Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 222 of 292
Found at i:64961207 original size:17 final size:17
Alignment explanation
Indices: 64961168--64961209 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
64961158 TTTTTATAAC
*
64961168 TATATTATGTACATATA
1 TATATTTTGTACATATA
64961185 TATATTTTGTACATATCA
1 TATATTTTGTACATAT-A
64961203 T-TATTTT
1 TATATTTT
64961210 ATATTATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (17 bp):
TATATTTTGTACATATA
Found at i:64961300 original size:19 final size:20
Alignment explanation
Indices: 64961273--64961354 Score: 64
Period size: 19 Copynumber: 4.0 Consensus size: 20
64961263 TTTCTTTTAT
*
64961273 TGTAGATATTATTATTATTA
1 TGTACATATTATTATTATTA
64961293 T-TACATA-TATTTATTA-TA
1 TGTACATATTA-TTATTATTA
* *
64961311 TGCATATATATATATGTATTTTTA
1 TG--TACATAT-TAT-TATTATTA
64961335 TGTACATATTATTATT-TTA
1 TGTACATATTATTATTATTA
64961354 T
1 T
64961355 ATTATTATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
18 5 0.10
19 15 0.30
20 5 0.10
21 8 0.16
22 7 0.14
23 6 0.12
24 4 0.08
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (20 bp):
TGTACATATTATTATTATTA
Found at i:64972793 original size:14 final size:14
Alignment explanation
Indices: 64972774--64972803 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64972764 ATTGAGGTAA
*
64972774 TTTCAATTTATGTT
1 TTTCAATTTATATT
64972788 TTTCAATTTATATT
1 TTTCAATTTATATT
64972802 TT
1 TT
64972804 GCAAAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTCAATTTATATT
Found at i:64973097 original size:86 final size:87
Alignment explanation
Indices: 64972718--64973215 Score: 571
Period size: 86 Copynumber: 5.9 Consensus size: 87
64972708 TGTTTGTCAA
* * ** *
64972718 AAAAAGTCGACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACATTGAGGTAATTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
64972783 ATGTTTTTCAATTTATATTTTGC
65 CTGTTTTTCAATTTATATTTTTC
* * *
64972806 AAAAATCAATTCATATTGCAAGAGGTGAGTTGAG-CTCAGGACACGCTGAGGT-TTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
64972869 TGTTCTT-AA-TGACTATTTTT-
66 TGTTTTTCAATTTA-TATTTTTC
64972889 --AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
64972952 TGTTTTTTCCAATCTATATTTTTC
66 TG-TTTTT-CAATTTATATTTTTC
* *
64972976 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-ACGTTGAGGTATTTTCGATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
64973040 CGTTTTTCAATTTATGTTTTTC
66 TGTTTTTCAATTTATATTTTTC
* * * * * *
64973062 AAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGACAAGCTGAGGTAATTTCAATTCC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
64973127 TG----T---TTT-T-TTTTTA
66 TGTTTTTCAATTTATATTTTTC
** * *
64973140 AAAAAGTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
64973205 CTGTCTTTCAA
65 CTGTTTTTCAA
64973216 AAAATCAACT
Statistics
Matches: 348, Mismatches: 43, Indels: 40
0.81 0.10 0.09
Matches are distributed among these distances:
78 10 0.03
79 53 0.15
80 3 0.01
81 30 0.09
82 18 0.05
83 16 0.05
84 12 0.03
85 14 0.04
86 76 0.22
87 50 0.14
88 26 0.07
89 40 0.11
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAATTTATATTTTTC
Found at i:64973114 original size:175 final size:170
Alignment explanation
Indices: 64972727--64973280 Score: 589
Period size: 175 Copynumber: 3.3 Consensus size: 170
64972717 AAAAAAGTCG
* * *
64972727 ACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACA-TTGAGGTAATTTCAATTTATGTTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA-AGCTGAGGTAATTTCAATTTCTGTTTTT
* * * *
64972791 CAATTTATATTTTGCAAAAATCAATTCATATTGCAAGAGGTGAGTTGAG-CTCAGGACACGCTGA
65 CAA-TTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGA
* *
64972855 GGT-TTTTTAATTTCTGTTCTT-AATGACTATTTTTAAATCA
129 GGTATTTTCAATTTCTGTTTTTCAATGACTATTTTTAAATCA
* *
64972895 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAAGCTGAGGTAATTTCAATTTCTG-TTTTT
64972960 CCAATCTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-ACGTTG
65 -CAAT-TATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTG
* * * *
64973024 AGGTATTTTCGATTTCCGTTTTTCAATTTA-TGTTTTTCAAAAATCA
128 AGGTATTTTCAATTTCTGTTTTTCAA-TGACTATTTTT---AAATCA
* * * *
64973070 ATTCATATTACGAGAGGTGAGTTGAGCCTCGGGACAAGCTGAGGTAATTTCAATTCCTG---TT-
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAAGCTGAGGTAATTTCAATTTCTGTTTTTC
* ** *
64973131 --TT-T-TTTTTAAAAAAGTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
66 AATTATATTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAG
*
64973192 GTATTTTCAATTTCTGTCTTTC-A--A--A-----AAATCA
130 GTATTTTCAATTTCTGTTTTTCAATGACTATTTTTAAATCA
* * *
64973223 ACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACAAGCTGAGGTAATTTCAATTT
64973281 TTTGCTTTTT
Statistics
Matches: 335, Mismatches: 36, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
153 35 0.10
155 20 0.06
162 1 0.00
164 10 0.03
165 36 0.11
166 28 0.08
167 1 0.00
168 53 0.16
169 6 0.02
170 53 0.16
171 23 0.07
172 8 0.02
173 2 0.01
175 59 0.18
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (170 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAAGCTGAGGTAATTTCAATTTCTGTTTTTC
AATTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGG
TATTTTCAATTTCTGTTTTTCAATGACTATTTTTAAATCA
Found at i:64973244 original size:74 final size:75
Alignment explanation
Indices: 64973043--64973325 Score: 313
Period size: 79 Copynumber: 3.7 Consensus size: 75
64973033 CGATTTCCGT
* * * *
64973043 TTTTCAATTTATG-TTTTTC-AAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
64973106 AGCTGAGGTA
66 CGCTGAGGTA
* * * ** *
64973116 ATTTCAATTCCTGTTTTTTTTTTAAAAAAGTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
1 TTTTCAATTTCTG---TTTTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
64973181 GACACGTTGAGGTA
62 GACACGCTGAGGTA
* *
64973195 TTTTCAATTTCTG-TCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCA
1 TTTTCAATTTCTGTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
64973259 CACGCTGAGGTA
64 CACGCTGAGGTA
* * *
64973271 TTTTCAATTTTTTGCTTTTTCAAAAGATCAACTCATAATT-CGAGAGGTGAGTTGA
1 TTTTCAA-TTTCTGTTTTTTCAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGA
64973326 ACTTCGGGTC
Statistics
Matches: 174, Mismatches: 25, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
73 10 0.06
74 32 0.18
75 10 0.06
76 19 0.11
77 10 0.06
78 38 0.22
79 55 0.32
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTA
Found at i:64973315 original size:78 final size:76
Alignment explanation
Indices: 64973043--64973370 Score: 305
Period size: 78 Copynumber: 4.3 Consensus size: 76
64973033 CGATTTCCGT
* * * * *
64973043 TTTTCAA-TTTATGTTTTTC-AAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTC-GGGAC
1 TTTTCAATTTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGCAC
*
64973105 AAGCTGAGGTA
66 ACGCTGAGGTA
* * * ** * *
64973116 ATTTCAATTCCTGTTTTTTTTTTAAAAAAGTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
1 TTTTCAATT--T-TTTGTTTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
*
64973181 G-ACACGTTGAGGTA
62 GCACACGCTGAGGTA
* *
64973195 TTTTCAA-TTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCA
1 TTTTCAATTTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG-CA
64973259 CACGCTGAGGTA
65 CACGCTGAGGTA
* * *
64973271 TTTTCAATTTTTTGCTTTTTCAAAAGATCAACTCATAATT-CGAGAGGTGAGTTGAA-CTTCGGG
1 TTTTCAATTTTTTG-TTTTTCAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTT-AAGCCTCAGG
* *
64973334 TCGCATC-CCGA-GTA
63 -CACA-CGCTGAGGTA
64973348 TTTTCAATTTTTTTGTTTTTCAA
1 TTTTCAA-TTTTTTGTTTTTCAA
64973371 TAAAGAATGA
Statistics
Matches: 212, Mismatches: 28, Indels: 26
0.80 0.11 0.10
Matches are distributed among these distances:
73 6 0.03
74 33 0.16
75 12 0.06
76 21 0.10
77 30 0.14
78 57 0.27
79 52 0.25
80 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (76 bp):
TTTTCAATTTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGCAC
ACGCTGAGGTA
Found at i:64973357 original size:153 final size:151
Alignment explanation
Indices: 64973043--64973327 Score: 344
Period size: 153 Copynumber: 1.9 Consensus size: 151
64973033 CGATTTCCGT
* * * *
64973043 TTTTCAATTTATGTTTTTCAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGACAAG
1 TTTTCAATTTATGTCTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGCACAAG
* *
64973108 CTGAGGTAATTTCAATTCCTGTTTTTTTTTTAAAAAAGTCAACTCATATTGCGAGAAATGAGTTG
66 CTGAGGTAATTTCAATT-CTGTTTCTTTTTCAAAAAAGTCAACTCATATTGCGAGAAATGAGTTG
* * *
64973173 AGCCTCAAGACACGTTGAGGTA
130 AACCTCAAGACACATCGAGGTA
* *
64973195 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCAC
1 TTTTCAATTTATGTCTTTC-AAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTC-GG-CAC
* * * **
64973260 ACGCTGAGGTATTTTCAATT-T-TTTGCTTTTTCAAAAGA-TCAACTCATAATT-CGAGAGGTGA
63 AAGCTGAGGTAATTTCAATTCTGTTT-CTTTTTCAAAAAAGTCAACTCAT-ATTGCGAGAAATGA
64973321 GTTGAAC
126 GTTGAAC
64973328 TTCGGGTCGC
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
152 43 0.38
153 49 0.43
154 2 0.02
155 20 0.18
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (151 bp):
TTTTCAATTTATGTCTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGCACAAG
CTGAGGTAATTTCAATTCTGTTTCTTTTTCAAAAAAGTCAACTCATATTGCGAGAAATGAGTTGA
ACCTCAAGACACATCGAGGTA
Found at i:64973540 original size:24 final size:24
Alignment explanation
Indices: 64973510--64973555 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
64973500 TTTAATTTTC
64973510 AAAATTTTAAAAAAATAAAAATAA
1 AAAATTTTAAAAAAATAAAAATAA
*
64973534 AAAATTTTCAAAAAATAAAAAT
1 AAAATTTTAAAAAAATAAAAAT
64973556 TGCATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAATTTTAAAAAAATAAAAATAA
Found at i:64973592 original size:30 final size:31
Alignment explanation
Indices: 64973552--64973636 Score: 104
Period size: 30 Copynumber: 2.8 Consensus size: 31
64973542 CAAAAAATAA
*
64973552 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
64973582 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
64973612 AAATTTCA-CTAGACCCCTAAACTTT
1 AAATTTCATTTTGACCCCTAAACTTT
64973637 CCTTAAAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 15 0.32
30 32 0.68
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.41
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:64981562 original size:37 final size:39
Alignment explanation
Indices: 64981462--64981563 Score: 97
Period size: 39 Copynumber: 2.6 Consensus size: 39
64981452 ATATTTTTGG
64981462 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAAA
* *
64981499 TACATATATAATATGCATATAATAAAAGTATGTA-AT-AATAA
1 TA-ATA-ATAATAT-C-TAAAATAAAAGTATGTACATAAAAAA
*
64981540 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
64981564 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
37 12 0.22
38 4 0.07
39 13 0.24
40 3 0.05
41 6 0.11
42 4 0.07
43 13 0.24
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (39 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAAA
Found at i:64993511 original size:2 final size:2
Alignment explanation
Indices: 64993504--64993542 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
64993494 ATATGTGCAA
* *
64993504 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
64993543 AAATATACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:64993753 original size:9 final size:9
Alignment explanation
Indices: 64993631--64993756 Score: 55
Period size: 9 Copynumber: 13.3 Consensus size: 9
64993621 GGAATTTAAA
64993631 ATATACATAT
1 ATATA-ATAT
64993641 ATAT-ATAT
1 ATATAATAT
*
64993649 ATAT-ATGT
1 ATATAATAT
64993657 ATATAATAGT
1 ATATAATA-T
* *
64993667 ATTTAAGAAT
1 ATATAA-TAT
64993677 ATATACATA-
1 ATATA-ATAT
*
64993686 AGA-AATAT
1 ATATAATAT
64993694 ATAACTAATGGCAT
1 AT-A-TAAT---AT
64993708 ATATACATA-
1 ATATA-ATAT
64993717 ATATATATAT
1 ATATA-ATAT
*
64993727 ATATAATAC
1 ATATAATAT
*
64993736 ACATAATAT
1 ATATAATAT
*
64993745 ATATTATAT
1 ATATAATAT
64993754 ATA
1 ATA
64993757 CATATTAGAA
Statistics
Matches: 89, Mismatches: 14, Indels: 27
0.68 0.11 0.21
Matches are distributed among these distances:
7 3 0.03
8 17 0.19
9 33 0.37
10 22 0.25
11 5 0.06
12 2 0.02
13 3 0.03
14 4 0.04
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.39
Consensus pattern (9 bp):
ATATAATAT
Found at i:64993763 original size:13 final size:12
Alignment explanation
Indices: 64993706--64993761 Score: 57
Period size: 11 Copynumber: 5.0 Consensus size: 12
64993696 AACTAATGGC
64993706 ATATATACATA-
1 ATATATACATAT
*
64993717 ATATATATATAT
