Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 40 of 163
Found at i:10381073 original size:36 final size:36
Alignment explanation
Indices: 10380970--10381073 Score: 181
Period size: 36 Copynumber: 2.9 Consensus size: 36
10380960 CGTTCGTTAT
* *
10380970 TCGTTTTACTCCCTGTTGACCCAAAGGTCATAATGC
1 TCGTTTTACTCCCTATTGACCCAAAGGTCATGATGC
*
10381006 TCGTTTTACTCCCTATTGACCCAGAGGTCATGATGC
1 TCGTTTTACTCCCTATTGACCCAAAGGTCATGATGC
10381042 TCGTTTTACTCCCTATTGACCCAAAGGTCATG
1 TCGTTTTACTCCCTATTGACCCAAAGGTCATG
10381074 CCTGTTACTA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (36 bp):
TCGTTTTACTCCCTATTGACCCAAAGGTCATGATGC
Found at i:10381551 original size:44 final size:44
Alignment explanation
Indices: 10381488--10381576 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
10381478 TTTCCTTTTC
10381488 AGCGATCTGTGGCACGATCGTAGTCTACATCCACAAATCATCCA
1 AGCGATCTGTGGCACGATCGTAGTCTACATCCACAAATCATCCA
*
10381532 AGCGATCTGTGGCACGATCGTAGTCTACATCCATAAATCATCCA
1 AGCGATCTGTGGCACGATCGTAGTCTACATCCACAAATCATCCA
10381576 A
1 A
10381577 TTTCTTACAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (44 bp):
AGCGATCTGTGGCACGATCGTAGTCTACATCCACAAATCATCCA
Found at i:10383980 original size:19 final size:19
Alignment explanation
Indices: 10383958--10384002 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
10383948 TTATATTAGG
10383958 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
10383977 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
10383996 ATTTAAT
1 ATTTAAT
10384003 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:10384133 original size:16 final size:16
Alignment explanation
Indices: 10384112--10384147 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
10384102 ATTGAATTCA
10384112 ACTAGGAATATTATGT
1 ACTAGGAATATTATGT
10384128 ACTAGGAATATTATGT
1 ACTAGGAATATTATGT
10384144 ACTA
1 ACTA
10384148 TAAATAGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (16 bp):
ACTAGGAATATTATGT
Found at i:10384153 original size:16 final size:16
Alignment explanation
Indices: 10384112--10384153 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10384102 ATTGAATTCA
*
10384112 ACTAGGAATATTATGT
1 ACTAGAAATATTATGT
*
10384128 ACTAGGAATATTATGT
1 ACTAGAAATATTATGT
*
10384144 ACTATAAATA
1 ACTAGAAATA
10384154 GGGGGTGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (16 bp):
ACTAGAAATATTATGT
Found at i:10384844 original size:22 final size:22
Alignment explanation
Indices: 10384818--10384860 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10384808 TCGACTTCCT
10384818 TATTTTCTATTT-CTTTTAATTA
1 TATTTTCT-TTTACTTTTAATTA
*
10384840 TATTTTCTTTTATTTTTAATT
1 TATTTTCTTTTACTTTTAATT
10384861 TTGTTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTTTCTTTTACTTTTAATTA
Found at i:10387400 original size:8 final size:8
Alignment explanation
Indices: 10387387--10387434 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
10387377 CTCAATTATT
10387387 TTTTTTTA
1 TTTTTTTA
10387395 TTTTTTTTA
1 -TTTTTTTA
*
10387404 TTTTTCTA
1 TTTTTTTA
10387412 TCTTATTTTA
1 T-TT-TTTTA
*
10387422 TTTATTTA
1 TTTTTTTA
10387430 TTTTT
1 TTTTT
10387435 GTCAAAGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
8 16 0.48
9 12 0.36
10 5 0.15
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTA
Found at i:10388997 original size:19 final size:19
Alignment explanation
Indices: 10388971--10389019 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
10388961 TATTTTATAT
10388971 TATG-ATTTAATATTTAAGA
1 TATGTATTTAATATTTAA-A
*
10388990 TAT-TATTTATTATTTAAA
1 TATGTATTTAATATTTAAA
*
10389008 TTTGTATTTAAT
1 TATGTATTTAAT
10389020 TTATATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
TATGTATTTAATATTTAAA
Found at i:10389833 original size:21 final size:20
Alignment explanation
Indices: 10389804--10389862 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
10389794 TTCAACTTCC
*
10389804 TTAT-TTTCTATTTCTTTTAA
1 TTATATTTCT-TTTATTTTAA
10389824 TTATATTTCTTTTATTTTTAA
1 TTATATTTCTTTTA-TTTTAA
*
10389845 TTCTATTTCTTTTATTTT
1 TTATATTTCTTTTATTTT
10389863 TTCTCAGATC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.31
21 24 0.69
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATATTTCTTTTATTTTAA
Found at i:10389848 original size:15 final size:15
Alignment explanation
Indices: 10389804--10389861 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
10389794 TTCAACTTCC
10389804 TTATTTTCTATTTCTT
1 TTATTTT-TATTTCTT
* *
10389820 TTAATTATATTTCTT
1 TTATTTTTATTTCTT
*
10389835 TTATTTTTAATTCTAT
1 TTATTTTTATTTCT-T
*
10389851 TT-CTTTTATTT
1 TTATTTTTATTT
10389862 TTTCTCAGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
15 26 0.76
16 8 0.24
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTTTATTTCTT
Found at i:10389863 original size:21 final size:21
Alignment explanation
Indices: 10389818--10389863 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
10389808 TTTCTATTTC
10389818 TTTTAATTATATTTCTTTTAT
1 TTTTAATTATATTTCTTTTAT
*
10389839 TTTTAATTCTATTTCTTTTAT
1 TTTTAATTATATTTCTTTTAT
10389860 TTTT
1 TTTT
10389864 TCTCAGATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTAATTATATTTCTTTTAT
Found at i:10391738 original size:26 final size:26
Alignment explanation
Indices: 10391709--10391771 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
10391699 TATTTTCTTG
* *
10391709 AAATTTTATTAAGGGCAAAATCGTTA
1 AAATTTTATTAAGGACAAAATCGTCA
** *
10391735 AAATTTTACCAAGGATAAAATCGTCA
1 AAATTTTATTAAGGACAAAATCGTCA
10391761 AAATTTTATTA
1 AAATTTTATTA
10391772 TGGTAAAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (26 bp):
AAATTTTATTAAGGACAAAATCGTCA
Found at i:10394459 original size:18 final size:18
Alignment explanation
Indices: 10394436--10394478 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10394426 AAATAAAATT
10394436 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
10394454 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
10394472 TTAATTA
1 TTAATTA
10394479 CAATTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:10404600 original size:5 final size:5
Alignment explanation
Indices: 10404590--10404622 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
10404580 ATTAAAAAAA
10404590 CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC CCC
1 CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC CCC
10404623 ACCCTGTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.82, G:0.00, T:0.18
Consensus pattern (5 bp):
CCCTC
Found at i:10415118 original size:24 final size:24
Alignment explanation
Indices: 10415091--10415143 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
10415081 AGGTATAGGA
*
10415091 GGTGGTGCTGGAGGCGGTGCTGGT
1 GGTGGTGCTGGAGGCGGAGCTGGT
** *
10415115 GGTGGTTTTGGAGGTGGAGCTGGT
1 GGTGGTGCTGGAGGCGGAGCTGGT
10415139 GGTGG
1 GGTGG
10415144 AAAAGGTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.06, C:0.08, G:0.58, T:0.28
Consensus pattern (24 bp):
GGTGGTGCTGGAGGCGGAGCTGGT
Found at i:10415175 original size:36 final size:36
Alignment explanation
Indices: 10415027--10415169 Score: 151
Period size: 36 Copynumber: 4.0 Consensus size: 36
10415017 GTGGTGGTTT
*
10415027 TGGAGGTGGAAAAGGTGGAGGAATAGGAGGTGGAGC
1 TGGAGGTGGAAAAGGTGGAGGTATAGGAGGTGGAGC
* * ** *
10415063 TGGAGGAGGTACTGGTGGAGGTATAGGAGGTGGTGC
1 TGGAGGTGGAAAAGGTGGAGGTATAGGAGGTGGAGC
* **** * * *
10415099 TGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAGC
1 TGGAGGTGGAAAAGGTGGAGGTATAGGAGGTGGAGC
*
10415135 TGGTGGTGGAAAAGGTGGAGGTATAGGAGGTGGAG
1 TGGAGGTGGAAAAGGTGGAGGTATAGGAGGTGGAG
10415170 TTGGTGCCGG
Statistics
Matches: 86, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 86 1.00
ACGTcount: A:0.21, C:0.04, G:0.54, T:0.21
Consensus pattern (36 bp):
TGGAGGTGGAAAAGGTGGAGGTATAGGAGGTGGAGC
Found at i:10415190 original size:18 final size:18
Alignment explanation
Indices: 10415163--10415210 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
10415153 AGGTATAGGA
*
10415163 GGTGGAGTTGGTGCCGGT
1 GGTGGTGTTGGTGCCGGT
* *
10415181 GGTGGTGTTGGAGGCGGT
1 GGTGGTGTTGGTGCCGGT
* *
10415199 GTTGGTGGTGGT
1 GGTGGTGTTGGT
10415211 TTTGAAGGTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.04, C:0.06, G:0.58, T:0.31
Consensus pattern (18 bp):
GGTGGTGTTGGTGCCGGT
Found at i:10415233 original size:78 final size:78
Alignment explanation
Indices: 10415139--10415943 Score: 529
Period size: 78 Copynumber: 10.4 Consensus size: 78
10415129 TGGAGCTGGT
* * *
10415139 GGTGGAAAAGGTGGAGGTATAGGAGGTGGAGTTGGTGCCGGTGGTGGTGTTGGAGGCGGTGTTGG
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCCGGTGGTGGTGTTGGAGGCGGTGCTGG
* *
10415204 TGGTGGTTTTGAA
66 TGGTGGTGTTGGA
* ** * * *
10415217 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGTTGGTGTTGGTGGTGGCGCTGGAGGCGGTGTTGG
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCCGGTGGTGGTGTTGGAGGCGGTGCTGG
* *
10415282 TGGTGGCGCTGGA
66 TGGTGGTGTTGGA
* * ***
10415295 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGTCGGTGGTGGTGGTTTTGGAGGTGGAAA
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCCGGTGGTGGT-G--TTGGAGGCGGTGC
* * ** *
10415360 AGGTGGAGGCATAGGA
63 TGGTGGTGGTGTTGGA
** ** * * * * **** * ** * ** * *
10415376 GGTGGAACTGGTGCTGGCGTTGGTGGTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTAGAGTTGG
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCCGGTGGTGGTGTTGGAGGCGGTGCTGG
* *
10415441 AGGTGGTGGTGGA
66 TGGTGGTGTTGGA
* *** ** * * **** * * * *
10415454 GTTGGAGGCGGTGCTGG--T-GGTGGTTTTGGAGGTGGAAAAGGTGGAGG-GATAGGAGGTGGAG
1 GGTGGAAAAGGTGGAGGCATAGGAGG---TGGAGCTGGTGCCGGTGGTGGTG-TTGGAGGCGGTG
*
10415515 CTGGAGGTGGTGTTGGA
62 CTGGTGGTGGTGTTGGA
* * * * *
10415532 GGTGG---AGGTGG-GGTCGGT-GGTGGCGTTGGAGGC-GGTGCTGGTGGTGGTTTTGGAGGTGG
1 GGTGGAAAAGGTGGAGG-C-ATAGG-AG-G-TGGA-GCTGGTGCCGGTGGTGGTGTTGGAGGCGG
*
10415591 AGCTGGTGGT-G-G-T---
60 TGCTGGTGGTGGTGTTGGA
* * *
10415604 GGTGGAAAAGGTGGAGGTATAGGAGGTGGAGTTGGTGCCGGTGGTGGTGTTGGAGGCGGTGTTGG
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCCGGTGGTGGTGTTGGAGGCGGTGCTGG
*
10415669 TGGTGGTTTTGGA
66 TGGTGGTGTTGGA
** * * *
10415682 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGTTGGTGGTGGTGCTGGAAGCAGTGCTGG
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCCGGTGGTGGTGTTGGAGGCGGTGCTGG
*
10415747 TGGTGGTTTTGGA
66 TGGTGGTGTTGGA
* * *
10415760 GGTGGAAAAGGTGGAGGCATAGGAGGTGAAACTGGTG-C-----TGGCGTTGGAGGCGGTGCTGG
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCCGGTGGTGGTGTTGGAGGCGGTGCTGG
*
10415819 TGGTGGTGGTGGA
66 TGGTGGTGTTGGA
* ** * * *
10415832 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGAGGTGGTGGTGGCGCTGGGGGCGGTGCTGG
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCCGGTGGTGGTGTTGGAGGCGGTGCTGG
*
10415897 TGGTGGTTTTGGA
66 TGGTGGTGTTGGA
*
10415910 GGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTG
1 GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTG
10415944 AAGGTGAAGG
Statistics
Matches: 589, Mismatches: 105, Indels: 66
0.77 0.14 0.09
