Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold202
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: 972956
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 36649 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:2379 original size:14 final size:15
Alignment explanation
Indices: 2355--2387 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2345 AAGTCTAAGT
*
2355 TTTATTATGTTATTC
1 TTTATTATGTTATTA
2370 TTTA-TATGTTATTA
1 TTTATTATGTTATTA
2384 TTTA
1 TTTA
2388 AAATCTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTATTATGTTATTA
Found at i:20526 original size:152 final size:152
Alignment explanation
Indices: 20258--20545 Score: 366
Period size: 152 Copynumber: 1.9 Consensus size: 152
20248 AACAAAAAAT
* * *
20258 CATGCATTCAACCTAACAAAACAGGGACACAGATATATCATAAACACTTTTCATTGTCAATTCTA
1 CATGCATTCAACCTAACAAAACAGGGACACAGATATATCATAAACACTTTTCAATGTCAACTCCA
* *
20323 AAATATTAAAATCTAATTTGGGTTCTGATTTTATTGGTCTTAGTCTGGTACGAGTATGAGAACTA
66 AAATATTAAAATCTAATTTGGGTCCTGATTTTATTGGTCTCAGTCTGGTACGAGTATGAGAACTA
20388 GAAGCCCATAAAAGAACAACAC
131 GAAGCCCATAAAAGAACAACAC
* * * * * * * *
20410 CATGCATTCAACCTAATACAAC-TGGATCATAGGTATATCGTAAGCACTTTTTTAATGTCAACTC
1 CATGCATTCAACCTAACAAAACAGGGA-CACAGATATATCATAAACAC-TTTTCAATGTCAACTC
* * * * *
20474 CAAATTATTTAAATCTAATTTGGAGTCCTGA-TTT-TTGTTCTCATTTTGGTACGAGTATGAGAA
64 CAAAATATTAAAATCTAATTTGG-GTCCTGATTTTATTGGTCTCAGTCTGGTACGAGTATGAGAA
20537 CTAGAAGCC
128 CTAGAAGCC
20546 AAAAAAGGAT
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
151 3 0.03
152 70 0.61
153 36 0.31
154 6 0.05
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (152 bp):
CATGCATTCAACCTAACAAAACAGGGACACAGATATATCATAAACACTTTTCAATGTCAACTCCA
AAATATTAAAATCTAATTTGGGTCCTGATTTTATTGGTCTCAGTCTGGTACGAGTATGAGAACTA
GAAGCCCATAAAAGAACAACAC
Found at i:20766 original size:83 final size:82
Alignment explanation
Indices: 20628--20826 Score: 312
Period size: 83 Copynumber: 2.4 Consensus size: 82
20618 TTGAGATGGT
* * * *
20628 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGGTTGGTTAACATCTTATTGCTA-T
1 TAACATATTTTGTTTGTTTTTTTAAATGATTTGTTAAAATGGTTAGTTAACATCTTACTGCTATT
20692 AGGATCATTTTGTTAGCA
66 A-GATCATTTTGTTAGCA
20710 TAACATATTTTGTTTGTTTTTTTTAAATGATTTGTTAAAATGGTTAGTTAACATCTTACTGCTAT
1 TAACATATTTTGTTTG-TTTTTTTAAATGATTTGTTAAAATGGTTAGTTAACATCTTACTGCTAT
*
20775 TAGATCATTTTGTTAGTA
65 TAGATCATTTTGTTAGCA
*
20793 TAACATATTTTGTTTG-TTTTTTAAATGATCTGTT
1 TAACATATTTTGTTTGTTTTTTTAAATGATTTGTT
20827 GAAAGATGTG
Statistics
Matches: 109, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
81 17 0.16
82 16 0.15
83 74 0.68
84 2 0.02
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (82 bp):
TAACATATTTTGTTTGTTTTTTTAAATGATTTGTTAAAATGGTTAGTTAACATCTTACTGCTATT
AGATCATTTTGTTAGCA
Found at i:22916 original size:19 final size:19
Alignment explanation
Indices: 22882--22921 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
22872 GTTTTAAATG
*
22882 TTTTTTAATTTTAATT-AT
1 TTTTTTAATTTAAATTCAT
22900 TTTTTTAAGTTTAAATTCAT
1 TTTTTTAA-TTTAAATTCAT
22920 TT
1 TT
22922 GCTGACGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTTTAATTTAAATTCAT
Found at i:23983 original size:3 final size:3
Alignment explanation
Indices: 23958--24005 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
23948 AAATTTAAAA
* * * *
23958 AAT AAA AAT AAAT AAT AAC AAT AAT AAT GAG AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24004 AA
1 AA
24006 GAACAAAATG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:25844 original size:51 final size:51
Alignment explanation
Indices: 25789--26092 Score: 218
Period size: 51 Copynumber: 6.3 Consensus size: 51
25779 GCACCATTGT
25789 AACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
1 AACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * * *
25840 AACTTTTAGGGAAATAAGA----T---TTGTAGCTTTAATCTGCTCAACTGC
1 AAC-TTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * * * *
25885 AACTTTAGGGAGATAAGATTCGTAATTTATAGCTTTAATTTGTTCCACTGC
1 AACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* ** ** **
25936 AACTTCAGGGAAATGTGATTTGTAAC-T-T--C---AATCTAATCCACTAT
1 AACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * * * **
25980 AACTTCAGAGAGATAAGATTTG-----T-TATCTTCAATCTGCTCCACTTT
1 AACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * *
26025 AACTTCAAGGATATAAGATTTG-AAGCTTGTAGCTTTAATCTATTCCACTGC
1 AACTTCAGGGAGATAAGATTTGTAA-CTTGTAGCTTTAATCTGTTCCACTGC
26076 AACTTCAGGGAGATAAG
1 AACTTCAGGGAGATAAG
26093 GCTTGCTATA
Statistics
Matches: 196, Mismatches: 38, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
40 2 0.01
42 1 0.01
44 42 0.21
45 57 0.29
47 1 0.01
48 2 0.01
49 1 0.01
50 2 0.01
51 75 0.38
52 13 0.07
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (51 bp):
AACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
Found at i:25895 original size:96 final size:95
Alignment explanation
Indices: 25789--26002 Score: 275
Period size: 95 Copynumber: 2.2 Consensus size: 95
25779 GCACCATTGT
* *
25789 AACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGCAACTTTTAGGGAAA
1 AACTTCAGGGAGATAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTGCAAC-TTCAGGGAAA
* * ** *
25854 TAAGATTTGTAGCTTTAATCTGCTCAACTGC
65 TAAGATTTGTAACTTCAATCTAATCAACTAC
* * * *
25885 AACTTTAGGGAGATAAGATTCGTAATTTATAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAAT
1 AACTTCAGGGAGATAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAAT
** * *
25950 GTGATTTGTAACTTCAATCTAATCCACTAT
66 AAGATTTGTAACTTCAATCTAATCAACTAC
*
25980 AACTTCAGAGAGATAAGATTTGT
1 AACTTCAGGGAGATAAGATTTGT
26003 TATCTTCAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 51 0.51
96 49 0.49
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (95 bp):
AACTTCAGGGAGATAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAAT
AAGATTTGTAACTTCAATCTAATCAACTAC
Found at i:25969 original size:140 final size:140
Alignment explanation
Indices: 25832--26086 Score: 316
Period size: 140 Copynumber: 1.8 Consensus size: 140
25822 TTTAATCTGT
* * * * * *
25832 TCCACTGCAACTTTTAGGGAAATAAGATTTG-TAGCTTTAATCTGCTCAACTGCAACTTTAGGGA
1 TCCACTACAAC-TTCAGAGAAATAAGATTTGTTAGCTTCAATCTGCTCAACTGCAACTTCAAGGA
* * *
25896 GATAAGATTCGTAA-TTTATAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATGTGATTTGTA
65 GATAAGATTCG-AAGCTTATAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATGTGATTTGTA
25960 ACTTCAATCTAA
129 ACTTCAATCTAA
* * * * ** *
25972 TCCACTATAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTGCTCCACTTTAACTTCAAGGAT
1 TCCACTACAACTTCAGAGAAATAAGATTTGTTAGCTTCAATCTGCTCAACTGCAACTTCAAGGAG
* *
26037 ATAAGATTTGAAGCTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGA
66 ATAAGATTCGAAGCTTATAGCTTTAATCTATTCCACTGCAACTTCAGGGA
26087 GATAAGGCTT
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
139 18 0.19
140 77 0.81
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (140 bp):
TCCACTACAACTTCAGAGAAATAAGATTTGTTAGCTTCAATCTGCTCAACTGCAACTTCAAGGAG
ATAAGATTCGAAGCTTATAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATGTGATTTGTAAC
TTCAATCTAA
Found at i:26256 original size:44 final size:44
Alignment explanation
Indices: 25815--26733 Score: 477
Period size: 44 Copynumber: 19.9 Consensus size: 44
25805 GATTTGTAAC
* * *
25815 TTGTAGCTTTAATCTGTTCCACTGCAACTTTTAGGGAAATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAAC-TTCAGGGAGATAAGAT
* *
25860 TTGTAGCTTTAATCTGCTCAACTGCAACTTTAGGGAGATAAGATTCGTAAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT-A-A---G--AT
* * * * **
25911 TTATAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATGTGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * ** ** *
25955 TTGTAACTTCAATCTAATCCACTATAACTTCAGAGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * ** * *
25999 TTGTTATCTTCAATCTGCTCCACTTTAACTTCAAGGATATAAGATTT
1 TTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T
** *
26046 GAAGCTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAGATAAGGCTT
1 -----TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA-G-AT
* * * *
26097 GCTATAGTAGATTTAATCTGAC-CTACTGCAACTTCAGAGG-CAT-AGAA
1 --T-T-GTAGCTTTAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGAT
* * * ***
26144 GT-TATCGTTTCAATTTGCTCCACTGCAAACTTCAAAAAGATAAGAT
1 TTGTAGC-TTT-AATCTGCTCCACTGC-AACTTCAGGGAGATAAGAT
** * * * * *
26190 TTGCTATTTTTAA-CTTGGTCCACTACAATTTTAGGGAGATAAGGT
1 TTG-TAGCTTTAATC-TGCTCCACTGCAACTTCAGGGAGATAAGAT
* *
26235 TTGCAGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
26279 TTGTAGCCTGTCTTCAATTTGCTCCACTGCAATTTTTAGGTAGATAAGAT
1 TTGTAG-C--T-TT-AATCTGCTCCACTGCAA-CTTCAGGGAGATAAGAT
** * * * * *
26329 TTGTTTATTTTTAACCTACTCTACTACAACTTCAAGGAGATAA-AGT
1 TTG--TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T
* * *
26375 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * *
26419 TTGTTATCTCTGATCTACTCCACTGCAACTTCAGTGAGATAAGAT
1 TTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * *
26464 CTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT-A-A-----GAT
* * **
26515 TTGTAGCTTTAATCTGCTCTACTGCAACTTTATAGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
** *** ** * *
26559 TTGCTATATCCGATCTATTCCACTGTAACTTCAGAGAGATAAGAT
1 TTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * *
26604 TTGTAGCTTCAATATACTCTACTGCAACTTTAGAGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
26648 TCAT-TATAC-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAAAT
1 T--TGTA-GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
26693 TTGTGGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAA
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
26734 AATTCGTCAT
Statistics
Matches: 664, Mismatches: 155, Indels: 111
0.71 0.17 0.12
Matches are distributed among these distances:
42 2 0.00
43 6 0.01
44 228 0.34
45 192 0.29
46 33 0.05
47 17 0.03
48 11 0.02
49 21 0.03
50 45 0.07
51 103 0.16
52 6 0.01
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (44 bp):
TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
Found at i:26324 original size:139 final size:140
Alignment explanation
Indices: 26152--26422 Score: 357
Period size: 140 Copynumber: 1.9 Consensus size: 140
26142 AAGTTATCGT
* **
26152 TTCAATTTGCTCCACTGCAAACTTCAAAAAGATAAGATTTG-CTATTTTTAACTTGGTCCACTAC
1 TTCAATTTGCTCCACTGCAAACTTCAAAAAGATAAGATTTGTCTATTTTTAACCTACTCCACTAC
* * * * *
26216 AATTTTAGGGAGATAAGGTTTGCAGCTTTAATCTGCTCCACTGCAACTTCA-AGGAGATAAGATT
66 AACTTCAAGGAGATAAAGTTTACAGCTTTAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATT
26280 TGTAGCCTGTC
130 TGTAGCCTGTC
** * *** * *
26291 TTCAATTTGCTCCACTGCAATTTTTAGGTAGATAAGATTTGTTTATTTTTAACCTACTCTACTAC
1 TTCAATTTGCTCCACTGCAAACTTCAAAAAGATAAGATTTGTCTATTTTTAACCTACTCCACTAC
* *
26356 AACTTCAAGGAGATAAAGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTT
66 AACTTCAAGGAGATAAAGTTTACAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
26421 GT
131 GT
26423 TATCTCTGAT
