Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 21 of 410
Found at i:5496591 original size:2 final size:2
Alignment explanation
Indices: 5496584--5496616 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5496574 CAGTTGATTG
5496584 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5496617 TAATAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5500018 original size:24 final size:24
Alignment explanation
Indices: 5499986--5500036 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
5499976 CCGAGTTCAA
5499986 TTCTCGGAATGCCCCAGCCCATTT
1 TTCTCGGAATGCCCCAGCCCATTT
5500010 TTCTCGGAATGCCCCAGCCCATTT
1 TTCTCGGAATGCCCCAGCCCATTT
5500034 TTC
1 TTC
5500037 ATTTTTTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.37, G:0.16, T:0.31
Consensus pattern (24 bp):
TTCTCGGAATGCCCCAGCCCATTT
Found at i:5503133 original size:223 final size:223
Alignment explanation
Indices: 5502741--5503186 Score: 856
Period size: 223 Copynumber: 2.0 Consensus size: 223
5502731 GAGAATATAA
5502741 ACATCAAAATTGGGCATTTGGTCTAGTGGTATGATTCTCGCTTAGGGTGCGAGAGGTCCCGAGTT
1 ACATCAAAATTGGGCATTTGGTCTAGTGGTATGATTCTCGCTTAGGGTGCGAGAGGTCCCGAGTT
*
5502806 CAATTCTCGGAATGCCCCAGCCATTTTTCTTTTTTTTCCCTAATTTCAAATATATGATCAGAGTA
66 CAATTCTCGGAATGCCCCAGCCATTTTTCCTTTTTTTCCCTAATTTCAAATATATGATCAGAGTA
5502871 CCAACTGGAAAGTCAACTCTAAAAGTCACACAACAGATCTATTTGTTTTCTGAAAAGATTCTTTT
131 CCAACTGGAAAGTCAACTCTAAAAGTCACACAACAGATCTATTTGTTTTCTGAAAAGATTCTTTT
5502936 GCAGTGAGCAAAAATAAATAGATTGTTG
196 GCAGTGAGCAAAAATAAATAGATTGTTG
5502964 ACATCAAAATTGGGCATTTGGTCTAGTGGTATGATTCTCGCTTAGGGTGCGAGAGGTCCCGAGTT
1 ACATCAAAATTGGGCATTTGGTCTAGTGGTATGATTCTCGCTTAGGGTGCGAGAGGTCCCGAGTT
*
5503029 CAATTCTCGGAATGCCCCAGCCATTTTTCCTTTTTTTCCCTAATTTCAAATATATGATCAGTGTA
66 CAATTCTCGGAATGCCCCAGCCATTTTTCCTTTTTTTCCCTAATTTCAAATATATGATCAGAGTA
* *
5503094 CCAACTGGAATGTCAACTCTAAAAGTCACACATCAGATCTATTTGTTTTCTGAAAAGATTCTTTT
131 CCAACTGGAAAGTCAACTCTAAAAGTCACACAACAGATCTATTTGTTTTCTGAAAAGATTCTTTT
5503159 GCAGTGAGCAAAAATAAATAGATTGTTG
196 GCAGTGAGCAAAAATAAATAGATTGTTG
5503187 CCATTTTCAA
Statistics
Matches: 219, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
223 219 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (223 bp):
ACATCAAAATTGGGCATTTGGTCTAGTGGTATGATTCTCGCTTAGGGTGCGAGAGGTCCCGAGTT
CAATTCTCGGAATGCCCCAGCCATTTTTCCTTTTTTTCCCTAATTTCAAATATATGATCAGAGTA
CCAACTGGAAAGTCAACTCTAAAAGTCACACAACAGATCTATTTGTTTTCTGAAAAGATTCTTTT
GCAGTGAGCAAAAATAAATAGATTGTTG
Found at i:5513574 original size:25 final size:26
Alignment explanation
Indices: 5513520--5513584 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 26
5513510 TTGATTGCTC
* * *
5513520 AAAAATAAAAAAAT-ATTAACTTATT
1 AAAAAGAACAAAATAATTAAATTATT
*
5513545 AAAAA-AACAAAATAATTAAATTTTT
1 AAAAAGAACAAAATAATTAAATTATT
* *
5513570 TAAAAGAAGAAAATA
1 AAAAAGAACAAAATA
5513585 TGTTTGTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 7 0.21
25 18 0.55
26 8 0.24
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (26 bp):
AAAAAGAACAAAATAATTAAATTATT
Found at i:5517041 original size:68 final size:65
Alignment explanation
Indices: 5516825--5517046 Score: 200
Period size: 64 Copynumber: 3.4 Consensus size: 65
5516815 ACATAATTTG
* * * *
5516825 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCA-CTTTA-TCTTGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
** * * * * * * * *
5516888 GCTCTCTTGTTTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATCTA-TCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTC
5516952 GTA
63 GTA
*
5516955 GCTCTCTTGT-CTATATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTC-T-AT-TCT
5517019 CGTA
62 CGTA
* *
5517023 GCTCTCTTGAACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
5517047 TCCCGTATTA
Statistics
Matches: 122, Mismatches: 27, Indels: 15
0.74 0.16 0.09
Matches are distributed among these distances:
63 18 0.15
64 27 0.22
65 1 0.01
66 23 0.19
67 26 0.21
68 26 0.21
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
Found at i:5531480 original size:22 final size:22
Alignment explanation
Indices: 5531452--5531495 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5531442 TATTATTATT
5531452 TTTTATTTT-TTTAAAATATTTA
1 TTTTATTTTATTT-AAATATTTA
*
5531474 TTTTATTTTATTTTAATATTTA
1 TTTTATTTTATTTAAATATTTA
5531496 ATAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTATTTTATTTAAATATTTA
Found at i:5534103 original size:15 final size:15
Alignment explanation
Indices: 5534085--5534136 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
5534075 AATGAACATG
5534085 GTAACATCAAACAAT
1 GTAACATCAAACAAT
**** *
5534100 GTAACATGTTGCAAG
1 GTAACATCAAACAAT
*
5534115 GTAATATCAAACAAT
1 GTAACATCAAACAAT
5534130 GTAACAT
1 GTAACAT
5534137 GTTGCAAGGT
Statistics
Matches: 25, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (15 bp):
GTAACATCAAACAAT
Found at i:5534149 original size:30 final size:30
Alignment explanation
Indices: 5534084--5534151 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
5534074 AAATGAACAT
*
5534084 GGTAACATCAAACAATGTAACATGTTGCAA
1 GGTAATATCAAACAATGTAACATGTTGCAA
5534114 GGTAATATCAAACAATGTAACATGTTGCAA
1 GGTAATATCAAACAATGTAACATGTTGCAA
5534144 GGTAATAT
1 GGTAATAT
5534152 ATATCATACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (30 bp):
GGTAATATCAAACAATGTAACATGTTGCAA
Found at i:5537007 original size:6 final size:7
Alignment explanation
Indices: 5536988--5537014 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
5536978 AGATAAAGTG
5536988 TATTTTT
1 TATTTTT
5536995 TATTTTT
1 TATTTTT
5537002 TATTTTT
1 TATTTTT
5537009 TATTTT
1 TATTTT
5537015 AAGTTAGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:5538220 original size:16 final size:15
Alignment explanation
Indices: 5538166--5538222 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 15
5538156 AATAAAATGG
5538166 TTATGATTATAATTAA
1 TTAT-ATTATAATTAA
*
5538182 TTATAATTATAATTATT
1 TTAT-ATTATAATTA-A
*
5538199 TTATATTATATTTAA
1 TTATATTATAATTAA
5538214 TATATATTA
1 T-TATATTA
5538223 CAATGTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 1 0.03
16 30 0.86
17 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TTATATTATAATTAA
Found at i:5539436 original size:25 final size:25
Alignment explanation
Indices: 5539402--5539451 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
5539392 CCTAAATTGA
5539402 ATTTCACTCAAAATCGAATATCAAT
1 ATTTCACTCAAAATCGAATATCAAT
*
5539427 ATTTCACTCAAGATCGAATATCAAT
1 ATTTCACTCAAAATCGAATATCAAT
5539452 CATTCTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (25 bp):
ATTTCACTCAAAATCGAATATCAAT
Found at i:5540514 original size:47 final size:46
Alignment explanation
Indices: 5540433--5540522 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 46
5540423 AAAAAAAGAG
* * *
5540433 AAACAAATCCCTAAAAACTAGTCTAAAAATGTGGGCGACTAAGGAA
1 AAACAAATCCCTAAAAACTAGCCTAAAAAGGTGGGCAACTAAGGAA
* * *
5540479 AAACAAATCCTTTGAAAGCTAGCCTAAAAAGGTGGGCAACTAAG
1 AAACAAATCC-CTAAAAACTAGCCTAAAAAGGTGGGCAACTAAG