Matches are distributed among these distances:
71 1 0.00
72 102 0.17
73 2 0.00
74 4 0.01
75 19 0.03
76 4 0.01
77 1 0.00
78 399 0.68
79 3 0.01
80 1 0.00
81 53 0.09
ACGTcount: A:0.16, C:0.06, G:0.54, T:0.24
Consensus pattern (78 bp):
GGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCCGGTGGTGGTGTTGGAGGCGGTGCTGG
TGGTGGTGTTGGA
Found at i:10415270 original size:24 final size:24
Alignment explanation
Indices: 10415250--10415296 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
10415240 AGGTGGAGTT
10415250 GGTGTTGGTGGTGGCGCTGGAGGC
1 GGTGTTGGTGGTGGCGCTGGAGGC
10415274 GGTGTTGGTGGTGGCGCTGGAGG
1 GGTGTTGGTGGTGGCGCTGGAGG
10415297 TGGAAAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.04, C:0.11, G:0.60, T:0.26
Consensus pattern (24 bp):
GGTGTTGGTGGTGGCGCTGGAGGC
Found at i:10415272 original size:30 final size:29
Alignment explanation
Indices: 10415238--10415300 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 29
10415228 TGGAGGCATA
*
10415238 GGAGGTGGAGTTGGTGTTGGTGGTGGCGCT
1 GGAGGTGGAG-CGGTGTTGGTGGTGGCGCT
10415268 GGA----G-GCGGTGTTGGTGGTGGCGCT
1 GGAGGTGGAGCGGTGTTGGTGGTGGCGCT
10415292 GGAGGTGGA
1 GGAGGTGGA
10415301 AAAGGTGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 11
0.69 0.03 0.28
Matches are distributed among these distances:
24 21 0.78
25 1 0.04
26 1 0.04
28 1 0.04
30 3 0.11
ACGTcount: A:0.08, C:0.08, G:0.59, T:0.25
Consensus pattern (29 bp):
GGAGGTGGAGCGGTGTTGGTGGTGGCGCT
Found at i:10415307 original size:24 final size:24
Alignment explanation
Indices: 10415256--10415308 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
10415246 AGTTGGTGTT
****
10415256 GGTGGTGGCGCTGGAGGCGGTGTT
1 GGTGGTGGCGCTGGAGGCGGAAAA
*
10415280 GGTGGTGGCGCTGGAGGTGGAAAA
1 GGTGGTGGCGCTGGAGGCGGAAAA
10415304 GGTGG
1 GGTGG
10415309 AGGCATAGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.11, C:0.09, G:0.58, T:0.21
Consensus pattern (24 bp):
GGTGGTGGCGCTGGAGGCGGAAAA
Found at i:10415325 original size:54 final size:54
Alignment explanation
Indices: 10415274--10415461 Score: 223
Period size: 54 Copynumber: 3.4 Consensus size: 54
10415264 CGCTGGAGGC
*
10415274 GGTGTTGGTGGTGGCGCTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCT
1 GGTGTTGGTGGTGGTGCTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCT
** *
10415328 GGTGTCGGTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAACT
1 GGTGT---TGGTGGTGGTGCTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCT
* * * * * *
10415385 GGTGCTGGCGTTGGTGGTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTAGAGTT
1 GGTGTTGGTGGTGGTGCTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCT
* * * *
10415439 GGAGGTGGTGGTGGAGTTGGAGG
1 GGTGTTGGTGGTGGTGCTGGAGG
10415462 CGGTGCTGGT
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
54 64 0.57
57 49 0.43
ACGTcount: A:0.19, C:0.05, G:0.54, T:0.22
Consensus pattern (54 bp):
GGTGTTGGTGGTGGTGCTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCT
Found at i:10415360 original size:57 final size:54
Alignment explanation
Indices: 10415291--10415432 Score: 214
Period size: 57 Copynumber: 2.6 Consensus size: 54
10415281 GTGGTGGCGC
* *
10415291 TGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTG-TCGGTGGTGGTGG
1 TGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAACTGGTGCT-GGCGGTGGTGG
*
10415345 TTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAACTGGTGCTGGCGTTGGTGG
1 ---TGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAACTGGTGCTGGCGGTGGTGG
10415402 TGGAGGTGGAAAAGGTGGAGGCATAGGAGGT
1 TGGAGGTGGAAAAGGTGGAGGCATAGGAGGT
10415433 AGAGTTGGAG
Statistics
Matches: 81, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
54 31 0.38
57 49 0.60
58 1 0.01
ACGTcount: A:0.21, C:0.06, G:0.52, T:0.21
Consensus pattern (54 bp):
TGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAACTGGTGCTGGCGGTGGTGG
Found at i:10415459 original size:6 final size:6
Alignment explanation
Indices: 10415427--10415609 Score: 53
Period size: 6 Copynumber: 29.5 Consensus size: 6
10415417 TGGAGGCATA
* * * * * * * *
10415427 GGAGGT AGAGTT GGAGGT GGTGGT GGAGTT GGAGGC GGTGCT GGTGGT
1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT
*** *
10415475 GGTTTT GGAGGT GGAAAAGGT GGAGGGAT AGGAGGT GGAGCT GGAGGT
1 GGAGGT GGAGGT GG---AGGT GGA-GG-T -GGAGGT GGAGGT GGAGGT
* * * * * * * *
10415523 GGTGTT GGAGGT GGAGGT GG-GGT CGGTGGT GGCGTT GGAGGC GGTGCT
1 GGAGGT GGAGGT GGAGGT GGAGGT -GGAGGT GGAGGT GGAGGT GGAGGT
* *** * * *
10415571 GGTGGT GGTTTT GGAGGT GGAGCT GGTGGT GGTGGT GGA
1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGA
10415610 AAAGGTGGAG
Statistics
Matches: 127, Mismatches: 42, Indels: 16
0.69 0.23 0.09
Matches are distributed among these distances:
5 3 0.02
6 106 0.83
7 6 0.05
8 3 0.02
9 9 0.07
ACGTcount: A:0.13, C:0.04, G:0.58, T:0.25
Consensus pattern (6 bp):
GGAGGT
Found at i:10415471 original size:24 final size:24
Alignment explanation
Indices: 10415444--10415683 Score: 106
Period size: 24 Copynumber: 9.8 Consensus size: 24
10415434 GAGTTGGAGG
*
10415444 TGGTGGTGGAGTTGGAGGCGGTGC
1 TGGTGGTGGTGTTGGAGGCGGTGC
* * ***
10415468 TGGTGGTGGTTTTGGAGGTGGAAA
1 TGGTGGTGGTGTTGGAGGCGGTGC
* * * * *
10415492 AGGTGGAGG-GATAGGAGGTGGAGC
1 TGGTGGTGGTG-TTGGAGGCGGTGC
* * *
10415516 TGGAGGTGGTGTTGGAGGTGGAGGTGGGG
1 TGGTGGTGGTGTTGGA---GGCGGT--GC
*
10415545 TCGGTGGTGGCGTTGGAGGCGGTGC
1 T-GGTGGTGGTGTTGGAGGCGGTGC
* * *
10415570 TGGTGGTGGTTTTGGAGGTGGAGC
1 TGGTGGTGGTGTTGGAGGCGGTGC
* *** *
10415594 TGGTGGTGGTGGTGGAAAAGGTGG
1 TGGTGGTGGTGTTGGAGGCGGTGC
* * * * **
10415618 AGGT-ATAGGAGGTGGAGTTGGTGC
1 TGGTGGT-GGTGTTGGAGGCGGTGC
* *
10415642 CGGTGGTGGTGTTGGAGGCGGTGT
1 TGGTGGTGGTGTTGGAGGCGGTGC
*
10415666 TGGTGGTGGTTTTGGAGG
1 TGGTGGTGGTGTTGGAGG
10415684 TGGAAAAGGT
Statistics
Matches: 156, Mismatches: 50, Indels: 20
0.69 0.22 0.09
Matches are distributed among these distances:
23 1 0.01
24 127 0.81
25 4 0.03
27 9 0.06
29 2 0.01
30 13 0.08
ACGTcount: A:0.12, C:0.05, G:0.57, T:0.27
Consensus pattern (24 bp):
TGGTGGTGGTGTTGGAGGCGGTGC
Found at i:10415497 original size:48 final size:48
Alignment explanation
Indices: 10415445--10415695 Score: 164
Period size: 48 Copynumber: 5.1 Consensus size: 48
10415435 AGTTGGAGGT
* *
10415445 GGTGGTGGAGTTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAA
1 GGTGGTGGTGTTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAGAA
* * * * * * **
10415493 GGTGGAGG-GATAGGAGGTGGAGCTGGAGGTGGTGTTGGAGGTGGAGGTGG
1 GGTGGTGGTG-TTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGA-G-AA
**
10415543 GGTCGGTGGTGGCGTTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAGCT
1 GGT-GGTGGT---GTTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAGAA
* *** ** * *** * * **
10415595 GGTGGTGGTGGTGGAAAAGGTGGAGGT-ATAGGAGGTGGAGTTGGTGCC
1 GGTGGTGGTGTTGGAGGCGGTGCTGGTGGT-GGTTTTGGAGGTGGAGAA
* *
10415643 GGTGGTGGTGTTGGAGGCGGTGTTGGTGGTGGTTTTGGAGGTGGAAAA
1 GGTGGTGGTGTTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAGAA
10415691 GGTGG
1 GGTGG
10415696 AGGCATAGGA
Statistics
Matches: 148, Mismatches: 45, Indels: 20
0.69 0.21 0.09
Matches are distributed among these distances:
47 2 0.01
48 97 0.66
49 1 0.01
50 3 0.02
51 10 0.07
52 3 0.02
53 1 0.01
54 30 0.20
55 1 0.01
ACGTcount: A:0.13, C:0.04, G:0.57, T:0.26
Consensus pattern (48 bp):
GGTGGTGGTGTTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAGAA
Found at i:10415647 original size:30 final size:30
Alignment explanation
Indices: 10415613--10415670 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
10415603 TGGTGGAAAA
*
10415613 GGTGGAGGTATAGGAGGTGGAGTTGGTGCC
1 GGTGGAGGTATAGGAGGCGGAGTTGGTGCC
* * * *
10415643 GGTGGTGGTGTTGGAGGCGGTGTTGGTG
1 GGTGGAGGTATAGGAGGCGGAGTTGGTG
10415671 GTGGTTTTGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.10, C:0.05, G:0.57, T:0.28
Consensus pattern (30 bp):
GGTGGAGGTATAGGAGGCGGAGTTGGTGCC
Found at i:10415655 original size:18 final size:18
Alignment explanation
Indices: 10415628--10415675 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
10415618 AGGTATAGGA
*
10415628 GGTGGAGTTGGTGCCGGT
1 GGTGGTGTTGGTGCCGGT
* *
10415646 GGTGGTGTTGGAGGCGGT
1 GGTGGTGTTGGTGCCGGT
* *
10415664 GTTGGTGGTGGT
1 GGTGGTGTTGGT
10415676 TTTGGAGGTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.04, C:0.06, G:0.58, T:0.31
Consensus pattern (18 bp):
GGTGGTGTTGGTGCCGGT
Found at i:10415685 original size:12 final size:12
Alignment explanation
Indices: 10415646--10415686 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
10415636 TGGTGCCGGT
10415646 GGTGGTGTTGGA
1 GGTGGTGTTGGA
* *
10415658 GGCGGTGTTGGT
1 GGTGGTGTTGGA
*
10415670 GGTGGTTTTGGA
1 GGTGGTGTTGGA
10415682 GGTGG
1 GGTGG
10415687 AAAAGGTGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.05, C:0.02, G:0.59, T:0.34
Consensus pattern (12 bp):
GGTGGTGTTGGA
Found at i:10415728 original size:150 final size:150
Alignment explanation
Indices: 10415135--10415940 Score: 481
Period size: 150 Copynumber: 5.2 Consensus size: 150
10415125 GAGGTGGAGC
10415135 TGGTGGTGGAAAAGGTGGAGGTATAGGAGGTGGAGTTGGTGCCGGTGGTGGTGTTGGAGGCGGTG
1 TGGTGGTGGAAAAGGTGGAGGTATAGGAGGTGGAGTTGGTGCCGGTGGTGGTGTTGGAGGCGGTG
* * * * *
10415200 TTGGTGGTGGTTTTGAAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGTTGGTGTTGGTGGTGGC
66 CTGGTGGTGGTGTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCTGGTGGTGGC
* * *
10415265 GCTGGAGGCGGTGTTGGTGG
131 GCTGGAGGTGGAGCTGGTGG
* * *
10415285 TGGCGCTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGTCGGTGGTGGTGGTTTTG
1 T-G-G-T---GGTGGAAAAGGTGGAGGTATAGGAGGTGGAGTTGGTGCCGGTGGTGGT-G--TTG
* **** * ** * ** ** * * * * ****
10415350 GAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAACTGGTGCTGGCGTTGGTGGTGGAGGTGGAAAA
57 GAGGCGGTGCTGGTGGTGGTGTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCT
* * * * *
10415415 GGTGGAGGC-ATAGGAGGTAGAGTTGGAGG
122 GGTGGTGGCGCT-GGAGGTGGAGCTGGTGG
*** * * * * ** ** * *
10415444 TGGTGGTGGAGTTGGAGGCGGTGCT-GGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGG-GATAGG
1 TGGTGGTGGAAAAGGTGGAGGT-ATAGGAGGTGGAGTT---GGT-G--CCGGTGGTGGTG-TTGG
* * * * *
10415507 AGGTGGAGCTGGAGGTGGTGTTGGAGGTGG---AGGTGG-GGTCGGT-GGTGGCGTTGGAGGC-G
58 AGGCGGTGCTGGTGGTGGTGTTGGAGGTGGAAAAGGTGGAGG-C-ATAGG-AG-G-TGGA-GCTG
***
10415566 GTGCTGGTGGTGGTTTTGGAGGTGGAGCTGGTGG
117 GTGCTGGTGGTGGCGCTGGAGGTGGAGCTGGTGG
10415600 TGGTGGTGGAAAAGGTGGAGGTATAGGAGGTGGAGTTGGTGCCGGTGGTGGTGTTGGAGGCGGTG
1 TGGTGGTGGAAAAGGTGGAGGTATAGGAGGTGGAGTTGGTGCCGGTGGTGGTGTTGGAGGCGGTG
* * * *
10415665 TTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGTTGGTGGTGGT
66 CTGGTGGTGGTGTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCTGGTGGTGGC
** *
10415730 GCTGGAAGCAGTGCTGGTGGTGG
131 GCTGG-AG--GTGGAGCTGGTGG
* * * ** *
10415753 TTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGAAACTGGTG-C-----TGGCGTTGGAGGCG
1 ---TGGTGGTGGAAAAGGTGGAGGTATAGGAGGTGGAGTTGGTGCCGGTGGTGGTGTTGGAGGCG
* * *
10415812 GTGCTGGTGGTGGTGGTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGAGGTGGTGGT
63 GTGCTGGTGGTGGTGTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCTGGTGGT
* * *
10415877 GGCGCTGGGGGCGGTGCTGGTGG
128 GGCGCTGGAGGTGGAGCTGGTGG
*
10415900 TGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
1 TGG---T---GGTGGAAAAGGTGGAGGTATAGGAGGTGGAG
10415941 CTGAAGGTGA
Statistics
Matches: 497, Mismatches: 115, Indels: 88
0.71 0.16 0.13
Matches are distributed among these distances:
144 3 0.01
147 10 0.02
149 3 0.01
150 165 0.33
151 5 0.01
152 6 0.01
153 50 0.10
154 6 0.01
155 3 0.01
156 163 0.33
157 6 0.01
158 2 0.00
159 75 0.15
ACGTcount: A:0.16, C:0.06, G:0.54, T:0.24
Consensus pattern (150 bp):
TGGTGGTGGAAAAGGTGGAGGTATAGGAGGTGGAGTTGGTGCCGGTGGTGGTGTTGGAGGCGGTG
CTGGTGGTGGTGTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGCTGGTGGTGGC
GCTGGAGGTGGAGCTGGTGG
Found at i:10415910 original size:48 final size:48
Alignment explanation
Indices: 10415886--10416107 Score: 214
Period size: 48 Copynumber: 4.6 Consensus size: 48
10415876 TGGCGCTGGG
10415886 GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
1 GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
* * ** **** **** * *
10415934 GGTGGAGCTGAAGGTGAAGGTGG-GGTCGGTGGTGGTGGTGGCGCT-GGA
1 GGCGGTGCTGGTGGTGGTTTTGGAGGT-GGAAAAGGTGGAGG-GATAGGA
10415982 GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
1 GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
* * *
10416030 GGAGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGCGGAGGTATAGGA
1 GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
* * * **
10416078 GGTGGAGTTGGTGGTGGTGCTGGAGGTGGA
1 GGCGGTGCTGGTGGTGGTTTTGGAGGTGGA
10416108 CTTGGTGGTG
Statistics
Matches: 134, Mismatches: 36, Indels: 8
0.75 0.20 0.04
Matches are distributed among these distances:
47 5 0.04
48 124 0.93
49 5 0.04
ACGTcount: A:0.17, C:0.05, G:0.55, T:0.23
Consensus pattern (48 bp):
GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
Found at i:10415964 original size:150 final size:150
Alignment explanation
Indices: 10415654--10415983 Score: 455
Period size: 150 Copynumber: 2.2 Consensus size: 150
10415644 GTGGTGGTGT
* ** *
10415654 TGGAGGCGGTGTTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTG
1 TGGAGGCGGTGCTGGTGGTGGTGCTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGAG
* *
10415719 TTGGTGGTGGTGCTGGAAGCAGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGA
66 GTGGTGGTGGCGCTGGAAGCAGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGA
** ** *
10415784 GGTGAAACTGGTGCTGGCGT
131 GGTGAAACTGAAGCTGAAGG
*
10415804 TGGAGGCGGTGCTGGTGGTGGTGGTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGAG
1 TGGAGGCGGTGCTGGTGGTGGTGCTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGAG
** * *
10415869 GTGGTGGTGGCGCTGGGGGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGA
66 GTGGTGGTGGCGCTGGAAGCAGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGA
* * *
10415934 GGTGGAGCTGAAGGTGAAGG
131 GGTGAAACTGAAGCTGAAGG
* *
10415954 TGG-GGTCGGTGGTGGTGGTGGCGCTGGAGG
1 TGGAGG-CGGTGCTGGTGGTGGTGCTGGAGG
10415984 CGGTGCTGGT
Statistics
Matches: 158, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
149 2 0.01
150 156 0.99
ACGTcount: A:0.16, C:0.07, G:0.55, T:0.23
Consensus pattern (150 bp):
TGGAGGCGGTGCTGGTGGTGGTGCTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGAG
GTGGTGGTGGCGCTGGAAGCAGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGA
GGTGAAACTGAAGCTGAAGG
Found at i:10415970 original size:72 final size:71
Alignment explanation
Indices: 10415658--10416094 Score: 349
Period size: 72 Copynumber: 5.9 Consensus size: 71
10415648 TGGTGTTGGA
* *
10415658 GGCGGTGTTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGTTGG
1 GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGC---TGATGG
*
10415723 TGGTGGTGCTG
63 TGGAGGTG--G
* * * * *
10415734 GAAGCAGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGAAACTGGTGCT
1 G--GCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGATGGT
* *
10415799 GGCGTTGG
64 GGAGGTGG
**
10415807 AGGCGGTGCTGGTGGTGGTGGTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGAGGTG
1 -GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCT-GA--TG
*
10415872 GTGGTGGCGCTGGG
62 GTGG-AG-G-T-GG
* * *
10415886 GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGAAGGTGA
1 GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGATGGTGG
10415951 AGGTGG
66 AGGTGG
* *** * **** * ** * * *
10415957 GGTCGGTGGTGGTGGTGGCGCTGGAGGCGGTGCTGGTGGTGGTTTTGGAGGTGGA---AAAGGTG
1 GG-CGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGATGGTG
10416019 GAGGGATAGG
65 GA-GG-T-GG
* * * * *
10416029 AGGAGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGCGGAGGTATAGGAGGTGGAGTTGGTGGTG
1 -GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGATGGTG
10416094 G
65 G
10416095 TGCTGGAGGT
Statistics
Matches: 288, Mismatches: 55, Indels: 37
0.76 0.14 0.10
Matches are distributed among these distances:
69 7 0.02
70 2 0.01
71 5 0.02
72 131 0.45
73 5 0.02
74 2 0.01
75 24 0.08
76 2 0.01
77 2 0.01
78 106 0.37
79 2 0.01
ACGTcount: A:0.16, C:0.06, G:0.54, T:0.23
Consensus pattern (71 bp):
GGCGGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGATGGTGG
AGGTGG
Found at i:10416005 original size:24 final size:24
Alignment explanation
Indices: 10415960--10416055 Score: 66
Period size: 24 Copynumber: 4.0 Consensus size: 24
10415950 AAGGTGGGGT
* ***
10415960 CGGTGGTGGTGGTGGCGCTGGAGG
1 CGGTGCTGGTGGTGGTTTTGGAGG
10415984 CGGTGCTGGTGGTGGTTTTGGAGG
1 CGGTGCTGGTGGTGGTTTTGGAGG
* **** * ** *
10416008 TGGAAAAGGTGGAGGGATAGGAGG
1 CGGTGCTGGTGGTGGTTTTGGAGG
*
10416032 AGGTGCTGGTGGTGGTTTTGGAGG
1 CGGTGCTGGTGGTGGTTTTGGAGG
10416056 TGGAAAAGGC
Statistics
Matches: 50, Mismatches: 22, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.12, C:0.06, G:0.56, T:0.25
Consensus pattern (24 bp):
CGGTGCTGGTGGTGGTTTTGGAGG
Found at i:10418059 original size:27 final size:27
Alignment explanation
Indices: 10418015--10418077 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
10418005 GTAGTTTACC
* * *
10418015 TTTATTTTAAATATTTTAATAATTAAAT
1 TTTA-TTTAAATATTTTAAAAACTAAAA
10418043 TTTATTTAGAATA-TTTAAAAACTAAAA
1 TTTATTTA-AATATTTTAAAAACTAAAA
10418070 TTTATTTA
1 TTTATTTA
10418078 TTAATTAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TTTATTTAAATATTTTAAAAACTAAAA
Found at i:10418758 original size:23 final size:23
Alignment explanation
Indices: 10418732--10418776 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10418722 TTTTTCGAAT
**
10418732 TTCGAATTACTCGAATCGAGTTA
1 TTCGAATTAAACGAATCGAGTTA
*
10418755 TTCGAGTTAAACGAATCGAGTT
1 TTCGAATTAAACGAATCGAGTT
10418777 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (23 bp):
TTCGAATTAAACGAATCGAGTTA
Found at i:10419076 original size:42 final size:42
Alignment explanation
Indices: 10419016--10419112 Score: 167
Period size: 42 Copynumber: 2.3 Consensus size: 42
10419006 CCAAATATTT
* *
10419016 TTAAACCTAAATATAATTTCATTCTTCAAAAATACTCATAAA
1 TTAAACCCAAATAGAATTTCATTCTTCAAAAATACTCATAAA
10419058 TTAAACCCAAATAGAATTTCATTCTTCAAAAATACTCATAAA
1 TTAAACCCAAATAGAATTTCATTCTTCAAAAATACTCATAAA
*
10419100 CTAAACCCAAATA
1 TTAAACCCAAATA
10419113 TTTTTAAACC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.31
Consensus pattern (42 bp):
TTAAACCCAAATAGAATTTCATTCTTCAAAAATACTCATAAA
Found at i:10419551 original size:52 final size:52
Alignment explanation
Indices: 10419455--10419556 Score: 125
Period size: 52 Copynumber: 2.0 Consensus size: 52
10419445 TGTATTTTGG
* **
10419455 ACTTTTGTTTATGTTTTTTTATAATCTTATTATGTTATTGTTG-TTACTTGA
1 ACTTTTGCTTATGTTTTTTTATAATCTTATTATGTTATCATTGTTTACTTGA
* * * *
10419506 ACTTTTGCTTATTTTTTTATTATAATCTTGTTGTGTTGTCATTGTTTACTT
1 ACTTTTGCTTATGTTTTT-TTATAATCTTATTATGTTATCATTGTTTACTT
10419557 AGATTTTTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 16 0.38
52 20 0.48
53 6 0.14
ACGTcount: A:0.18, C:0.08, G:0.12, T:0.63
Consensus pattern (52 bp):
ACTTTTGCTTATGTTTTTTTATAATCTTATTATGTTATCATTGTTTACTTGA
Found at i:10419811 original size:5 final size:5
Alignment explanation
Indices: 10419801--10419829 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10419791 AAAATTTTTC
10419801 ATTCG ATTCG ATTCG ATTCG ATTCG ATTC
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTC
10419830 AATTGAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:10422111 original size:29 final size:30
Alignment explanation
Indices: 10422071--10422408 Score: 184
Period size: 30 Copynumber: 11.5 Consensus size: 30
10422061 ACCCGGGGAC
*
10422071 AAAATGGTAATTTT-AGTGTAATCGGGATTA
1 AAAATGGTAATTTTAAGTG-AATCGGGGTTA
** * *
10422101 AAAATGG-AATTTTAAAAGATTCGGGGGT-
1 AAAATGGTAATTTTAAGTGAATCGGGGTTA
**
10422129 AAAATGGTAATTTTCGGTGAAATCGGGGTTA
1 AAAATGGTAATTTTAAGTG-AATCGGGGTTA
* **
10422160 AAAATGG-AATTTT-AGAAGCTTCGAGGG-T-
1 AAAATGGTAATTTTAAG-TGAATCG-GGGTTA
**
10422188 AAAATGGTAATTTTCGGTGAAATCGGGGTTA
1 AAAATGGTAATTTTAAGTG-AATCGGGGTTA
* * ** *
10422219 AAAA-CGAAATTTTAAAAGATTCGGCGG-T-
1 AAAATGGTAATTTTAAGTGAATCGG-GGTTA
**
10422247 AAAATGGTAATTTTCGGTGAAATCGGGGTTA
1 AAAATGGTAATTTTAAGTG-AATCGGGGTTA
** ** *
10422278 AAAATGG-AATTTTAAAAGCTTCGGGGGT-
1 AAAATGGTAATTTTAAGTGAATCGGGGTTA
**
10422306 AAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGGTAATTTTAAGTG-AATCGGGGTTA
** * *
10422337 AAAATGG-AATTTTAAAAGATTCGGGGGT-
1 AAAATGGTAATTTTAAGTGAATCGGGGTTA
** * *
10422365 AAAATGGTAATTTTCGGTAAAATTGGGGTTA
1 AAAATGGTAATTTTAAGT-GAATCGGGGTTA
10422396 AAAAT-GTAATTTT
1 AAAATGGTAATTTT
10422409 GGAAAAGTTT
Statistics
Matches: 225, Mismatches: 61, Indels: 44
0.68 0.18 0.13
Matches are distributed among these distances:
28 32 0.14
29 79 0.35
30 84 0.37
31 30 0.13
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (30 bp):
AAAATGGTAATTTTAAGTGAATCGGGGTTA
Found at i:10422168 original size:59 final size:59
Alignment explanation
Indices: 10422071--10422408 Score: 543
Period size: 59 Copynumber: 5.7 Consensus size: 59
10422061 ACCCGGGGAC
* * *
10422071 AAAATGGTAATTTT-AGTGTAATCGGGATTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* * *
10422129 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* * *
10422188 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGAAATTTTAAAAGATTCGGCGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
*
10422247 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGCTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
*
10422306 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* * *
10422365 AAAATGGTAATTTTCGGTAAAATTGGGGTTAAAAATGTAATTTT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT
10422409 GGAAAAGTTT
Statistics
Matches: 257, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
58 14 0.05
59 243 0.95
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
Found at i:10422460 original size:60 final size:60
Alignment explanation
Indices: 10422135--10422498 Score: 186