1 ATATATACATAT
*
64993729 ATA-ATACACAT
1 ATATATACATAT
*
64993740 A-ATATATAT-T
1 ATATATACATAT
64993750 ATATATACATAT
1 ATATATACATAT
64993762 TAGAAATGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
10 3 0.09
11 28 0.80
12 4 0.11
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATACATAT
Found at i:64994296 original size:11 final size:12
Alignment explanation
Indices: 64994280--64994316 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
64994270 AGAAAAAAAA
64994280 GGAAGAGAG-AG
1 GGAAGAGAGAAG
64994291 GGAAGAGAGAAG
1 GGAAGAGAGAAG
64994303 GG-AGAGAGAAG
1 GGAAGAGAGAAG
64994314 GGA
1 GGA
64994317 GGGGGAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:64994317 original size:11 final size:11
Alignment explanation
Indices: 64994278--64994327 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
64994268 AAAGAAAAAA
*
64994278 AAGGAAGAGAG
1 AAGGGAGAGAG
64994289 -AGGGAAGAGAG
1 AAGGG-AGAGAG
64994300 AAGGGAGAGAG
1 AAGGGAGAGAG
* *
64994311 AAGGGAGGGGG
1 AAGGGAGAGAG
64994322 AAGGGA
1 AAGGGA
64994328 AATCCGGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (11 bp):
AAGGGAGAGAG
Found at i:64994609 original size:16 final size:14
Alignment explanation
Indices: 64994590--64994630 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
64994580 TTTTTTTGGT
64994590 TTTTTTTTTGCTGAAA
1 TTTTTTTTTG--GAAA
*
64994606 TTTTTTTCTGGAAA
1 TTTTTTTTTGGAAA
64994620 TTTTTTTTTGG
1 TTTTTTTTTGG
64994631 TGCTGGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 14 0.61
16 9 0.39
ACGTcount: A:0.15, C:0.05, G:0.15, T:0.66
Consensus pattern (14 bp):
TTTTTTTTTGGAAA
Found at i:64994626 original size:30 final size:31
Alignment explanation
Indices: 64994589--64994664 Score: 100
Period size: 33 Copynumber: 2.4 Consensus size: 31
64994579 TTTTTTTTGG
*
64994589 TTTTTTTTTTGCTGAAATTTTTTTCTGGAAA
1 TTTTTTTTTTGCTGAAATTTTTTGCTGGAAA
* *
64994620 TTTTTTTTTGGTGCTGGAATTTTTTGCTGG-AT
1 TTTTTTTTT--TGCTGAAATTTTTTGCTGGAAA
64994652 TTTTTTTTTTGCT
1 TTTTTTTTTTGCT
64994665 TCCCCTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 4 0.10
31 9 0.22
32 10 0.25
33 17 0.43
ACGTcount: A:0.12, C:0.07, G:0.17, T:0.64
Consensus pattern (31 bp):
TTTTTTTTTTGCTGAAATTTTTTGCTGGAAA
Found at i:64995106 original size:35 final size:35
Alignment explanation
Indices: 64995066--64995171 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
64995056 GGGGTGTGTG
*
64995066 ATGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
*
64995101 GTGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
64995136 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
64995171 A
1 A
64995172 GAGGCAAGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.23, C:0.12, G:0.49, T:0.16
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
Found at i:64995635 original size:5 final size:5
Alignment explanation
Indices: 64995625--64995651 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
64995615 GTATCTATCT
64995625 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
64995652 GTATATAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:64996237 original size:32 final size:32
Alignment explanation
Indices: 64996195--64996268 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
64996185 ATGTCCCAAG
64996195 CCACACGGGCATGTGTGATCACACAGCCCCAC
1 CCACACGGGCATGTGTGATCACACAGCCCCAC
*
64996227 CCACATGGGCATGTGTGATCACACAGCCCCAC
1 CCACACGGGCATGTGTGATCACACAGCCCCAC
64996259 CCACACGGGC
1 CCACACGGGC
64996269 GTGACACTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.24, C:0.41, G:0.23, T:0.12
Consensus pattern (32 bp):
CCACACGGGCATGTGTGATCACACAGCCCCAC
Found at i:65003356 original size:5 final size:5
Alignment explanation
Indices: 65003346--65003372 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
65003336 GTATCTATCT
65003346 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
65003373 GTATATAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:65006623 original size:15 final size:15
Alignment explanation
Indices: 65006605--65006645 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
65006595 AACCTAACCC
65006605 AAAAAAAAACAAAGA
1 AAAAAAAAACAAAGA
65006620 AAAAAAAGAA-AAAGA
1 AAAAAAA-AACAAAGA
65006635 AAAAGAAAAAC
1 AAAA-AAAAAC
65006646 CTACCCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAACAAAGA
Found at i:65006660 original size:15 final size:16
Alignment explanation
Indices: 65006640--65006675 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
65006630 AAAGAAAAAG
65006640 AAAAACCT-ACCCCAA
1 AAAAACCTAACCCCAA
65006655 AAAAACCTAACCCCAA
1 AAAAACCTAACCCCAA
65006671 AAAAA
1 AAAAA
65006676 AAGAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAACCTAACCCCAA
Found at i:65006991 original size:11 final size:11
Alignment explanation
Indices: 65006975--65007008 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
65006965 TTCTTTCGAA
65006975 TTTTTTTTCTT
1 TTTTTTTTCTT
*
65006986 TTTTTTTTATT
1 TTTTTTTTCTT
*
65006997 GTTTTTTTCTT
1 TTTTTTTTCTT
65007008 T
1 T
65007009 CTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:65009271 original size:12 final size:12
Alignment explanation
Indices: 65009254--65009289 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
65009244 ATCCATTTGA
65009254 CATTCATGCATT
1 CATTCATGCATT
65009266 CATTCATGCATT
1 CATTCATGCATT
*
65009278 CATTCATACATT
1 CATTCATGCATT
65009290 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:65014934 original size:71 final size:69
Alignment explanation
Indices: 65014725--65014988 Score: 323
Period size: 71 Copynumber: 3.7 Consensus size: 69
65014715 GAGTTAAGCC
* * *
65014725 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGGCACGCT
65014790 GAGGTAT
63 GAGGTAT
* * ** * *
65014797 TTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAG-AGATGAGTTAAGCCTCAAGACACGTTG
1 TTTTAATTTTTGT-TTTAAATCAACTCATATTGCGAGAAG-TGAGTTAAGCCTCGGGGCACGCTG
65014861 AGGTAT
64 AGGTAT
*
65014867 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTT--AAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGGCACGCTG
65014932 AGGTAT
64 AGGTAT
* * ** *
65014938 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
65014989 TTTAATTTTT
Statistics
Matches: 165, Mismatches: 22, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
69 35 0.21
70 55 0.33
71 59 0.36
72 16 0.10
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGGCACGCTGAG
GTAT
Found at i:65015033 original size:122 final size:124
Alignment explanation
Indices: 65014867--65016327 Score: 537
Period size: 140 Copynumber: 11.0 Consensus size: 124
65014857 GTTGAGGTAT
65014867 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
65014932 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
65014988 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
65015053 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *** **** * * ** * * * ** *
65015113 TCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTC-AAAAATCAACTCA-
1 T----T-----TTA---ATTTTTGTTTTC-AAAATCAACTCATATTG--CGAGAAGTGAGTTGAG
** * * * * *** * *
65015176 TATTGCGAG-AAG-TGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTTTAAATT-GACTC
51 CCTCG-GGGCACGCTGAGGT-ATTTTC---A-A---T---G--TTTAT-GTTTTAAATTCAACTC
65015238 ATATTGCGAGAGGTGAGTTAAGCC
101 ATATTGCGAGAGGTGAGTTAAGCC
* *
65015262 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * *
65015327 GAGGTATTTTCAATTTTTGTGTTTT-AA-TCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAG
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGC--GAGA-G-G-TGAG--TTAAG
65015390 ACAC
123 -C-C
* * * **** * * *
65015394 GTTGAGGTATTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCG
1 -TT---TTAATTTT--TGTTT-TCAAAAT---CAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
*
65015459 GGGCACGCTAAGGTATTTTCAAT-TTT-TGTGTTT-AA-TCAACTCATATTGCGAGAGATGAGTT
56 GGGCACGCTGAGGTATTTTCAATGTTTATGT-TTTAAATTCAACTCATATTGC--GAGA-G-G-T
*
65015520 GAGCCTCAAGACAC
115 GAG--TTAAG-C-C
* * * **** *
65015534 GTTGAGGTATTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
1 -TT---TTAATTTT--TGTTT-TCAAAAT---CAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
* *
65015599 GGGCACGCTGAGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTA
56 GGGCACGCTGAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTA
65015661 AGCC
121 AGCC
* *
65015665 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
65015730 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *** **** * * ** * * * ** *
65015790 TCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTC-AAAAATCAACTCA-
1 T----T-----TTA---ATTTTTGTTTTC-AAAATCAACTCATATTG--CGAGAAGTGAGTTGAG
** * * * * *** * *
65015853 TATTGCGAG-AAG-TGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTTTAAATT-GACTC
51 CCTCG-GGGCACGCTGAGGT-ATTTTC---A-A---T---G--TTTAT-GTTTTAAATTCAACTC
65015915 ATATTGCGAGAGGTGAGTTAAGCC
101 ATATTGCGAGAGGTGAGTTAAGCC
* *
65015939 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * *
65016004 GAGGTATTTTCAATTTTTGTGTTTT-AA-TCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAG
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGC--GAGA-G-G-TGAG--TTAAG
65016067 ACAC
123 -C-C
* * * **** *
65016071 GTTGAGGTATTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
1 -TT---TTAATTTT--TGTTT-TCAAAAT---CAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
* *
65016136 GGGCACGCTGAGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTA
56 GGGCACGCTGAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTA
65016198 AGCC
121 AGCC
* * *
65016202 TTTTAATTTTTGTTTTTCAAAAACAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
65016267 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
65016327 T
1 T
65016328 CAGGTCACGC
Statistics
Matches: 1011, Mismatches: 200, Indels: 254
0.69 0.14 0.17
Matches are distributed among these distances:
121 12 0.01
122 162 0.16
123 29 0.03
124 49 0.05
125 107 0.11
126 8 0.01
127 14 0.01
128 8 0.01
129 2 0.00
130 14 0.01
131 4 0.00
132 4 0.00
133 14 0.01
134 6 0.01
135 10 0.01
136 48 0.05
137 92 0.09
138 48 0.05
139 21 0.02
140 164 0.16
141 109 0.11
144 2 0.00
145 2 0.00
149 64 0.06
150 18 0.02
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:65015109 original size:72 final size:71
Alignment explanation
Indices: 65014988--65015153 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
65014978 GAGTTAAGCC
** * *
65014988 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
65015052 TGAGGTA
65 TGAGGTA
*
65015059 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
65015124 TGAGGTA
65 TGAGGTA
* *
65015131 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
65015154 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:65015542 original size:69 final size:68
Alignment explanation
Indices: 65015282--65016361 Score: 584
Period size: 71 Copynumber: 16.0 Consensus size: 68
65015272 TGTTTTTCAA
*
65015282 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA-TTTT-T
65015347 GTTTT
64 GTTTT
* * ** * * *
65015352 AATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
65015417 TTT
66 TTT
* *
65015420 CAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTAAGGTATTTTCAATTTT
1 ---AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTT
65015485 TGTGTTT
63 TGT-TTT
* ** * * *
65015492 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
65015557 TTT
66 TTT
* * * *
65015560 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 ---AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTT
65015625 TGTTTT
63 TGTTTT
** * * * *** **
65015631 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTTGTTTTTCA
1 -AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG
*
65015684 ---A
65 TTTT
*
65015685 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA-TTTT-T
65015750 GTTTT
64 GTTTT
* * *
65015755 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
65015820 GTTTT
64 GTTTT
** * ** * * * * ** * ** * * * * **
65015825 CAATTTACGTTGTTCAAAAATCAACTCATATTGCGAGAAGTGAGT-TGAGC-CTC-G-GGACACG
1 -AATCAAC-----TC--ATAT-TGC-GAGA-GGTGAGTTGAGCCTCGGGGCACGCTGAGG-TATT
* *
65015886 CTGAGGTATTTTTAGTTTT
54 TTCA---ATTTTT-GTTTT
** * * * *** **
65015905 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTTGTTTTTCA
1 -AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG
*
65015958 ---A
65 TTTT
*
65015959 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA-TTTT-T
