
1 2 0.05
2 36 0.92
3 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:464041 original size:32 final size:32
Alignment explanation
Indices: 464009--464117 Score: 103
Period size: 32 Copynumber: 3.4 Consensus size: 32
463999 GTGCCAACCT
* *
464009 AAGGGAATATCTTGGGGCCTAAGAGCCTACCT
1 AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
** * *
464041 AAGGGAGCACCTTAGGGCCTAAGATCCTACCC
1 AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
** *
464073 AA-GGAAGTACCTTGTAGCCTTAGAGCCTACCC
1 AAGGGAA-TACCTTGGGGCCTAAGAGCCTACCC
* *
464105 AAGGAAATGCCTT
1 AAGGGAATACCTT
464118 AGGACTTCAG
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
31 3 0.05
32 54 0.90
33 3 0.05
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (32 bp):
AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
Found at i:465250 original size:28 final size:28
Alignment explanation
Indices: 465191--465255 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
465181 TCCAGGGCTT
* * **
465191 AGGGGTATTTTAGGTTATTTTACACTTC
1 AGGGGTATTTTAGGTCATTTTACAATAA
465219 AGGGGTATTTT-GGTCATTTTACAATAA
1 AGGGGTATTTTAGGTCATTTTACAATAA
*
465246 AAGGGTATTT
1 AGGGGTATTT
465256 CAGTCTTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (28 bp):
AGGGGTATTTTAGGTCATTTTACAATAA
Done.