Statistics
Matches: 112, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
139 35 0.31
140 76 0.68
141 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (140 bp):
TTCAATTTGCTCCACTGCAAACTTCAAAAAGATAAGATTTGTCTATTTTTAACCTACTCCACTAC
AACTTCAAGGAGATAAAGTTTACAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
GTAGCCTGTC
Found at i:26451 original size:89 final size:89
Alignment explanation
Indices: 25818--26733 Score: 382
Period size: 89 Copynumber: 9.9 Consensus size: 89
25808 TTGTAACTTG
* * * * * * * *
25818 TAGCTTTAATCTGTTCCACTGCAACTTTTAGGGAAATAAGATTTG-TAGCTTTAATCTGCTCAAC
1 TAGCTTTAATCTGCTCCACTGCAAC-TTCAGAGAGATAAGATTTGTTATCTCTAATCTACTCCAC
* *
25882 TGCAACTTTAGGGAGATAAGATTCGTAATTTA
65 TGCAACTTCAAGGAGAT-A-A---G--ATTTA
* * * * ** * *
25914 TAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATGTGATTTG-TAACT-TCAATCTAATCCAC
1 TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTCT-AATCTACTCCAC
** *
25977 TATAACTTC-AGAGAGATAAGATTTGT
65 TGCAACTTCAAG-GAGATAAGATTT-A
* * ** * * *
26003 TATCTTCAATCTGCTCCACTTTAACTTCA-AGGATATAAGATTTGAAGCTTGTAGCTTTAATCTA
1 TAGCTTTAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTT---G--T-TATCTCTAATCTA
* * *
26067 TTCCACTGCAACTTCAGGGAGATAAGGCTTGCTATA
59 CTCCACTGCAACTTCAAGGAGATAA-G-AT--T-TA
* * * * * *
26103 GTAGATTTAATCTGAC-CTACTGCAACTTCAGAG-GCAT-AGA--AGTTATCGTTTCAATTTGCT
1 -TAGCTTTAATCTG-CTCCACTGCAACTTCAGAGAG-ATAAGATTTGTTATC-TCT-AATCTACT
** *
26163 CCACTGCAAACTTCAAAAAGATAAGATTTGC
61 CCACTGC-AACTTCAAGGAGATAAGATTT-A
** * * * * * * * * * *
26194 TATTTTTAA-CTTGGTCCACTACAATTTTAGGGAGATAAGGTTTG-CAGCTTTAATCTGCTCCAC
1 TAGCTTTAATC-TGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTCTAATCTACTCCAC
*
26257 TGCAACTTCAAGGAGATAAGATTTG
65 TGCAACTTCAAGGAGATAAGATTTA
* * * * * *
26282 TAGCCTGTCTTCAATTTGCTCCACTGCAATTTTTAG-GTAGATAAGATTTGTTTATTTTTAACCT
1 TAG-C--T-TT-AATCTGCTCCACTGCAA-CTTCAGAG-AGATAAGATTTG-TTATCTCTAATCT
* *
26346 ACTCTACTACAACTTCAAGGAGATAA-AGTTTA
58 ACTCCACTGCAACTTCAAGGAGATAAGA-TTTA
* *
26378 TAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTATCTCTGATCTACTCCACT
1 TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTCTAATCTACTCCACT
*
26443 GCAACTTC-AGTGAGATAAGATCTA
66 GCAACTTCAAG-GAGATAAGATTTA
* * * * *
26467 TAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGATTTGTAGCTTTAATCTGC
1 TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-TG---T-TATCTCTAATCTAC
* * *
26532 TCTACTGCAACTTTATA-GAGATAAGATTTGC
60 TCCACTGCAACTTCA-AGGAGATAAGATTT-A
** *** ** * * * *
26563 TATATCCGATCTATTCCACTGTAACTTCAGAGAGATAAGATTTG-TAGCT-TCAATATACTCTAC
1 TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTCT-AATCTACTCCAC
*
26626 TGCAACTT-TAGAGAGATAAGATTCATTA
65 TGCAACTTCAAG-GAGATAAGA-T--TTA
* * * ** *
26654 TA-C-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTTG-TGGCTTTAATCTACTCCACT
1 TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTCTAATCTACTCCACT
26716 GCAACTTCAAGGAGATAA
66 GCAACTTCAAGGAGATAA
26734 AATTCGTCAT
Statistics
Matches: 635, Mismatches: 122, Indels: 133
0.71 0.14 0.15
Matches are distributed among these distances:
87 1 0.00
88 9 0.01
89 215 0.34
90 62 0.10
91 28 0.04
92 12 0.02
93 22 0.03
94 36 0.06
95 91 0.14
96 123 0.19
97 4 0.01
98 1 0.00
100 4 0.01
101 25 0.04
102 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (89 bp):
TAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTTATCTCTAATCTACTCCACT
GCAACTTCAAGGAGATAAGATTTA
Found at i:26480 original size:229 final size:228
Alignment explanation
Indices: 26245--26733 Score: 551
Period size: 229 Copynumber: 2.1 Consensus size: 228
26235 TTGCAGCTTT
*
26245 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGT-AGCCTGT-CTTCAATTTGCTCCACTG
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTGA-CCTGTACTTCAATCTGCTCCACTG
* * * ** *
26308 CAA-TTTTTAGGTAGATAAGATTTGTTTATTTTTAACCTACTCTACTACAACTTCA-AGGAGATA
65 CAACTTTATA-G-AGATAAGATTTG-CTATATCCAACCTACTCCACTACAACTTCAGA-GAGATA
* * * ** *
26371 A-AGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTAT-CTCTGATC
126 AGA-TTTATAGCTTCAATATACTCTACTGCAACTTCAGAGAGATAAGATTCATTATACTC-AATC
* *
26434 TACTCCACTGCAACTTCAGTGAGATAAGATCTATAACTTC
189 TACTCCACTGCAACTTCAGGGAGATAAAATCTATAACTTC
** * *
26474 AATCTGCTCCACTGCAACTTC-AGAGAGATAAGATTTGTGATTTGTAGCTTTAATCTGCTCTACT
1 AATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGTGACCTGTA-CTTCAATCTGCTCCACT
* * * **
26538 GCAACTTTATAGAGATAAGATTTGCTATATCCGATCTATTCCACTGTAACTTCAGAGAGATAAGA
64 GCAACTTTATAGAGATAAGATTTGCTATATCCAACCTACTCCACTACAACTTCAGAGAGATAAGA
* * *
26603 TTTGTAGCTTCAATATACTCTACTGCAACTTTAGAGAGATAAGATTCATTATACTCAATCTGCTC
129 TTTATAGCTTCAATATACTCTACTGCAACTTCAGAGAGATAAGATTCATTATACTCAATCTACTC
* * ** *
26668 CACTGCAACTTCAGGGAGATAAAATTTGTGGCTTT
194 CACTGCAACTTCAGGGAGATAAAATCTATAACTTC
*
26703 AATCTACTCCACTGCAACTTCAAGGAGATAA
1 AATCTGCTCCACTGCAACTTCAAGGAGATAA
26734 AATTCGTCAT
Statistics
Matches: 218, Mismatches: 33, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
228 2 0.01
229 172 0.79
230 20 0.09
231 19 0.09
232 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (228 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTGACCTGTACTTCAATCTGCTCCACTGC
AACTTTATAGAGATAAGATTTGCTATATCCAACCTACTCCACTACAACTTCAGAGAGATAAGATT
TATAGCTTCAATATACTCTACTGCAACTTCAGAGAGATAAGATTCATTATACTCAATCTACTCCA
CTGCAACTTCAGGGAGATAAAATCTATAACTTC
Found at i:26522 original size:140 final size:134
Alignment explanation
Indices: 26375--26733 Score: 416
Period size: 140 Copynumber: 2.6 Consensus size: 134
26365 GAGATAAAGT
26375 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTATCTCTGATCTACTCC
1 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG-TATCTCTGATCTACTCC
* *
26440 ACTGCAACTTCAGTGAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAA
65 ACTGCAACTTCAG-GAGATAAGATCTATAACTTCAATATACTCCACTGCAACTTCAGAGAGATAA
*
26505 GATTTGTGA
129 GA--T-TCA
* * * * * *
26514 TTTGTAGCTTTAATCTGCTCTACTGCAACTTTATAGAGATAAGATTTGCTATATCCGATCTATTC
1 -TTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG-TATCTCTGATCTACTC
* * * * * *
26579 CACTGTAACTTCAGAGAGATAAGATTTGTAGCTTCAATATACTCTACTGCAACTTTAGAGAGATA
64 CACTGCAACTTCAG-GAGATAAGATCTATAACTTCAATATACTCCACTGCAACTTCAGAGAGATA
26644 AGATTCA
128 AGATTCA
* * * * ** * *
26651 TTATA-C-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTTGTGGCTTTAATCTACTCCA
1 TTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTATCTCTGATCTACTCCA
26714 CTGCAACTTCAAGGAGATAA
66 CTGCAACTTC-AGGAGATAA
26734 AATTCGTCAT
Statistics
Matches: 186, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
133 27 0.15
134 35 0.19
135 1 0.01
136 4 0.02
137 2 0.01
138 1 0.01
140 116 0.62
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (134 bp):
TTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTATCTCTGATCTACTCCA
CTGCAACTTCAGGAGATAAGATCTATAACTTCAATATACTCCACTGCAACTTCAGAGAGATAAGA
TTCA
Found at i:33555 original size:4 final size:4
Alignment explanation
Indices: 33530--33578 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
33520 ATACAAAAAG
* * * *
33530 AATA AATG AATC AATG AATA AATA AATA CATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
33578 A
1 A
33579 TTTCATGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:40199 original size:24 final size:23
Alignment explanation
Indices: 40153--40199 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
40143 AGTAACATTC
* *
40153 AATTTTTTATTAAATATAGTAAT
1 AATTATTTATTAAATATAATAAT
*
40176 AATTATTTATATATATATAATAAT
1 AATTATTTAT-TAAATATAATAAT
40200 CAATAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTATTTATTAAATATAATAAT
Found at i:42226 original size:21 final size:21
Alignment explanation
Indices: 42202--42255 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
42192 AAAAATATAC
42202 AAATGAAACAGGAAAAGAAAA
1 AAATGAAACAGGAAAAGAAAA
* *** **
42223 AAATAAAACCTCAAAAGGGAA
1 AAATGAAACAGGAAAAGAAAA
42244 AAATGAAACAGG
1 AAATGAAACAGG
42256 GATAAAAAAT
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.65, C:0.09, G:0.19, T:0.07
Consensus pattern (21 bp):
AAATGAAACAGGAAAAGAAAA
Found at i:42740 original size:17 final size:17
Alignment explanation
Indices: 42720--42766 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
42710 GTATTTTTTA
*
42720 TTATATTATATTAATGT
1 TTATATTATAATAATGT
42737 TTATATTATAAAATAATGT
1 TTATATTAT--AATAATGT
42756 TTA-ATTATAAT
1 TTATATTATAAT
42767 TTGTTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 3 0.11
17 9 0.33
18 5 0.19
19 10 0.37
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
TTATATTATAATAATGT
Found at i:42993 original size:3 final size:3
Alignment explanation
Indices: 42985--43018 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
42975 GTATGTTTTG
42985 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
43019 ATCAATGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:47819 original size:14 final size:14
Alignment explanation
Indices: 47800--47826 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47790 CATTGTATGA
47800 CATATCTCAGTATC
1 CATATCTCAGTATC
47814 CATATCTCAGTAT
1 CATATCTCAGTAT
47827 TTCTTGACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (14 bp):
CATATCTCAGTATC
Found at i:54840 original size:15 final size:16
Alignment explanation
Indices: 54820--54854 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
54810 TTCTGTTCCT
*
54820 TTTTTTTTCTTTTT-A
1 TTTTTTTCCTTTTTCA
54835 TTTTTTTCCTTTTTCA
1 TTTTTTTCCTTTTTCA
54851 TTTT
1 TTTT
54855 CTATCTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTTCCTTTTTCA
Found at i:55432 original size:3 final size:3
Alignment explanation
Indices: 55415--55480 Score: 64
Period size: 3 Copynumber: 21.3 Consensus size: 3
55405 TAGTCCTTTT
* *
55415 TTA TTA -TA TTA -TA TTA TTTG TTA TTG TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
55459 TTGCA TTA TATA TTA TTA TTA T
1 TT--A TTA T-TA TTA TTA TTA T
55481 ACTTATGTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 4 0.08
3 41 0.77
4 5 0.09
5 3 0.06
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:60076 original size:18 final size:18
Alignment explanation
Indices: 60053--60092 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
60043 TTATTATTTT
*
60053 TAAAATTT-ACTATTAAAA
1 TAAAATTTAAATATT-AAA
60071 TAAAATTTAAATATTAAA
1 TAAAATTTAAATATTAAA
60089 TAAA
1 TAAA
60093 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTTAAATATTAAA
Found at i:60099 original size:19 final size:19
Alignment explanation
Indices: 60063--60113 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
60053 TAAAATTTAC
*
60063 TATTAAAATAAAAT-TTAAA
1 TATT-AAATAAATTATTAAA
60082 TATTAAATAAATTATTAAA
1 TATTAAATAAATTATTAAA
*
60101 -AAT-AATAAATTAT
1 TATTAAATAAATTAT
60114 ATTAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 10 0.34
18 10 0.34
19 9 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTAAATAAATTATTAAA
Found at i:64659 original size:16 final size:16