65016024 GTTTT
64 GTTTT
* * ** * * *
65016029 AATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
65016094 TTT
66 TTT
* * * *
65016097 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 ---AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTT
65016162 TGTTTT
63 TGTTTT
** * * * *** **
65016168 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTTGTTTTTCA
1 -AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG
*
65016221 ---A
65 TTTT
* *
65016222 AAACAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA-TTTT-T
65016287 GTTTT
64 GTTTT
* * *
65016292 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
65016357 GTTTT
64 GTTTT
65016362 CAATTTACGT
Statistics
Matches: 760, Mismatches: 167, Indels: 166
0.70 0.15 0.15
Matches are distributed among these distances:
53 89 0.12
57 18 0.02
58 4 0.01
60 4 0.01
61 2 0.00
62 6 0.01
65 15 0.02
66 12 0.02
68 15 0.02
69 130 0.17
70 124 0.16
71 186 0.24
72 109 0.14
73 3 0.00
74 2 0.00
75 4 0.01
76 7 0.01
77 3 0.00
78 4 0.01
79 12 0.02
80 11 0.01
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (68 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
TTT
Found at i:65015564 original size:140 final size:140
Alignment explanation
Indices: 65015262--65016202 Score: 715
Period size: 140 Copynumber: 6.9 Consensus size: 140
65015252 GAGTTAAGCC
65015262 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
*
65015327 GAGGTATTTTCAATTTTTGTGTTTTAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGAC
65 GAGGTATTTTCAATTTTTGTG-TTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGAC
65015392 ACGTTGAGGTAT
129 ACGTTGAGGTAT
*
65015404 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTA
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTG
65015469 AGGTATTTTCAATTTTTGTGTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAC
66 AGGTATTTTCAATTTTTGTGTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAC
65015534 GTTGAGGTAT
131 GTTGAGGTAT
* *
65015544 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTG
* * * ** *
65015609 AGGTATTTTTAGTTTATGT-TTTAAATTGACTCATATTGC--GAGA-G-G-TGAG--TTAAG-C-
66 AGGTATTTTCAATTTTTGTGTTT-AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACA
* *
65015664 CTTTTA---AT
130 CGTTGAGGTAT
* **** * * ** * * *
65015672 TTTT-GTTTTTCAAAATC-AACTCATATTGC-TAGAGGT-GAGTTGA---GC--CTCGGGGCACG
1 TTTTAATTTTT-GTTTTCAAAATCA-ACT-CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACG
*
65015728 CTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
63 CTGAGGTATTTTCAATTTTTGTG-TTTAA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCA
* * *
65015793 GGTCACGCTGAGGTAT
125 AGACACGTTGAGGTAT
* * *
65015809 TTTCAATTTCTGTTTTCAATTTACGTTGTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
1 TTTTAA--------TT---TTT--GTT-TTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAG
* * **
65015874 CCTCGGGACACGCTGAGGTA---T---TTTTAGT-TTTAAATTGACTCATATTGC--GAGA-G-G
51 CCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTT-AATCAACTCATATTGCGAGAGATGAG
* * *
65015928 -TGAG--TTAAG-C-CTTTTA---AT
115 TTGAGCCTCAAGACACGTTGAGGTAT
* **** * * ** * * *
65015946 TTTT-GTTTTTCAAAATC-AACTCATATTGC-TAGAGGT-GAGTTGA---GC--CTCGGGGCACG
1 TTTTAATTTTT-GTTTTCAAAATCA-ACT-CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACG
*
65016002 CTGAGGTATTTTCAATTTTTGTGTTTTAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAG
63 CTGAGGTATTTTCAATTTTTGTG-TTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAG
65016067 ACACGTTGAGGTAT
127 ACACGTTGAGGTAT
* *
65016081 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTG
* * * ** * *
65016146 AGGTATTTTTAGTTTATGT-TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
66 AGGTATTTTCAATTTTTGTGTTT-AATCAACTCATATTGCGAGAGATGAGTTGAGCCT
65016203 TTTAATTTTT
Statistics
Matches: 616, Mismatches: 107, Indels: 154
0.70 0.12 0.18
Matches are distributed among these distances:
116 18 0.03
118 1 0.00
119 1 0.00
121 10 0.02
122 41 0.07
123 19 0.03
124 8 0.01
125 19 0.03
126 1 0.00
127 19 0.03
128 20 0.03
129 2 0.00
130 8 0.01
131 5 0.01
132 8 0.01
133 5 0.01
134 4 0.01
135 17 0.03
136 16 0.03
137 11 0.02
138 4 0.01
139 7 0.01
140 178 0.29
141 103 0.17
142 15 0.02
144 4 0.01
145 1 0.00
146 3 0.00
147 3 0.00
149 15 0.02
150 4 0.01
151 5 0.01
152 11 0.02
153 10 0.02
155 1 0.00
156 1 0.00
158 18 0.03
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (140 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATTTTTGTGTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAC
GTTGAGGTAT
Found at i:65015786 original size:72 final size:71
Alignment explanation
Indices: 65015665--65015830 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
65015655 GAGTTAAGCC
** * *
65015665 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
65015729 TGAGGTA
65 TGAGGTA
*
65015736 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
65015801 TGAGGTA
65 TGAGGTA
* *
65015808 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
65015831 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:65016104 original size:677 final size:677
Alignment explanation
Indices: 65014725--65016327 Score: 2832
Period size: 677 Copynumber: 2.4 Consensus size: 677
65014715 GAGTTAAGCC
65014725 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
*
65014790 GAGGTATTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTAAGCCTCAAGAC
65 GAGGTATTTTCAATTTTTGTG-TTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGAC
65014855 ACGTTGAGGTATTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
129 ACGTTGAGGTATTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
65014920 CGGGGCACGCTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAA
194 CGGGGCACGCTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAA
65014985 GCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCAC
259 GCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCAC
65015050 GCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
324 GCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
65015115 AGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAAAATCAACTCATATT
389 AGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAAAATCAACTCATATT
65015180 GCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTTTAAATTGACTCATATTGC
454 GCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTTTAAATTGACTCATATTGC
65015245 GAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTT
519 GAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTT
65015310 GAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATCAACTCATATTGCAAGAGAT
584 GAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATCAACTCATATTGCAAGAGAT
65015375 GAGTTGAGCCTCAAGACACGTTGAGGTAT
649 GAGTTGAGCCTCAAGACACGTTGAGGTAT
*
65015404 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTA
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTG
65015469 AGGTATTTTCAATTTTTGTGTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAC
66 AGGTATTTTCAATTTTTGTGTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAC
65015534 GTTGAGGTATTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
131 GTTGAGGTATTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
65015599 GGGCACGCTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGC
196 GGGCACGCTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGC
65015664 CTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
261 CTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
65015729 TGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
326 TGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
65015794 GTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAAAATCAACTCATATTGC
391 GTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAAAATCAACTCATATTGC
65015859 GAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTTTAAATTGACTCATATTGCGA
456 GAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTTTAAATTGACTCATATTGCGA
65015924 GAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGA
521 GAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGA
65015989 GCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATCAACTCATATTGCAAGAGATGA
586 GCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATCAACTCATATTGCAAGAGATGA
65016054 GTTGAGCCTCAAGACACGTTGAGGTAT
651 GTTGAGCCTCAAGACACGTTGAGGTAT
* *
65016081 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTG
* * * ** *
65016146 AGGTATTTTTAGTTTATGT-TTTAAATTGACTCATATTGC--GAGA-G-G-TGAG--TTAAG-C-
66 AGGTATTTTCAATTTTTGTGTTT-AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACA
* * *
65016201 C----------TTTTAATTTTTGTTTTTCAAAAACAACTCATATTGCTAGAGGTGAGTTGAGCCT
130 CGTTGAGGTATTTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
* * * * *
65016256 CGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGT
194 CGGGGCACGCTGAGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGT
*
65016321 TGAGCCT
256 TAAGCCT
65016328 CAGGTCACGC
Statistics
Matches: 899, Mismatches: 20, Indels: 27
0.95 0.02 0.03
Matches are distributed among these distances:
658 12 0.01
659 59 0.07
660 1 0.00
661 13 0.01
662 28 0.03
668 1 0.00
669 1 0.00
670 4 0.00
672 4 0.00
673 1 0.00
674 1 0.00
675 4 0.00
676 3 0.00
677 683 0.76
678 72 0.08
679 12 0.01
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (677 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATTTTTGTGTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACAC
GTTGAGGTATTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
GGGCACGCTGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGC
CTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
TGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAAAATCAACTCATATTGC
GAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGTTTTAAATTGACTCATATTGCGA
GAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGA
GCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATCAACTCATATTGCAAGAGATGA
GTTGAGCCTCAAGACACGTTGAGGTAT
Found at i:65016323 original size:72 final size:71
Alignment explanation
Indices: 65016225--65016584 Score: 232
Period size: 72 Copynumber: 5.0 Consensus size: 71
65016215 TTTTCAAAAA
* * *
65016225 CAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGT-TT
*
65016290 TTAATTT
65 TCAATTT
*
65016297 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTT
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTT
65016362 CAATTT
66 CAATTT
* * * * ** * *** * * * ***
65016368 --ACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGGTAGGTTGA-ACCTTTT-AATTTCTA
1 CAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-C-AG-GGCACGCTGAGGTATTTTCAATTTCT-
* **
65016425 CTTTTTCAAAAT
61 -GTTTTCAATTT
* * *
65016437 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGT
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTT
**
65016502 CAAAAAAAT
66 C---AATTT
* * * * * *
65016511 CAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
1 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--GCACGCTGAGGTATTTTCAATTTCTG-T
65016576 TTTCAATTT
63 TTTCAATTT
65016585 TTGCCTTTCA
Statistics
Matches: 214, Mismatches: 54, Indels: 38
0.70 0.18 0.12
Matches are distributed among these distances:
66 5 0.02
67 12 0.06
68 9 0.04
69 16 0.07
70 2 0.01
71 20 0.09
72 66 0.31
73 12 0.06
74 45 0.21
76 23 0.11
77 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (71 bp):
CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTT
CAATTT
Found at i:65016698 original size:74 final size:76
Alignment explanation
Indices: 65016592--65016736 Score: 215
Period size: 74 Copynumber: 1.9 Consensus size: 76
65016582 TTTTTGCCTT
* *
65016592 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
65016654 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
65016666 TCAAAAAAGTCAACTCGTATTACGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
65016731 AATTTC
66 AATTTC
65016737 CATTTTTCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
74 41 0.65
76 21 0.33
77 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:65016704 original size:165 final size:166
Alignment explanation
Indices: 65016432--65017111 Score: 734
Period size: 165 Copynumber: 4.2 Consensus size: 166
65016422 CTACTTTTTC
65016432 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * *
65016497 GTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