5540523 AAAGATAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 10 0.27
47 27 0.73
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.18
Consensus pattern (46 bp):
AAACAAATCCCTAAAAACTAGCCTAAAAAGGTGGGCAACTAAGGAA
Found at i:5542606 original size:47 final size:47
Alignment explanation
Indices: 5542539--5542663 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 47
5542529 TTTACATAAT
* * * * *
5542539 GATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATATCACACC
* * * *
5542586 GATGTCATATCCTAGATATGGTCTTATACAGTAGCATATATCACACC
1 GATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACACC
*
5542633 GATGCCATATCCCAGATATGGTCTTATACAG
1 GATGCCATATCCCAGATATGGTCTTACACAG
5542664 AAATCACTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
47 64 0.97
48 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACACC
Found at i:5542679 original size:7 final size:7
Alignment explanation
Indices: 5542667--5542695 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
5542657 TATACAGAAA
5542667 TCACTTG
1 TCACTTG
5542674 TCACTTG
1 TCACTTG
5542681 TCACTTG
1 TCACTTG
5542688 TCACTTG
1 TCACTTG
5542695 T
1 T
5542696 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:5542729 original size:31 final size:31
Alignment explanation
Indices: 5542702--5542840 Score: 206
Period size: 31 Copynumber: 4.5 Consensus size: 31
5542692 TTGTAGCCAA
* *
5542702 AGCTACCACTATTCACTGATCAGGTAGCTGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* * *
5542733 TGCTACCATTTTTCACTGATCAGGTAGCTGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* *
5542764 TGCTACCATTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
*
5542795 AGCTACCACTTTTCACTGATCAGGTAGCCGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
5542826 AGCTACCACTTTTCA
1 AGCTACCACTTTTCA
5542841 GTTGTCATTT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCCGG
Found at i:5542925 original size:50 final size:50
Alignment explanation
Indices: 5542818--5542994 Score: 266
Period size: 50 Copynumber: 3.5 Consensus size: 50
5542808 CACTGATCAG
* * *
5542818 GTAGCCGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
5542869 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
5542919 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
5542969 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
5542995 GTTTTCATGG
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
50 89 0.78
51 25 0.22
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:5546443 original size:26 final size:25
Alignment explanation
Indices: 5546397--5546452 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
5546387 TGACAACATA
* *
5546397 AAATTTTATGTATCATTAATAAATC
1 AAATTTTATATATCATCAATAAATC
* *
5546422 AAATTATTATATATTATCAATAAATG
1 AAATT-TTATATATCATCAATAAATC
5546448 AAATT
1 AAATT
5546453 CATTTAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (25 bp):
AAATTTTATATATCATCAATAAATC
Found at i:5547278 original size:24 final size:23
Alignment explanation
Indices: 5547251--5547303 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 23
5547241 AAAAAAAATA
5547251 TAAATATTATTTAATATAA-AATTT
1 TAAATATT-TTTAATA-AATAATTT
*
5547275 TAAATATTTTTTATAAATAATTT
1 TAAATATTTTTAATAAATAATTT
5547298 TCAAAT
1 T-AAAT
5547304 TTTAGAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 12 0.46
24 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATATTTTTAATAAATAATTT
Found at i:5547783 original size:10 final size:10
Alignment explanation