Alignment explanation
Indices: 64638--64677 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
64628 TTTGGTTCGC
64638 TGTAATAGAATAGAGG
1 TGTAATAGAATAGAGG
*
64654 TGTAATGGAATAGAGG
1 TGTAATAGAATAGAGG
64670 TGTAATAG
1 TGTAATAG
64678 GTAATCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.28
Consensus pattern (16 bp):
TGTAATAGAATAGAGG
Found at i:64750 original size:44 final size:46
Alignment explanation
Indices: 64657--64750 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
64647 ATAGAGGTGT
** *
64657 AATGGAATAGAGGTGTAATAGGTAATCCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGGTAATCCTTGTGTTTGGTTGAATGG
*
64703 AATGGAATAGAACTGTAATA-GT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGGTAATCCTTGTGTTTGGTTGAATGG
64747 AATG
1 AATG
64751 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 24 0.55
45 2 0.05
46 18 0.41
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAGGTAATCCTTGTGTTTGGTTGAATGG
Found at i:64759 original size:39 final size:41
Alignment explanation
Indices: 64657--64762 Score: 101
Period size: 44 Copynumber: 2.5 Consensus size: 41
64647 ATAGAGGTGT
* *
64657 AATGGAATAGA-GGTGTAATAGGTAATCCTTTTGTTTGGTTG
1 AATGGAATAGATGCTGTAATA-GTAATCCTTGTGTTTGGTTG
* *
64698 AATGGAATGGAATAGAACTGTAATAGT-ATTCTTGTGTTTGGTTG
1 AATGGAATAG-AT-G--CTGTAATAGTAATCCTTGTGTTTGGTTG
*
64742 AATGGAAT-GATGTTGTAATAG
1 AATGGAATAGATGCTGTAATAG
64763 CATAAGGAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
39 8 0.15
41 10 0.18
42 3 0.05
43 1 0.02
44 24 0.44
45 2 0.04
46 7 0.13
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (41 bp):
AATGGAATAGATGCTGTAATAGTAATCCTTGTGTTTGGTTG
Found at i:64935 original size:18 final size:17
Alignment explanation
Indices: 64908--65024 Score: 54
Period size: 18 Copynumber: 7.0 Consensus size: 17
64898 TTATTATTAA
64908 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
64925 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
*
64943 CATA-ATATATAATACTTAAA-
1 -ATATA-ATTTAATA---AAAT
*
64963 ATATAATTT--TAACAT
1 ATATAATTTAATAAAAT
* *
64978 A-ATTA-TT-AT-TAA-
1 ATATAATTTAATAAAAT
64990 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
65007 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
65025 CATAATATAT
Statistics
Matches: 74, Mismatches: 11, Indels: 29
0.65 0.10 0.25
Matches are distributed among these distances:
12 1 0.01
13 6 0.08
14 8 0.11
15 3 0.04
16 2 0.03
17 11 0.15
18 30 0.41
19 9 0.12
20 1 0.01
21 3 0.04
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:64984 original size:82 final size:82
Alignment explanation
Indices: 64886--65042 Score: 314
Period size: 82 Copynumber: 1.9 Consensus size: 82
64876 ATTTAATCAT
64886 ATTTTAACATAATTATTATTAAATATAATTTAATAAAATATATGAATTTACTAAAATCATAATAT
1 ATTTTAACATAATTATTATTAAATATAATTTAATAAAATATATGAATTTACTAAAATCATAATAT
64951 ATAATACTTAAAATATA
66 ATAATACTTAAAATATA
64968 ATTTTAACATAATTATTATTAAATATAATTTAATAAAATATATGAATTTACTAAAATCATAATAT
1 ATTTTAACATAATTATTATTAAATATAATTTAATAAAATATATGAATTTACTAAAATCATAATAT
65033 ATAATACTTA
66 ATAATACTTA
65043 GGGATGAAGA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (82 bp):
ATTTTAACATAATTATTATTAAATATAATTTAATAAAATATATGAATTTACTAAAATCATAATAT
ATAATACTTAAAATATA
Found at i:65035 original size:41 final size:41
Alignment explanation
Indices: 64908--65037 Score: 144
Period size: 41 Copynumber: 3.2 Consensus size: 41
64898 TTATTATTAA
64908 ATATAATTTAATAAAATATATGAATTTACTAAAATCATAAT
1 ATATAATTTAATAAAATATATGAATTTACTAAAATCATAAT
* * * *
64949 ATATAA--TACTTAAAATATA--ATTTTAACATAATTATTATTAA-
1 ATATAATTTA-ATAAAATATATGAATTT-AC-TAA-AATCA-TAAT
64990 ATATAATTTAATAAAATATATGAATTTACTAAAATCATAAT
1 ATATAATTTAATAAAATATATGAATTTACTAAAATCATAAT
65031 ATATAAT
1 ATATAAT
65038 ACTTAGGGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
38 4 0.06
39 4 0.06
40 15 0.21
41 25 0.35
42 15 0.21
43 4 0.06
44 4 0.06
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (41 bp):
ATATAATTTAATAAAATATATGAATTTACTAAAATCATAAT
Found at i:66940 original size:13 final size:13
Alignment explanation
Indices: 66922--66954 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
66912 CGAGATAATC
66922 GGAATTGAAGCTT
1 GGAATTGAAGCTT
66935 GGAATTGAAGCTT
1 GGAATTGAAGCTT
66948 GGAATTG
1 GGAATTG
66955 CTTAGTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.30
Consensus pattern (13 bp):
GGAATTGAAGCTT
Found at i:81460 original size:51 final size:50
Alignment explanation
Indices: 81378--81482 Score: 174
Period size: 51 Copynumber: 2.1 Consensus size: 50
81368 GTAGCTATAA
* *
81378 ATCATTTGTTTATATTAAGTGTCCATGTGTTGTATGTATCAAGATAGGGT
1 ATCATTTGTTTATATTAAGTGTCCATGTGTTGCACGTATCAAGATAGGGT
*
81428 ATCATTTGTTTATATTTAAGTGTCCATTTGTTGCACGTATCAAGATAGGGT
1 ATCATTTGTTTATA-TTAAGTGTCCATGTGTTGCACGTATCAAGATAGGGT
81479 ATCA
1 ATCA
81483 AAACCAGCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 14 0.27
51 37 0.73
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (50 bp):
ATCATTTGTTTATATTAAGTGTCCATGTGTTGCACGTATCAAGATAGGGT
Found at i:87173 original size:20 final size:21
Alignment explanation
Indices: 87140--87179 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
87130 CCAAGTGCAA
* *
87140 AATGAAGCTTAATTTTAGCTC
1 AATGAAGCTCAATTCTAGCTC
87161 AATG-AGCTCAATTCTAGCT
1 AATGAAGCTCAATTCTAGCT
87180 TTTTCAAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
AATGAAGCTCAATTCTAGCTC
Found at i:87303 original size:19 final size:19
Alignment explanation
Indices: 87279--87334 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
87269 TAAATTACTC
*
87279 ATCTTAGTTAATTGAGTTT
1 ATCTTAGTTAATTAAGTTT
*
87298 ATCTTAGTTAATTAAGTTG
1 ATCTTAGTTAATTAAGTTT
* **
87317 CTGGTAGTTAATTAAGTT
1 ATCTTAGTTAATTAAGTT
87335 GCTGGAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.48
Consensus pattern (19 bp):
ATCTTAGTTAATTAAGTTT
Found at i:87335 original size:19 final size:19
Alignment explanation
Indices: 87302--87339 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
87292 GAGTTTATCT
87302 TAGTTAATTAAGTTGCTGG
1 TAGTTAATTAAGTTGCTGG
87321 TAGTTAATTAAGTTGCTGG
1 TAGTTAATTAAGTTGCTGG
87340 AATAAATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (19 bp):
TAGTTAATTAAGTTGCTGG
Found at i:87514 original size:9 final size:10
Alignment explanation
Indices: 87491--87527 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
87481 TAAGTCTAAT
87491 ATGTGTTTAA
1 ATGTGTTTAA
87501 ATGTGTTT-A
1 ATGTGTTTAA
87510 ATGTGTTTAA
1 ATGTGTTTAA
87520 ATGTGTTT
1 ATGTGTTT
87528 GTTAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (10 bp):
ATGTGTTTAA
Found at i:87515 original size:19 final size:19
Alignment explanation
Indices: 87491--87527 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
87481 TAAGTCTAAT
87491 ATGTGTTTAAATGTGTTTA
1 ATGTGTTTAAATGTGTTTA
87510 ATGTGTTTAAATGTGTTT
1 ATGTGTTTAAATGTGTTT
87528 GTTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (19 bp):
ATGTGTTTAAATGTGTTTA
Found at i:87580 original size:64 final size:64
Alignment explanation
Indices: 87505--87624 Score: 195
Period size: 64 Copynumber: 1.9 Consensus size: 64
87495 GTTTAAATGT
87505 GTTTAATGTGTTTAAATGTGTTTGTTAATAAATGCTTACAGGTGACTATTTAGTTGCTTATTAA
1 GTTTAATGTGTTTAAATGTGTTTGTTAATAAATGCTTACAGGTGACTATTTAGTTGCTTATTAA
* * ** *
87569 GTTTAGTGTGTTTAAATGTGTTTGTTAATAAATGTTTGGAGGTGACTTTTTAGTTG
1 GTTTAATGTGTTTAAATGTGTTTGTTAATAAATGCTTACAGGTGACTATTTAGTTG
87625 GAATCAGTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (64 bp):
GTTTAATGTGTTTAAATGTGTTTGTTAATAAATGCTTACAGGTGACTATTTAGTTGCTTATTAA
Found at i:94111 original size:38 final size:38
Alignment explanation
Indices: 94051--94124 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
94041 ATACCTAAAA
*
94051 TTTTCTGGAGTGATCATTAATAAAAGCTAGAAGATAAC
1 TTTTCTGGAGTGATCATCAATAAAAGCTAGAAGATAAC
*
94089 TTTTTTGGAGTGATCATCAATAAAAGCTAGAAGATA
1 TTTTCTGGAGTGATCATCAATAAAAGCTAGAAGATA
94125 TCTGCTACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.32
Consensus pattern (38 bp):
TTTTCTGGAGTGATCATCAATAAAAGCTAGAAGATAAC
Found at i:94535 original size:104 final size:105
Alignment explanation
Indices: 94405--94614 Score: 413
Period size: 104 Copynumber: 2.0 Consensus size: 105
94395 GGATGTTAGT
94405 ACAGTCGTATTAAAATTTTGTTAAGAAATTTTGATGTTTGCATGATTAATTAAATGAAAAGGACT
1 ACAGTCGTATTAAAATTTTGTTAAGAAATTTTGATGTTTGCATGATTAATTAAATGAAAAGGACT
94470 AAATCGTAAAAAGGTGCGAAAGTGGAGTTTTATTTGTTAA
66 AAATCGTAAAAAGGTGCGAAAGTGGAGTTTTATTTGTTAA
94510 ACAGTCGTA-TAAAATTTTGTTAAGAAATTTTGATGTTTGCATGATTAATTAAATGAAAAGGACT
1 ACAGTCGTATTAAAATTTTGTTAAGAAATTTTGATGTTTGCATGATTAATTAAATGAAAAGGACT
94574 AAATCGTAAAAAGGTGCGAAAGTGGAGTTTTATTTGTTAA
66 AAATCGTAAAAAGGTGCGAAAGTGGAGTTTTATTTGTTAA
94614 A
1 A
94615 AGGGCCAAAT
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 96 0.91
105 9 0.09
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.36
Consensus pattern (105 bp):
ACAGTCGTATTAAAATTTTGTTAAGAAATTTTGATGTTTGCATGATTAATTAAATGAAAAGGACT
AAATCGTAAAAAGGTGCGAAAGTGGAGTTTTATTTGTTAA
Found at i:97831 original size:18 final size:18
Alignment explanation
Indices: 97808--97848 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
97798 AAGTCCTAAG
97808 AATAATATGATTATTTTT
1 AATAATATGATTATTTTT
97826 AATAATATGATTATTTTT
1 AATAATATGATTATTTTT
97844 AATAA
1 AATAA
97849 GGTCATTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
AATAATATGATTATTTTT
Found at i:99976 original size:2 final size:2
Alignment explanation
Indices: 99969--100012 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
99959 GATGATTGAA
*
99969 AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
100012 A
1 A
100013 GAAATAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101396 original size:19 final size:18
Alignment explanation
Indices: 101344--101396 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
101334 AAATAGATAT
101344 AATTATTTTGGTCAAAGTTA
1 AATTATTTTGG--AAAGTTA
*
101364 AAATATTTAT-GAAAGTTA
1 AATTATTT-TGGAAAGTTA
101382 ATATTATTTTGGAAA
1 A-ATTATTTTGGAAA
101397 AAAATATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 9 0.32
19 10 0.36
20 8 0.29
21 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.43
Consensus pattern (18 bp):
AATTATTTTGGAAAGTTA
Found at i:103546 original size:14 final size:14
Alignment explanation
Indices: 103507--103558 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
103497 CAGAAGCAAA
*
103507 TAAAAGAAAAAAAT
1 TAAAATAAAAAAAT
* **
103521 TAGAATGTAAAAAT
1 TAAAATAAAAAAAT
*
103535 TAAAATAAAAAAAA
1 TAAAATAAAAAAAT
*
103549 TATAATAAAA
1 TAAAATAAAA
103559 TAAAAAATGG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (14 bp):
TAAAATAAAAAAAT
Found at i:104888 original size:31 final size:31
Alignment explanation
Indices: 104850--104911 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
104840 TGGGATTAAA
104850 ATATGTTAGTTTTATCATTTATCAAATATCC
1 ATATGTTAGTTTTATCATTTATCAAATATCC
104881 ATATGTTAGTTTTATCATTTATCAAATATCC
1 ATATGTTAGTTTTATCATTTATCAAATATCC