Period size: 59 Copynumber: 6.1 Consensus size: 60
10422125 GGGTAAAATG
* * * * ** * *
10422135 GTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT-AG-AAGCTTCGAGGGT-AAAATG
1 GTAATTTTCGGTAAAATTGGGGTTAAAAATGTAATTTTGGGAAAATTTTG-GGGTCAAAA-C
* * * * * * *
10422194 GTAATTTTCGGTGAAATCGGGGTTAAAAACGAAATTTT---AAAAGATTCGGCGGT-AAAATG
1 GTAATTTTCGGTAAAATTGGGGTTAAAAATGTAATTTTGGGAAAA-TTTTGG-GGTCAAAA-C
* * * ** *
10422253 GTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT---AAAAGCTTCGGGGGT-AAAATG
1 GTAATTTTCGGTAAAATTGGGGTTAAAAATGTAATTTTGGGAAAA--TTTTGGGGTCAAAA-C
* * * * * ** *
10422312 GTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTT--AAAAGATTCGGGGGT-AAAATG
1 GTAATTTTCGGTAAAATTGGGGTTAAAAATGTAATTTTGGGAAA-ATTTTGGGGTCAAAA-C
10422371 GTAATTTTCGGTAAAATTGGGGTTAAAAATGTAATTTT-GGAAAAGTTTTGGGGTCAAAAC
1 GTAATTTTCGGTAAAATTGGGGTTAAAAATGTAATTTTGGGAAAA-TTTTGGGGTCAAAAC
* * * * *
10422431 GTAATTTT-GGTAAAGTTTCGGGG-TCAAAATGTAGTTTTGGGAAAATTTTGGGGTTAAAAT
1 GTAATTTTCGGTAAA-ATT-GGGGTTAAAAATGTAATTTTGGGAAAATTTTGGGGTCAAAAC
10422491 GTAATTTT
1 GTAATTTT
10422499 TGGACAATTT
Statistics
Matches: 269, Mismatches: 24, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
58 3 0.01
59 191 0.71
60 60 0.22
61 15 0.06
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.33
Consensus pattern (60 bp):
GTAATTTTCGGTAAAATTGGGGTTAAAAATGTAATTTTGGGAAAATTTTGGGGTCAAAAC
Found at i:10422508 original size:30 final size:30
Alignment explanation
Indices: 10422387--10422498 Score: 145
Period size: 30 Copynumber: 3.7 Consensus size: 30
10422377 TTCGGTAAAA
*
10422387 TTGGGGTTAAAAATGTAATTTTGGAAAAGTT
1 TTGGGG-TCAAAATGTAATTTTGGAAAAGTT
* *
10422418 TTGGGGTCAAAACGTAATTTTGGTAAAGTT
1 TTGGGGTCAAAATGTAATTTTGGAAAAGTT
* *
10422448 TCGGGGTCAAAATGTAGTTTTGGGAAAA-TT
1 TTGGGGTCAAAATGTAATTTT-GGAAAAGTT
*
10422478 TTGGGGTTAAAATGTAATTTT
1 TTGGGGTCAAAATGTAATTTT
10422499 TGGACAATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
30 59 0.84
31 11 0.16
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (30 bp):
TTGGGGTCAAAATGTAATTTTGGAAAAGTT
Found at i:10422820 original size:162 final size:162
Alignment explanation
Indices: 10422595--10422907 Score: 495
Period size: 162 Copynumber: 1.9 Consensus size: 162
10422585 ATTTGAAAAT
* *
10422595 CTTGAAAAATTTTTGGACCAATTTTGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACA
1 CTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACA
* *
10422660 AATTAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGACACGTGGCAACCTCTGGT
66 AATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAG-TGACACGTGGCAACCTATGGT
*
10422725 GCAGTCAAACAGTCAAAGGACTGGTTTATAAAC
130 ACAGTCAAACAGTCAAAGGACTGGTTTATAAAC
* * *
10422758 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAA-ATAAAGTTGATTT-GGGATTAAATTAAAAC
1 CTTGAAAAATTATTGGACCAATTTCGTAATTAAATA-AAAGTCGATTTAAGGATTAAATTAAAAC
* * *
10422821 AAATAAAAAATAAAAAGGACTAAATGCAGAAATGATCCAAAAAGTGACACGTGGCAATCTATGGT
65 AAATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGTGACACGTGGCAACCTATGGT
10422886 ACAGTCAAACAGTCAAAGGACT
130 ACAGTCAAACAGTCAAAGGACT
10422908 AAATTATAAA
Statistics
Matches: 138, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
161 40 0.29
162 57 0.41
163 41 0.30
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.25
Consensus pattern (162 bp):
CTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACA
AATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGTGACACGTGGCAACCTATGGTA
CAGTCAAACAGTCAAAGGACTGGTTTATAAAC
Found at i:10422974 original size:162 final size:161
Alignment explanation
Indices: 10422642--10422991 Score: 393
Period size: 162 Copynumber: 2.2 Consensus size: 161
10422632 AAGTCGATTT
*
10422642 AAGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGA
1 AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGA
* * *** **
10422707 CACGTGGCAACCTCTGGTGCAGTCAAACAGTCAAAGGACTGGTTTATAAACCTTGAAAAATTATT
66 CACGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACCTT-AAAAATTACA
* * * * * **
10422772 GGGCCAATTTCGTAATTAAAATAAAGTTGATT
130 GGGCAAAATTCGCAAATAAAATAAAGGTGAAA
** * *
10422804 TGGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCAGAAATGATCCAAAAAG-TGA
1 AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGA
*
10422868 CACGTGGCAATCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACCAATT-AAAATTAC
66 CACGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACC--TTAAAAATTAC
* *
10422932 AGGGTAAAATT-GCAAAT-AATTGAAAGAGTGCAAA
129 AGGGCAAAATTCGCAAATAAAAT-AAAG-GTG-AAA
* **
10422966 AAGGATTAAATTGAAGTAAATAAAAA
1 AAGGATTAAATTAAAACAAATAAAAA
10422992 TGCGAAAGGA
Statistics
Matches: 156, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
159 3 0.02
160 8 0.05
161 65 0.42
162 78 0.50
163 2 0.01
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.23
Consensus pattern (161 bp):
AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGA
CACGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACCTTAAAAATTACAG
GGCAAAATTCGCAAATAAAATAAAGGTGAAA
Found at i:10424392 original size:14 final size:14
Alignment explanation
Indices: 10424373--10424405 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10424363 GGCCGAAAAA
*
10424373 TGGGCCTTTGTAAT
1 TGGGCCATTGTAAT
10424387 TGGGCCATTGTAAT
1 TGGGCCATTGTAAT
10424401 TGGGC
1 TGGGC
10424406 TGTGGGCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.36
Consensus pattern (14 bp):
TGGGCCATTGTAAT
Found at i:10424500 original size:31 final size:31
Alignment explanation
Indices: 10424465--10424527 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
10424455 TTTTAATTTT
* *
10424465 TATTTAAATTTAAATTCAAATTAAATTTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
* *
10424496 TATTTAATTTTAAATTTAAAATAAATCTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
10424527 T
1 T
10424528 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
TATTTAAATTTAAATTCAAAATAAATCTAAA
Found at i:10424515 original size:6 final size:6
Alignment explanation
Indices: 10424435--10424533 Score: 85
Period size: 6 Copynumber: 16.2 Consensus size: 6
10424425 CATTTGGACT
* ** *
10424435 TTTAAA TGTTAAA TTTAATA TTTTAA TTTTTA TTTAAA TTTAAA TTCAAA
1 TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
10424485 -TTAAA TTTAAATA TTTAAT TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
10424533 T
1 T
10424534 AAATATAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
5 8 0.11
6 49 0.64
7 15 0.20
8 4 0.05
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:10424528 original size:42 final size:43
Alignment explanation
Indices: 10424438--10424533 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 43
10424428 TTGGACTTTT
* *
10424438 AAATGTTAAATTTAATATTTTAATTTTTATTTAAATTTAAATTC
1 AAAT-TTAAATTTAATATTTTAATTTTAATTTAAATATAAATTC
10424482 AAA-TTAAATTTAA-ATATTTAATTTTAAATTTAAA-ATAAA-TC
1 AAATTTAAATTTAATAT-TTTAATTTT-AATTTAAATATAAATTC
10424523 TAAATTTAAAT
1 -AAATTTAAAT
10424534 AAATATAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
41 4 0.09
42 26 0.57
43 13 0.28
44 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (43 bp):
AAATTTAAATTTAATATTTTAATTTTAATTTAAATATAAATTC
Found at i:10424544 original size:17 final size:17
Alignment explanation
Indices: 10424469--10424542 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
10424459 AATTTTTATT
*
10424469 TAAATTTAAATTCAAAT-
1 TAAATTTAAAAT-AAATA
* *
10424486 TAAATTTAAATATTTAATTT
1 TAAATTTAAA-A--TAAATA
*
10424506 TAAATTTAAAATAAATC
1 TAAATTTAAAATAAATA
10424523 TAAATTT-AAATAAATA
1 TAAATTTAAAATAAATA
10424539 TAAA
1 TAAA
10424543 ATCAATTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.25
17 21 0.44
19 4 0.08
20 11 0.23
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTTAAAATAAATA
Found at i:10425263 original size:35 final size:36
Alignment explanation
Indices: 10425189--10425269 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
10425179 GGGGCAATAC
10425189 TATATTTAATTGAAGAAAAATATTTTTTAACACGTT
1 TATATTTAATTGAAGAAAAATATTTTTTAACACGTT
10425225 TATATTTAATTGAAGAAAAATATTTTTTAACACG-T
1 TATATTTAATTGAAGAAAAATATTTTTTAACACGTT
*
10425260 TATATCTAAT
1 TATATTTAAT
10425270 CTATCTATGT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 10 0.23
36 34 0.77
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.44
Consensus pattern (36 bp):
TATATTTAATTGAAGAAAAATATTTTTTAACACGTT
Found at i:10430949 original size:26 final size:27
Alignment explanation
Indices: 10430909--10430963 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
10430899 ATAGTATACT
*
10430909 AATTTATTAATATTTT-AAATTAA-AA
1 AATTTATTAAAATTTTAAAATTAAGAA
10430934 AATTTATTTAAAATTTTAAAATTAAGAA
1 AATTTA-TTAAAATTTTAAAATTAAGAA
10430962 AA
1 AA
10430964 AAAAAAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 6 0.23
26 9 0.35
27 7 0.27
28 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTATTAAAATTTTAAAATTAAGAA
Found at i:10436409 original size:21 final size:19
Alignment explanation
Indices: 10436358--10436411 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 19
10436348 TGATATTACG
10436358 ATTACTTATATTTAAATAAA
1 ATTA-TTATATTTAAATAAA
**
10436378 ATTATTAATATTTATTTACAA
1 ATTATT-ATATTTAAATA-AA
10436399 ATTCATTATATTT
1 ATT-ATTATATTT
10436412 TTATTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 2 0.07
20 13 0.45
21 11 0.38
22 3 0.10
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTATTATATTTAAATAAA
Found at i:10436418 original size:23 final size:21
Alignment explanation
Indices: 10436376--10436418 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
10436366 TATTTAAATA
10436376 AAATTATTAATATTTATTTAC
1 AAATTATTAATATTTATTTAC
*
10436397 AAATTCATTATATTTTTATTTA
1 AAATT-ATTA-ATATTTATTTA
10436419 ATTTAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 10 0.53
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
AAATTATTAATATTTATTTAC
Found at i:10439232 original size:22 final size:22
Alignment explanation
Indices: 10439207--10439252 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10439197 CAGTTTTTTT
10439207 TTTAATTATAAAACTATAAA-AA
1 TTTAATTA-AAAACTATAAATAA
* *
10439229 TTTATTTAAAAATTATAAATAA
1 TTTAATTAAAAACTATAAATAA
10439251 TT
1 TT
10439253 ATAAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAATTAAAAACTATAAATAA
Found at i:10439254 original size:10 final size:9
Alignment explanation
Indices: 10439210--10439260 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
10439200 TTTTTTTTTT
10439210 AATTAT-AA
1 AATTATAAA
*
10439218 AACTATAAA
1 AATTATAAA
10439227 AATTTATTTAAA
1 AA-TTA--TAAA
10439239 AATTATAAA
1 AATTATAAA
10439248 TAATTATAAA
1 -AATTATAAA
10439258 AAT
1 AAT
10439261 ATATTGAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 5 0.14
9 11 0.31
10 11 0.31
11 3 0.08
12 6 0.17
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
AATTATAAA
Found at i:10439421 original size:9 final size:9
Alignment explanation
Indices: 10439397--10439474 Score: 61
Period size: 9 Copynumber: 8.4 Consensus size: 9