65016562 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC-AAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA
65016597 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
65016662 GTTGTCAAAAAAGTCAACTCGTATTACGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
65016727 TTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCCTTTC----AAAA
* *
65016767 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * ** * *
65016832 GTTTTC--AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGG---
66 GTTGTCAAAAAAATCAACTCGTATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
65016890 --T--A-------TTTTCAATTTCTG-TTTTC--AA
131 TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA
* * * * * *
65016912 AAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCATGCGCTGAGCTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA--CGCTGAGGTAATTTCAATT
* * * * * **
65016976 TCTATCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCA-GTCACATATCGA
63 TCTGT-TGTCAAAAAAATCAACTCGTATTACGAGAGGTGAGTTGAGCCT-CAGGTCACACGTCGA
** * * * **
65017039 GGTATTTTCAAAATCTGCTTTTCAAGTTAAG--TTTC--AA
126 GGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA
65017076 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
65017112 TGGCTCACGC
Statistics
Matches: 448, Mismatches: 40, Indels: 55
0.83 0.07 0.10
Matches are distributed among these distances:
144 2 0.00
145 37 0.08
147 21 0.05
148 4 0.01
149 33 0.07
150 2 0.00
151 12 0.03
152 13 0.03
156 1 0.00
158 1 0.00
159 1 0.00
161 1 0.00
164 40 0.09
165 164 0.37
166 10 0.02
168 35 0.08
170 71 0.16
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (166 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA
Found at i:65016851 original size:72 final size:73
Alignment explanation
Indices: 65016765--65017024 Score: 333
Period size: 72 Copynumber: 3.5 Consensus size: 73
65016755 TTTCAAAAAA
*
65016765 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
65016830 CTGTTTTC
66 CTGTTTTC
* ** ** *
65016838 -AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
65016902 CTGTTTTC
66 CTGTTTTC
* * * * ** *
65016910 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
65016975 TTCTATCTTTC
64 TTCTGT-TTTC
* *
65016986 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC
1 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
65017025 CAGTCACATA
Statistics
Matches: 159, Mismatches: 24, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
72 65 0.41
73 33 0.21
75 21 0.13
76 40 0.25
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (73 bp):
AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:65017812 original size:11 final size:11
Alignment explanation
Indices: 65017792--65017831 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
65017782 AAACCTAACC
65017792 CAAA-AAAAAA
1 CAAAGAAAAAA
65017802 CAAAG-AAAAA
1 CAAAGAAAAAA
65017812 -AAAGAAAAAA
1 CAAAGAAAAAA
*
65017822 AAAAGAAAAA
1 CAAAGAAAAA
65017832 CCTACCCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 4 0.15
10 14 0.52
11 9 0.33
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (11 bp):
CAAAGAAAAAA
Found at i:65017847 original size:15 final size:17
Alignment explanation
Indices: 65017827--65017863 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
65017817 AAAAAAAAAG
65017827 AAAAACCT-A-CCCCAA
1 AAAAACCTAACCCCCAA
65017842 AAAAACCTAACCCCCAA
1 AAAAACCTAACCCCCAA
65017859 AAAAA
1 AAAAA
65017864 AAAGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.59, C:0.35, G:0.00, T:0.05
Consensus pattern (17 bp):
AAAAACCTAACCCCCAA
Found at i:65024709 original size:13 final size:14
Alignment explanation
Indices: 65024691--65024721 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
65024681 ATGTATGAAT
65024691 ATATACATATA-TA
1 ATATACATATATTA
65024704 ATATACATATATTA
1 ATATACATATATTA
65024718 ATAT
1 ATAT
65024722 TGATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:65025309 original size:15 final size:14
Alignment explanation
Indices: 65025281--65025331 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 14
65025271 AGAAGAGAGA
65025281 AAAGGAG-GGGGAG
1 AAAGGAGAGGGGAG
65025294 AAAGGAGAGAGGGAG
1 AAAGGAGAG-GGGAG
**
65025309 AGGGGAGAGGGGAG
1 AAAGGAGAGGGGAG
65025323 --AGGAGAGGG
1 AAAGGAGAGGG
65025332 CTCCGGCCGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 8 0.24
13 7 0.21
14 6 0.18
15 12 0.36
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (14 bp):
AAAGGAGAGGGGAG
Found at i:65025314 original size:7 final size:7
Alignment explanation
Indices: 65025284--65025325 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
65025274 AGAGAGAAAA
65025284 GGAG-GG
1 GGAGAGG
**
65025290 GGAGAAA
1 GGAGAGG
65025297 GGAGAGAG
1 GGAGAG-G
65025305 GGAGAGG
1 GGAGAGG
65025312 GGAGAGG
1 GGAGAGG
65025319 GGAGAGG
1 GGAGAGG
65025326 AGAGGGCTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 20 0.67
8 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (7 bp):
GGAGAGG
Found at i:65025930 original size:24 final size:23
Alignment explanation
Indices: 65025856--65025960 Score: 131
Period size: 23 Copynumber: 4.6 Consensus size: 23
65025846 TACGAGGACT
* * *
65025856 GTGGCGGTAT-GGGATTGTTGTG
1 GTGGGGGTATGGGGCTTGTTGTA
*
65025878 GTGGGGGTATGGGGCTTGTGGTA
1 GTGGGGGTATGGGGCTTGTTGTA
65025901 GTGGGGGTATGGGGCTTGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
* *
65025924 GTGGGGGTATGGGTCTAGTTTGTA
1 GTGGGGGTATGGGGCTTG-TTGTA
*
65025948 ATGGGGGTATGGG
1 GTGGGGGTATGGG
65025961 TCTAGTTTGT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
22 9 0.12
23 47 0.64
24 17 0.23
ACGTcount: A:0.10, C:0.04, G:0.52, T:0.33
Consensus pattern (23 bp):
GTGGGGGTATGGGGCTTGTTGTA
Found at i:65025961 original size:24 final size:23
Alignment explanation
Indices: 65025879--65025976 Score: 115
Period size: 23 Copynumber: 4.2 Consensus size: 23
65025869 ATTGTTGTGG
* * *
65025879 TGGGGGTATGGGGCTTGTGGTAG
1 TGGGGGTATGGGGCTAGTTGTAA
* *
65025902 TGGGGGTATGGGGCTTGTTGTAG
1 TGGGGGTATGGGGCTAGTTGTAA
*
65025925 TGGGGGTATGGGTCTAGTTTGTAA
1 TGGGGGTATGGGGCTAG-TTGTAA
*
65025949 TGGGGGTATGGGTCTAGTTTGTAA
1 TGGGGGTATGGGGCTAG-TTGTAA
65025973 TGGG
1 TGGG
65025977 TCAGTTAGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
23 37 0.53
24 33 0.47
ACGTcount: A:0.12, C:0.04, G:0.49, T:0.35
Consensus pattern (23 bp):
TGGGGGTATGGGGCTAGTTGTAA
Found at i:65026025 original size:19 final size:15
Alignment explanation
Indices: 65025956--65026015 Score: 102
Period size: 15 Copynumber: 3.9 Consensus size: 15
65025946 TAATGGGGGT
65025956 ATGGGTCTAGTTTGTA
1 ATGGGTC-AGTTTGTA
*
65025972 ATGGGTCAGTTAGTA
1 ATGGGTCAGTTTGTA
65025987 ATGGGTCAGTTTGTA
1 ATGGGTCAGTTTGTA
65026002 ATGGGTCAGTTTGT
1 ATGGGTCAGTTTGT
65026016 TTTAAGTGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
15 35 0.83
16 7 0.17
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (15 bp):
ATGGGTCAGTTTGTA
Found at i:65038534 original size:13 final size:14
Alignment explanation
Indices: 65038516--65038546 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
65038506 ATGTATGAAT
65038516 ATATACATATA-TA
1 ATATACATATATTA
65038529 ATATACATATATTA
1 ATATACATATATTA
65038543 ATAT
1 ATAT
65038547 TGATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:65038608 original size:21 final size:20
Alignment explanation
Indices: 65038582--65038630 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
65038572 AACAACCATT
65038582 AATAATAATAATACTTAA-AAA
1 AATAATAAT-ATA-TTAATAAA
65038603 AATAATTAATATATTAATAAA
1 AATAA-TAATATATTAATAAA
65038624 AATAATA
1 AATAATA
65038631 GTAACAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.23
21 16 0.62
22 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAATAATATATTAATAAA
Found at i:65038640 original size:24 final size:21
Alignment explanation
Indices: 65038582--65038642 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 21
65038572 AACAACCATT
*
65038582 AATAATA-ATAATACTTAAAAA
1 AATAATATAAAATA-TTAAAAA
*
65038603 AATAAT-TAATATATTAATAAA
1 AATAATATAAAATATTAA-AAA
65038624 AATAATAGTAACAATATTA
1 AATAATA-TAA-AATATTA
65038643 GTAATATGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 4 0.12
21 19 0.59
23 3 0.09
24 6 0.19
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (21 bp):
AATAATATAAAATATTAAAAA
Found at i:65039142 original size:13 final size:13
Alignment explanation
Indices: 65039126--65039150 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65039116 GGAGAAAGGA
65039126 GAGAGGGAGAGGG
1 GAGAGGGAGAGGG
65039139 GAGAGGGAGAGG
1 GAGAGGGAGAGG
65039151 AGAGGGCTCC
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:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (13 bp):
GAGAGGGAGAGGG
Found at i:65039737 original size:23 final size:23
Alignment explanation
Indices: 65039683--65039786 Score: 122
Period size: 23 Copynumber: 4.6 Consensus size: 23
65039673 TACGAGGACT
* * *
65039683 GTGGCGGTAT-GGGATTGTTGTG
1 GTGGGGGTATGGGGCTTGTTGTA
*
65039705 GT-GGGGTATGGGGCTTGTGGTA
1 GTGGGGGTATGGGGCTTGTTGTA
65039727 GTGGGGGTATGGGGCTTGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
* *
65039750 GTGGGGGTATGGGTCTAGTTTGTA
1 GTGGGGGTATGGGGCTTG-TTGTA
*
65039774 ATGGGGGTATGGG
1 GTGGGGGTATGGG
65039787 TCTAGTTTGT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.08
22 13 0.18
23 35 0.49
24 17 0.24
ACGTcount: A:0.11, C:0.04, G:0.52, T:0.34
Consensus pattern (23 bp):
GTGGGGGTATGGGGCTTGTTGTA
Found at i:65039772 original size:24 final size:23
Alignment explanation
Indices: 65039707--65039802 Score: 111
Period size: 23 Copynumber: 4.1 Consensus size: 23
65039697 TTGTTGTGGT
* * *
65039707 GGGGTATGGGGCTTGTGGTAGTG
1 GGGGTATGGGGCTAGTTGTAATG
* *
65039730 GGGGTATGGGGCTTGTTGTAGTG
1 GGGGTATGGGGCTAGTTGTAATG
*
65039753 GGGGTATGGGTCTAGTTTGTAATG
1 GGGGTATGGGGCTAG-TTGTAATG
*
65039777 GGGGTATGGGTCTAGTTTGTAATG
1 GGGGTATGGGGCTAG-TTGTAATG
65039801 GG
1 GG
65039803 TCAGTTAGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
23 35 0.51
24 33 0.49
ACGTcount: A:0.12, C:0.04, G:0.49, T:0.34
Consensus pattern (23 bp):
GGGGTATGGGGCTAGTTGTAATG
Found at i:65039851 original size:19 final size:15
Alignment explanation
Indices: 65039782--65039841 Score: 102
Period size: 15 Copynumber: 3.9 Consensus size: 15
65039772 TAATGGGGGT
65039782 ATGGGTCTAGTTTGTA
1 ATGGGTC-AGTTTGTA
*
65039798 ATGGGTCAGTTAGTA
1 ATGGGTCAGTTTGTA
65039813 ATGGGTCAGTTTGTA
1 ATGGGTCAGTTTGTA
65039828 ATGGGTCAGTTTGT
1 ATGGGTCAGTTTGT
65039842 TTTAAGTGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
15 35 0.83
16 7 0.17
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (15 bp):
ATGGGTCAGTTTGTA
Found at i:65041513 original size:21 final size:21
Alignment explanation
Indices: 65041482--65041542 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
65041472 AGTTATACGG
*
65041482 TCAACCCACATGACCATGTCTC
1 TCAA-CCACATGACCATGTCCC
* *
65041504 TCAACCACATGGCCGTGTCCC
1 TCAACCACATGACCATGTCCC
*
65041525 TCAACCATATGACCATGT
1 TCAACCACATGACCATGT
65041543 AGCCCTGTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.26, C:0.38, G:0.13, T:0.23
Consensus pattern (21 bp):
TCAACCACATGACCATGTCCC
Found at i:65045577 original size:26 final size:26
Alignment explanation
Indices: 65045519--65045675 Score: 243
Period size: 26 Copynumber: 6.2 Consensus size: 26
65045509 ACATGAATTC
*
65045519 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCCA
*
65045544 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
65045570 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
65045596 TTATCATGGAACATTTACCTAA-CC-
1 TTATCATGGAACATTTACCTAACCCA
*
65045620 -TATTAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
65045644 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
65045670 TTATCA
1 TTATCA
65045676 ATTTGTATCA
Statistics
Matches: 123, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
22 14 0.11
23 7 0.06
25 29 0.24
26 73 0.59
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:65045649 original size:48 final size:49
Alignment explanation
Indices: 65045528--65045673 Score: 233
Period size: 48 Copynumber: 3.0 Consensus size: 49
65045518 CTTATCATGA
* *
65045528 AACATTTACCTAA-CCATTATCATGAAACATTTACCTAACCCATTATCATGG
1 AACATTTACCTAACCCATTATCATGGAACATTTACCTAA-CC--TATTATGG
65045579 AACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTAT-G
1 AACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATGG
65045627 AACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTAT
1 AACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTAT
65045674 CAATTTGTAT
Statistics
Matches: 92, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
48 48 0.52
49 5 0.05
51 15 0.16
52 24 0.26
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (49 bp):
AACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATGG
Found at i:65045649 original size:74 final size:76
Alignment explanation
Indices: 65045519--65045675 Score: 264
Period size: 74 Copynumber: 2.1 Consensus size: 76
65045509 ACATGAATTC
65045519 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCATTATCATGGAACAT
1 TTATCATGAAACATTTACCTAACCA-TATCATGAAACATTTACCTAACCCATTATCATGGAACAT
65045584 TTACCTAACCCA
65 TTACCTAACCCA
* *
65045596 TTATCATGGAACATTTACCTAACC-TATTATG-AACATTTACCTAACCCATTATCATGGAACATT
1 TTATCATGAAACATTTACCTAACCATATCATGAAACATTTACCTAACCCATTATCATGGAACATT
*
65045659 TACCTAACCTA
66 TACCTAACCCA
65045670 TTATCA
1 TTATCA
65045676 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
74 48 0.62
75 6 0.08
77 23 0.30
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (76 bp):
TTATCATGAAACATTTACCTAACCATATCATGAAACATTTACCTAACCCATTATCATGGAACATT
TACCTAACCCA
Found at i:65051370 original size:26 final size:26
Alignment explanation
Indices: 65051334--65051521 Score: 256
Period size: 26 Copynumber: 7.2 Consensus size: 26
65051324 CATGAATTTC
65051334 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAAACCA
*
65051360 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
* * *
65051386 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAAACCA
65051412 TTATCATGAAACATTTACCT-AACTCA
1 TTATCATGAAACATTTACCTAAAC-CA
*
65051438 TTATCATGGAACATTTACCT-AACCTA
1 TTATCATGAAACATTTACCTAAACC-A
* *
65051464 TTATTATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
*
65051490 TTATCATGGAACATTTACCT-AACCTA
1 TTATCATGAAACATTTACCTAAACC-A
65051516 TTATCA
1 TTATCA
65051522 ATTTGTATCA
Statistics
Matches: 144, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
25 6 0.04
26 135 0.94
27 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAAACCA
Found at i:65051413 original size:52 final size:52
Alignment explanation
Indices: 65051334--65051521 Score: 308
Period size: 52 Copynumber: 3.6 Consensus size: 52
65051324 CATGAATTTC
*
65051334 TTATCATGAAACATTTACCTAAACC-ATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCT-AACCTATTATCATGAAACATTTACCTAACCCA
* *
65051386 TTATCATGGAATATTTACCTAATCC-ATTATCATGAAACATTTACCTAACTCA
1 TTATCATGGAACATTTACCTAA-CCTATTATCATGAAACATTTACCTAACCCA
*
65051438 TTATCATGGAACATTTACCTAACCTATTATTATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
65051490 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
65051522 ATTTGTATCA
Statistics
Matches: 127, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
51 4 0.03
52 123 0.97
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:65051467 original size:78 final size:77
Alignment explanation
Indices: 65051334--65051521 Score: 286
Period size: 78 Copynumber: 2.4 Consensus size: 77
65051324 CATGAATTTC
* *
65051334 TTATCATGAAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATTATCATGGAATA
1 TTATCATGAAACATTTACCT-AACCATTATCATGAAACATTTACCTAACCCATTATCATGAAACA
*
65051399 TTTACCTAATCCA
65 TTTACCTAACCCA
* * *
65051412 TTATCATGAAACATTTACCTAACTCATTATCATGGAACATTTACCTAACCTATTATTATGAAACA
1 TTATCATGAAACATTTACCTAAC-CATTATCATGAAACATTTACCTAACCCATTATCATGAAACA
65051477 TTTACCTAACCCA
65 TTTACCTAACCCA
*
65051490 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGAAACATTTACCTAACC-ATTATCA
65051522 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
77 4 0.04
78 97 0.96
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (77 bp):
TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCATTATCATGAAACAT
TTACCTAACCCA
Found at i:65057238 original size:19 final size:18
Alignment explanation
Indices: 65057180--65057242 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 18
65057170 TCAAAAGATA
65057180 ATTTATCCTTATTAAATAT
1 ATTTATCCTTATT-AATAT
* *
65057199 ATTTAGT-GTTA-T-ATCT
1 ATTTA-TCCTTATTAATAT
65057215 ATTTATCCTTATTAATTAT
1 ATTTATCCTTATTAA-TAT
65057234 ATTTATCCT
1 ATTTATCCT
65057243 AACATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
15 1 0.03
16 11 0.31
17 1 0.03
18 2 0.06
19 19 0.54
20 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTTATCCTTATTAATAT
Found at i:65065260 original size:22 final size:22
Alignment explanation
Indices: 65065235--65065281 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
65065225 TAAGAAACAG
* *
65065235 GATTTAGTTAGATGTCAGAAGA
1 GATTTAATTAGATCTCAGAAGA
*
65065257 GATTTAATTAGTTCTCAGAAGA
1 GATTTAATTAGATCTCAGAAGA
65065279 GAT
1 GAT
65065282 GAAATAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.34
Consensus pattern (22 bp):
GATTTAATTAGATCTCAGAAGA
Found at i:65066398 original size:26 final size:26
Alignment explanation
Indices: 65066362--65066414 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
65066352 TGTTGAAATG
65066362 GGAATGAAGAAAACCGTTAAACAAGT
1 GGAATGAAGAAAACCGTTAAACAAGT
65066388 GGAATGAAGAAAACCGTTAAACAAGT
1 GGAATGAAGAAAACCGTTAAACAAGT
65066414 G
1 G
65066415 CTAAAAGGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.25, T:0.15
Consensus pattern (26 bp):
GGAATGAAGAAAACCGTTAAACAAGT
Found at i:65068508 original size:1 final size:1
Alignment explanation
Indices: 65068502--65068528 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
65068492 ATCTCTCCGG
65068502 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
65068529 GTTCTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:65073334 original size:9 final size:9
Alignment explanation
Indices: 65073318--65073359 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
65073308 GGTTGCAAGA
65073318 ACGATGAGG
1 ACGATGAGG
*
65073327 ATGATGAGG
1 ACGATGAGG
*
65073336 ACGACGAGG
1 ACGATGAGG
65073345 ACGATGAGG
1 ACGATGAGG
65073354 ACGATG
1 ACGATG
65073360 TTTCTTCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.43, T:0.12
Consensus pattern (9 bp):
ACGATGAGG
Found at i:65073545 original size:11 final size:11
Alignment explanation
Indices: 65073519--65073605 Score: 68
Period size: 11 Copynumber: 7.8 Consensus size: 11
65073509 TTGTTGGTGA
*
65073519 TGCTGTTTTTT
1 TGCTGTTTTGT
65073530 GTGCTGTTTTGT
1 -TGCTGTTTTGT
* *
65073542 TGCTGTTTGGG
1 TGCTGTTTTGT
*
65073553 TGCTGTTTTGA
1 TGCTGTTTTGT
* *
65073564 TGGTATTTT-T
1 TGCTGTTTTGT
*
65073574 GTGCTGTTTTGA
1 -TGCTGTTTTGT
*
65073586 TGCTGTTTTGG
1 TGCTGTTTTGT
*
65073597 TGCTATTTT
1 TGCTGTTTT
65073606 ACTGCTACTT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
11 50 0.83
12 10 0.17
ACGTcount: A:0.05, C:0.08, G:0.29, T:0.59
Consensus pattern (11 bp):
TGCTGTTTTGT
Found at i:65073590 original size:33 final size:34
Alignment explanation
Indices: 65073536--65073605 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
65073526 TTTTGTGCTG
* *
65073536 TTTTGTTGCTGTTTGGGTGCTGTTTTGATGGTAT
1 TTTTGTTGCTGTTTGGATGCTGTTTTGATGCTAT
* *
65073570 TTTTG-TGCTGTTTTGATGCTGTTTTGGTGCTAT
1 TTTTGTTGCTGTTTGGATGCTGTTTTGATGCTAT
65073603 TTT
1 TTT
65073606 ACTGCTACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.06, C:0.07, G:0.29, T:0.59
Consensus pattern (34 bp):
TTTTGTTGCTGTTTGGATGCTGTTTTGATGCTAT
Found at i:65073611 original size:22 final size:22
Alignment explanation
Indices: 65073516--65073605 Score: 108
Period size: 22 Copynumber: 4.0 Consensus size: 22
65073506 GTGTTGTTGG
*
65073516 TGATGCTGTTTTTTGTGCTGTTT
1 TGATGCTG-TTTTGGTGCTGTTT
* *
65073539 TGTTGCTGTTTGGGTGCTGTTT
1 TGATGCTGTTTTGGTGCTGTTT
* * *
65073561 TGATGGTATTTTTGTGCTGTTT
1 TGATGCTGTTTTGGTGCTGTTT
*
65073583 TGATGCTGTTTTGGTGCTATTT
1 TGATGCTGTTTTGGTGCTGTTT
65073605 T
1 T
65073606 ACTGCTACTT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
22 48 0.87
23 7 0.13
ACGTcount: A:0.06, C:0.08, G:0.29, T:0.58
Consensus pattern (22 bp):
TGATGCTGTTTTGGTGCTGTTT
Found at i:65075466 original size:46 final size:46
Alignment explanation
Indices: 65075399--65075618 Score: 290
Period size: 46 Copynumber: 4.8 Consensus size: 46
65075389 TGTAACCCGC
* *
65075399 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
65075445 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* * *
65075495 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
65075536 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
65075582 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65075619 TGCCCAAATA
Statistics
Matches: 153, Mismatches: 10, Indels: 22
0.83 0.05 0.12
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 1 0.01
43 3 0.02
44 26 0.17
45 3 0.02
46 80 0.52
47 26 0.17
48 2 0.01
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:65078043 original size:30 final size:30
Alignment explanation
Indices: 65077999--65078087 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
65077989 CAAAGATAAC
65077999 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
65078028 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
65078058 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
65078088 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:65078047 original size:15 final size:15
Alignment explanation
Indices: 65077999--65078078 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
65077989 CAAAGATAAC
*
65077999 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
65078013 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
65078028 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
65078043 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
65078058 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
65078073 AAGAAA
1 AAGAAA
65078079 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:65078087 original size:15 final size:15
Alignment explanation
Indices: 65078010--65078087 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
65078000 AGAAAACCGA
65078010 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
65078025 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
65078039 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
65078054 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
65078070 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
65078085 ATA
1 ATA
65078088 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:65081095 original size:46 final size:46
Alignment explanation
Indices: 65081028--65081248 Score: 299
Period size: 46 Copynumber: 4.8 Consensus size: 46
65081018 TGTAACCCGC
* *
65081028 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
65081074 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* * *
65081124 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
65081166 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
65081212 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65081249 TGCCCAAATA
Statistics
Matches: 154, Mismatches: 11, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
41 2 0.01
42 3 0.02
43 2 0.01
44 2 0.01
45 26 0.17
46 83 0.54
47 26 0.17
48 2 0.01
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:65089912 original size:15 final size:17
Alignment explanation
Indices: 65089888--65089922 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
65089878 GTTAAGGACT
65089888 AAATTGAAAAG-TGATA
1 AAATTGAAAAGATGATA
65089904 AAATT-AAAAGATGATA
1 AAATTGAAAAGATGATA
65089920 AAA
1 AAA
65089923 AATTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (17 bp):
AAATTGAAAAGATGATA
Found at i:65093313 original size:14 final size:14
Alignment explanation
Indices: 65093287--65093327 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
65093277 TTTATAGATA
65093287 CAGATA-ACAGAAT
1 CAGATATACAGAAT
*
65093300 CAGATATGCAGAAT
1 CAGATATACAGAAT
65093314 -AGATATACAGAAT
1 CAGATATACAGAAT
65093327 C
1 C
65093328 CTACCCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:65097640 original size:18 final size:18
Alignment explanation
Indices: 65097606--65097639 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
65097596 AAAAATCACT
*
65097606 TTTATCTTTTTTATTTTC
1 TTTATCTTTTTAATTTTC
65097624 TTTAT-TTTTTAATTTT
1 TTTATCTTTTTAATTTT
65097640 TAAAATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTATCTTTTTAATTTTC
Found at i:65098360 original size:25 final size:24