104912 CCAAACTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.48
Consensus pattern (31 bp):
ATATGTTAGTTTTATCATTTATCAAATATCC
Found at i:107191 original size:30 final size:30
Alignment explanation
Indices: 107155--107218 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
107145 CTTAACTTAT
* *
107155 ATAGCCAC-AGAGGTGTCCATACATCATTAG
1 ATAGCCACAAG-GGTGTCCACAAATCATTAG
107185 ATAGCCACAAGGGTGTCCACAAATCATTAG
1 ATAGCCACAAGGGTGTCCACAAATCATTAG
107215 ATAG
1 ATAG
107219 TAATAAAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (30 bp):
ATAGCCACAAGGGTGTCCACAAATCATTAG
Found at i:107647 original size:54 final size:54
Alignment explanation
Indices: 107566--107782 Score: 251
Period size: 53 Copynumber: 4.1 Consensus size: 54
107556 GCCATTTTTA
* * * * * *
107566 TCTTCTT-TCCTCACATGATACCATAGTCCCAGATTAGGTCTTACACTATGTGG
1 TCTTCTTATCTTCATATGATGCCATAGTCCTAGACTAGGTCTTACACTATATGG
* ** * * *
107619 TCTTCGTATCCCCATATGATGCCATAGTCTTAGATTAGGTCTTACATTATATGG
1 TCTTCTTATCTTCATATGATGCCATAGTCCTAGACTAGGTCTTACACTATATGG
** *
107673 TCTTCTTATCTTCATATGATG-TTTAGTCTTAGACTAGGTCTTACACTATATGG
1 TCTTCTTATCTTCATATGATGCCATAGTCCTAGACTAGGTCTTACACTATATGG
* * *
107726 TCTTCTTATCTTCATATGATGTC-TAATCCTAGACTAGGTCTTACACTATATGA
1 TCTTCTTATCTTCATATGATGCCATAGTCCTAGACTAGGTCTTACACTATATGG
107779 TCTT
1 TCTT
107783 TTTGCCATGG
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
53 86 0.60
54 57 0.40
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (54 bp):
TCTTCTTATCTTCATATGATGCCATAGTCCTAGACTAGGTCTTACACTATATGG
Found at i:108565 original size:26 final size:26
Alignment explanation
Indices: 108536--108601 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
108526 ACACACCAAT
108536 ATCGCAGCAAAGCTGCCAGTAGT-AGC
1 ATCGCAGCAAAGCTGCCAGTA-TCAGC
** * *
108562 ATCGCAATAGAGCTGCCAGTATCAGT
1 ATCGCAGCAAAGCTGCCAGTATCAGC
*
108588 ATCACAGCAAAGCT
1 ATCGCAGCAAAGCT
108602 ATCAGAATCA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.18
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTATCAGC
Found at i:108834 original size:27 final size:27
Alignment explanation
Indices: 108796--109073 Score: 282
Period size: 27 Copynumber: 10.3 Consensus size: 27
108786 ACCCTACGAG
*
108796 GTCATTTTACCCTTCGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCA
*
108823 GTCATTTTACCCTT-TAGGGGTATTTC-
1 GTCATTTTACCCTTCGA-GGGTATTTCA
*
108849 GATCATTTTACCCATT-GGGGGTATTTC-
1 G-TCATTTTACCC-TTCGAGGGTATTTCA
* * *
108876 GATCATTTTACCCTACGGGGGTATTTTA
1 G-TCATTTTACCCTTCGAGGGTATTTCA
* *
108904 GTCATTTTACCCTAC-AGAGGTATTTTA
1 GTCATTTTACCCTTCGAG-GGTATTTCA
*
108931 GTCATTTTACCCCTCGAGGGTATTTC-
1 GTCATTTTACCCTTCGAGGGTATTTCA
* *
108957 GATTATTTTACCCTTCGAGGGTATTTTA
1 G-TCATTTTACCCTTCGAGGGTATTTCA
* * *
108985 GTCATTTTACCCCTCAAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCA
109012 GTCATTTTACCCCTT-GAGGGTATTTCA
1 GTCATTTTA-CCCTTCGAGGGTATTTCA
* * * *
109039 ATCATTTTATCCTTCAAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCA
109066 GTCATTTT
1 GTCATTTT
109074 CCCACAAATC
Statistics
Matches: 216, Mismatches: 24, Indels: 22
0.82 0.09 0.08
Matches are distributed among these distances:
26 8 0.04
27 198 0.92
28 10 0.05
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCA
Found at i:108936 original size:81 final size:80
Alignment explanation
Indices: 108797--109073 Score: 369
Period size: 81 Copynumber: 3.4 Consensus size: 80
108787 CCCTACGAGG
* * * * *
108797 TCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTTAGGGGTA-TTTCGATCATTTTACC
1 TCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCC-TCAGAGGTATTTTAG-TCATTTTACC
* *
108861 CATTGGGGGTATTTCGA
64 CCTTGAGGGTATTTCGA
* *
108878 TCATTTTACCCTACGGGGGTATTTTAGTCATTTTACCCTACAGAGGTATTTTAGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCT-CAGAGGTATTTTAGTCATTTTACCC
*
108943 CTCGAGGGTATTTCGA
65 CTTGAGGGTATTTCGA
*
108959 TTATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCCTCA-AGGGTATTTTAGTCATTTTACC
1 TCATTTTACCCTTCGAGGGTATTTTAGTCATTTTA-CCCTCAGA-GGTATTTTAGTCATTTTACC
*
109023 CCTTGAGGGTATTTCAA
64 CCTTGAGGGTATTTCGA
* *
109040 TCATTTTATCCTTCAAGGGTATTTTAGTCATTTT
1 TCATTTTACCCTTCGAGGGTATTTTAGTCATTTT
109074 CCCACAAATC
Statistics
Matches: 176, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
80 2 0.01
81 166 0.94
82 8 0.05
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (80 bp):
TCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCTCAGAGGTATTTTAGTCATTTTACCCC
TTGAGGGTATTTCGA
Found at i:112521 original size:54 final size:55
Alignment explanation
Indices: 112349--112526 Score: 161
Period size: 54 Copynumber: 3.3 Consensus size: 55
112339 TACAAAGTGT
* * * * *
112349 GAGCAGACTTGCGGACAACAATGGTGC-GAGCTATCAGGCAAACAGACCAAAAGC
1 GAGCAGACTCGCGGACAACAATGGTGCAGAGCTGTCATGCGAACAGACCAAATGC
* * **
112403 GAGCAGACTCGCGGACAGCAAT-G-GCACGAGTTGTCATGCGAACAG-CCACGGTGC
1 GAGCAGACTCGCGGACAACAATGGTGCA-GAGCTGTCATGCGAACAGACCA-AATGC
* **
112457 TG-GCAGACTCGCGGACAACAATGGTGCAG-GCTGTCATGCGGACAGACCATTTGC
1 -GAGCAGACTCGCGGACAACAATGGTGCAGAGCTGTCATGCGAACAGACCAAATGC
* *
112511 GAGCAAACTCGTGGAC
1 GAGCAGACTCGCGGAC
112527 GAAAAAAGGT
Statistics
Matches: 100, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
52 2 0.02
53 5 0.05
54 84 0.84
55 6 0.06
56 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.31, T:0.14
Consensus pattern (55 bp):
GAGCAGACTCGCGGACAACAATGGTGCAGAGCTGTCATGCGAACAGACCAAATGC
Found at i:113038 original size:108 final size:109
Alignment explanation
Indices: 112902--113118 Score: 427
Period size: 108 Copynumber: 2.0 Consensus size: 109
112892 AGATCGGTTT
112902 TGCTGCTTCTCTAACTCGTTTTTCTTCTCTGTTTTACTTTCTTTCTTTGTCACAAGAATATTCAA
1 TGCTGCTTCTCTAACTCGTTTTTCTTCTCTGTTTTACTTTCTTTCTTTGTCACAAGAATATTCAA
112967 ATATTTTAATGAGAATAATAGAAAGAAAGTTGCATATTATCTTA
66 ATATTTTAATGAGAATAATAGAAAGAAAGTTGCATATTATCTTA
113011 TGCTGCTTCT-TAACTCGTTTTTCTTCTCTGTTTTACTTTCTTTCTTTGTCACAAGAATATTCAA
1 TGCTGCTTCTCTAACTCGTTTTTCTTCTCTGTTTTACTTTCTTTCTTTGTCACAAGAATATTCAA
113075 ATATTTTAATGAGAATAATAGAAAGAAAGTTGCATATTATCTTA
66 ATATTTTAATGAGAATAATAGAAAGAAAGTTGCATATTATCTTA
113119 ATTGGAGCAT
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 98 0.91
109 10 0.09
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (109 bp):
TGCTGCTTCTCTAACTCGTTTTTCTTCTCTGTTTTACTTTCTTTCTTTGTCACAAGAATATTCAA
ATATTTTAATGAGAATAATAGAAAGAAAGTTGCATATTATCTTA
Found at i:115901 original size:26 final size:25
Alignment explanation
Indices: 115872--115936 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 25
115862 ACTTTTTTAT
115872 AATTTTAATAATTTTAATTTTTAAA
1 AATTTTAATAATTTTAATTTTTAAA
** *
115897 GAATTTTTGTAATTTTTTAATTTTTTAA
1 -AATTTTAATAA--TTTTAATTTTTAAA
115925 AATTTTAA-AATT
1 AATTTTAATAATT
115937 AATTAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 2 0.06
26 11 0.34
27 6 0.19
28 13 0.41
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (25 bp):
AATTTTAATAATTTTAATTTTTAAA
Found at i:115944 original size:26 final size:24
Alignment explanation
Indices: 115864--115936 Score: 65
Period size: 28 Copynumber: 2.8 Consensus size: 24
115854 TTAAAAATAC
*
115864 TTTTTTATAATTTTAATAATTTTAA
1 TTTTTTAAAATTTTAA-AATTTTAA
* **
115889 TTTTTAAAGAATTTTTGTAATTTTTTAA
1 TTTTTTAA-AA--TTT-TAAAATTTTAA
115917 TTTTTTAAAATTTTAAAATT
1 TTTTTTAAAATTTTAAAATT
115937 AATTAATTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
24 5 0.14
25 9 0.24
26 2 0.05
27 2 0.05
28 16 0.43
29 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTTTTAAAATTTTAAAATTTTAA
Found at i:121639 original size:29 final size:29
Alignment explanation
Indices: 121605--121663 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
121595 TGAGGAATAA
**
121605 TAATAATTTATTTTCTCAAAAGAATTCAT
1 TAATAATAAATTTTCTCAAAAGAATTCAT
121634 TAATAATAAATTTTCTCAAAAGAATTCAT
1 TAATAATAAATTTTCTCAAAAGAATTCAT
121663 T
1 T
121664 CTTTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.42
Consensus pattern (29 bp):
TAATAATAAATTTTCTCAAAAGAATTCAT
Found at i:126425 original size:50 final size:50
Alignment explanation
Indices: 126283--126615 Score: 253
Period size: 50 Copynumber: 6.6 Consensus size: 50
126273 GAATATAACA
* * * ** * * *
126283 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * ** *
126332 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** ** *
126382 TGCCCATGCCCCGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
126432 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * **
126482 TGCCAACGTCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATTTCAATAA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
126538 TGCCAATC-CCATGTCCCAGACATGGTCTTACATTGG--CTCACATATCGA
1 TGCCAA-CGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
126586 TGTCGATGCCATGTCCTAGACATGGTCTTA
1 TGCCAACGCCATGTCCCAGACATGGTCTTA
126616 TACGAGATCG
Statistics
Matches: 231, Mismatches: 43, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
48 27 0.12
49 36 0.16
50 125 0.54
51 2 0.01
53 3 0.01
54 6 0.03
56 31 0.13
57 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:130049 original size:20 final size:21
Alignment explanation
Indices: 130011--130049 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
130001 TTAATGTATG
* *
130011 ATCATATTAAATTATTTAAAT
1 ATCATATTAAAGTAATTAAAT
130032 ATCAT-TTAAAGTAATTAA
1 ATCATATTAAAGTAATTAA
130050 TTAATTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (21 bp):
ATCATATTAAAGTAATTAAAT
Found at i:143762 original size:22 final size:22
Alignment explanation
Indices: 143737--143780 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
143727 CAATCATGGA
*
143737 TCTCCTTAAGAATAATCTTCCT
1 TCTCCTAAAGAATAATCTTCCT
143759 TCTCCTAAAGAATAATCTTCCT
1 TCTCCTAAAGAATAATCTTCCT
143781 AACACTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.39
Consensus pattern (22 bp):
TCTCCTAAAGAATAATCTTCCT
Found at i:144881 original size:12 final size:13
Alignment explanation
Indices: 144859--144887 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
144849 TGATTAAATG
144859 AATTAAAAAGCCA
1 AATTAAAAAGCCA
144872 AATT-AAAAGCCA
1 AATTAAAAAGCCA
144884 AATT
1 AATT
144888 TGCACATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AATTAAAAAGCCA
Found at i:146721 original size:2 final size:2
Alignment explanation
Indices: 146714--146751 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
146704 TGATAACATT
146714 TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
146752 CTCAAATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:147165 original size:41 final size:41
Alignment explanation
Indices: 147104--147207 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
147094 ACTGGCCTTT
* * * *
147104 AGCCTGCTAGACCTATAGTCTGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
* * *
147145 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGTATCA
1 AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
*
147186 AGCCTACTAGACGTAAAGTCTG
1 AGCCTGCTAGACGTAAAGTCTG