Indices: 5547768--5547809 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
5547758 CAGTGTGACT
5547768 TAAATTAAAA
1 TAAATTAAAA
5547778 TAAATTAAAA
1 TAAATTAAAA
5547788 TAACA-TAAAA
1 TAA-ATTAAAA
5547798 TCTAAATTAAAA
1 --TAAATTAAAA
5547810 ACCCACACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 18 0.64
11 2 0.07
12 8 0.29
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAATTAAAA
Found at i:5556492 original size:20 final size:20
Alignment explanation
Indices: 5556467--5556523 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
5556457 ATCTAATTGT
5556467 TTATCCCAAA-GAAGTTAGCA
1 TTAT-CCAAACGAAGTTAGCA
* *
5556487 TTATCCAAACCAACTTAGCA
1 TTATCCAAACGAAGTTAGCA
*
5556507 TTATCCAAATGAAGTTA
1 TTATCCAAACGAAGTTA
5556524 TGGAATTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (20 bp):
TTATCCAAACGAAGTTAGCA
Found at i:5562917 original size:15 final size:15
Alignment explanation
Indices: 5562897--5562942 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
5562887 ACAAAATAAT
5562897 AACATAAGTGACTAA
1 AACATAAGTGACTAA
* *
5562912 AACATAA-T-ATTTCA
1 AACATAAGTGA-CTAA
5562926 AACATAAGTGACTAA
1 AACATAAGTGACTAA
5562941 AA
1 AA
5562943 TGTAACATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
13 1 0.04
14 10 0.42
15 12 0.50
16 1 0.04
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (15 bp):
AACATAAGTGACTAA
Found at i:5569007 original size:18 final size:17
Alignment explanation
Indices: 5568968--5569007 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
5568958 TTTTTTAAAA
5568968 TATTA-TATTCACCTAT
1 TATTATTATTCACCTAT
5568984 TA-TATTATTCA-C-AT
1 TATTATTATTCACCTAT
5568998 TATTATTATT
1 TATTATTATT
5569008 TTGTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.18
15 10 0.45
16 8 0.36
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATTATTCACCTAT
Found at i:5569094 original size:18 final size:20
Alignment explanation
Indices: 5569062--5569099 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
5569052 GTTATTCGCA
5569062 CTATTATATTATTATTATTT
1 CTATTATATTATTATTATTT
5569082 CTATTAT-TT-TTATTATTT
1 CTATTATATTATTATTATTT
5569100 ATTTTTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
CTATTATATTATTATTATTT
Found at i:5569243 original size:21 final size:22
Alignment explanation
Indices: 5569205--5569249 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
5569195 TTGAGTTTTG
*
5569205 ATTTCATATTATTATATTAATT
1 ATTTAATATTATTATATTAATT
*
5569227 ATTTAATATTA-TATATTCATT
1 ATTTAATATTATTATATTAATT
5569248 AT
1 AT
5569250 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTAATATTATTATATTAATT
Found at i:5569391 original size:22 final size:22
Alignment explanation
Indices: 5569361--5569402 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5569351 TTTTACATAC
5569361 TATATTATTATGTT-ATTTTAG
1 TATATTATTATGTTAATTTTAG
*
5569382 TATAGTTATTATTTTAATTTT
1 TATA-TTATTATGTTAATTTT
5569403 CACTTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TATATTATTATGTTAATTTTAG
Found at i:5580551 original size:44 final size:44
Alignment explanation
Indices: 5580492--5580645 Score: 128
Period size: 44 Copynumber: 3.4 Consensus size: 44
5580482 GAGGCCAAGG
* *
5580492 TGAAAACCCGCAAAGGACGCCTTGAGACCAAAGAGGTTTTGAAT
1 TGAAAACCCGAAAAGGGCGCCTTGAGACCAAAGAGGTTTTGAAT
* ** * * * *** *
5580536 TGAAAACCCGAAAAGGGCACCTAAAAAAACAAAAAGGTGAGGCCAAGG
1 TGAAAACCCGAAAAGGGCGCCT-TGAGACCAAAGAGGTTTTG--AA-T
* * * *
5580584 TGAAAACCCGCAAAGGGCGCCTTGAGACTAAAGGGGTTTTAAAT
1 TGAAAACCCGAAAAGGGCGCCTTGAGACCAAAGAGGTTTTGAAT