Alignment explanation
Indices: 65098313--65098361 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
65098303 CTATCGGACC
* * *
65098313 TTTTCTCTTGATTAGTAATAAAAA
1 TTTTCTCTTGATAAGAAAAAAAAA
65098337 TTTTCTCATTGATAAGAAAAAAAAA
1 TTTTCTC-TTGATAAGAAAAAAAAA
65098362 ATAGTCTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (24 bp):
TTTTCTCTTGATAAGAAAAAAAAA
Found at i:65103613 original size:16 final size:16
Alignment explanation
Indices: 65103592--65103622 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65103582 AGTCCTAATT
65103592 TATTTATTCGTTTATC
1 TATTTATTCGTTTATC
*
65103608 TATTTATTGGTTTAT
1 TATTTATTCGTTTAT
65103623 ACATACCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (16 bp):
TATTTATTCGTTTATC
Found at i:65103749 original size:18 final size:18
Alignment explanation
Indices: 65103726--65103765 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
65103716 TTATCTTGGT
65103726 TATTATTATCTTATTATC
1 TATTATTATCTTATTATC
* * *
65103744 TATTATTGTTTTATTATT
1 TATTATTATCTTATTATC
65103762 TATT
1 TATT
65103766 CACTCATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATCTTATTATC
Found at i:65105613 original size:15 final size:15
Alignment explanation
Indices: 65105595--65105646 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
65105585 ATACACTAAT
65105595 ATAATAATAGTTATA
1 ATAATAATAGTTATA
**
65105610 ATAATAATAGCAATA
1 ATAATAATAGTTATA
* *
65105625 GTAATAAT--TTGTA
1 ATAATAATAGTTATA
65105638 ATAATAATA
1 ATAATAATA
65105647 TATACACAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 9 0.31
15 20 0.69
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (15 bp):
ATAATAATAGTTATA
Found at i:65105765 original size:24 final size:24
Alignment explanation
Indices: 65105707--65105766 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
65105697 ATTTAAGAAT
* *
65105707 ATATACATAAGAAATATATAACTA
1 ATATATATAAAAAATATATAACTA
*
65105731 ATGACAT-TAAAAAATATAT-ACATA
1 AT-ATATATAAAAAATATATAAC-TA
65105755 ATATATATAAAA
1 ATATATATAAAA
65105767 TACCTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 5 0.17
24 22 0.76
25 2 0.07
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (24 bp):
ATATATATAAAAAATATATAACTA
Found at i:65106271 original size:28 final size:28
Alignment explanation
Indices: 65106240--65106295 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
65106230 GGTTTCTTGG
*
65106240 TTTTTTTTGGGT-GGGTTAGGTTTTTTT
1 TTTTTTTTTGGTGGGGTTAGGTTTTTTT
**
65106267 TTTTTTTTTTTTGGGGTTAGGTTTTTTT
1 TTTTTTTTTGGTGGGGTTAGGTTTTTTT
65106295 T
1 T
65106296 GGAGGGGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.04, C:0.00, G:0.25, T:0.71
Consensus pattern (28 bp):
TTTTTTTTTGGTGGGGTTAGGTTTTTTT
Found at i:65111755 original size:15 final size:15
Alignment explanation
Indices: 65111735--65111764 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
65111725 AAAAAGAATG
65111735 ATAATTATAAAAAAT
1 ATAATTATAAAAAAT
65111750 ATAATTATAAAAAAT
1 ATAATTATAAAAAAT
65111765 CCAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATTATAAAAAAT
Found at i:65114137 original size:32 final size:32
Alignment explanation
Indices: 65114101--65114165 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
65114091 TGTATGCATT
65114101 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
65114133 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
65114165 T
1 T
65114166 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:65117382 original size:54 final size:54
Alignment explanation
Indices: 65117317--65117427 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
65117307 AATGTTCTTG
65117317 TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTGGGTTAAATCCAT
1 TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTGGGTTAAATCCAT
*
65117371 TCATTAGTGTGTTACCCTCATAGGATACTCTTAATTTCTTTGGGTTAAATCCAT
1 TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTGGGTTAAATCCAT
65117425 TCA
1 TCA
65117428 CCTAGTATGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (54 bp):
TCATTAATGTGTTACCCTCATAGGATACTCTTAATTTCTTTGGGTTAAATCCAT
Found at i:65127439 original size:20 final size:22
Alignment explanation
Indices: 65127414--65127466 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 22
65127404 ATTTTAAAAT
65127414 TATAAAAAATTAA-AAAATT-A
1 TATAAAAAATTAATAAAATTCA
*
65127434 TATAAAAAGTTAATAAAATTCA
1 TATAAAAAATTAATAAAATTCA
65127456 -A-AAAAAATTAA
1 TATAAAAAATTAA
65127467 CATGAAGTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 21 0.72
21 7 0.24
22 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
TATAAAAAATTAATAAAATTCA
Found at i:65143137 original size:6 final size:6
Alignment explanation
Indices: 65143126--65143151 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
65143116 GCTAACTCAA
65143126 AATTTT AATTTT AATTTT AATTTT AA
1 AATTTT AATTTT AATTTT AATTTT AA
65143152 AATATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:65149767 original size:16 final size:15
Alignment explanation
Indices: 65149733--65149806 Score: 53
Period size: 16 Copynumber: 4.7 Consensus size: 15
65149723 AAACAAAGTA
65149733 ATAA-AAATAATAAT
1 ATAATAAATAATAAT
65149747 CATAATAAATAATAAAT
1 -ATAATAAATAAT-AAT
* *
65149764 ATAATGAAGAATAAT
1 ATAATAAATAATAAT
* *
65149779 AGTAGT-AATAATGAAG
1 A-TAATAAATAAT-AAT
65149795 ACTAATAAATAA
1 A-TAATAAATAA
65149807 ATAAATAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
15 13 0.28
16 26 0.55
17 8 0.17
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (15 bp):
ATAATAAATAATAAT
Found at i:65149779 original size:22 final size:22
Alignment explanation
Indices: 65149754--65149809 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
65149744 AATCATAATA
65149754 AATAATAAATATAATGAAGAAT
1 AATAATAAATATAATGAAGAAT
* * *
65149776 AATAGT-AGTAATAATGAAGACT
1 AATAATAAAT-ATAATGAAGAAT
65149798 AATAAATAAATA
1 AAT-AATAAATA
65149810 AATAAAATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
21 2 0.08
22 19 0.73
23 3 0.12
24 2 0.08
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.27
Consensus pattern (22 bp):
AATAATAAATATAATGAAGAAT
Found at i:65150063 original size:19 final size:20
Alignment explanation
Indices: 65150032--65150090 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 20
65150022 GGTTGAAGAG
65150032 GAAGAAGGGGGAAAAGGGAAA
1 GAAGAA-GGGGAAAAGGGAAA
*
65150053 GAA-AAGGGGAAGAA-AGAAA
1 GAAGAAGGGGAA-AAGGGAAA
65150072 GAAGAAGGGAGAGAAAGGG
1 GAAGAAGGG-GA-AAAGGG
65150091 TGGGGTAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 13 0.42
20 9 0.29
21 7 0.23
22 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (20 bp):
GAAGAAGGGGAAAAGGGAAA
Found at i:65157544 original size:76 final size:76
Alignment explanation
Indices: 65157440--65157684 Score: 256
Period size: 76 Copynumber: 3.2 Consensus size: 76
65157430 GCTAGTCGGT
* * *
65157440 ATAAACCGACGATGTCAAATATGTGCCCAGCACTAGTCAGATAACCCGATAATGTTTTGCGCCCA
1 ATAAACCGACAATGTCAAATATGTGCCCAGCACTAGTCGGATAACCCGACAATGTTTTGCGCCCA
*
65157505 GTGCTAGTCAA
66 GTGCTAGTAAA
* * * * * * * *
65157516 ATAAACCGACGATGTCAAATGTGTGCCCAGCACTAGTCGGATAAACCAACAACGTCTTGTGCCTA
1 ATAAACCGACAATGTCAAATATGTGCCCAGCACTAGTCGGATAACCCGACAATGTTTTGCGCCCA
* **
65157581 GTGTTAGTTGA
66 GTGCTAGTAAA
* * * * * * * *
65157592 ATAGACCAACAATGTTAAATATGTGCCCAACACTACTTGGATAACCCGACAATATTTTGCACCCA
1 ATAAACCGACAATGTCAAATATGTGCCCAGCACTAGTCGGATAACCCGACAATGTTTTGCGCCCA
*
65157657 GCGCTAGTAAGA
66 GTGCTAGTAA-A
65157669 GATAAACCGACAATGT
1 -ATAAACCGACAATGT
65157685 TTTACATCCA
Statistics
Matches: 133, Mismatches: 34, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
76 119 0.89
77 1 0.01
78 13 0.10
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (76 bp):
ATAAACCGACAATGTCAAATATGTGCCCAGCACTAGTCGGATAACCCGACAATGTTTTGCGCCCA
GTGCTAGTAAA
Found at i:65157718 original size:36 final size:38
Alignment explanation
Indices: 65157631--65157720 Score: 94
Period size: 38 Copynumber: 2.4 Consensus size: 38
65157621 ACACTACTTG
* * * *
65157631 GATAACCCGACAATATTTTGCACCCAGCGCTAGTAAGA
1 GATAAACCAACAATGTTTTACACCCAGCGCTAGTAAGA
* * *
65157669 GATAAACCGACAATGTTTTACATCCAGCGCTAGT-CGA
1 GATAAACCAACAATGTTTTACACCCAGCGCTAGTAAGA
*
65157706 -ATAAACTAACAATGT
1 GATAAACCAACAATGT
65157721 CAAATGTGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 13 0.29
37 2 0.04
38 30 0.67
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (38 bp):
GATAAACCAACAATGTTTTACACCCAGCGCTAGTAAGA
Found at i:65161444 original size:63 final size:63
Alignment explanation
Indices: 65161345--65161472 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
65161335 TATCGAAGCC
*
65161345 ACTGTACCAGACAAGGTCTTACACGAGATCGATTAACGATGCCAATGTACTAGACATGGTCTT
1 ACTGTACCAGACAAGGTCTTACACGAGATCGATTAACGATGCCAATGTACCAGACATGGTCTT
*
65161408 ACTGTCCCAGACAAGGTCTTACACGAGATCGATTAACGATGCCAATGTACCAGACATGGTCTT
1 ACTGTACCAGACAAGGTCTTACACGAGATCGATTAACGATGCCAATGTACCAGACATGGTCTT
65161471 AC
1 AC
65161473 ACGTAATCTC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (63 bp):
ACTGTACCAGACAAGGTCTTACACGAGATCGATTAACGATGCCAATGTACCAGACATGGTCTT
Found at i:65162836 original size:35 final size:35
Alignment explanation
Indices: 65162794--65162865 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
65162784 TACCTTTCTT
*
65162794 TCAGAGTTCATTGAATACTTAGTTCTTTCCACTTC
1 TCAGAGTTCACTGAATACTTAGTTCTTTCCACTTC
*
65162829 TCAGAGTTCACTGAATACTTAGTTCTTTCTACTTC
1 TCAGAGTTCACTGAATACTTAGTTCTTTCCACTTC
65162864 TC
1 TC
65162866 CCATATGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (35 bp):
TCAGAGTTCACTGAATACTTAGTTCTTTCCACTTC
Found at i:65163171 original size:29 final size:28
Alignment explanation
Indices: 65163110--65163190 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
65163100 CTTTCCTTTG
*
65163110 ACAGAGATTGCCACAAAGGTATTTCATT
1 ACAGAGATTGCCACAAAGGCATTTCATT
*
65163138 TCAGAGATTTGCCACAAAGGCA-TTC-TT
1 ACAGAGA-TTGCCACAAAGGCATTTCATT
*
65163165 AAACAGAGGTTGCCACAAAGGC-TTTC
1 --ACAGAGATTGCCACAAAGGCATTTC
65163191 CTTTACATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.04
28 25 0.56
29 18 0.40
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (28 bp):
ACAGAGATTGCCACAAAGGCATTTCATT
Found at i:65163287 original size:29 final size:28
Alignment explanation
Indices: 65163252--65163321 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 28
65163242 TTCAATACTC
* *
65163252 GCCACAAAGGCTTTCGTGTCCAGAA-TTGT
1 GCCACAAAGGCTTTC-TATCCA-AATTTGA
65163281 GCCACAAAGGCTTTTCTATCCAAATTTGA
1 GCCACAAAGGC-TTTCTATCCAAATTTGA
65163310 GCCACAAAGGCT
1 GCCACAAAGGCT
65163322 ATCCTTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 3 0.08
29 30 0.81
30 4 0.11
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (28 bp):
GCCACAAAGGCTTTCTATCCAAATTTGA
Found at i:65168656 original size:26 final size:27
Alignment explanation
Indices: 65168617--65168672 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
65168607 TTATAATATT
** * *
65168617 AAATAAAATTTTATTATTAT-TTTGAA
1 AAATAAAAAATTATAATTATATTTAAA
65168643 AAATAAAAAATTATAATTATATTTAAA
1 AAATAAAAAATTATAATTATATTTAAA
65168670 AAA
1 AAA
65168673 ACATGTCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
AAATAAAAAATTATAATTATATTTAAA
Found at i:65170400 original size:17 final size:16
Alignment explanation
Indices: 65170375--65170425 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 16
65170365 GTGGCTAGGG
65170375 TTTTTTTAGTTTTTTT
1 TTTTTTTAGTTTTTTT
*
65170391 TTTTTGTTAGGTTTTCTT
1 TTTTT-TTA-GTTTTTTT
* *
65170409 TTTTCTT-CTTTTTTT
1 TTTTTTTAGTTTTTTT
65170424 TT
1 TT
65170426 GGGTTAGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 8 0.28
16 5 0.17
17 5 0.17
18 11 0.38
ACGTcount: A:0.04, C:0.06, G:0.08, T:0.82
Consensus pattern (16 bp):
TTTTTTTAGTTTTTTT
Found at i:65171520 original size:72 final size:72
Alignment explanation
Indices: 65171308--65172750 Score: 749
Period size: 72 Copynumber: 18.6 Consensus size: 72
65171298 GTGATCTGAA
*
65171308 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACCTCA--
* * *
65171373 ATGTGAAC-CGAG
61 ACGTG-TCTTGAG
* *
65171385 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAACG
65171450 TGTCTTGAG
64 TGTCTTGAG
** *
65171459 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
65171524 TCTTGAG
66 TCTTGAG
* ** * *
65171531 GTTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
65171596 TCTTGAG
66 TCTTGAG