147208 TATTACATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
Found at i:147481 original size:12 final size:12
Alignment explanation
Indices: 147466--147519 Score: 63
Period size: 12 Copynumber: 4.2 Consensus size: 12
147456 ACTCAAAACT
147466 TATATATATACA
1 TATATATATACA
*
147478 TATATATATTCGA
1 TATATATATAC-A
*
147491 GTATTATACATACA
1 -TA-TATATATACA
147505 TATATATATACA
1 TATATATATACA
147517 TAT
1 TAT
147520 CTTTGACTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 22 0.63
13 3 0.09
14 3 0.09
15 7 0.20
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (12 bp):
TATATATATACA
Found at i:152876 original size:14 final size:15
Alignment explanation
Indices: 152849--152877 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
152839 TTGATGACTT
152849 CCTAAGGTTTTCAAG
1 CCTAAGGTTTTCAAG
152864 CCTAAGG-TTTCAAG
1 CCTAAGGTTTTCAAG
152878 TTCTTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (15 bp):
CCTAAGGTTTTCAAG
Found at i:155062 original size:238 final size:238
Alignment explanation
Indices: 154641--155120 Score: 741
Period size: 238 Copynumber: 2.0 Consensus size: 238
154631 TAAGGTTAAA
* * *
154641 TTAGTAAATTAGTTAATAAGTGAATTAAAACAAAAGAAATAATGTATCATCTTCTTTAATTTGTT
1 TTAGTAAATTAGTTAATAAGTGAACTAAAACAAAAGAAATAATGTATAATATTCTTTAATTTGTT
* * *
154706 AAACACCATCGAAAATTGAACGAAAAGAAACCATAGAAGCTTGAACATTTGGCCATCCTTATTTT
66 AAACACCACCGAAAATTCAACGAAAAGAAACCATAGAAGCTTGAACATTCGGCCATCCTTATTTT
*
154771 GCTTGCATGTGAGTATTTTTCGTCCTATTTTTAATTATTTCTATGTTTTAGAATCGTTGTAGCTT
131 GCTTGCATGTGAGTATTTTTCGTCCTATTTTTAATGATTTCTATGTTTTAGAATCGTTGTAGCTT
154836 AATCTAGCAAGCCCGGGGACTAATTTGCAAACCTGTTAATAA-G
196 AATCTAGCAAGCCCGGGGACTAATTTGCAAACCTGTTAA-AAGG
* * * *
154879 TTAGTAACTTAGTTAATAAGTGAACTAAAATAAAATAAATAATGTATAATATTTTTTAATTTGTT
1 TTAGTAAATTAGTTAATAAGTGAACTAAAACAAAAGAAATAATGTATAATATTCTTTAATTTGTT
* * *
154944 AAACACCACCGAAAGTTCAAGGAAAAGAAACTA-AGAAGCTTGAACATTCGGCCATCCTTATTTT
66 AAACACCACCGAAAATTCAACGAAAAGAAACCATAGAAGCTTGAACATTCGGCCATCCTTATTTT
*
155008 GCTTGCATGTGAGTATTTTTCGTCCTGA-TTTTAATGATTTCTATGTTTTTAGAATCGTTTTAGC
131 GCTTGCATGTGAGTATTTTTCGTCCT-ATTTTTAATGATTTCTATG-TTTTAGAATCGTTGTAGC
* ** *
155072 TTAATCTAGCTAGCTTGGGTACTAATTTGCAAACCTGTTAAAAGG
194 TTAATCTAGCAAGCCCGGGGACTAATTTGCAAACCTGTTAAAAGG
155117 TTAG
1 TTAG
155121 GGTTTTGCCA
Statistics
Matches: 220, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
237 74 0.34
238 146 0.66
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (238 bp):
TTAGTAAATTAGTTAATAAGTGAACTAAAACAAAAGAAATAATGTATAATATTCTTTAATTTGTT
AAACACCACCGAAAATTCAACGAAAAGAAACCATAGAAGCTTGAACATTCGGCCATCCTTATTTT
GCTTGCATGTGAGTATTTTTCGTCCTATTTTTAATGATTTCTATGTTTTAGAATCGTTGTAGCTT
AATCTAGCAAGCCCGGGGACTAATTTGCAAACCTGTTAAAAGG
Found at i:155420 original size:21 final size:20
Alignment explanation
Indices: 155391--155443 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
155381 ATTTTGATAA
155391 AATATGAATTTTGATTGAATTG
1 AATA-GAATTTT-ATTGAATTG
*
155413 AATAGAATAATTATTGAATTG
1 AATAGAAT-TTTATTGAATTG
*
155434 AATTGAATTT
1 AATAGAATTT
155444 GTTCATTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (20 bp):
AATAGAATTTTATTGAATTG
Found at i:161929 original size:26 final size:26
Alignment explanation
Indices: 161899--161950 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
161889 TTAGGTCCAG
161899 TCTGATGTACTGTTAGTCACATGTAT
1 TCTGATGTACTGTTAGTCACATGTAT
161925 TCTGATGTACTGTTAGTCACATGTAT
1 TCTGATGTACTGTTAGTCACATGTAT
161951 GTCTCTATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (26 bp):
TCTGATGTACTGTTAGTCACATGTAT
Found at i:173690 original size:62 final size:66
Alignment explanation
Indices: 173609--173758 Score: 191
Period size: 62 Copynumber: 2.3 Consensus size: 66
173599 AAAGAAATCC
* *
173609 TTTTCAAATTTTGATTATTTTAGTTTACCCAAATTATAAACGGTAATTAAAAAAAAA-C-TT-TT
1 TTTTCAAATTTT-AATATTTTAGTTTACCCAAATTATAAACCGTAATTAAAAAAAAACCTTTCTT
173671 -T
65 CT
* ** *
173672 TTTTCAAATTTTAATATTTTGGTTTGTCCAAATTATAAACCGTAGTTAAAAAAAAACTCTTTCTT
1 TTTTCAAATTTTAATATTTTAGTTTACCCAAATTATAAACCGTAATTAAAAAAAAAC-CTTTCTT
173737 CT
65 CT
*
173739 TTTTCAAATTTTAATTTTTT
1 TTTTCAAATTTTAATATTTT
173759 TCAATCCAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
62 38 0.51
63 12 0.16
64 1 0.01
65 2 0.03
66 2 0.03
67 20 0.27
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (66 bp):
TTTTCAAATTTTAATATTTTAGTTTACCCAAATTATAAACCGTAATTAAAAAAAAACCTTTCTTC
T
Found at i:173890 original size:33 final size:33
Alignment explanation
Indices: 173848--173914 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
173838 ATTTCACTTG
173848 ATTTCCTCTGACTATTAATTGAAAATCTATGGA
1 ATTTCCTCTGACTATTAATTGAAAATCTATGGA
173881 ATTTCCTCTGACTATTAATTGAAAATCTATGGA
1 ATTTCCTCTGACTATTAATTGAAAATCTATGGA
173914 A
1 A
173915 GATTAATGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (33 bp):
ATTTCCTCTGACTATTAATTGAAAATCTATGGA
Found at i:175187 original size:9 final size:9
Alignment explanation
Indices: 175167--175208 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
175157 TAGTAACATT
*
175167 ACAAAATGA
1 ACAAAATAA
*
175176 ACAAAGTAA
1 ACAAAATAA
175185 ACAAAATAA
1 ACAAAATAA
175194 ACAAAATGAA
1 ACAAAAT-AA
175204 ACAAA
1 ACAAA
175209 CTGCTCCTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.71, C:0.12, G:0.07, T:0.10
Consensus pattern (9 bp):
ACAAAATAA
Found at i:181345 original size:88 final size:89
Alignment explanation
Indices: 181185--181361 Score: 347
Period size: 88 Copynumber: 2.0 Consensus size: 89
181175 AAATATAATA
181185 TTATTACCAATAAAATGTGGGAACAGATCCTTGTAATGTTGATCGAGTTATTGTATTTTGCAACC
1 TTATTACCAATAAAATGTGGGAACAGATCCTTGTAATGTTGATCGAGTTATTGTATTTTGCAACC
181250 GTATAACTATATATATAGTGTGGG
66 GTATAACTATATATATAGTGTGGG
181274 TTATTACCAA-AAAATGTGGGAACAGATCCTTGTAATGTTGATCGAGTTATTGTATTTTGCAACC
1 TTATTACCAATAAAATGTGGGAACAGATCCTTGTAATGTTGATCGAGTTATTGTATTTTGCAACC
181338 GTATAACTATATATATAGTGTGGG
66 GTATAACTATATATATAGTGTGGG
181362 GATTTCATAT
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 78 0.89
89 10 0.11
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (89 bp):
TTATTACCAATAAAATGTGGGAACAGATCCTTGTAATGTTGATCGAGTTATTGTATTTTGCAACC
GTATAACTATATATATAGTGTGGG
Found at i:182195 original size:108 final size:108
Alignment explanation
Indices: 182077--182305 Score: 379
Period size: 108 Copynumber: 2.1 Consensus size: 108
182067 AATATATAAG
182077 CTCTTATTTGATATAATTATACACATGAAAATTTGATTGTGGTTAAAATATATACATAAAACTTT
1 CTCTTATTTGATATAATTATACACATGAAAATTTGATTGTGGTTAAAATATATACATAAAACTTT
182142 AATTTTAAATCAATTGTACACATTTAAAGAAAAAAATATTTTA
66 AATTTTAAATCAATTGTACACATTTAAAGAAAAAAATATTTTA
* *
182185 CTCTTATTTGATAAAATTATACACATGAAAATTTGATTGTGGTTAAAATATATACATAAAATTTT
1 CTCTTATTTGATATAATTATACACATGAAAATTTGATTGTGGTTAAAATATATACATAAAACTTT
* * **
182250 AATTTTGATTCAATTGTACACATTTAAAGAATTAAATATTTTA
66 AATTTTAAATCAATTGTACACATTTAAAGAAAAAAATATTTTA
* *
182293 AT-TTATTTTATAT
1 CTCTTATTTGATAT
182306 TGGATAAGTA
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
107 9 0.08
108 103 0.92
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (108 bp):
CTCTTATTTGATATAATTATACACATGAAAATTTGATTGTGGTTAAAATATATACATAAAACTTT
AATTTTAAATCAATTGTACACATTTAAAGAAAAAAATATTTTA
Found at i:195951 original size:34 final size:34
Alignment explanation
Indices: 195908--195975 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
195898 CAAAGTAAAC
195908 ATGGTACATAAGATAGTAAATTTAAATCAATCTA
1 ATGGTACATAAGATAGTAAATTTAAATCAATCTA
195942 ATGGTACATAAGATAGTAAATTTAAATCAATCTA
1 ATGGTACATAAGATAGTAAATTTAAATCAATCTA
195976 CTGGAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (34 bp):
ATGGTACATAAGATAGTAAATTTAAATCAATCTA
Found at i:201650 original size:15 final size:15
Alignment explanation
Indices: 201630--201664 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
201620 CATACATTTA
*
201630 TTGTTCTTTTCTACT
1 TTGTTCTGTTCTACT
*
201645 TTGTTCTGTTCTATT
1 TTGTTCTGTTCTACT
201660 TTGTT
1 TTGTT
201665 GTACTACCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.14, G:0.11, T:0.69
Consensus pattern (15 bp):
TTGTTCTGTTCTACT
Found at i:210397 original size:13 final size:13
Alignment explanation
Indices: 210379--210403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
210369 CATGGGCATA
210379 TGGACCATACGGG
1 TGGACCATACGGG
210392 TGGACCATACGG
1 TGGACCATACGG
210404 CCCCTCACAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.16
Consensus pattern (13 bp):
TGGACCATACGGG
Found at i:211807 original size:91 final size:91
Alignment explanation
Indices: 211621--211826 Score: 243
Period size: 91 Copynumber: 2.2 Consensus size: 91
211611 TATTAATGAT
** *
211621 TAAATATATTAGTGGATGAACCATCTGTCTATGTAGATAAAAGCTGCTAATACGTTGTGGATGAA
1 TAAA-ATATTAGTGGATGAACCATCCATCTATGCAGATAAAAGCTGCTAATACGTTGTGGATGAA
* *
211686 CCATTGGTCGAGCAGGTGACTGTCGGC
65 CCATTGGTCGAGCAGATGACTGTCGAC
* * * *
211713 TAAAATATTGGTGGATGAACCATCCATTTGTGCAGATAAAAGCTGCTAATATGTTGTGGATGAAC
1 TAAAATATTAGTGGATGAACCATCCATCTATGCAGATAAAAGCTGCTAATACGTTGTGGATGAAC
* * * *
211778 CATTGGTTGAGTATATGATTG-CTGAC
66 CATTGGTCGAGCAGATGACTGTC-GAC
* *
211804 TAAAATATGTTGTGGATAAACCA
1 TAAAATAT-TAGTGGATGAACCA
211827 CTGGTCTAGC
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
90 1 0.01
91 80 0.82
92 16 0.16
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (91 bp):
TAAAATATTAGTGGATGAACCATCCATCTATGCAGATAAAAGCTGCTAATACGTTGTGGATGAAC
CATTGGTCGAGCAGATGACTGTCGAC
Found at i:216431 original size:41 final size:41
Alignment explanation
Indices: 216374--216544 Score: 270
Period size: 41 Copynumber: 4.1 Consensus size: 41
216364 TATCTTATGC
*
216374 GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
* *
216415 GATCTGTATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
* *
216456 GATCTGAATCAGGCTATAAGCCTATCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
* *
216497 GATCTAAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
216538 GAATCTG
1 G-ATCTG
216545 TTAAATTAAG
Statistics
Matches: 121, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 117 0.97
42 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (41 bp):
GATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGT
Found at i:216670 original size:35 final size:33
Alignment explanation
Indices: 216590--216721 Score: 138
Period size: 33 Copynumber: 3.9 Consensus size: 33
216580 TTTATATGAT
* * *
216590 TTTGGTTATATGTAATAGATAAGTATATGAACA
1 TTTGGTTATATGTAATTGATAAGCATATAAACA
* * *
216623 TTTGTTTATATGTATTTGATGAGCATATAAACA
1 TTTGGTTATATGTAATTGATAAGCATATAAACA
* * *
216656 TTTGGGGTTATATGTAATGGATAAGTATATGAACA
1 TTT--GGTTATATGTAATTGATAAGCATATAAACA
* * *
216691 TTTGTTTATATGTATTTGATGAGCATATAAA
1 TTTGGTTATATGTAATTGATAAGCATATAAA
216722 TGTTTGAATC
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
33 52 0.66
35 27 0.34
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (33 bp):
TTTGGTTATATGTAATTGATAAGCATATAAACA
Found at i:216671 original size:68 final size:68