10439387 CTAAGTATAT
*
10439397 AAAATTATTT
1 AAAATT-TTA
10439407 AAAATTTTA
1 AAAATTTTA
*
10439416 AAAATTATAA
1 AAAATT-TTA
**
10439426 AAAAAATTA
1 AAAATTTTA
*
10439435 AATAATTTTT
1 AA-AATTTTA
10439445 AAAATTTT-
1 AAAATTTTA
10439453 -AAATTATTA
1 AAAATT-TTA
10439462 AAAATTTTA
1 AAAATTTTA
10439471 AAAA
1 AAAA
10439475 CTATATATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
7 5 0.09
8 2 0.04
9 25 0.45
10 23 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AAAATTTTA
Found at i:10439731 original size:10 final size:10
Alignment explanation
Indices: 10439713--10439738 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10439703 TAATTTTTAA
10439713 ATAATTTTGT
1 ATAATTTTGT
10439723 ATAATTTTGT
1 ATAATTTTGT
10439733 ATAATT
1 ATAATT
10439739 ATTTAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (10 bp):
ATAATTTTGT
Found at i:10439863 original size:11 final size:10
Alignment explanation
Indices: 10439804--10439868 Score: 60
Period size: 10 Copynumber: 6.2 Consensus size: 10
10439794 GAACGTTGTA
10439804 TTTAATAATT
1 TTTAATAATT
*
10439814 TTTAATGATTTT
1 TTTAAT-A-ATT
*
10439826 TTTTATAATT
1 TTTAATAATT
*
10439836 TCTT-ATCATT
1 T-TTAATAATT
10439846 TTTAATAATT
1 TTTAATAATT
10439856 TTTAAATAATT
1 TTT-AATAATT
10439867 TT
1 TT
10439869 CTATAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
9 2 0.04
10 23 0.51
11 13 0.29
12 7 0.16
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTAATAATT
Found at i:10443219 original size:29 final size:30
Alignment explanation
Indices: 10443187--10443271 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 30
10443177 ATTTAATGTG
10443187 TAATTATATATATG-AACTTTAATTTGGTA
1 TAATTATATATATGAAACTTTAATTTGGTA
* * *
10443216 TAATTATATA-CTGAAACTCTAATTGTGGTT
1 TAATTATATATATGAAACTTTAATT-TGGTA
* *
10443246 TAAATATATATTTGAAACTTTAATTT
1 TAATTATATATATGAAACTTTAATTT
10443272 TGATTTAATC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
28 2 0.04
29 19 0.40
30 14 0.30
31 12 0.26
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (30 bp):
TAATTATATATATGAAACTTTAATTTGGTA
Found at i:10443279 original size:31 final size:31
Alignment explanation
Indices: 10443191--10443279 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 31
10443181 AATGTGTAAT
*
10443191 TATATATATG-AACTTTAA-TTTGGTAT-AA
1 TATATATATGAAACTTTAATTTTGGTTTAAA
* *
10443219 T-TATATACTGAAACTCTAATTGTGGTTTAAA
1 TATATATA-TGAAACTTTAATTTTGGTTTAAA
* *
10443250 TATATATTTGAAACTTTAATTTTGATTTAA
1 TATATATATGAAACTTTAATTTTGGTTTAA
10443280 TCATACACAT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
27 6 0.12
28 3 0.06
29 7 0.14
30 6 0.12
31 22 0.45
32 5 0.10
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (31 bp):
TATATATATGAAACTTTAATTTTGGTTTAAA
Found at i:10443763 original size:29 final size:30
Alignment explanation
Indices: 10443716--10443772 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
10443706 AAATTTAATC
*
10443716 AAATCAAAAATTCATGTATACAATTATATA
1 AAATCAAAAATTCAAGTATACAATTATATA
10443746 AAATC-AAAATTCAAGTATACAATTATA
1 AAATCAAAAATTCAAGTATACAATTATA
10443773 AATTAAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (30 bp):
AAATCAAAAATTCAAGTATACAATTATATA
Found at i:10446198 original size:68 final size:68
Alignment explanation
Indices: 10446114--10446251 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
10446104 ATATATATAT
10446114 ATATATATATATTAAGTATGTTGTTAAATGATGTTTGGAATTTATTATTAAATTAAATTATGATT
1 ATATATATATATTAAGTATGTTGTTAAATGATGTTTGGAATTTATTATTAAATTAAATTATGATT
10446179 TAG
66 TAG
10446182 ATATATATATATTAAGTATGTTGTTAAATGATGTTTGGAATTTATTATTAAATTAAATTATGATT
1 ATATATATATATTAAGTATGTTGTTAAATGATGTTTGGAATTTATTATTAAATTAAATTATGATT
10446247 TAG
66 TAG
10446250 AT
1 AT
10446252 CGGGATTTAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (68 bp):
ATATATATATATTAAGTATGTTGTTAAATGATGTTTGGAATTTATTATTAAATTAAATTATGATT
TAG
Found at i:10457146 original size:21 final size:21
Alignment explanation
Indices: 10457073--10457149 Score: 79
Period size: 24 Copynumber: 3.7 Consensus size: 21
10457063 TAAAGTATCA
10457073 ATTT-TTTTTATA-ATT-TAT
1 ATTTATTTTTATATATTATAT
* * *
10457091 ATGTATTTTTTTAGATTATAT
1 ATTTATTTTTATATATTATAT
10457112 ATTTGAATTTTTTATATATTATAT
1 ATTT--A-TTTTTATATATTATAT
10457136 ATTTATTTTTATAT
1 ATTTATTTTTATAT
10457150 TTTTAATGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 3 0.06
19 7 0.15
20 3 0.06
21 15 0.31
22 1 0.02
23 1 0.02
24 18 0.38
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (21 bp):
ATTTATTTTTATATATTATAT
Found at i:10457365 original size:26 final size:26
Alignment explanation
Indices: 10457316--10457365 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
10457306 ATTTGAGTGT
* ** *
10457316 AATTTAAATGCCAATTTGAGAAAAAA
1 AATTTAAATACCAAAGTGAAAAAAAA
10457342 AATTTAAATACCAAAGTGAAAAAA
1 AATTTAAATACCAAAGTGAAAAAA
10457366 CAATAATGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.24
Consensus pattern (26 bp):
AATTTAAATACCAAAGTGAAAAAAAA
Found at i:10457651 original size:33 final size:33
Alignment explanation
Indices: 10457604--10457674 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
10457594 TTATTTTACA
*
10457604 CTAACCATAAATAAACACATGTTAAAACCCACC
1 CTAAACATAAATAAACACATGTTAAAACCCACC
10457637 CTAAACATAAATAAACACATGTTAAAACCCACC
1 CTAAACATAAATAAACACATGTTAAAACCCACC
10457670 CTAAA
1 CTAAA
10457675 AATTTTAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.51, C:0.28, G:0.03, T:0.18
Consensus pattern (33 bp):
CTAAACATAAATAAACACATGTTAAAACCCACC
Found at i:10465502 original size:23 final size:22
Alignment explanation
Indices: 10465476--10465520 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10465466 ATGCGTTTCT
10465476 ATTTTGAT-TATTAATTTATTTTA
1 ATTTT-ATATATTAA-TTATTTTA
*
10465499 ATTTTATATTTTAATTATTTTA
1 ATTTTATATATTAATTATTTTA
10465521 TTATTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTATATATTAATTATTTTA
Found at i:10466713 original size:30 final size:30
Alignment explanation
Indices: 10466673--10466736 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
10466663 CAAATTTTTG
* *
10466673 TTTTTGTTCGTATTATATATGACTTCTAAT
1 TTTTTATTCGTATTATATATAACTTCTAAT
*
10466703 TTTTTATTCGTATTATATCTAACTTCTAAT
1 TTTTTATTCGTATTATATATAACTTCTAAT
10466733 TTTT
1 TTTT
10466737 GTTTTGGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.59
Consensus pattern (30 bp):
TTTTTATTCGTATTATATATAACTTCTAAT
Found at i:10466901 original size:15 final size:15
Alignment explanation
Indices: 10466874--10466934 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 15
10466864 GTTGTTATGT
*
10466874 TATGTATGCTATGAA
1 TATGTATGTTATGAA
*
10466889 TATGTCTGTTATG--
1 TATGTATGTTATGAA
* * *
10466902 TATGTATGTTGTTAT
1 TATGTATGTTATGAA
*
10466917 TATGTTTGTTATGAA
1 TATGTATGTTATGAA
10466932 TAT
1 TAT
10466935 TACTATATGT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
13 10 0.29
15 25 0.71
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.52
Consensus pattern (15 bp):
TATGTATGTTATGAA
Found at i:10466922 original size:24 final size:24
Alignment explanation
Indices: 10466855--10466922 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
10466845 TATTACTAAA
*
10466855 ATGTATGTTGTTGTTATGTTATGT
1 ATGTATGTTGTTATTATGTTATGT
** *
10466879 ATGCTATG--AATATGTCTGTTATGT
1 ATG-TATGTTGTTAT-TATGTTATGT
10466903 ATGTATGTTGTTATTATGTT
1 ATGTATGTTGTTATTATGTT
10466923 TGTTATGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
23 6 0.18
24 20 0.61
25 7 0.21
ACGTcount: A:0.21, C:0.03, G:0.22, T:0.54
Consensus pattern (24 bp):
ATGTATGTTGTTATTATGTTATGT
Found at i:10466926 original size:28 final size:29
Alignment explanation
Indices: 10466865--10466929 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
10466855 ATGTATGTTG
10466865 TTGTTATGTTATGTATGCTATGAATATGT
1 TTGTTATGTTATGTATGCTATGAATATGT
* * * * *
10466894 CTGTTATG-TATGTATGTTGTTATTATGT
1 TTGTTATGTTATGTATGCTATGAATATGT
10466922 TTGTTATG
1 TTGTTATG
10466930 AATATTACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 23 0.77
29 7 0.23
ACGTcount: A:0.20, C:0.03, G:0.22, T:0.55
Consensus pattern (29 bp):
TTGTTATGTTATGTATGCTATGAATATGT
Found at i:10467028 original size:31 final size:31
Alignment explanation
Indices: 10466992--10467053 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
10466982 ATGTCTGTTA
*
10466992 GTATGTTATGTAGTGTATCACTATTATGTAT
1 GTATGTTATGTAGTATATCACTATTATGTAT
* * *
10467023 GTATGTTATGTGGTATATTACTGTTATGTAT
1 GTATGTTATGTAGTATATCACTATTATGTAT
10467054 ATTATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (31 bp):
GTATGTTATGTAGTATATCACTATTATGTAT
Found at i:10468158 original size:29 final size:28
Alignment explanation
Indices: 10468100--10468188 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 28
10468090 TGTATATTAT
*
10468100 TGTTTATGTATGTATATTATGTATGTTA
1 TGTTTATGTATGTATATTATGTATGCTA
*
10468128 TGTTTAT-TATTGTTTATGTATGTATGCTA
1 TGTTTATGTA-TGTATAT-TATGTATGCTA
* * *
10468157 TGTTTAATGTACGGATATTATGTATGTTA
1 TGTTT-ATGTATGTATATTATGTATGCTA
10468186 TGT
1 TGT
10468189 ATATTACTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 2 0.04
28 13 0.25
29 28 0.55
30 6 0.12
31 2 0.04
ACGTcount: A:0.24, C:0.02, G:0.19, T:0.55
Consensus pattern (28 bp):
TGTTTATGTATGTATATTATGTATGCTA
Found at i:10468201 original size:15 final size:15
Alignment explanation
Indices: 10468181--10468224 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
10468171 ATATTATGTA
10468181 TGTTATGTATATTAC
1 TGTTATGTATATTAC
10468196 TGTTATGTGGAATATTAC
1 TGTTATGT---ATATTAC
10468214 TGTTTATGTAT
1 TG-TTATGTAT
10468225 GTATGTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.32
16 2 0.08
18 9 0.36
19 6 0.24
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.52
Consensus pattern (15 bp):
TGTTATGTATATTAC
Found at i:10468226 original size:38 final size:37
Alignment explanation
Indices: 10468093--10468236 Score: 127
Period size: 38 Copynumber: 3.8 Consensus size: 37
10468083 ACAGTTATGT
*
10468093 ATATTATTGTTTATGTATGTATATTATG-TATGTTATGT
1 ATATTATTGTTTATGTATGTATATTATGTTATG-TA-GG
* **
10468131 TTATTATTGTTTATGTATGTATGCTATGTTTAATGTACGG
1 ATATTATTGTTTATGTATGTATATTATG-TT-ATGTA-GG
10468171 ATATTA-TG--TATGTTATGTATATTACTGTTATGT-GG
1 ATATTATTGTTTATG-TATGTATATTA-TGTTATGTAGG
* *
10468206 AATATTACTGTTTATGTATGTATGTTATGTT
1 -ATATTATTGTTTATGTATGTATATTATGTT
10468237 TAGCACTGTT
Statistics
Matches: 88, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
35 2 0.02
36 6 0.07
37 14 0.16
38 46 0.52
39 8 0.09
40 9 0.10
41 3 0.03
ACGTcount: A:0.25, C:0.03, G:0.18, T:0.54
Consensus pattern (37 bp):
ATATTATTGTTTATGTATGTATATTATGTTATGTAGG
Found at i:10470967 original size:30 final size:30
Alignment explanation
Indices: 10470933--10470992 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
10470923 CACAAGTGTT
10470933 CTTTGGTTAGACACAACCCCAAAAGTTGTC
1 CTTTGGTTAGACACAACCCCAAAAGTTGTC
*
10470963 CTTTGGTTGGACACAACCCCAAAAGTTGTC
1 CTTTGGTTAGACACAACCCCAAAAGTTGTC