** * * *
65171603 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTAAAAACAG--ATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
*
65171666 TCCTGAG
66 TCTTGAG
65171673 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTC-A---G
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
**
65171734 TCCCGAG
66 TCTTGAG
* * * *
65171741 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTG----AAATTACCTCA
** * *
65171806 GTGTGTGATCTGAA
61 ACGTGT-CT-TGAG
* *
65171820 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGAAA-AACGGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAA-ACAGAAATTGAAATTAC-----
* * * *
65171884 TTGAAAATACCTCGGCGTGTGA-
57 CT---CA-ACGT-GTC-T-TGAG
* *
65171906 G-TTAAGGCTCAATTCAC-CATTCGCAATATGAGCTGATCTTTTTGAAACACAGAAATTAAAGAA
1 GCTCAA--CTC-A--C-CTC--TCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATT---GAA
* ** * *
65171969 CA-GAAATGGAAAACACCTCAGCATCTTGAG
52 -ATTACCT----CA-ACGT--G--TCTTGAG
* * * *
65171999 GTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAAACAGAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-GAAAACAGAAATTGAAATTACCTCAAC
65172064 GTGTCTTGAG
63 GTGTCTTGAG
* * * *****
65172074 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACTTAACTTGAAA-AGCAGATTTTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AA---AAC-AGAAATTG-AAATTACCTC
* * *
65172138 AATGCCTCGATATGTGAC
60 AA--CGT-G-TCT-TGAG
* * *
65172156 TCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAAAA
1 GC-----TCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTG-------AAA
** ** * *
65172221 AAACCTCAGTGTGTGATCTGAA
53 TTACCTCAACGTGT-CT-TGAG
*
65172243 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAA-ACAGAAATTGAAATTACCTCA-
* *
65172308 CATGTGAAC-TGAG
61 -ACGTG-TCTTGAG
* * * * *
65172321 GCTCAACTTACCTCTCGCAATATAAGTTGGTTTTTTTTTTGAAAATAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTT-G----ATTTTTGAAAACAGAAATTGAAATTACCTCA
65172386 ACGTGTCTTGAG
61 ACGTGTCTTGAG
** * *
65172398 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
**
65172463 TCCCGAG
66 TCTTGAG
*
65172470 GTTCAACTCACCAT-TCGCAATATGAGTTGATTTTTTTGAAACACAGAAATTAAAGAACAAAAAT
1 GCTCAACTCACC-TCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATT---G-----AAAT
* * * ** *
65172534 GGAAAACACCTCAGCGTCTTGAG
54 ---TACCTCAAC-GTGTCTTGAG
* * * * **
65172557 GTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTTGAAAAACAGAAATTGAAAATAATTCAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTG-AAAACAGAAATTGAAATTACCTCAA
*
65172622 CATGTCTTGAG
62 CGTGTCTTGAG
* * *
65172633 GCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTTTTTTGACAACAGAAATTGAAATTACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-------TTTTTGAAAACAGAAATTGAAATTACCT
* *
65172698 CAGCGTGTCCTGAG
59 CAACGTGTCTTGAG
* *
65172712 GTTCAACTCACCTCTCGCAATATGAGTTGAATTTT-AAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
65172751 TAAAACATCA
Statistics
Matches: 1097, Mismatches: 159, Indels: 226
0.74 0.11 0.15
Matches are distributed among these distances:
68 42 0.04
69 11 0.01
70 65 0.06
71 3 0.00
72 230 0.21
73 18 0.02
74 42 0.04
75 44 0.04
76 60 0.05
77 90 0.08
78 43 0.04
79 113 0.10
80 27 0.02
81 5 0.00
82 46 0.04
83 8 0.01
84 11 0.01
85 19 0.02
86 8 0.01
87 116 0.11
88 23 0.02
89 5 0.00
90 6 0.01
91 29 0.03
92 22 0.02
93 2 0.00
94 7 0.01
95 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
TCTTGAG
Found at i:65171675 original size:214 final size:211
Alignment explanation
Indices: 65171308--65172750 Score: 807
Period size: 214 Copynumber: 6.2 Consensus size: 211
65171298 GTGATCTGAA
65171308 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
* * * *
65171373 ATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGA
63 --GTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTAAAAACAG-AATTGA
* **
65171437 AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAG
122 AAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAG
**
65171502 AAATTGAAATTACCTCAACGTGTCTTGAG
187 AAATTGAAATTACCTC-A---GTCCCGAG
* ** * *
65171531 GTTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
** * *
65171596 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTAAAAACAG-ATTGAAATTACCTC
66 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAGAATTGAAAATACCTC
* *
65171660 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAA
131 AACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAA
65171725 TTACCTCAGTCCCGAG
196 TTACCTCAGTCCCGAG
* * *
65171741 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTG----AAAATACCTCA
* * *
65171806 GTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAAT
61 GCGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTT------------T
* ** ** * *
65171871 TGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAGTTAAGGCTCAATTCACCAT-TCGCAATAT
107 T-AAAAACAG-AATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACC-TCTCGCAATAT
* * * **
65171935 GAGCTGATCTTTTTGAAACACAGAAATTAAAGAACAGAAATGGAAAACACCTCAGCATCTTGAG
167 GAGTTGA--ATTTTGAAA-ACAGAAATT--------GAAAT------TACCTCAG--TCCCGAG
* * * *
65171999 GTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAAACAGAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-GAAAACAGAAATTGAAAATACCTCAGC
65172064 GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACTTAACTTGAAAAGCA
63 GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAA---AAC------AG-A
* * * * *
65172129 GATTTTGAAAATGCCTCGATATGTG-ACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
117 -A--TTGAAAATACCTC-A-ACGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
* * ** * * *
65172193 TTTGAAAAATATAAATTGAAAAAAAAAAAAACCTCAGTGTGTGATCTGAA
176 TTTG-AAAACAGAAATTG-------AAATTACCTCA----GT--CCCGAG
65172243 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAA-ACAGAAATTGAAAATACCTCAG
* * * * * *
65172308 CATGTGAAC-TGAGGCTCAACTTACCTCTCGCAATATAAGTTGGTTTTTTTTTTGAAAATAGAAA
62 C--GTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT-G----ATTTTTAAAAACAG-AA
* **
65172372 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
118 TTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
65172437 ACAGAAATTGAAATTACCTCAGCGTGTCCCGAG
183 ACAGAAATTGAAATTACCTCA----GTCCCGAG
*
65172470 GTTCAACTCACCAT-TCGCAATATGAGTTGATTTTTTTGAAACACAGAAATTAAAGAACAAAAAT
1 GCTCAACTCACC-TCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATT---G----AAAAT
* * *
65172534 GGAAAACACCTCAGC--GTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTTGA
55 -------ACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTT-A
** * * * *
65172597 AAAACAGAAATTGAAAATAATTCAACATGTCTTGAGGCTCAACTCACCGCTCGCAATACGAGTTG
109 AAAACAG-AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
65172662 ATTTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAG
173 A-------ATTTTGAAAACAGAAATTGAAATTACCTCA----GTCCCGAG
* *
65172712 GTTCAACTCACCTCTCGCAATATGAGTTGAATTTT-AAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
65172751 TAAAACATCA
Statistics
Matches: 977, Mismatches: 121, Indels: 229
0.74 0.09 0.17
Matches are distributed among these distances:
210 37 0.04
211 11 0.01
213 1 0.00
214 80 0.08
215 15 0.02
216 12 0.01
217 32 0.03
218 33 0.03
220 22 0.02
221 8 0.01
222 2 0.00
223 27 0.03
226 20 0.02
227 30 0.03
228 1 0.00
229 15 0.02
233 5 0.01
234 7 0.01
235 67 0.07
236 39 0.04
237 64 0.07
238 3 0.00
239 45 0.05
240 22 0.02
241 11 0.01
242 80 0.08
244 35 0.04
245 29 0.03
246 5 0.01
247 47 0.05
248 9 0.01
249 44 0.05
250 5 0.01
251 5 0.01
252 5 0.01
254 33 0.03
255 1 0.00
256 22 0.02
258 32 0.03
260 16 0.02
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (211 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAGAATTGAAAATACCTC
AACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAA
TTACCTCAGTCCCGAG
Found at i:65171726 original size:142 final size:143
Alignment explanation
Indices: 65171308--65172750 Score: 803
Period size: 142 Copynumber: 9.3 Consensus size: 143
65171298 GTGATCTGAA
* *
65171308 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAAACAG-AATTGAAAATACCTCAGC
* *
65171373 ATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGA
63 --GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGA
*
65171437 AAATACCTCAACGTGTCTTGAG
123 AATTACCTC-ACGTGTCTTGAG
** * *
65171459 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAACGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAG-AATTGAAAATACCTCAGCGT
* * ** *
65171523 GTCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACC
65 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACC
65171588 TCAGCGTGTCTTGAG
130 TCA-CGTGTCTTGAG
** *
65171603 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTT-AAAAACAG-ATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAATTGAAAATACCTCAGCGTG
65171666 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCT
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCT
**
65171731 CA---GTCCCGAG
131 CACGTGTCTTGAG
* * * *
65171741 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACA-GAATTG----AAAATACCTCA
* * * *
65171806 GTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAAT
61 GCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAA-ACAGAAAT
* ** * *
65171871 TGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAGTTAA
120 T--------GAAA-T-----TACCTC-ACGTGT-CTTGAG
* * * * * *
65171911 G-GCTCAATTCACCAT-TCGCAATATGAGCTGATCTTTTTGAAACACAGAAATTAAAGAACAGAA
1 GCTC-AA-CTCACC-TCTCGCAATATGAGTTGA--ATTTTGAAAAACAG-AATT---G---A-AA
* * * *
65171974 ATGGAAAACACCTCAGC--ATCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTA
53 AT-------ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-
* *
65172037 AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAG
108 GAAAACAGAAATTGAAATTACCTC-ACGTGTCTTGAG
*
65172074 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA---AAC------AG-A-A--TTGAAA
* ** * * *
65172139 ATGCCTC-GATATGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
53 ATACCTCAG-CGTGT-CCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAC
* ** * * *
65172203 ATAAATTGAAAAAAAAAAAAACCTCAGTGTGTGATCTGAA
114 AGAAATTG-------AAATTACCTCA-CGTGT-CT-TGAG
* *
65172243 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---ATTTTGAAAAACAG-AATTGAAAATACCTCAG
** * * * *
65172308 CATGTGAACTGAGGCTCAACTTACCTCTCGCAATATAAGTTGGTTTTTTTTTTGAAAATAGAAAT
62 C--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-G----ATTTTTGAAAACAGAAAT
*
65172373 TGAAAATACCTCAACGTGTCTTGAG
120 TGAAATTACCTC-ACGTGTCTTGAG
** *
65172398 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAG-AATTGAAAATACCTCAGCGT
* *
65172462 GTCCCGAGGTTCAACTCACCAT-TCGCAATATGAGTTGATTTTTTTGAAACACAGAAATTAAAGA
65 GTCCTGAGGCTCAACTCACC-TCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATT---G-
* *
65172526 ACAAAAATGGAAAACACCTCA-GCGTCTTGAG
122 ----AAAT------TACCTCACGTGTCTTGAG
* * * * ** *
65172557 GTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTTGAAAAACAGAAATTGAAAATAATTCAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---ATTTTGAAAAACAG-AATTGAAAATACCTCAG
* * * * *
65172622 CATGTCTTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTTTTTTGACAACAGAAAT
62 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-------TTTTTGAAAACAGAAAT
*
65172687 TGAAATTACCTCAGCGTGTCCTGAG
120 TGAAATTACCTCA-CGTGTCTTGAG
*
65172712 GTTCAACTCACCTCTCGCAATATGAGTTGAATTTT-AAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAA
65172751 TAAAACATCA
Statistics
Matches: 1030, Mismatches: 137, Indels: 250
0.73 0.10 0.18
Matches are distributed among these distances:
138 37 0.04
139 6 0.01
141 4 0.00
142 81 0.08
143 1 0.00
144 80 0.08
145 16 0.02
146 41 0.04
147 42 0.04
148 24 0.02
149 35 0.03
150 11 0.01
151 64 0.06
152 9 0.01
153 6 0.01
155 70 0.07
156 1 0.00
157 14 0.01
158 5 0.00
159 44 0.04
160 68 0.07
161 12 0.01
162 58 0.06
163 64 0.06
164 25 0.02
165 16 0.02
166 2 0.00
167 22 0.02
168 11 0.01
169 42 0.04
170 8 0.01
171 19 0.02
172 12 0.01
173 15 0.01
175 3 0.00
176 5 0.00
178 15 0.01
179 34 0.03
181 1 0.00
183 7 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (143 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAATTGAAAATACCTCAGCGTG
TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCT
CACGTGTCTTGAG
Found at i:65172045 original size:87 final size:89
Alignment explanation
Indices: 65171820--65172054 Score: 262
Period size: 87 Copynumber: 2.6 Consensus size: 89
65171810 GTGATCTGAA