Alignment explanation
Indices: 216593--216721 Score: 249
Period size: 68 Copynumber: 1.9 Consensus size: 68
216583 ATATGATTTT
216593 GGTTATATGTAATAGATAAGTATATGAACATTTGTTTATATGTATTTGATGAGCATATAAACATT
1 GGTTATATGTAATAGATAAGTATATGAACATTTGTTTATATGTATTTGATGAGCATATAAACATT
216658 TGG
66 TGG
*
216661 GGTTATATGTAATGGATAAGTATATGAACATTTGTTTATATGTATTTGATGAGCATATAAA
1 GGTTATATGTAATAGATAAGTATATGAACATTTGTTTATATGTATTTGATGAGCATATAAA
216722 TGTTTGAATC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (68 bp):
GGTTATATGTAATAGATAAGTATATGAACATTTGTTTATATGTATTTGATGAGCATATAAACATT
TGG
Found at i:221016 original size:2 final size:2
Alignment explanation
Indices: 221009--221035 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
220999 AGTTTTGGGA
221009 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
221036 CATTTATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:221113 original size:33 final size:36
Alignment explanation
Indices: 221054--221127 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 36
221044 AAAATGGAAT
* * *
221054 ATATAGACACATATGTAGGTATGTATA-A-AT-AAA
1 ATATAGAAACATATATAGGTACGTATATATATAAAA
221087 ATATAGAAACATATAT-GTGTACGTATATATATAAAA
1 ATATAGAAACATATATAG-GTACGTATATATATAAAA
221123 ATATA
1 ATATA
221128 CATGGGTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 1 0.03
33 22 0.65
34 1 0.03
35 2 0.06
36 8 0.24
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.32
Consensus pattern (36 bp):
ATATAGAAACATATATAGGTACGTATATATATAAAA
Found at i:221251 original size:3 final size:3
Alignment explanation
Indices: 221233--221297 Score: 85
Period size: 3 Copynumber: 21.3 Consensus size: 3
221223 GAAATAAAAC
* * * *
221233 TAA TAA CAA TTAA TAA TAA TAG CAG TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
221279 TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
221298 GATGATGGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 53 0.96
4 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:222987 original size:44 final size:45
Alignment explanation
Indices: 222939--223242 Score: 155
Period size: 44 Copynumber: 6.9 Consensus size: 45
222929 CCACTGTAAC
* * *
222939 CTTAGGGAGGTAAAATTC-GCCATATTCGATCTACTCCACTACTG
1 CTTAGGGAGATAAAATTCTGCCATCTTCAATCTACTCCACTACTG
* ** *
222983 CTTAGGGAGATAAGA-TCTGTAATCTTCAATCTATTCCACTACTG
1 CTTAGGGAGATAAAATTCTGCCATCTTCAATCTACTCCACTACTG
** * * * *
223027 CCCAGGGAGATAAAATTACTG---GCTTCAATGTACACCACTA-TAAC
1 CTTAGGGAGATAAAATT-CTGCCATCTTCAATCTACTCCACTACT--G
** * * * *
223071 CACAGGGAGGTAAAA-TCCGCCATCTTCGATCTGCTCCACTACTG
1 CTTAGGGAGATAAAATTCTGCCATCTTCAATCTACTCCACTACTG
* ** * *
223115 CTTAGGGAGATAAGA-TCTGAAATCTTTAATCTATTCCACTACTG
1 CTTAGGGAGATAAAATTCTGCCATCTTCAATCTACTCCACTACTG
** * * ** * *
223159 CCCAGGGAGATAGAATTAT--CGGCTTCAATGTACTCCACT-GTAG
1 CTTAGGGAGATAAAATTCTGCCATCTTCAATCTACTCCACTACT-G
* * * *
223202 TCATAGGTAGGTAAAA-TCTGCCATCTTCAATCTGCTCCACT
1 -CTTAGGGAGATAAAATTCTGCCATCTTCAATCTACTCCACT
223243 TTAGGAGATA
Statistics
Matches: 189, Mismatches: 57, Indels: 27
0.69 0.21 0.10
Matches are distributed among these distances:
42 4 0.02
43 35 0.19
44 113 0.60
45 33 0.17
46 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (45 bp):
CTTAGGGAGATAAAATTCTGCCATCTTCAATCTACTCCACTACTG
Found at i:223139 original size:132 final size:126
Alignment explanation
Indices: 222899--223682 Score: 1079
Period size: 126 Copynumber: 6.1 Consensus size: 126
222889 AGCAACATCG
* **
222899 GGGAGATAGAATTA-CTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAAT-TCGCCAT
1 GGGAGATAGAATTATC-GGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCT-GCCAT
* * * * **
222962 ATTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTG
64 CTTCAATCTGCT-C-C-ACT--TT-GGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACCA
*
223027 CCCA
123 ACCA
* * * * *
223031 GGGAGATAAAATTA-CTGGCTTCAATGTACACCACTATAACCACAGGGAGGTAAAATCCGCCATC
1 GGGAGATAGAATTATC-GGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATC
* * ***
223095 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTACTGC
65 TTCAATCTGCT-C-C-ACT--TT-GGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACCAA
223160 CCA
124 CCA
* * *
223163 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCATAGGTAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATCT
* *
223228 TCAATCTGCTCCACTTTAGGAGATAAGATATGAAATCTTCAATCTATTCCACTACCAACCA
66 TCAATCTGCTCCACTTTGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACCAACCA
* *
223289 GGGAGATAGAATTATCGACTTCAATGTACTCCACTGTAATCATAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATCT
* *
223354 TCAATCTGCTCCACTTTGGGAAATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCA
66 TCAATCTGCTCCACTTTGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACCAACCA
*
223415 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTGAAATCTGCCATCT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATCT
*
223480 TCAATCTGCTCCACTTTGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCA
66 TCAATCTGCTCCACTTTGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACCAACCA
* * * *
223541 GGGAGGTAGAATTATCGGCTTCAATGTACTCCATTGTAATCACAGGGAGGTAAAATTTTCCATCT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATCT
* *
223606 TCAATTTGCTCCACTTTGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAACCA
66 TCAATCTGCTCCACTTTGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACCAACCA
223667 GGGAGATAGAATTATC
1 GGGAGATAGAATTATC
223683 AATCTTCTCC
Statistics
Matches: 607, Mismatches: 43, Indels: 10
0.92 0.07 0.02
Matches are distributed among these distances:
126 414 0.68
127 2 0.00
129 3 0.00
130 1 0.00
131 1 0.00
132 185 0.30
133 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (126 bp):
GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCTGCCATCT
TCAATCTGCTCCACTTTGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACCAACCA
Found at i:224968 original size:24 final size:24
Alignment explanation
Indices: 224936--225009 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
224926 TCCTTTTTCT
*
224936 TTTCATTTCTTCTTTCTTTTCTTC
1 TTTCCTTTCTTCTTTCTTTTCTTC
* *
224960 TTTCCTTTCTTTTTTCTCTTTTCTCTT
1 TTTCCTTTC-TTCTT-TCTTTTCT-TC
*
224987 TTTCTCTTTTTTCTTT-TTTTCTT
1 TTTC-CTTTCTTCTTTCTTTTCTT
225010 TTTTGAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
24 9 0.22
25 10 0.24
26 9 0.22
27 9 0.22
28 4 0.10
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTCCTTTCTTCTTTCTTTTCTTC
Found at i:224990 original size:15 final size:15
Alignment explanation
Indices: 224965--225011 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
224955 TCTTCTTTCC
224965 TTTCT-TTTTTCTCT
1 TTTCTCTTTTTCTCT
224979 TTTCTCTTTTTCTCT
1 TTTCTCTTTTTCTCT
* *
224994 TTTTTCTTTTTTTCT
1 TTTCTCTTTTTCTCT
225009 TTT
1 TTT
225012 TTGAATATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 5 0.17
15 25 0.83
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTCTCTTTTTCTCT
Found at i:225003 original size:7 final size:7
Alignment explanation
Indices: 224941--225013 Score: 74
Period size: 8 Copynumber: 9.4 Consensus size: 7
224931 TTTCTTTTCA
*
224941 TTTCTTC
1 TTTCTTT
224948 TTTCTTT
1 TTTCTTT
224955 TCTTCTTT
1 T-TTCTTT
224963 CCTTTCTTT
1 --TTTCTTT
224972 TTTCTCTT
1 TTTCT-TT
224980 TTCTCTTT
1 TT-TCTTT
224988 TTCTCTTT
1 TT-TCTTT
224996 TTTCTTTT
1 TTTC-TTT
225004 TTTCTTT
1 TTTCTTT
225011 TTT
1 TTT
225014 GAATATGAAC
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
7 20 0.34
8 29 0.49
9 9 0.15
10 1 0.02
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTCTTT
Found at i:225012 original size:8 final size:8
Alignment explanation
Indices: 224929--225013 Score: 68
Period size: 8 Copynumber: 10.5 Consensus size: 8
224919 TGGCCTCTCC
224929 TTTTTCTT
1 TTTTTCTT
224937 TTCATTTC-T
1 TT--TTTCTT
*
224946 TCTTTCTT
1 TTTTTCTT
*
224954 TTCTTCTT
1 TTTTTCTT
*
224962 TCCTTTC-T
1 T-TTTTCTT
224970 TTTTTC-T
1 TTTTTCTT
* *
224977 CTTTTCTC
1 TTTTTCTT
224985 TTTTTCTCT
1 TTTTTCT-T
224994 TTTTTCTT
1 TTTTTCTT
225002 TTTTTCTT
1 TTTTTCTT
225010 TTTT
1 TTTT
225014 GAATATGAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
7 14 0.23
8 31 0.51
9 12 0.20
10 4 0.07
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCTT
Found at i:225013 original size:17 final size:17
Alignment explanation
Indices: 224931--225013 Score: 73
Period size: 17 Copynumber: 4.9 Consensus size: 17
224921 GCCTCTCCTT
* *
224931 TTTCTTTTCATTTCTTC
1 TTTCTTTTCTTTTTTTC
* *
224948 TTTCTTTTCTTCTTTCC
1 TTTCTTTTCTTTTTTTC
224965 TTTCTTTT-TTCTCTTTTC
1 TTTCTTTTCTT-T-TTTTC
*
224983 TCT-TTTTCTCTTTTTTC
1 TTTCTTTTCT-TTTTTTC
225000 TTT-TTTTCTTTTTT
1 TTTCTTTTCTTTTTT
225014 GAATATGAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
16 7 0.13
17 38 0.70
18 8 0.15
19 1 0.02
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTCTTTTCTTTTTTTC
Found at i:228139 original size:13 final size:13
Alignment explanation
Indices: 228121--228145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
228111 CATGGGCATA
228121 TGGACCATACGGG
1 TGGACCATACGGG
228134 TGGACCATACGG
1 TGGACCATACGG
228146 CCCCTCACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.16
Consensus pattern (13 bp):
TGGACCATACGGG
Found at i:229526 original size:91 final size:91
Alignment explanation
Indices: 229340--229545 Score: 252
Period size: 91 Copynumber: 2.2 Consensus size: 91
229330 TATTAATGAT
**
229340 TAAATATATTAGTGGATGAACCATCTGTCTATGTAGATAAAAGCTGCTAATACGTTGTGGATGAA
1 TAAA-ATATTAGTGGATGAACCATCCATCTATGTAGATAAAAGCTGCTAATACGTTGTGGATGAA
* *
229405 CCATTGGTCGAACAGGTGACTGTCGGC
65 CCATTGGTCGAACAGATGACTGTCGAC
* * * *
229432 TAAAATATTGGTGGATGAACCATCCATTTGTGTAGATAAAAGCTGCTAATATGTTGTGGATGAAC
1 TAAAATATTAGTGGATGAACCATCCATCTATGTAGATAAAAGCTGCTAATACGTTGTGGATGAAC
* ** *
229497 CATTGGTTGAGTAGATGATTG-CTGAC
66 CATTGGTCGAACAGATGACTGTC-GAC
* *
229523 TAAAATATGTTGTGGATAAACCA
1 TAAAATAT-TAGTGGATGAACCA
229546 CTGGTCTAGC
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
90 1 0.01
91 81 0.83
92 16 0.16
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (91 bp):
TAAAATATTAGTGGATGAACCATCCATCTATGTAGATAAAAGCTGCTAATACGTTGTGGATGAAC
CATTGGTCGAACAGATGACTGTCGAC
Found at i:234088 original size:17 final size:17
Alignment explanation
Indices: 234068--234301 Score: 177
Period size: 18 Copynumber: 13.2 Consensus size: 17
234058 AACAAAAGTT
234068 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
234085 TTTTTGCAAACACGAGAA
1 TTTTT-AAAACACGAAAA
234103 TTTTTAAAACAC-AAAA
1 TTTTTAAAACACGAAAA
* * *
234119 ATTTTGAAACACGACAA
1 TTTTTAAAACACGAAAA
* *
234136 TTTTTGAAACACGAGAATTT
1 TTTTTAAAACACGA-AA--A
**
234156 TTTTTAAAA-ACGCAATTTTT
1 TTTTTAAAACACG-AA---AA
234176 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
** *
234193 TTTTGGAAACACGAGAA
1 TTTTTAAAACACGAAAA
*
234210 TTGTTGAAAACACGAAAA
1 TT-TTTAAAACACGAAAA
* *
234228 TTTTTGAAAATATGAAAA
1 TTTTT-AAAACACGAAAA
234246 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* *