10470993 AAACTTTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (30 bp):
CTTTGGTTAGACACAACCCCAAAAGTTGTC
Found at i:10472015 original size:13 final size:13
Alignment explanation
Indices: 10471997--10472041 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
10471987 AGACGATTTT
*
10471997 ATTTTGTTGGATA
1 ATTTTGATGGATA
*
10472010 ATTTTGATGGATGT
1 ATTTTGATGGAT-A
*
10472024 ATTTTGATGGACA
1 ATTTTGATGGATA
10472037 ATTTT
1 ATTTT
10472042 ATTATGTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.51
Consensus pattern (13 bp):
ATTTTGATGGATA
Found at i:10472042 original size:45 final size:45
Alignment explanation
Indices: 10471983--10472090 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
10471973 TGTAAACATA
* * * * *
10471983 TGATAGACGATTTTATTTTGTTGGATAATTTTGATGGATGTATTT
1 TGATGGACAATTTTATTATGTTGAATAATTCTGATGGATGTATTT
* *
10472028 TGATGGACAATTTTATTATGTTGAATCATTCTGATGGTTGTATTT
1 TGATGGACAATTTTATTATGTTGAATAATTCTGATGGATGTATTT
10472073 TGATGGACAATTTATATT
1 TGATGGACAATTT-TATT
10472091 GATCCTTTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 51 0.93
46 4 0.07
ACGTcount: A:0.26, C:0.05, G:0.20, T:0.49
Consensus pattern (45 bp):
TGATGGACAATTTTATTATGTTGAATAATTCTGATGGATGTATTT
Found at i:10472919 original size:27 final size:26
Alignment explanation
Indices: 10472879--10472934 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 26
10472869 GAAAGGAAAA
10472879 AAAAATAATGGAT-GAAAAAAAAAGG
1 AAAAATAATGGATGGAAAAAAAAAGG
*
10472904 AAAAATGAATGAGATGGAAAAGAAAAGG
1 AAAAAT-AATG-GATGGAAAAAAAAAGG
10472932 AAA
1 AAA
10472935 GAGAAATAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 6 0.22
26 4 0.15
27 3 0.11
28 14 0.52
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (26 bp):
AAAAATAATGGATGGAAAAAAAAAGG
Found at i:10474078 original size:21 final size:21
Alignment explanation
Indices: 10474054--10474093 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10474044 ATTTTTTTTA
10474054 AAGTTAAAA-GTCAAAACTATC
1 AAGTTAAAAGGT-AAAACTATC
10474075 AAGTTAAAAGGTAAAACTA
1 AAGTTAAAAGGTAAAACTA
10474094 CGTCATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATC
Found at i:10474327 original size:198 final size:194
Alignment explanation
Indices: 10473965--10474350 Score: 657
Period size: 198 Copynumber: 2.0 Consensus size: 194
10473955 TTCACTCGAT
* ** * *
10473965 TCGACCAAACGCTCATCCCTAATTCTAGTTATTTGAAAATCCAAATAAGATTTGGTAAAATTACG
1 TCGACCAAACGCTCATCCCTAATTCTAGTTATCTGAAAATCCAAATAAGATAAGGCAAAACTACG
*
10474030 TTGTTTTGATAAATATTTTTTTTAAAGTTAAAAGTCAAAACTATCAAGTTAAAAGGTAAAACTAC
66 TTGTTTTGATAAATATTTTTTTTAAAGTTAAAAGTCAAAACTATCAAGTTAAAAGGTAAAACAAC
10474095 GTCATTTTGATAAATGTTTACCCATTAGTCTTACTTTCCTT-TCCGAATCGCCCCACTTCCCGAA
131 GTCATTTTGATAAATGTTTACCCATTAGTCTTACTTTCCTTCT-CGAATCGCCCCACTTCCCGAA
10474159 TCGACCAAACGCTCATCCCTAATTCTAGTTATCTGAAAATCCAAATAAGATAAGGCAAAACTACG
1 TCGACCAAACGCTCATCCCTAATTCTAGTTATCTGAAAATCCAAATAAGATAAGGCAAAACTACG
10474224 TTGTTTTGATAAATATTTACTTTTATTAAAGTTAAAAGTCAAAACTATCAAGTTAAAAGGTAAAA
66 TTGTTTTGATAAATA-TT--TTTT-TTAAAGTTAAAAGTCAAAACTATCAAGTTAAAAGGTAAAA
*
10474289 CAACGTCGTTTTGATAAATGTTTACCCATTAGTCTTACTTTCCTTCTCGAATCGCCCCACTT
127 CAACGTCATTTTGATAAATGTTTACCCATTAGTCTTACTTTCCTTCTCGAATCGCCCCACTT
10474351 TCTCTTTTTC
Statistics
Matches: 180, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
194 75 0.42
195 2 0.01
197 4 0.02
198 98 0.54
199 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (194 bp):
TCGACCAAACGCTCATCCCTAATTCTAGTTATCTGAAAATCCAAATAAGATAAGGCAAAACTACG
TTGTTTTGATAAATATTTTTTTTAAAGTTAAAAGTCAAAACTATCAAGTTAAAAGGTAAAACAAC
GTCATTTTGATAAATGTTTACCCATTAGTCTTACTTTCCTTCTCGAATCGCCCCACTTCCCGAA
Found at i:10481643 original size:74 final size:74
Alignment explanation
Indices: 10481522--10481711 Score: 195
Period size: 74 Copynumber: 2.6 Consensus size: 74
10481512 AAGTGAAATT
* * *
10481522 AATAGTGCCTGGTTACCCGTTTGGGTTAAACCTACACATTAAATATCAATTACTCATTCGAGCTA
1 AATAGTGCCTGGTTACCCGTTCGGGTTAAACCTACACATCAAATATCAATTACTCATTCAAGCTA
**
10481587 ATTGTGAAC
66 ATCATGAAC
** * * * * *
10481596 AATAGTGCCTGGTTACTTGTTCGGGTTAAACTTACGCGA-CAAGTATCAATTGCTCGTTCAAGCT
1 AATAGTGCCTGGTTACCCGTTCGGGTTAAACCTACAC-ATCAAATATCAATTACTCATTCAAGCT
10481660 AATCATGAAC
65 AATCATGAAC
** * ** *
10481670 AATAGTGCCTAATTACCTGTGAGGGTT-AACCTACACAACAAA
1 AATAGTGCCTGGTTACCCGTTCGGGTTAAACCTACACATCAAA
10481712 GAGCCTGGCT
Statistics
Matches: 94, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
72 1 0.01
73 10 0.11
74 82 0.87
75 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (74 bp):
AATAGTGCCTGGTTACCCGTTCGGGTTAAACCTACACATCAAATATCAATTACTCATTCAAGCTA
ATCATGAAC
Found at i:10489806 original size:24 final size:24
Alignment explanation
Indices: 10489774--10489821 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
10489764 AATTCTCTTA
10489774 ATACCTAGGGGAGATGAACCCTAG
1 ATACCTAGGGGAGATGAACCCTAG
*
10489798 ATACCTAGGGGAGATGAACTCTAG
1 ATACCTAGGGGAGATGAACCCTAG
10489822 GATGAATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (24 bp):
ATACCTAGGGGAGATGAACCCTAG
Found at i:10495457 original size:22 final size:23
Alignment explanation
Indices: 10495414--10495457 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10495404 ATTTAAACAT
*
10495414 TAATTTTTTTAAATCTATTTATC
1 TAATTATTTTAAATCTATTTATC
*
10495437 TAATTATTTTAAA-GTATTTAT
1 TAATTATTTTAAATCTATTTAT
10495458 TTAAATCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (23 bp):
TAATTATTTTAAATCTATTTATC
Found at i:10496595 original size:22 final size:22
Alignment explanation
Indices: 10496570--10496611 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10496560 TCAATGTCTT
10496570 GACATTGGGAAATGGATGTCGC
1 GACATTGGGAAATGGATGTCGC
* *
10496592 GACATTGGGAAGTGGGTGTC
1 GACATTGGGAAATGGATGTC
10496612 ACGGCACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (22 bp):
GACATTGGGAAATGGATGTCGC
Found at i:10496670 original size:22 final size:22
Alignment explanation
Indices: 10496623--10496678 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
10496613 CGGCACTTTA
* *
10496623 CTGATGTCGTGAAACTGATTTC
1 CTGATGTCGCGAAACTAATTTC
*
10496645 CTGATGTCGCGATACTAATCTT-
1 CTGATGTCGCGAAACTAAT-TTC
*
10496667 CTGATGTGGCGA
1 CTGATGTCGCGA
10496679 CACAAAGAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (22 bp):
CTGATGTCGCGAAACTAATTTC
Found at i:10498102 original size:30 final size:30
Alignment explanation
Indices: 10498068--10498207 Score: 167
Period size: 30 Copynumber: 4.7 Consensus size: 30
10498058 TTCGAGGTTC
* * *
10498068 AAAATGGAGTTTTTGGAAGTTTTAGGGTTA
1 AAAATGTAATTTTTGGAAGTTTTAGGGTCA
* * * *
10498098 AAAATATAATTTTTGAAAG-ATTAGGGGCA
1 AAAATGTAATTTTTGGAAGTTTTAGGGTCA
10498127 AAAATGTAATTTTTGGAAGTTTT-GAGGTCA
1 AAAATGTAATTTTTGGAAGTTTTAG-GGTCA
**
10498157 AAAATGTAATTTTTGGAAGTTTTAATGTCA
1 AAAATGTAATTTTTGGAAGTTTTAGGGTCA
*
10498187 AAAATGTAATCTTTGGAAGTT
1 AAAATGTAATTTTTGGAAGTT
10498208 CAGGGGCAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
29 25 0.27
30 68 0.73
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAGTTTTAGGGTCA
Found at i:10498136 original size:89 final size:90
Alignment explanation
Indices: 10498037--10498218 Score: 217
Period size: 89 Copynumber: 2.0 Consensus size: 90
10498027 ATCCAAGAGT
** * * *
10498037 AAAATGGTAATTTTTATTAGTTTCGAGGTTC-AAAATGGAGTTTTTGGAAGTTTTAGGGTTAAAA
1 AAAATGGTAATTTTTAGAAGTTTCGAGG-TCAAAAATGGAATTTTTGGAAGTTTTAAGGTCAAAA
*
10498101 ATATAATTTTTGAAAGATT-AGGGGCA
65 ATATAATCTTTGAAAG-TTCAGGGGCA
* * * *
10498127 AAAAT-GTAATTTTTGGAAGTTTTGAGGTCAAAAATGTAATTTTTGGAAGTTTTAATGTCAAAAA
1 AAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTTTAAGGTCAAAAA
* *
10498191 TGTAATCTTTGGAAGTTCAGGGGCA
66 TATAATCTTTGAAAGTTCAGGGGCA
10498216 AAA
1 AAA
10498219 TACAATTTCT
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
88 4 0.05
89 69 0.88
90 5 0.06
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (90 bp):
AAAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTTTAAGGTCAAAAA
TATAATCTTTGAAAGTTCAGGGGCA
Found at i:10500078 original size:17 final size:17
Alignment explanation
Indices: 10500058--10500098 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
10500048 AAATTATTCC
10500058 AAATTTATCA-AAATTTT
1 AAATTTATCACAAA-TTT
10500075 AAATTTATCACAAATTT
1 AAATTTATCACAAATTT
10500092 AAATTTA
1 AAATTTA
10500099 AATTTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTTATCACAAATTT
Found at i:10500115 original size:5 final size:6
Alignment explanation
Indices: 10500086--10500120 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
10500076 AATTTATCAC
10500086 AAATTT AAATTT AAATTT AAATTT -AATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
10500121 GCAAACCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:10512731 original size:30 final size:27
Alignment explanation
Indices: 10512664--10512767 Score: 75
Period size: 28 Copynumber: 3.7 Consensus size: 27
10512654 TGGATGCTTG
***
10512664 AGGGTAAAATGGTAATTTTGGACTTTT
1 AGGGTAAAATGGTAATTTTGGAAAGTT
*
10512691 AGGGGCAAAATGGTAATTTTGGGAAAAGTT
1 A-GGGTAAAATGGTAATTTT-GG-AAAGTT
* * * *
10512721 AGGGTTAAAATGAT-ATTTTAGACATTT
1 AGGG-TAAAATGGTAATTTTGGAAAGTT
*
10512748 AGGGCTAAAACGGTAATTTT
1 AGGG-TAAAATGGTAATTTT
10512768 TAGAAAAAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
27 16 0.27
28 23 0.38
29 10 0.17
30 11 0.18
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.35
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTTTGGAAAGTT
Found at i:10512774 original size:57 final size:57
Alignment explanation
Indices: 10512664--10512774 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 57
10512654 TGGATGCTTG
* * * * *
10512664 AGGGTAAAATGGTAATTTTGGACTTTTAGGGGCAAAATGGTAATTTTGGGAAAAGTT
1 AGGGTAAAATGATAATTTTAGACATTTAGGGGCAAAACGGTAATTTTGAGAAAAGTT
*
10512721 AGGGTTAAAATGAT-ATTTTAGACATTTA-GGGCTAAAACGGTAATTTTTAGAAAA
1 AGGG-TAAAATGATAATTTTAGACATTTAGGGGC-AAAACGGTAATTTTGAGAAAA
10512775 AAATCGAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 4 0.09
57 34 0.74
58 8 0.17
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (57 bp):
AGGGTAAAATGATAATTTTAGACATTTAGGGGCAAAACGGTAATTTTGAGAAAAGTT
Found at i:10512887 original size:30 final size:29
Alignment explanation
Indices: 10512815--10512918 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 29
10512805 ATCCGAGGGT
* *
10512815 AAAATGGTAATTTTTATAAGTTTCGAGGTCA
1 AAAAT-GTAATTTTTGTAAATTTC-AGGTCA
*
10512846 AAAATG-GATTTTATGTAAATTTCAGGTTC-
1 AAAATGTAATTTT-TGTAAATTTCAGG-TCA
**
10512875 AAAATGTAATTTTTG-AAAGTTTCAGGGGGA
1 AAAATGTAATTTTTGTAAA-TTTCA-GGTCA
10512905 AAAATGTAATTTTT
1 AAAATGTAATTTTT
10512919 AGAAGTTCGG
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
28 3 0.05
29 21 0.34
30 32 0.52
31 5 0.08
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (29 bp):
AAAATGTAATTTTTGTAAATTTCAGGTCA
Found at i:10512925 original size:30 final size:29
Alignment explanation
Indices: 10512875--10513019 Score: 118
Period size: 30 Copynumber: 4.9 Consensus size: 29