5580628 TGAAAACCCGAAAAGGGC
1 TGAAAACCCGAAAAGGGC
5580646 AATTCAAATT
Statistics
Matches: 79, Mismatches: 27, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
44 36 0.46
45 13 0.16
47 10 0.13
48 20 0.25
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.14
Consensus pattern (44 bp):
TGAAAACCCGAAAAGGGCGCCTTGAGACCAAAGAGGTTTTGAAT
Found at i:5580592 original size:48 final size:48
Alignment explanation
Indices: 5580441--5580601 Score: 143
Period size: 48 Copynumber: 3.4 Consensus size: 48
5580431 TTCGCTTAAG
* * *
5580441 AGGTGAAAACCCGTAAAGGGCACTTAAAAAAA-AAAGGGGGTGAGGCCA
1 AGGTGAAAACCCGCAAAGGGCACCTAAAAAAACAAA-GAGGTGAGGCCA
* * ** * * ***
5580489 AGGTGAAAACCCGCAAAGGACGCCT-TGAGACCAAAGAGGTTTTG--A
1 AGGTGAAAACCCGCAAAGGGCACCTAAAAAAACAAAGAGGTGAGGCCA
* * *
5580534 A-TTGAAAACCCGAAAAGGGCACCTAAAAAAACAAAAAGGTGAGGCCA
1 AGGTGAAAACCCGCAAAGGGCACCTAAAAAAACAAAGAGGTGAGGCCA
5580581 AGGTGAAAACCCGCAAAGGGC
1 AGGTGAAAACCCGCAAAGGGC
5580602 GCCTTGAGAC
Statistics
Matches: 82, Mismatches: 26, Indels: 10
0.69 0.22 0.08
Matches are distributed among these distances:
44 19 0.23
45 13 0.16
47 9 0.11
48 41 0.50
ACGTcount: A:0.43, C:0.19, G:0.28, T:0.11
Consensus pattern (48 bp):
AGGTGAAAACCCGCAAAGGGCACCTAAAAAAACAAAGAGGTGAGGCCA
Found at i:5580605 original size:92 final size:92
Alignment explanation
Indices: 5580444--5580646 Score: 318
Period size: 92 Copynumber: 2.2 Consensus size: 92
5580434 GCTTAAGAGG
* * **
5580444 TGAAAACCCGTAAAGGGCACTTAAAAAAAAAAGGGGGTGAGGCCAAGGTGAAAACCCGCAAAGGA
1 TGAAAACCCGAAAAGGGCACCTAAAAAAAAAAGAAGGTGAGGCCAAGGTGAAAACCCGCAAAGGA
*
5580509 CGCCTTGAGACCAAAGAGGTTTTGAAT
66 CGCCTTGAGACCAAAGAGGTTTTAAAT
5580536 TGAAAACCCGAAAAGGGCACCTAAAAAAACAAA-AAGGTGAGGCCAAGGTGAAAACCCGCAAAGG
1 TGAAAACCCGAAAAGGGCACCTAAAAAAA-AAAGAAGGTGAGGCCAAGGTGAAAACCCGCAAAGG
* * *
5580600 GCGCCTTGAGACTAAAGGGGTTTTAAAT
65 ACGCCTTGAGACCAAAGAGGTTTTAAAT
5580628 TGAAAACCCGAAAAGGGCA
1 TGAAAACCCGAAAAGGGCA
5580647 ATTCAAATTT
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 99 0.97
93 3 0.03
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (92 bp):
TGAAAACCCGAAAAGGGCACCTAAAAAAAAAAGAAGGTGAGGCCAAGGTGAAAACCCGCAAAGGA
CGCCTTGAGACCAAAGAGGTTTTAAAT
Found at i:5582649 original size:30 final size:28
Alignment explanation
Indices: 5582615--5582680 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
5582605 TAGCCTCCAA
*
5582615 CTGCCTTCATGCTTCCACTACCCACGTTCT
1 CTGCCTTCATGCCTCCA-TACCCACGTT-T
* *
5582645 CTGCCTCCATGCCTCCATTCCCACGTTT
1 CTGCCTTCATGCCTCCATACCCACGTTT
5582673 -TGCCTTCA
1 CTGCCTTCA
5582681 CCTACAGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 7 0.22
28 1 0.03
29 9 0.28
30 15 0.47
ACGTcount: A:0.12, C:0.44, G:0.11, T:0.33
Consensus pattern (28 bp):
CTGCCTTCATGCCTCCATACCCACGTTT
Found at i:5583495 original size:18 final size:17
Alignment explanation
Indices: 5583456--5583495 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
5583446 TTTTTTAAAA
5583456 TATTA-TATTCACCTAT
1 TATTATTATTCACCTAT
5583472 TA-TATTATTCA-C-AT
1 TATTATTATTCACCTAT
5583486 TATTATTATT
1 TATTATTATT
5583496 TTGTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.18
15 10 0.45
16 8 0.36
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATTATTCACCTAT
Found at i:5583731 original size:21 final size:22
Alignment explanation
Indices: 5583693--5583737 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
5583683 TTGAGTTTTG
*
5583693 ATTTCATATTATTATATTAATT
1 ATTTAATATTATTATATTAATT
*
5583715 ATTTAATATTA-TATATTCATT