234264 TTTTTGAAACA-TAAAA
1 TTTTTAAAACACGAAAA
234280 TTTTTAGAAAACACGAAAA
1 TTTTT--AAAACACGAAAA
234299 TTT
1 TTT
234302 GAATTTTTTT
Statistics
Matches: 174, Mismatches: 28, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
16 22 0.13
17 50 0.29
18 67 0.39
19 11 0.06
20 21 0.12
21 3 0.02
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:234107 original size:35 final size:34
Alignment explanation
Indices: 234068--234301 Score: 211
Period size: 35 Copynumber: 6.6 Consensus size: 34
234058 AACAAAAGTT
*
234068 TTTTTAAAACACGAAAATTTTTGCAAACACGAGAA
1 TTTTTAAAACACGAAAATTTTTG-AAACACGAAAA
* *
234103 TTTTTAAAACAC-AAAAATTTTGAAACACGACAA
1 TTTTTAAAACACGAAAATTTTTGAAACACGAAAA
* * * * **
234136 TTTTTGAAACACGAGAATTTTTTTTAAAAACGCAATTTTT
1 TTTTTAAAACACGA-AA-ATTTTTGAAACACG-AA---AA
* *
234176 TTTTTAAAACACGAAAATTTTGGAAACACGAGAA
1 TTTTTAAAACACGAAAATTTTTGAAACACGAAAA
* * *
234210 TTGTTGAAAACACGAAAATTTTTGAAAATATGAAAA
1 TT-TTTAAAACACGAAAATTTTTG-AAACACGAAAA
*
234246 TTTTTGAAAACACGAAAATTTTTGAAACA-TAAAA
1 TTTTT-AAAACACGAAAATTTTTGAAACACGAAAA
234280 TTTTTAGAAAACACGAAAATTT
1 TTTTT--AAAACACGAAAATTT
234302 GAATTTTTTT
Statistics
Matches: 162, Mismatches: 26, Indels: 22
0.77 0.12 0.10
Matches are distributed among these distances:
33 21 0.13
34 21 0.13
35 55 0.34
36 38 0.23
37 2 0.01
38 10 0.06
39 2 0.01
40 13 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (34 bp):
TTTTTAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:234166 original size:21 final size:20
Alignment explanation
Indices: 234142--234196 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
234132 ACAATTTTTG
234142 AAACACGAGAATTTTTTTTAA
1 AAACACGA-AATTTTTTTTAA
* * *
234163 AAACGC-AATTTTTTTTTTA
1 AAACACGAAATTTTTTTTAA
234182 AAACACGAAAATTTT
1 AAACACG-AAATTTT
234197 GGAAACACGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 15 0.56
20 1 0.04
21 11 0.41
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (20 bp):
AAACACGAAATTTTTTTTAA
Found at i:234310 original size:42 final size:40
Alignment explanation
Indices: 234264--234341 Score: 95
Period size: 42 Copynumber: 1.9 Consensus size: 40
234254 AACACGAAAA
234264 TTTTTGAAACATA-AAATTTTTAGAAAACACGAAAATTTGAAT
1 TTTTTGAAAC-TAGAAATTTTT--AAAACACGAAAATTTGAAT
** *
234306 TTTTTTTAACTAGAAATTTTTAAAACACGAGAATTT
1 TTTTTGAAACTAGAAATTTTTAAAACACGAAAATTT
234342 TTTCTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 14 0.44
41 2 0.06
42 16 0.50
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.40
Consensus pattern (40 bp):
TTTTTGAAACTAGAAATTTTTAAAACACGAAAATTTGAAT
Found at i:235047 original size:25 final size:25
Alignment explanation
Indices: 235006--235080 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
234996 AAAAATATTA
*
235006 TTTTTCTTTTTTCTTTCTTTCCCTT-
1 TTTTTCTTCTTT-TTTCTTTCCCTTC
*
235031 TTTTTCTCTCTTTTTTCCTT-CCTTC
1 TTTTTCT-TCTTTTTTCTTTCCCTTC
*
235056 TTTTTCTTCTTTCTT-TTT-CCTTC
1 TTTTTCTTCTTTTTTCTTTCCCTTC
235079 TT
1 TT
235081 CGTTCGGCCC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
23 9 0.20
24 11 0.25
25 20 0.45
26 4 0.09
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTTCTTCTTTTTTCTTTCCCTTC
Found at i:235058 original size:27 final size:29
Alignment explanation
Indices: 235010--235078 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 29
235000 ATATTATTTT
* *
235010 TCTTTTTTCTTTCTTTCCCTTTTT-TTCTC
1 TCTTTTTTCCTTCCTT-CCTTTTTCTTCTC
*
235039 TCTTTTTTCCTTCCTT-CTTTTTCTTCTT
1 TCTTTTTTCCTTCCTTCCTTTTTCTTCTC
235067 TC-TTTTTCCTTC
1 TCTTTTTTCCTTC
235079 TTCGTTCGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 16 0.44
28 6 0.17
29 14 0.39
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (29 bp):
TCTTTTTTCCTTCCTTCCTTTTTCTTCTC
Found at i:235079 original size:14 final size:14
Alignment explanation
Indices: 235042--235080 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
235032 TTTTCTCTCT
*
235042 TTTTTCCTTCCTTC
1 TTTTTCCTTCTTTC
235056 TTTTT-CTTCTTTC
1 TTTTTCCTTCTTTC
235069 TTTTTCCTTCTT
1 TTTTTCCTTCTT
235081 CGTTCGGCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTCCTTCTTTC
Found at i:235214 original size:8 final size:8
Alignment explanation
Indices: 235192--235233 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 8
235182 TTTCTTTCCC
235192 TTCTCTTT
1 TTCTCTTT
235200 TTCCTCTTT
1 TT-CTCTTT
235209 TTCTCTTTT
1 TTCTC-TTT
*
235218 TTTTCTTT
1 TTCTCTTT
235226 TTCT-TTT
1 TTCTCTTT
235233 T
1 T
235234 CTATTCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
7 4 0.13
8 11 0.37
9 15 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTCTCTTT
Found at i:235240 original size:17 final size:17
Alignment explanation
Indices: 235192--235245 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
235182 TTTCTTTCCC
**
235192 TTCTCTTTTTCCTCTTT
1 TTCTCTTTTTATTCTTT
*
235209 TTCTCTTTTTTTTCTTT
1 TTCTCTTTTTATTCTTT
235226 TTCT-TTTTCTATTCTTT
1 TTCTCTTTT-TATTCTTT
235243 TTC
1 TTC
235246 CCTTCGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 4 0.12
17 29 0.88
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (17 bp):
TTCTCTTTTTATTCTTT
Found at i:235887 original size:59 final size:60
Alignment explanation
Indices: 235818--235947 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 60
235808 AAGATGTAAT
* * *
235818 TTTTAG-AAAGTTTAAGGG-TTAAAGTGA-AATTTTGAGAAAGTTTAAGGGTTGAAATGTAA
1 TTTTAGAAAAGTTT-AGGGTTTAAACT-ATAATTTTGAGAAAGTTTAAGGGTTAAAATGCAA
* *
235877 -TTTAGAAAAGTTTAGGGTTTGAACTATAATTTTGAGAAAGTTTAGGGGTTAAAATGCAA
1 TTTTAGAAAAGTTTAGGGTTTAAACTATAATTTTGAGAAAGTTTAAGGGTTAAAATGCAA
235936 TTTTAGAAAAGT
1 TTTTAGAAAAGT
235948 CAAAATGCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
58 10 0.16
59 41 0.66
60 11 0.18
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (60 bp):
TTTTAGAAAAGTTTAGGGTTTAAACTATAATTTTGAGAAAGTTTAAGGGTTAAAATGCAA
Found at i:235947 original size:30 final size:30
Alignment explanation
Indices: 235811--235947 Score: 131
Period size: 30 Copynumber: 4.6 Consensus size: 30
235801 TAGGGCCAAG
235811 ATGTAATTTTTAG-AAAGTTTAAGGGTTAAA
1 ATGTAA-TTTTAGAAAAGTTTAAGGGTTAAA
* * *
235841 GTGAAATTTT-GAGAAAGTTTAAGGGTTGAA
1 ATGTAATTTTAGA-AAAGTTTAAGGGTTAAA
*
235871 ATGTAA-TTTAGAAAAGTTT-AGGGTTTGAA
1 ATGTAATTTTAGAAAAGTTTAAGGG-TTAAA
* * *
235900 CTATAATTTT-GAGAAAGTTTAGGGGTTAAA
1 ATGTAATTTTAGA-AAAGTTTAAGGGTTAAA
*
235930 ATGCAATTTTAGAAAAGT
1 ATGTAATTTTAGAAAAGT
235948 CAAAATGCAA
Statistics
Matches: 87, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
28 5 0.06
29 25 0.29
30 52 0.60
31 5 0.06
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.36
Consensus pattern (30 bp):
ATGTAATTTTAGAAAAGTTTAAGGGTTAAA
Found at i:236456 original size:78 final size:78
Alignment explanation
Indices: 236212--237200 Score: 1087
Period size: 78 Copynumber: 13.0 Consensus size: 78
236202 CAAAAATCAA
* * *
236212 AAATACCTCGACATGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGAAAA
1 AAATACCTCGGCATG-G-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
* * *
236276 ATATGAA-TT-GAA-
64 ACATAAATTTAAAAG
* **
236288 AAATACCTCGGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAC
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
*
236352 AGAAATTTAAAAG
66 ATAAATTTAAAAG
* * * *
236365 AAATACCTCGGCATGGTCCAAGGCTAAACTTACCTCTCGCAATATGAGTTTATTTTTTGAAAAAC
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
236430 ATAAATTTAAAAG
66 ATAAATTTAAAAG
* * * *
236443 AAATACCTTGGCATGGTCCAAGGCTCAACTCACCTCTCACAATATGAATTGATTTTTTTGAAAAA
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAA
236508 CATAAATTTAAAAG
65 CATAAATTTAAAAG
236522 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
236587 ATAAATTTAAAAG
66 ATAAATTTAAAAG
* *
236600 AAATATCTCAGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
236665 ATAAATTTAAAAG
66 ATAAATTTAAAAG
**
236678 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAAC
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
236743 ATAAATTTAAAAG
66 ATAAATTTAAAAG
* * **
236756 AAATATCTCGGCATGGTCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTCAAAAAAC
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
236821 ATAAATTTAAAAG
66 ATAAATTTAAAAG
*
236834 AAATATCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATGAA
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTT-TGAA
* * *
236899 AAATAGAAATTTAAAAAA
62 AAACATAAATTT-AAAAG
* * ** * * **
236917 AAATACCTCAGCTTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-----AAAAAAGA
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-A
236976 CATAAA-TT--AA-
65 CATAAATTTAAAAG
* ** * * **
236986 AAATACCTCAGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-----AAAAAAGA
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-A
237045 CATAAA-TT--AA-
65 CATAAATTTAAAAG
* ** * * **
237055 AAATACCTCAGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-----AAAAAAGA
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-A
237114 CATAAA-TT--AA-
65 CATAAATTTAAAAG
* ** * *
237124 AAATACCTCAGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAA
1 AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAA
* *
237188 CAAAAATTGAAAA
65 CATAAATTTAAAA
237201 ATATAATTCT
Statistics
Matches: 837, Mismatches: 55, Indels: 41
0.90 0.06 0.04
Matches are distributed among these distances:
69 188 0.22
70 2 0.00
73 6 0.01
74 59 0.07
75 8 0.01
76 15 0.02
77 47 0.06
78 373 0.45
79 74 0.09
81 5 0.01
82 24 0.03
83 36 0.04
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (78 bp):
AAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
ATAAATTTAAAAG
Found at i:237003 original size:69 final size:69
Alignment explanation
Indices: 236915--237174 Score: 511
Period size: 69 Copynumber: 3.8 Consensus size: 69
236905 AAATTTAAAA
*
236915 AAAAATACCTCAGCTTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAAAAAAAGACATA
1 AAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAAAAAAAGACATA
236980 AATT
66 AATT
236984 AAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAAAAAAAGACATA
1 AAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAAAAAAAGACATA
237049 AATT
66 AATT
237053 AAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAAAAAAAGACATA
1 AAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAAAAAAAGACATA
237118 AATT
66 AATT
237122 AAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
1 AAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
237175 TTTTTTGAAA
Statistics
Matches: 190, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 190 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (69 bp):
AAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAAAAAAAGACATA
AATT
Found at i:238099 original size:9 final size:9
Alignment explanation
Indices: 238087--238125 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
238077 CTTTTCTTCC
238087 TTTTTGTTT
1 TTTTTGTTT
238096 TTTTTGTTT
1 TTTTTGTTT
*
238105 TTGTT-TTT
1 TTTTTGTTT