10512865 TTTCAGGTTC
10512875 AAAATGTAATTTTTGAAAGTTTCAGGGGG-A
1 AAAATGTAATTTTTG-AAGTTTC-GGGGGCA
10512905 AAAATGTAATTTTTAGAAG-TTCGGGGGCA
1 AAAATGTAATTTTT-GAAGTTTCGGGGGCA
* * * **
10512934 AAAATGGAATTTTTGGATGTTTCAGGGTAA
1 AAAATGTAATTTTT-GAAGTTTCGGGGGCA
* *
10512964 AAAAT-TGAATTTCTGAAAG-TTCGGGGGTA
1 AAAATGT-AATTTTTG-AAGTTTCGGGGGCA
* *
10512993 AAAATGGAATTTTTGGAAATTTCGGGG
1 AAAATGTAATTTTT-GAAGTTTCGGGG
10513020 CCTATTTACT
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
28 5 0.05
29 41 0.45
30 45 0.49
31 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAATGTAATTTTTGAAGTTTCGGGGGCA
Found at i:10512938 original size:59 final size:59
Alignment explanation
Indices: 10512875--10513019 Score: 172
Period size: 59 Copynumber: 2.5 Consensus size: 59
10512865 TTTCAGGTTC
* * *
10512875 AAAATGTAATTTTTGAAAGTTTCAGGGGGAAAAA-TGTAATTT-TTAGAAGTTCGGGGGCA
1 AAAATGGAATTTTTGAAAGTTTCAGGGGAAAAAATTG-AATTTCTGA-AAGTTCGGGGGCA
* * * *
10512934 AAAATGGAATTTTTGGATGTTTCAGGGTAAAAAATTGAATTTCTGAAAGTTCGGGGGTA
1 AAAATGGAATTTTTGAAAGTTTCAGGGGAAAAAATTGAATTTCTGAAAGTTCGGGGGCA
10512993 AAAATGGAATTTTTGGAAA-TTTC-GGGG
1 AAAATGGAATTTTT-GAAAGTTTCAGGGG
10513020 CCTATTTACT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
58 3 0.04
59 64 0.88
60 6 0.08
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (59 bp):
AAAATGGAATTTTTGAAAGTTTCAGGGGAAAAAATTGAATTTCTGAAAGTTCGGGGGCA
Found at i:10513019 original size:29 final size:29
Alignment explanation
Indices: 10512811--10513019 Score: 131
Period size: 29 Copynumber: 7.1 Consensus size: 29
10512801 AGATATCCGA
** *
10512811 GGGT-AAAATGGTAATTTTTATAAGTTTCG
1 GGGTAAAAATGG-AATTTTTGGAAATTTCG
* * *
10512840 AGGTCAAAAATGG-ATTTTATGTAAATTTCA
1 GGGT-AAAAATGGAATTTT-TGGAAATTTCG
* * *
10512870 GGTTCAAAATGTAATTTTT-GAAAGTTTCAG
1 GGGTAAAAATGGAATTTTTGGAAA-TTTC-G
* * * *
10512900 GGGGAAAAATGTAATTTTTAG-AAGTTCGG
1 GGGTAAAAATGGAATTTTTGGAAATTTC-G
* ** *
10512929 GGGCAAAAATGGAATTTTTGGATGTTTCA
1 GGGTAAAAATGGAATTTTTGGAAATTTCG
* * *
10512958 GGGTAAAAAATTGAATTTCT-GAAAGTTCGG
1 GGGT-AAAAATGGAATTTTTGGAAATTTC-G
10512988 GGGTAAAAATGGAATTTTTGGAAATTTCG
1 GGGTAAAAATGGAATTTTTGGAAATTTCG
10513017 GGG
1 GGG
10513020 CCTATTTACT
Statistics
Matches: 137, Mismatches: 32, Indels: 22
0.72 0.17 0.12
Matches are distributed among these distances:
28 3 0.02
29 66 0.48
30 60 0.44
31 8 0.06
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTTGGAAATTTCG
Found at i:10514783 original size:22 final size:23
Alignment explanation
Indices: 10514740--10514783 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10514730 ATTTAAACAT
* *
10514740 TAATTTTTTTAAATCTATTTATC
1 TAATTATTTTAAATATATTTATC
10514763 TAATTATTTTAAA-ATATTTAT
1 TAATTATTTTAAATATATTTAT
10514784 TTAAATCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATTATTTTAAATATATTTATC
Found at i:10515923 original size:22 final size:22
Alignment explanation
Indices: 10515898--10515939 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10515888 TCAATGTCCT
10515898 GACATTGGGAAATGGATGTCGC
1 GACATTGGGAAATGGATGTCGC
* *
10515920 GACATTGGGAAGTGGGTGTC
1 GACATTGGGAAATGGATGTC
10515940 ACAGCACTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (22 bp):
GACATTGGGAAATGGATGTCGC
Found at i:10518483 original size:13 final size:15
Alignment explanation
Indices: 10518465--10518496 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10518455 TAATTGCACA
10518465 TATTTG-CT-ATTTT
1 TATTTGTCTCATTTT
10518478 TATTTGTCTCATTTT
1 TATTTGTCTCATTTT
10518493 TATT
1 TATT
10518497 ATTTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (15 bp):
TATTTGTCTCATTTT
Found at i:10526380 original size:22 final size:22
Alignment explanation
Indices: 10526332--10526373 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10526322 ACAGTGCCGT
*
10526332 GACACCCACTTCCCAATGTCGC
1 GACATCCACTTCCCAATGTCGC
*
10526354 GACATCCATTTCCCAATGTC
1 GACATCCACTTCCCAATGTC
10526374 AGGACATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (22 bp):
GACATCCACTTCCCAATGTCGC
Found at i:10527507 original size:22 final size:23
Alignment explanation
Indices: 10527482--10527525 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10527472 TTGGATTTAA
* *
10527482 ATAAATA-TTTTAAAATAATTAG
1 ATAAATAGATTTAAAAAAATTAG
10527504 ATAAATAGATTTAAAAAAATTA
1 ATAAATAGATTTAAAAAAATTA
10527526 ATGTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
ATAAATAGATTTAAAAAAATTAG
Found at i:10532153 original size:13 final size:15
Alignment explanation
Indices: 10532122--10532153 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10532112 ATTTATAAAT
10532122 AATAAAAATGAGACA
1 AATAAAAATGAGACA
10532137 AATAAAAAT-AG-CA
1 AATAAAAATGAGACA
10532150 AATA
1 AATA
10532154 TGTGCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.16
Consensus pattern (15 bp):
AATAAAAATGAGACA
Found at i:10534726 original size:22 final size:22
Alignment explanation
Indices: 10534678--10534719 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10534668 ACAGTGCCGT
*
10534678 GACACCCACTTCCCAATGTCGC
1 GACATCCACTTCCCAATGTCGC
*
10534700 GACATCCATTTCCCAATGTC
1 GACATCCACTTCCCAATGTC
10534720 AGGACATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (22 bp):
GACATCCACTTCCCAATGTCGC
Found at i:10536697 original size:60 final size:58
Alignment explanation
Indices: 10536572--10536712 Score: 194
Period size: 60 Copynumber: 2.4 Consensus size: 58
10536562 TTATGGATAC
* * *
10536572 TCGGGGGCAAAATGGTAATTTTGGTGTAATCGAGGTTAAAAAATGGAATTTTAAAAGAT
1 TCGGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTT-AAAAACGGAATTTTAAAAGAT
*
10536631 TCGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTT-AAAACGGAATTTTAGAAGAT
1 TCGGGGGTAAAATGGTAATTTT-GGTGAAATCGAGGTTAAAAACGGAATTTTAAAAGAT
*
10536689 TCGGGGGGGTAAAATGATAATTTT
1 TC--GGGGGTAAAATGGTAATTTT
10536713 TGAAAGTTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
58 20 0.27
59 21 0.28
60 33 0.45
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.30
Consensus pattern (58 bp):
TCGGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAACGGAATTTTAAAAGAT
Found at i:10536734 original size:30 final size:31
Alignment explanation
Indices: 10536694--10537098 Score: 529
Period size: 30 Copynumber: 13.6 Consensus size: 31
10536684 AAGATTCGGG
*
10536694 GGGGT-AAAATGATAATTTTTG-AAAGTTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
* *
10536723 GGTGTCAAAATG-TAATTTTGGAAAAGTTTC
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
*
10536753 GGGGTCAAAATG-TAATTTTAGAAAAGTTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
* *
10536783 GGGGTTAAAAT-ATAATTTTGGTAAAGTTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
10536813 GGGGTCAAAATG-TAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
10536843 GGGGTCAAAAT-ATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
*
10536873 GGGGTTAAAATG-TAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
* *
10536903 AGGGTCAAAGT-ATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
* *
10536933 AGGGTCAAAATG-TAATTTTGGAAAAATTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
*
10536963 AGGGTCAAAAT-ATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
* *
10536993 GGGGTTAAAA-AATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
** *
10537023 AAGGTCAAAA-AATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
*
10537053 GGGGTTAAAATG-TAATTTTGG--AAGTTTT
1 GGGGTCAAAATGATAATTTTGGAAAAGTTTT
10537081 GGGGTCAAAAT-ATAATTT
1 GGGGTCAAAATGATAATTT
10537099 CTAGATTGTT
Statistics
Matches: 336, Mismatches: 28, Indels: 25
0.86 0.07 0.06
Matches are distributed among these distances:
28 23 0.07
29 12 0.04
30 301 0.90
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (31 bp):
GGGGTCAAAATGATAATTTTGGAAAAGTTTT
Found at i:10537736 original size:20 final size:20
Alignment explanation
Indices: 10537699--10537738 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10537689 CACCTCCCCC
* *
10537699 ATCCTGCTCGTCTATCTCCG
1 ATCCTGCTCGACCATCTCCG
*
10537719 ATCCTGCTCGACCGTCTCCG
1 ATCCTGCTCGACCATCTCCG
10537739 GTCGCCAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.42, G:0.17, T:0.30
Consensus pattern (20 bp):
ATCCTGCTCGACCATCTCCG
Found at i:10538119 original size:17 final size:17
Alignment explanation
Indices: 10538097--10538129 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10538087 ATAAATGTTA
*
10538097 TTATTATTATTAATATG
1 TTATTAATATTAATATG
10538114 TTATTAATATTAATAT
1 TTATTAATATTAATAT
10538130 ATTAGGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTATTAATATTAATATG
Found at i:10538852 original size:17 final size:16
Alignment explanation
Indices: 10538832--10538923 Score: 80
Period size: 17 Copynumber: 5.5 Consensus size: 16
10538822 GACTTTCTTT
10538832 TTAAATTTATAA-TAACA
1 TTAAATTTA-AATTAA-A
10538849 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
10538865 TTCAAATTTAAATTTAAA
1 TT-AAATTTAAA-TTAAA
* *
10538883 TTGAATTTAAAGTAAA
1 TTAAATTTAAATTAAA
*
10538899 TTTAAGA-TTAAAATAAA
1 -TTAA-ATTTAAATTAAA
*
10538916 TTTAATTT
1 TTAAATTT
10538924 TCAAATGGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
15 1 0.02
16 14 0.22
17 41 0.64
18 8 0.12
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:10538858 original size:6 final size:6
Alignment explanation
Indices: 10538849--10538920 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
10538839 TATAATAACA
* *
10538849 TTAAAT TTAAA- TTAAAT TCAAAT TTAAAT TTAAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
10538894 GTAAAT TTAAGA- TTAAA- ATAAAT TTAA
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAA
10538921 TTTTCAAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
5 18 0.34
6 34 0.64
7 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:10538864 original size:11 final size:11
Alignment explanation
Indices: 10538848--10538923 Score: 82
Period size: 11 Copynumber: 6.8 Consensus size: 11
10538838 TTATAATAAC
10538848 ATTAAATTTAA
1 ATTAAATTTAA
*
10538859 ATTAAATTCAA
1 ATTAAATTTAA
10538870 ATTTAAATTTAA
1 A-TTAAATTTAA
*
10538882 ATTGAATTTAA
1 ATTAAATTTAA
*
10538893 AGTAAATTTAA
1 ATTAAATTTAA
*
10538904 GATTAAA-ATAA
1 -ATTAAATTTAA
*
10538915 ATTTAATTT
1 ATTAAATTT
10538924 TCAAATGGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
10 5 0.09
11 33 0.62
12 15 0.28
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:10539311 original size:68 final size:67
Alignment explanation
Indices: 10539210--10539447 Score: 307
Period size: 68 Copynumber: 3.5 Consensus size: 67
10539200 AGATGAAAGC
* * * *
10539210 GTGTTATCCACTCTTCTTCCATTTCAAGGGGATGACATTGCTCTTAATTCAATTTCAGAGATAAA
1 GTGTTATCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGAT-AA
10539275 GAT
65 GAT
* * * *
10539278 GTGTTATCCACTCTACTTCAATTTTAAGAGGATGACATTGCTCTTACTTCAATTTTAAAGACGAA
1 GTGTTATCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGA-TAA
10539343 GACT
65 GA-T
* * * *
10539347 -TGATATCCACTCTACTTCAATTTCAAGAGGCTGACGTTGCTCTTACTTCAATTTCAGAGATGAG