1 ATTTAATATTATTATATTAATT
5583736 AT
1 AT
5583738 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTAATATTATTATATTAATT
Found at i:5583879 original size:22 final size:22
Alignment explanation
Indices: 5583849--5583890 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5583839 TTTTACATAC
5583849 TATATTATTATGTT-ATTTTAG
1 TATATTATTATGTTAATTTTAG
*
5583870 TATAGTTATTATTTTAATTTT
1 TATA-TTATTATGTTAATTTT
5583891 CACTTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TATATTATTATGTTAATTTTAG
Found at i:5584250 original size:121 final size:120
Alignment explanation
Indices: 5584133--5584354 Score: 313
Period size: 119 Copynumber: 1.8 Consensus size: 120
5584123 GTTTTAATTC
* * * * *
5584133 TTTTATTCCACAATGTATTCTCAATTTGTTTTTAACATGAA-GACAATTTTCTATACTTAATCGT
1 TTTTATTCAACAATGTATTCCCAAATAGTTTTT-A-AT-AAGGACAATTTTCTATACTTAATCAT
*
5584197 TTTAAAAAACGTGCCCTACCGTATTGGG-TTCGTTTTTTTTTATATTCGATTTAAGTA
63 TTTAAAAAACGTGCCCTACCGTACTGGGCTTCGTTTTTTTTTATATTCGATTTAAGTA
* * *
5584254 TTTTATTCAACATTTTATTCCCAAATAGTTTTTAATAAGGGCAATTTTCTATACTTAATCATTTT
1 TTTTATTCAACAATGTATTCCCAAATAGTTTTTAATAAGGACAATTTTCTATACTTAATCATTTT
*
5584319 AAAAAATGTGCCCTACCGTACTGGGCTTCGTTTTTT
66 AAAAAACGTGCCCTACCGTACTGGGCTTCGTTTTTT
5584355 ATTCGATTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
118 2 0.02
119 49 0.55
120 11 0.12
121 27 0.30
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.45
Consensus pattern (120 bp):
TTTTATTCAACAATGTATTCCCAAATAGTTTTTAATAAGGACAATTTTCTATACTTAATCATTTT
AAAAAACGTGCCCTACCGTACTGGGCTTCGTTTTTTTTTATATTCGATTTAAGTA
Found at i:5588917 original size:20 final size:22
Alignment explanation
Indices: 5588886--5588929 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
5588876 ATTCATCAAT
5588886 TTAAATATTATAA-TAAAAAAA
1 TTAAATATTATAATTAAAAAAA
*
5588907 TTAAA-ATTATAATTAAAATAA
1 TTAAATATTATAATTAAAAAAA
5588928 TT
1 TT
5588930 TTACATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAATATTATAATTAAAAAAA
Found at i:5589337 original size:22 final size:21
Alignment explanation
Indices: 5589312--5589363 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 21
5589302 TTTTCAATTC
5589312 AAATATTA-TAATATAATTTTTT
1 AAATATTATTAATAT-A-TTTTT
*
5589334 AAATAATAATTAATATATTTTT
1 AAAT-ATTATTAATATATTTTT
5589356 AATATATT
1 AA-ATATT
5589364 CAACTACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 13 0.52
23 6 0.24
24 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATATTATTAATATATTTTT
Found at i:5589552 original size:17 final size:18
Alignment explanation
Indices: 5589530--5589563 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5589520 ATAATTGTAA
*
5589530 TTTAAAT-TCTAATTATT
1 TTTAAATGTATAATTATT
5589547 TTTAAATGTATAATTAT
1 TTTAAATGTATAATTAT
5589564 CACAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAAATGTATAATTATT
Found at i:5591202 original size:31 final size:29
Alignment explanation
Indices: 5591129--5591202 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
5591119 ACAACAAGAT
5591129 AATATAAGTGACTAAAATGTAACATTTCA
1 AATATAAGTGACTAAAATGTAACATTTCA
* *
5591158 AACATAAGCGACTAAAATGTAAC-TTGAATCA
1 AATATAAGTGACTAAAATGTAACATT---TCA
*
5591189 AATAAAAGTGACTA
1 AATATAAGTGACTA
5591203 TTTTAATGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.05
29 21 0.57
31 14 0.38
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (29 bp):
AATATAAGTGACTAAAATGTAACATTTCA
Found at i:5593421 original size:16 final size:17
Alignment explanation