238113 TTTTTGTTT
1 TTTTTGTTT
238122 TTTT
1 TTTT
238126 AGGCATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:238105 original size:15 final size:15
Alignment explanation
Indices: 238087--238115 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
238077 CTTTTCTTCC
238087 TTTTTGTTTTTTTTG
1 TTTTTGTTTTTTTTG
238102 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
238116 TTGTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTTGTTTTTTTTG
Found at i:248684 original size:53 final size:53
Alignment explanation
Indices: 248604--248709 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
248594 CCCAGAATCG
*
248604 AACCATGGCTTGGATCAACTGCTCGTTCACATCGATTGCTATCAAGTGAGCTA
1 AACCATAGCTTGGATCAACTGCTCGTTCACATCGATTGCTATCAAGTGAGCTA
248657 AACCATAGCTTGGATCAACTGCTCGTTCACATCGATTGCTATCAAGTGAGCTA
1 AACCATAGCTTGGATCAACTGCTCGTTCACATCGATTGCTATCAAGTGAGCTA
248710 TATCCCCATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (53 bp):
AACCATAGCTTGGATCAACTGCTCGTTCACATCGATTGCTATCAAGTGAGCTA
Found at i:250334 original size:15 final size:16
Alignment explanation
Indices: 250289--250336 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
250279 GATCCGATTA
*
250289 AAACACGAGAATTTTTTT
1 AAACACGAGAA--TTTTG
250307 AAACACGAGAATTTTG
1 AAACACGAGAATTTTG
250323 AAACACGA-AATTTT
1 AAACACGAGAATTTT
250337 TTTTAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 6 0.21
16 12 0.41
18 11 0.38
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (16 bp):
AAACACGAGAATTTTG
Found at i:250338 original size:17 final size:17
Alignment explanation
Indices: 250289--250591 Score: 193
Period size: 18 Copynumber: 16.8 Consensus size: 17
250279 GATCCGATTA
* *
250289 AAACACGAGAATTTTTTT
1 AAACACGA-AAATTTTTG
*
250307 AAACACGAGAA-TTTTG
1 AAACACGAAAATTTTTG
* *
250323 AAACACGAAATTTTTTTTA
1 AAACACGAAA--ATTTTTG
* * *
250342 AAAAAAGCAAAAGTTTTTTAA
1 AAACACG-AAAA--TTTTT-G
250363 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
* *
250380 CAAACACGAGAATTTTTA
1 -AAACACGAAAATTTTTG
*
250398 AAACAC-AAAAATTTTG
1 AAACACGAAAATTTTTG
*
250414 AAA-AGCGACAATTTTTG
1 AAACA-CGAAAATTTTTG
* *
250431 AAACACGAGAATTTTTTTC
1 AAACACGA-AA-ATTTTTG
* *
250450 AAA-ACGCAAATTTTTTTTTAA
1 AAACACG-AAA---ATTTTT-G
*
250471 AAACACGAAAATTTTGG
1 AAACACGAAAATTTTTG
250488 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
250505 AAAACACGAAAATTTTTG
1 -AAACACGAAAATTTTTG
* * *
250523 AAAATATGAAAATTTTAG
1 -AAACACGAAAATTTTTG
250541 AAAACACGAAAATTTTTG
1 -AAACACGAAAATTTTTG
250559 AAACAC-ATAAATTTTTAG
1 AAACACGA-AAATTTTT-G
250577 AAAACACGAAAATTT
1 -AAACACGAAAATTT
250592 GAAATTTTTA
Statistics
Matches: 229, Mismatches: 33, Indels: 45
0.75 0.11 0.15
Matches are distributed among these distances:
15 1 0.00
16 25 0.11
17 51 0.22
18 87 0.38
19 30 0.13
20 20 0.09
21 12 0.05
22 3 0.01
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.31
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:250522 original size:36 final size:36
Alignment explanation
Indices: 250288--250591 Score: 216
Period size: 36 Copynumber: 8.4 Consensus size: 36
250278 TGATCCGATT
* ** *
250288 AAAACACGAGAATTTTTTTAAACACGAGAA-TTTTG
1 AAAACACGAAAATTTTTGGAAACACGAAAATTTTTG
* ** * * *
250323 -AAACACGAAATTTTTTTTAAAAAAAGCAAAAGTTTTTTA
1 AAAACACGAAA-ATTTTTGGAAACACG-AAAA--TTTTTG
* *
250362 AAAACACGAAAATTTTTGCAAACACGAGAATTTTT-
1 AAAACACGAAAATTTTTGGAAACACGAAAATTTTTG
* *
250397 AAAACAC-AAAAATTTT-GAAA-AGCGACAATTTTTG
1 AAAACACGAAAATTTTTGGAAACA-CGAAAATTTTTG
* ** * *
250431 -AAACACGAGAATTTTTTTCAAA-ACGCAAATTTTTTTTTA
1 AAAACACGA-AAATTTTTGGAAACACG-AAA---ATTTTTG
250470 AAAACACGAAAA-TTTTGGAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTGGAAACACGAAAATTTTTG
* * * *
250505 AAAACACGAAAATTTTTGAAAATATGAAAATTTTAG
1 AAAACACGAAAATTTTTGGAAACACGAAAATTTTTG
250541 AAAACACGAAAATTTTT-GAAACAC-ATAAATTTTTAG
1 AAAACACGAAAATTTTTGGAAACACGA-AAATTTTT-G
250577 AAAACACGAAAATTT
1 AAAACACGAAAATTT
250592 GAAATTTTTA
Statistics
Matches: 214, Mismatches: 35, Indels: 39
0.74 0.12 0.14
Matches are distributed among these distances:
32 1 0.00
33 19 0.09
34 19 0.09
35 54 0.25
36 66 0.31
38 13 0.06
39 24 0.11
40 18 0.08
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.31
Consensus pattern (36 bp):
AAAACACGAAAATTTTTGGAAACACGAAAATTTTTG
Found at i:251236 original size:14 final size:14
Alignment explanation
Indices: 251217--251243 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
251207 AGCTGCACGG
251217 GTGGGCTGCTGCTA
1 GTGGGCTGCTGCTA
251231 GTGGGCTGCTGCT
1 GTGGGCTGCTGCT
251244 GGTCCACCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.22, G:0.44, T:0.30
Consensus pattern (14 bp):
GTGGGCTGCTGCTA
Found at i:251433 original size:25 final size:24
Alignment explanation
Indices: 251395--251464 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
251385 AAAAAAATTA
*
251395 TTTTTTCTTTTTTTTTCTTTCCCT
1 TTTTTTCTTCTTTTTTCTTTCCCT
*
251419 TTTTTTCTCTCTTTTTTCCTT-CCT
1 TTTTTTCT-TCTTTTTTCTTTCCCT
*
251443 TCTTTTTCTTCTTTCTT-TTTCC
1 T-TTTTTCTTCTTTTTTCTTTCC
251465 TTCTTCGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 2 0.05
24 20 0.51
25 17 0.44
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTTTCTTCTTTTTTCTTTCCCT
Found at i:251433 original size:26 final size:24
Alignment explanation
Indices: 251395--251467 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 24
251385 AAAAAAATTA
*
251395 TTTTTTCTT-TTTTTTTCTTTCCCT
1 TTTTTTCTTCTTTTTTTCCTT-CCT
251419 TTTTTTC-TCTCTTTTTTCCTTCCT
1 TTTTTTCTTCT-TTTTTTCCTTCCT
251443 TCTTTTTCTTCTTTCTTTTTCCTTC
1 T-TTTTTCTTC-TT-TTTTTCCTTC
251468 TTCGTTCGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
23 1 0.02
24 12 0.29
25 15 0.36
26 3 0.07
27 11 0.26
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTTTCTTCTTTTTTTCCTTCCT
Found at i:251453 original size:13 final size:12
Alignment explanation
Indices: 251395--251466 Score: 55
Period size: 12 Copynumber: 6.1 Consensus size: 12
251385 AAAAAAATTA
251395 TTTTTTCTT--T
1 TTTTTTCTTCCT
251405 TTTTTTCTTTCCCT
1 TTTTTTC-TT-CCT
251419 TTTTTTC-TCTCT
1 TTTTTTCTTC-CT
*
251431 TTTTTCCTTCCT
1 TTTTTTCTTCCT
251443 TCTTTTTCTT-CT
1 T-TTTTTCTTCCT
*
251455 TTCTTT-TTCCT
1 TTTTTTCTTCCT
251466 T
1 T
251467 CTTCGTTCGC
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
10 9 0.18
11 10 0.20
12 15 0.29
13 9 0.18
14 8 0.16
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTCTTCCT
Found at i:251468 original size:14 final size:14
Alignment explanation
Indices: 251431--251469 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
251421 TTTTCTCTCT
*
251431 TTTTTCCTTCCTTC
1 TTTTTCCTTCTTTC
251445 TTTTT-CTTCTTTC
1 TTTTTCCTTCTTTC
251458 TTTTTCCTTCTT
1 TTTTTCCTTCTT
251470 CGTTCGCCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTCCTTCTTTC
Found at i:251602 original size:6 final size:6
Alignment explanation
Indices: 251593--251633 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
251583 CTCTTCTTCC
*
251593 TCTTTT TC-TTT T-TTTT TCTTTT TCTTTT TC-TAT TCTTTT TC
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC
251634 CCTTTGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
5 12 0.40
6 18 0.60
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:251611 original size:22 final size:23
Alignment explanation
Indices: 251586--251633 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
251576 TTCCCTTCTC
*
251586 TTCTTCCTCTTTTTCT-TTTTTT
1 TTCTTCCTCTTTTTCTATTCTTT
**
251608 TTCTTTTTCTTTTTCTATTCTTT
1 TTCTTCCTCTTTTTCTATTCTTT
251631 TTC
1 TTC
251634 CCTTTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (23 bp):
TTCTTCCTCTTTTTCTATTCTTT
Found at i:251615 original size:17 final size:17
Alignment explanation
Indices: 251593--251633 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
251583 CTCTTCTTCC
*
251593 TCTTTTTCTTTTT-TTT
1 TCTTTTTCTTTTTCTAT
251609 TCTTTTTCTTTTTCTAT
1 TCTTTTTCTTTTTCTAT
251626 TCTTTTTC
1 TCTTTTTC
251634 CCTTTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (17 bp):
TCTTTTTCTTTTTCTAT
Found at i:252217 original size:29 final size:28
Alignment explanation
Indices: 252164--252325 Score: 114
Period size: 30 Copynumber: 5.5 Consensus size: 28
252154 TTTGGGGTAA
* *
252164 AAATGTAA-TTTTAGGAAAA-TATAGGGCC
1 AAATGTAATTTTTA--AAAAGTTTAGGGTC
252192 AAGATGTAATTTTTAAAAAGTTTAGGGGTC
1 AA-ATGTAATTTTTAAAAAGTTTA-GGGTC
* * * *
252222 AAAGTGAAATTTTGAGAAAGTTTAGGGGTTG
1 AAA-TGTAATTTTTAAAAAGTTTA-GGG-TC
252253 AAATGTAA-TTTTAGAAAAGTTTAGGGTC
1 AAATGTAATTTTTA-AAAAGTTTAGGGTC
* * * *
252281 AAAATGCAAATTTCAAAAAGTATAAGGGTC
1 -AAATGTAATTTTTAAAAAGT-TTAGGGTC
252311 AAAATGTAATTTTTA
1 -AAATGTAATTTTTA
252326 TTTTTTGCAT
Statistics
Matches: 108, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
28 7 0.06
29 30 0.28
30 67 0.62
31 4 0.04
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (28 bp):
AAATGTAATTTTTAAAAAGTTTAGGGTC
Found at i:252233 original size:30 final size:30
Alignment explanation
Indices: 252199--252325 Score: 125
Period size: 30 Copynumber: 4.3 Consensus size: 30
252189 GCCAAGATGT
*
252199 AATTTTTAAAAAGTTTAGGGGTCAAAGTGA
1 AATTTTTAAAAAGTTTAGGGGTCAAAATGA
* * ** *
252229 AATTTTGAGAAAGTTTAGGGGTTGAAATGT
1 AATTTTTAAAAAGTTTAGGGGTCAAAATGA
252259 AA-TTTTAGAAAAGTTTA-GGGTCAAAATGCA
1 AATTTTTA-AAAAGTTTAGGGGTCAAAATG-A
* * * *
252289 AA-TTTCAAAAAGTATAAGGGTCAAAATGT
1 AATTTTTAAAAAGTTTAGGGGTCAAAATGA
252318 AATTTTTA
1 AATTTTTA
252326 TTTTTTGCAT
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
29 23 0.29
30 55 0.71
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (30 bp):
AATTTTTAAAAAGTTTAGGGGTCAAAATGA
Found at i:252301 original size:59 final size:59
Alignment explanation
Indices: 252157--252323 Score: 155
Period size: 59 Copynumber: 2.8 Consensus size: 59
252147 CAAAATATTT
* * * *
252157 GGGGTAAAAATGTAATTTT-AGGAAAA-TAT-AGGGCCAAGATGTAATTTTTAAAAAGTTTA
1 GGGGTCAAAATGAAATTTTCA--AAAAGTATAAGGGTCAAAATGTAA-TTTTAAAAAGTTTA
* * * * * **
252216 GGGGTCAAAGTGAAATTTTGAGAAAGTTTAGGGGTTGAAATGTAATTTTAGAAAAGTTTA
1 GGGGTCAAAATGAAATTTTCAAAAAGTATAAGGGTCAAAATGTAATTTTA-AAAAGTTTA
252276 -GGGTCAAAATGCAAA-TTTCAAAAAGTATAAGGGTCAAAATGTAATTTT
1 GGGGTCAAAATG-AAATTTTCAAAAAGTATAAGGGTCAAAATGTAATTTT
252324 TATTTTTTGC
Statistics
Matches: 86, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
58 3 0.03
59 60 0.70
60 23 0.27
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (59 bp):
GGGGTCAAAATGAAATTTTCAAAAAGTATAAGGGTCAAAATGTAATTTTAAAAAGTTTA
Found at i:261723 original size:20 final size:20
Alignment explanation
Indices: 261684--261742 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
261674 CTCTAAATAA
*
261684 AAATTTAAAATAATTCAAAAT
1 AAATTTAAAA-AATTAAAAAT
*
261705 AAATTTCAAAAATTAAAAAT
1 AAATTTAAAAAATTAAAAAT
* * *
261725 AATTTTTAAAATTTAAAA
1 AAATTTAAAAAATTAAAA
261743 TATNNNNNNN
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 24 0.73
21 9 0.27
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTTAAAAAATTAAAAAT
Done.