1 GTGTTATCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAG
*
10539411 AAC
66 -AT
*
10539414 GTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 GTGTTATCCACTCTACTTCAATTTCAAGAGGATG
10539448 TGTTGTCCAC
Statistics
Matches: 146, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
67 2 0.01
68 143 0.98
69 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (67 bp):
GTGTTATCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAGAGATAAG
AT
Found at i:10539329 original size:31 final size:31
Alignment explanation
Indices: 10539291--10539400 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
10539281 TTATCCACTC
10539291 TACTTCAATTTTAAGAGGATGACATTGCTCT
1 TACTTCAATTTTAAGAGGATGACATTGCTCT
* * * *
10539322 TACTTCAATTTTAAAGACGAAGACTTGATATCCACT
1 TACTTCAATTTT-AAGAGGATGAC---AT-TGCTCT
* * *
10539358 CTACTTCAATTTCAAGAGGCTGACGTTGCTCT
1 -TACTTCAATTTTAAGAGGATGACATTGCTCT
10539390 TACTTCAATTT
1 TACTTCAATTT
10539401 CAGAGATGAG
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
31 23 0.37
32 13 0.21
33 1 0.02
35 2 0.03
36 12 0.19
37 11 0.18
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (31 bp):
TACTTCAATTTTAAGAGGATGACATTGCTCT
Found at i:10539482 original size:169 final size:171
Alignment explanation
Indices: 10539275--10539962 Score: 603
Period size: 169 Copynumber: 4.0 Consensus size: 171
10539265 CAGAGATAAA
* * *
10539275 GATGTGTTATCCACTCTACTTCAATTTTAAGAGGATGACATTGCTCTTACTTCAATTTTAAAGAC
1 GATGTGTTGTCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAAAGAC
* * * *
10539340 GAAGACTTGATATCC-ACTCTACTTCAATTTCAAGAGGCTGACGTTGCTCTTACTTCAATTTCAG
66 GAAAACGTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCCCTTACTTCAATTTCAG
* *
10539404 AGATGAGAACGTGTTATCC-ACTCTACTTCAATTTCAAGGG
131 AGATGAAAACGTGTTATCCAACTCTACTTCAATTTCAAGAG
* * *
10539444 GATGTGTTGTCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGAT
1 GATGTGTTGTCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAAAGAC
*
10539509 GAAAACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCCCTTACTTCAATTTCAG
66 GAAAACGTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCCCTTACTTCAATTTCAG
10539574 AGATGAAAACGTGTTATCCAACTCTACTTCAATTTCAAGAG
131 AGATGAAAACGTGTTATCCAACTCTACTTCAATTTCAAGAG
* * * * * *
10539615 GATGACGTTG-CC-CT-TACTTCAATTTCAGAGATGAAGACGTGTTATCCAACTCTACTTCAATT
1 GATG-TGTTGTCCACTCTACTTCAATTTCA-AGAGGATGAC---AT-TGC-TCT-TACTTCAATT
** ** * * ** * *
10539677 TC-AAGGGGATGAC--G-T-TGC-TCT-TACTTCAATTTCAGAGATAAAGACGTGATATCCAACT
58 TCAAAGACGAAAACGTGATATCCAACTCTACTTCAATTTCA-AGAGGATGACGT--T-GCC--CT
* ** * *
10539735 CTACTTCAATTTCA-AGAGGATGAC--G-T-TGC-TCT-TACTTCAATTTCAGAGATAAG
117 -TACTTCAATTTCAGAGATGAAAACGTGTTATCCAACTCTACTTCAATTTCA-AG---AG
* * * *
10539788 GACT-TGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAG
1 GA-TGTGTTGTCC-ACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAAAG
* * * * *
10539852 ATGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAG-GGAATGATGTTGCTCTTACTTCAATTT
64 ACGAAAACGTGATATCCAACTCTACTTCAATTTCAAGAGG-ATGACGTTGCCCTTACTTCAATTT
* *
10539915 CAGAGAT-AAAGACTTGATATCCAACTCTACTTCAATTTCAAGAG
128 CAGAGATGAAA-ACGTGTTATCCAACTCTACTTCAATTTCAAGAG
10539959 GATG
1 GATG
10539963 ACGTTGGTGA
Statistics
Matches: 416, Mismatches: 61, Indels: 82
0.74 0.11 0.15
Matches are distributed among these distances:
168 14 0.03
169 129 0.31
170 99 0.24
171 38 0.09
172 13 0.03
173 14 0.03
174 18 0.04
175 53 0.13
176 38 0.09
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (171 bp):
GATGTGTTGTCCACTCTACTTCAATTTCAAGAGGATGACATTGCTCTTACTTCAATTTCAAAGAC
GAAAACGTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCCCTTACTTCAATTTCAG
AGATGAAAACGTGTTATCCAACTCTACTTCAATTTCAAGAG
Found at i:10539537 original size:69 final size:69
Alignment explanation
Indices: 10539447--10539968 Score: 831
Period size: 69 Copynumber: 7.6 Consensus size: 69
10539437 TCAAGGGGAT
* * *
10539447 GTGTTGTCC-ACTCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGAGATGA
1 GTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGA
10539511 AAAC
66 AAAC
*
10539515 GTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCCCTTACTTCAATTTCAGAGATGA
1 GTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGA
10539580 AAAC
66 AAAC
*
10539584 GTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCCCTTACTTCAATTTCAGAGATGA
1 GTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGA
*
10539649 AGAC
66 AAAC
*
10539653 GTGTTATCCAACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT-A
1 GTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGA
10539717 AAGAC
66 AA-AC
*
10539722 GTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGAT-A
1 GTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGA
*
10539786 AGGAC
66 A-AAC
* *
10539791 TTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGA
1 GTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGA
*
10539856 AGAC
66 AAAC
*
10539860 GTGTTATCC-ACTCTACTTCAATTTCAAG-GGAATGATGTTGCTCTTACTTCAATTTCAGAGAT-
1 GTGTTATCCAACTCTACTTCAATTTCAAGAGG-ATGACGTTGCTCTTACTTCAATTTCAGAGATG
10539922 AAAGAC
65 AAA-AC
* *
10539928 TTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
1 GTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
10539969 GTGACCTGCA
Statistics
Matches: 427, Mismatches: 19, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
67 4 0.01
68 68 0.16
69 351 0.82
70 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (69 bp):
GTGTTATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGATGA
AAAC
Found at i:10552075 original size:30 final size:30
Alignment explanation
Indices: 10552020--10552426 Score: 517
Period size: 30 Copynumber: 13.6 Consensus size: 30
10552010 AAGATTCGGG
*
10552020 GGGGT-AAAATGGTAATTTTTG-AAAGTTTT
1 GGGGTCAAAAT-GTAATTTTGGAAAAGTTTT
10552049 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
10552079 -GGGTCAAAATAGTAATTTTGGAGAAAATTTT
1 GGGGTCAAAAT-GTAATTTTGGA-AAAGTTTT
* *
10552110 GGGGTTAAAATGTAA-TTTGGAAAAGTTTC
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
10552139 GGGGTCAAAATGTAATTTTAGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
* * *
10552169 GAGGTCAAAATATAATTTT-GATAAAGATTT
1 GGGGTCAAAATGTAATTTTGGA-AAAGTTTT
10552199 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
** *
10552229 GTTGTCAAAATATAATTTTTGG-AAAG-TTT
1 GGGGTCAAAATGTAA-TTTTGGAAAAGTTTT
10552258 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
* *
10552288 -AGGTCAAAAGTATAATTTTGGAAAAGTTTT
1 GGGGTCAAAA-TGTAATTTTGGAAAAGTTTT
* * *
10552318 AGGGTTAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
10552348 AGGGGTCAAAATGTAATTTTGGAAAAGTGTTT
1 -GGGGTCAAAATGTAATTTTGGAAAAGT-TTT
*
10552380 AGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
10552410 -GGGTCAAAATATAATTT
1 GGGGTCAAAATGTAATTT
10552427 CTAGATTGTT
Statistics
Matches: 334, Mismatches: 29, Indels: 30
0.85 0.07 0.08
Matches are distributed among these distances:
28 6 0.02
29 89 0.27
30 151 0.45
31 76 0.23
32 12 0.04
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.37
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTT
Found at i:10552770 original size:9 final size:9
Alignment explanation
Indices: 10552756--10552797 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
10552746 NNAAAAAAAC
10552756 AAAAGAAAG
1 AAAAGAAAG
10552765 AAAAGAAAG
1 AAAAGAAAG
10552774 AAAA-AATAG
1 AAAAGAA-AG
* *
10552783 AGAACAAAG
1 AAAAGAAAG
10552792 AAAAGA
1 AAAAGA
10552798 GAAAGAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 2 0.07
9 24 0.86
10 2 0.07
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.02
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:10552949 original size:23 final size:24
Alignment explanation
Indices: 10552900--10552953 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
10552890 TCGACATGAA
*
10552900 ACGACGCACCACGACAACGCGCCG
1 ACGACGCACCACGACAACGCGCAG
10552924 ACGACGCACCACGAC-ACGCGCAG
1 ACGACGCACCACGACAACGCGCAG
10552947 ACGACGC
1 ACGACGC
10552954 GCGGGTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.30, C:0.44, G:0.26, T:0.00
Consensus pattern (24 bp):
ACGACGCACCACGACAACGCGCAG
Found at i:10553574 original size:31 final size:30
Alignment explanation
Indices: 10553518--10553836 Score: 518
Period size: 30 Copynumber: 10.6 Consensus size: 30
10553508 AACAATCTAG
*
10553518 AAATTATATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
10553548 AAATTACATTTTGACCCCAAAAACTTTTCCAA
1 AAATTACATTTTGACCCC-AAAACTTTTCC-A
* *
10553580 AAATTATATTTTGACCTCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10553610 AATTTTACATTTTGACCCCAAAACTTTTCCA
1 AA-ATTACATTTTGACCCCAAAACTTTTCCA
*
10553641 AAATTATATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
10553671 AAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10553701 AAATTATATTTTGACCCCAAAACTTTT-CA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
10553730 AAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
10553760 AAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
10553790 AAATTACATTTTGACCCCAAAAC-TTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
10553819 AAATTACCATTTT-ACCCC
1 AAATTA-CATTTTGACCCC
10553837 CGAATCTTCT
Statistics
Matches: 272, Mismatches: 12, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
29 44 0.16
30 162 0.60
31 49 0.18
32 17 0.06
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCCA
Found at i:10553850 original size:29 final size:29
Alignment explanation
Indices: 10553818--10553954 Score: 118
Period size: 29 Copynumber: 4.7 Consensus size: 29
10553808 AAAACTTTCA
10553818 AAAATTACCATTTTACCCCCGAATCTTCT
1 AAAATTACCATTTTACCCCCGAATCTTCT
* * * ** *
10553847 AAAATT-CCGTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGA-ATCTTCT
*
10553876 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTCT
* * * *
10553905 AAAATT-CCATTTTTAACCCCGATTAC-ACC
1 AAAATTACCA-TTTTACCCCCGAAT-CTTCT
*
10553934 AAAATTACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
10553955 GGTATCCATA
Statistics
Matches: 83, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
28 16 0.19
29 50 0.60
30 17 0.20
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAATCTTCT
Found at i:10553878 original size:58 final size:59
Alignment explanation
Indices: 10553816--10553954 Score: 228
Period size: 58 Copynumber: 2.4 Consensus size: 59
10553806 CCAAAACTTT
*
10553816 CAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCC-GTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCAGTTTTAACCCCGATTACAC
* *
10553874 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACAC
1 CAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCAGTTTTAACCCCGATTACAC
*
10553933 C-AAAATTACCATTTTGCCCCCG
1 CAAAAATTACCATTTTACCCCCG
10553955 GGTATCCATA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
58 58 0.76
59 18 0.24
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.32
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCAGTTTTAACCCCGATTACAC
Done.