Indices: 5593379--5593427 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
5593369 AAATTTTGTG
*
5593379 ATTCAAGTTTTATATTTA
1 ATTCAAG-TTTATTTTTA
*
5593397 ATTCGAG-TTATTTTTA
1 ATTCAAGTTTATTTTTA
*
5593413 ATTTAAGTTTATTTT
1 ATTCAAGTTTATTTT
5593428 CAGTTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 13 0.50
17 7 0.27
18 6 0.23
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (17 bp):
ATTCAAGTTTATTTTTA
Found at i:5596055 original size:61 final size:61
Alignment explanation
Indices: 5595951--5596106 Score: 152
Period size: 61 Copynumber: 2.5 Consensus size: 61
5595941 TATTTTTTTT
* * * * * ** *
5595951 TTGAATATTTTAGAA-TTAGAACTAAATTGATAAAATTTATAAATGTTGATGGCTAAGTTTA
1 TTGAATTTTTTAAAATTTA-AATTAAATTGATAAAATTTATAAATATTAATAACTAAATTTA
* *
5596012 TTGAATTTTTTAAAATTTAAATTAAATTGATAAATTTTGTAAATATTAATAACTAAATTTA
1 TTGAATTTTTTAAAATTTAAATTAAATTGATAAAATTTATAAATATTAATAACTAAATTTA
* * * * *
5596073 ATAAATTTTTTTAGATTTAATATCAAATTGATAA
1 TTGAATTTTTTAAAATTTAA-ATTAAATTGATAA
5596107 TTTACAAGCA
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
61 63 0.81
62 15 0.19
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.45
Consensus pattern (61 bp):
TTGAATTTTTTAAAATTTAAATTAAATTGATAAAATTTATAAATATTAATAACTAAATTTA
Found at i:5597157 original size:122 final size:123
Alignment explanation
Indices: 5597018--5597287 Score: 409
Period size: 122 Copynumber: 2.2 Consensus size: 123
5597008 TAATTTATTA
* * *
5597018 TTTATAAAGAAATTAAAACTAAAAAGTGATTTTTTTTAATTGAATGGTTATTTGTGGTGATAGAT
1 TTTATAAATAAATTAAAACTAAAAAGTGATTTTTTTGAATTGAATGGTTATTTGTAGTGATAGAT
*** * *
5597083 ATTTATTGCGACTCTTAAATACCTTTGGCAAAAA-GG-AAAAAGAATCTTATAAAAGAT
66 ATTTATTAAAACTCTTAAATACCTTTGG-AAAAAGGGCAAAAAAAATCTTAAAAAAGAT
*
5597140 TTTATAAATAAATTAAAACTAAAAAGTGATTTTTTTGCATTGAATGGTTATTTGTAGTGATAGAT
1 TTTATAAATAAATTAAAACTAAAAAGTGATTTTTTTGAATTGAATGGTTATTTGTAGTGATAGAT
* * *
5597205 ATTTATTAAAAGTCTTAAATACTTTTGGAAAAAGGGCAAAAAAAATTTTAAAAAAGAT
66 ATTTATTAAAACTCTTAAATACCTTTGGAAAAAGGGCAAAAAAAATCTTAAAAAAGAT
5597263 TTTATAAATAAATTAAAACTAAAAA
1 TTTATAAATAAATTAAAACTAAAAA
5597288 CTGAATTAAA
Statistics
Matches: 134, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
121 5 0.04
122 86 0.64
123 43 0.32
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (123 bp):
TTTATAAATAAATTAAAACTAAAAAGTGATTTTTTTGAATTGAATGGTTATTTGTAGTGATAGAT
ATTTATTAAAACTCTTAAATACCTTTGGAAAAAGGGCAAAAAAAATCTTAAAAAAGAT
Found at i:5601086 original size:10 final size:11
Alignment explanation
Indices: 5601063--5601096 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
5601053 CATTCACTAG
5601063 TTATTTTTTCT
1 TTATTTTTTCT
5601074 TTATTTTTT-T
1 TTATTTTTTCT
*
5601084 TTATTTATTCT
1 TTATTTTTTCT
5601095 TT
1 TT
5601097 CATTCTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (11 bp):
TTATTTTTTCT
Found at i:5619599 original size:44 final size:44
Alignment explanation
Indices: 5619449--5619604 Score: 118
Period size: 44 Copynumber: 3.5 Consensus size: 44
5619439 GATCTCATCA
* *
5619449 CCCTAAGCAGTAGGGAAACAGATCAAAGAAGATGGGCCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACC
* * * * * ** * * *
5619493 CCCTAAGCAGTAGGGTAATAGGTTGAAA-ATCA-CAGATCTCACC
1 CCCTAAGCAGTAGGGAAACA-GATCAAAGATGATGGGCTTTAACC
*
5619536 TCTCTAGAGTTGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACC
1 -CCCTA-A---GCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACC
*
5619585 CCCTAAGCAGTAGGGTAACA
1 CCCTAAGCAGTAGGGAAACA
5619605 AGCTAAATTT
Statistics
Matches: 79, Mismatches: 25, Indels: 16