* ** *
65171820 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTTGAAAAACAGAAATTGAAAAACAGAAAT
* * * * *
65171885 TGAAAATACCTCGGCGTGTGAGTTAAG
65 GGAAAACACCTCAGCG-AT-ACTTAAG
* * *
65171912 GCTCAATTCACCAT-TCGCAATATGAGCTGATCTTTTTGAAACACAGAAATT-AAAGAACAGAAA
1 GCTCAACTCACC-TCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAA-AACAGAAA
*
65171975 TGGAAAACACCTCAGC-AT-CTTGAG
64 TGGAAAACACCTCAGCGATACTTAAG
* *
65171999 GTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAAACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAA
65172055 TACCTCAACG
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
86 1 0.01
87 49 0.40
88 3 0.02
89 1 0.01
90 3 0.02
91 38 0.31
92 26 0.21
93 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (89 bp):
GCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAAACAGAAATG
GAAAACACCTCAGCGATACTTAAG
Found at i:65172349 original size:78 final size:76
Alignment explanation
Indices: 65172218--65172746 Score: 379
Period size: 79 Copynumber: 6.8 Consensus size: 76
65172208 TTGAAAAAAA
* ** *
65172218 AAAAAACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
1 AAAATACCTCAGCATGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGA
65172283 AAGACAGAAATTG
65 AA-ACAGAAATTG
* * * *
65172296 AAAATACCTCAGCATGTGAACTGAGGCTCAACTTACCTCTCGCAATATAAGTTGGTTTTTTTTTT
1 AAAATACCTCAGCATGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-G--ATTTTTTT
*
65172361 GAAAATAGAAATTG
63 GAAAACAGAAATTG
* ** *
65172375 AAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGA
1 AAAATACCTCAGCATGTGATC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
65172435 AAACAGAAATTG
65 AAACAGAAATTG
* * *
65172447 AAATTACCTCAGC--GTG-TCCCGAGGTTCAACTCACCAT-TCGCAATATGAGTTGATTTTTTTG
1 AAAATACCTCAGCATGTGAT-CTGAGGCTCAACTCACC-TCTCGCAATATGAGTTGATTTTTTTG
65172508 AAACACAGAAATTAAAG
64 AAA-ACAGAAATT---G
*** * * * * *
65172525 AACAAAAATGGAAAACA-CCTCAGCG-TCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGAT
1 ----AAAAT--ACCTCAGCAT--GTGATC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
65172588 TTTTTTTGAAAAACAGAAATTG
56 TTTTTTTG-AAAACAGAAATTG
** * * * *
65172610 AAAATAATTCAACATGT-CT-TGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTTTT
1 AAAATACCTCAGCATGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTT
*
65172673 TTGACAACAGAAATTG
61 TTGAAAACAGAAATTG
* * *
65172689 AAATTACCTCAGC--GTG-TCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 AAAATACCTCAGCATGTGAT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
65172747 AAAATAAAAC
Statistics
Matches: 364, Mismatches: 50, Indels: 78
0.74 0.10 0.16
Matches are distributed among these distances:
72 59 0.16
73 2 0.01
74 12 0.03
75 9 0.02
76 31 0.09
77 35 0.10
78 49 0.13
79 77 0.21
80 22 0.06
81 5 0.01
82 4 0.01
83 1 0.00
84 3 0.01
85 1 0.00
86 2 0.01
87 32 0.09
88 17 0.05
89 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (76 bp):
AAAATACCTCAGCATGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
AACAGAAATTG
Found at i:65177750 original size:12 final size:12
Alignment explanation
Indices: 65177730--65177765 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
65177720 TGGGATATGC
*
65177730 AATGTATGAATG
1 AATGCATGAATG
65177742 AATGCATGAATG
1 AATGCATGAATG
65177754 AATGCATGAATG
1 AATGCATGAATG
65177766 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:65180349 original size:19 final size:21
Alignment explanation
Indices: 65180327--65180365 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
65180317 GTGGCTAGGG
*
65180327 TTTTTTTA-GTTTTT-TTTTC
1 TTTTGTTAGGTTTTTCTTTTC
65180346 TTTTGTTAGGTTTTTCTTTT
1 TTTTGTTAGGTTTTTCTTTT
65180366 TTCTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.05, C:0.05, G:0.10, T:0.79
Consensus pattern (21 bp):
TTTTGTTAGGTTTTTCTTTTC
Found at i:65180753 original size:26 final size:27
Alignment explanation
Indices: 65180720--65180776 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
65180710 ACTCAAATGG
* * *
65180720 AAATAAAAATTTATTATTGT-TTTGAA
1 AAATAAAAAATAATTATTGTATTTAAA
65180746 AAATAAAAAATAATTATTGTATTTAAA
1 AAATAAAAAATAATTATTGTATTTAAA
65180773 AAAT
1 AAAT
65180777 TATTTGCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.40
Consensus pattern (27 bp):
AAATAAAAAATAATTATTGTATTTAAA
Found at i:65183162 original size:18 final size:18
Alignment explanation
Indices: 65183139--65183175 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
65183129 TTACCATATT
65183139 ACATGGTATTAATCTATA
1 ACATGGTATTAATCTATA
65183157 ACATGGTATTAATCTATA
1 ACATGGTATTAATCTATA
65183175 A
1 A
65183176 GCTAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
ACATGGTATTAATCTATA
Found at i:65186738 original size:32 final size:32
Alignment explanation
Indices: 65186697--65186757 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
65186687 GTTAATTTCG
65186697 TGTGTTATTATGATTAATTAGTTCCAAACTAT
1 TGTGTTATTATGATTAATTAGTTCCAAACTAT
65186729 TGTGTTATTATGATTAATTAGTTCCAAAC
1 TGTGTTATTATGATTAATTAGTTCCAAAC
65186758 CATACATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (32 bp):
TGTGTTATTATGATTAATTAGTTCCAAACTAT
Found at i:65190883 original size:26 final size:27
Alignment explanation
Indices: 65190831--65190915 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 27
65190821 AAGAATATAT
*
65190831 TTTTTATTTAATA-TTAAATAATTATA
1 TTTTTATTTAATATTTAAATAATAATA
* *
65190857 TTTTTATTAAATATTTAAA-CATAATA
1 TTTTTATTTAATATTTAAATAATAATA
* *
65190883 --TTTATTTAATATTTACATTATAAT-
1 TTTTTATTTAATATTTAAATAATAATA
*
65190907 TTTATATTT
1 TTTTTATTT
65190916 TAAATTTCCC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
24 15 0.31
25 5 0.10
26 23 0.48
27 5 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTTATTTAATATTTAAATAATAATA
Found at i:65190893 original size:24 final size:27
Alignment explanation
Indices: 65190833--65190915 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 27
65190823 GAATATATTT
*
65190833 TTTATTTAATA-TTAAATAATTATATT
1 TTTATTTAATATTTAAATAATTATATA
* *
65190859 TTTATTAAATATTTAAA-CA-TA-ATA
1 TTTATTTAATATTTAAATAATTATATA
*
65190883 TTTATTTAATATTTACATTATAATTTTATA
1 TTTATTTAATATTTA-A--ATAATTATATA
65190913 TTT
1 TTT
65190916 TAAATTTCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
24 16 0.36
25 3 0.07
26 11 0.25
27 6 0.14
28 1 0.02
29 1 0.02
30 6 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTATTTAATATTTAAATAATTATATA
Found at i:65192948 original size:18 final size:18
Alignment explanation
Indices: 65192917--65192955 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
65192907 ATCAAAATTT
65192917 TTAAACTAATAATTATATA
1 TTAAACTAATAATTATA-A
65192936 TTAAACT-ATAATTATAA
1 TTAAACTAATAATTATAA
65192953 TTA
1 TTA
65192956 TCACAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAACTAATAATTATAA
Found at i:65195098 original size:53 final size:54
Alignment explanation
Indices: 65195017--65195167 Score: 209
Period size: 53 Copynumber: 2.8 Consensus size: 54
65195007 CTTACACGGT
* *
65195017 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
*
65195072 TCACATTATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
** *
65195125 TCACATTGCACCGATGCCATAGCCCA-ACTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGG
65195168 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
TCACATTATACCGATGCCATAGCCCAGACTATGGTCTTATACGGAATCACATTA
Found at i:65201243 original size:2 final size:2
Alignment explanation
Indices: 65201236--65201269 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
65201226 TAATTGTGAT
65201236 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65201270 ATTTCAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65202546 original size:22 final size:22
Alignment explanation
Indices: 65202514--65202563 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
65202504 AATTGAGAAT
*
65202514 ATATAATTATTAACTAAAAA-TA
1 ATATAAATATT-ACTAAAAAGTA
*
65202536 ATATAAATATTATTAAAAAGTA
1 ATATAAATATTACTAAAAAGTA
65202558 ATATAA
1 ATATAA
65202564 GTGATCGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
ATATAAATATTACTAAAAAGTA
Found at i:65203257 original size:6 final size:6
Alignment explanation
Indices: 65203241--65203288 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
65203231 ACCAACAGTA
*
65203241 CTCTTC TTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC
1 CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC
65203289 TTTCCCAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
CTCTTC
Found at i:65203908 original size:11 final size:11
Alignment explanation
Indices: 65203892--65203930 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
65203882 TATAAATAAA
*
65203892 TAATTTTTTCC
1 TAATTTTTTAC
65203903 TAATTTTTTAC
1 TAATTTTTTAC
*
65203914 TAA-TTTTTAT
1 TAATTTTTTAC
65203924 TAATTTT
1 TAATTTT
65203931 ATAAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (11 bp):
TAATTTTTTAC
Found at i:65206922 original size:17 final size:17
Alignment explanation
Indices: 65206900--65206933 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
65206890 TATTTGTTTC
65206900 TTTAAGGAGCAATTGTG
1 TTTAAGGAGCAATTGTG
65206917 TTTAAGGAGCAATTGTG
1 TTTAAGGAGCAATTGTG
65206934 GTTAGTGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (17 bp):
TTTAAGGAGCAATTGTG
Found at i:65207231 original size:20 final size:19
Alignment explanation
Indices: 65207187--65207232 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
65207177 AGTATTTGTT
*
65207187 AATTTTATTTGATTTGAAA
1 AATTTTATTTGATTCGAAA
**
65207206 TTTTTTGATTTGATTCGAAA
1 AATTTT-ATTTGATTCGAAA
65207226 AATTTTA
1 AATTTTA
65207233 AATGAGTTCG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (19 bp):
AATTTTATTTGATTCGAAA
Found at i:65208669 original size:239 final size:239
Alignment explanation
Indices: 65208245--65208722 Score: 595
Period size: 239 Copynumber: 2.0 Consensus size: 239
65208235 ATGAACAAAT
* * *
65208245 CAAATGCCCTTGTATCAACAAAAGCACTTATTCTTTAGCCTGCTAAGTTGATGTCTACGAATATC
1 CAAATGCCCATGTATCAACAAAAGCACTTATTCTTTAGCCTGCTAAGTTAATGTCTACGAACATC
* * * *
65208310 AATCATTTTTGCTTGTAATCCCTCTTCACTCTAGTAGAATTGAATATCATTGGACCAATCTTTAA
66 AACCATTTCTGCTTGTAATCCCTCTTCACTCTAGCAGAATTGAATATCATTGGACCAAGCTTTAA
* * ** * *
65208375 AGCCTCTGTAACACCCCTTGCTTGACCCGTTCGTCAAGTCTGAGCTACAGAATGCTATATTCATT
131 AACCTCTATAACACCCCTTGCTCAACCCGTTCATCAAGTCTGAGCTACAGAATGCTACATTCATT
* * * *
65208440 GCCGGAGCAACTACAGCCAATTAGACATCATATAATCATTTATA
196 GCCAGAACAACTACAACCAATTAGACATCATACAATCATTTATA
* *
65208484 CAAATGCCCATGTATCAACAAAAGCACTTATTCTTT-GACCTG-TGATGTTAATGTCTATGAACA
1 CAAATGCCCATGTATCAACAAAAGCACTTATTCTTTAG-CCTGCT-AAGTTAATGTCTACGAACA
* * ** * *
65208547 TCAACCATTTCTGCTTGTGATCCCTTTTTGCTTTAGCAGAATTGAGTATCATTGGACCAAGCTTT
64 TCAACCATTTCTGCTTGTAATCCCTCTTCACTCTAGCAGAATTGAATATCATTGGACCAAGCTTT
* * * * **
65208612 AAAACTTCTATAACATCCCTT-ATCCAACCCCG-TCATCAGGTCTGAGCTATGGAATGCTACATT
129 AAAACCTCTATAACACCCCTTGCT-CAA-CCCGTTCATCAAGTCTGAGCTACAGAATGCTACATT
* *
65208675 CGTTGTCAGAACAACTACAACCAATTAGACATCATACAATCATTTATA
192 CATTGCCAGAACAACTACAACCAATTAGACATCATACAATCATTTATA
65208723 TATATAATTT
Statistics
Matches: 202, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
238 3 0.01
239 195 0.97
240 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (239 bp):
CAAATGCCCATGTATCAACAAAAGCACTTATTCTTTAGCCTGCTAAGTTAATGTCTACGAACATC
AACCATTTCTGCTTGTAATCCCTCTTCACTCTAGCAGAATTGAATATCATTGGACCAAGCTTTAA
AACCTCTATAACACCCCTTGCTCAACCCGTTCATCAAGTCTGAGCTACAGAATGCTACATTCATT
GCCAGAACAACTACAACCAATTAGACATCATACAATCATTTATA
Found at i:65212479 original size:37 final size:37
Alignment explanation
Indices: 65212437--65212511 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
65212427 TTTTTAAAAG
*
65212437 TTAAATTTCTAAGTGGTTAAAGATTTGTTTGTTTTAA
1 TTAAATTTCTAAGTGGTTAAAGATTGGTTTGTTTTAA
65212474 TTAAATTTCTAAGTGGTTAAAGATTGGTTTGTTTTAA
1 TTAAATTTCTAAGTGGTTAAAGATTGGTTTGTTTTAA
65212511 T
1 T
65212512 ATCAATTGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (37 bp):
TTAAATTTCTAAGTGGTTAAAGATTGGTTTGTTTTAA
Found at i:65224071 original size:18 final size:16
Alignment explanation
Indices: 65224035--65224066 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65224025 TAGATATTAA
65224035 TATATATTTAAATAAT
1 TATATATTTAAATAAT
*
65224051 TATATATTTGAATAAT
1 TATATATTTAAATAAT
65224067 CTTATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TATATATTTAAATAAT
Done.