0.66 0.21 0.13
Matches are distributed among these distances:
43 5 0.06
44 37 0.47
45 6 0.08
47 6 0.08
48 19 0.24
49 6 0.08
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACC
Found at i:5619641 original size:43 final size:45
Alignment explanation
Indices: 5619579--5619736 Score: 159
Period size: 45 Copynumber: 3.6 Consensus size: 45
5619569 ATGATGGGCT
5619579 TTAACCCCCTAAGCAGTAGGGTAACAAGCT-AA-ATTTACA-AGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGA-CC
* * *
5619622 TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGACC
* * **
5619667 TTAACCCCCTAAGCAGTAGTGG--ACCAGATCGAAGA-CGA-AGAACC
1 TTAACCCCCTAAGCAGTAG-GGTAACAAGCT-GAAGATTTACAG-ACC
*
5619711 TTAAACCCCTAAGCAGTAGGGTAACA
1 TTAACCCCCTAAGCAGTAGGGTAACA
5619737 GGTTGAATTG
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
43 32 0.34
44 27 0.28
45 33 0.35
46 3 0.03
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (45 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTACAGACC
Found at i:5619729 original size:44 final size:44
Alignment explanation
Indices: 5619666--5619823 Score: 119
Period size: 44 Copynumber: 3.6 Consensus size: 44
5619656 ATTTACAGAT
* *
5619666 CTTAACCCCCTAAGCAGTAGTGGACCAGATCGAAGACGAAGAAC
1 CTTAAACCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGAAC
* * ** * *
5619710 CTTAAACCCCTAAGCAGTAG-GGTAACAGGTTGAA-TTGCAG-AT
1 CTTAAACCCCTAAGCAGTAGTGG-AACAGATCGAAGACGAAGAAC
* * * * * *
5619752 C-TGATCTCCCTAAGCAGTAGTAGAGCAAACCGAAGACGAAGAAC
1 CTTAAAC-CCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGAAC
*
5619796 CTTAAACCCCCAAGCAGTAG-GGTAACAG
1 CTTAAACCCCTAAGCAGTAGTGG-AACAG
5619824 GTTGAGTTTA
Statistics
Matches: 81, Mismatches: 26, Indels: 14
0.67 0.21 0.12
Matches are distributed among these distances:
41 3 0.04
42 21 0.26
43 10 0.12
44 44 0.54
45 3 0.04
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (44 bp):
CTTAAACCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGAAC
Found at i:5619795 original size:86 final size:88
Alignment explanation
Indices: 5619620--5619857 Score: 331
Period size: 86 Copynumber: 2.7 Consensus size: 88
5619610 AATTTACAAG
* *
5619620 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTG-AGATTTACAGATCTGAACCCCCTAAGCAGTA
* * *
5619685 GTGGACCAGATCGAAGACGAAGAA
65 GTAGACCAAACCGAAGACGAAGAA
* * *
5619709 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA-A-TTGCAGATCTGATCTCCCTAAGCAGTAG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAGATTTACAGATCTGAACCCCCTAAGCAGTAG
*
5619772 TAGAGCAAACCGAAGACGAAGAA
66 TAGACCAAACCGAAGACGAAGAA
* **
5619795 CCTTAAACCCCCAAGCAGTAGGGTAACAGGTTGAG-TTTACAGATCT-AAAACCCTAAGCAGTAG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAGATTTACAGATCTGAACCCCCTAAGCAGTAG
5619858 GGAAATAGAT
Statistics
Matches: 133, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
86 90 0.68
87 10 0.08
88 1 0.01
89 32 0.24
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (88 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAGATTTACAGATCTGAACCCCCTAAGCAGTAG
TAGACCAAACCGAAGACGAAGAA
Found at i:5622148 original size:20 final size:22
Alignment explanation
Indices: 5622125--5622166 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5622115 CATGTATATA
5622125 TATAT-AC-TATATATTTTTAT
1 TATATCACGTATATATTTTTAT
*
5622145 TATATCACGTATATGTTTTTAT
1 TATATCACGTATATATTTTTAT
5622167 ATGTACGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (22 bp):
TATATCACGTATATATTTTTAT
Found at i:5622468 original size:29 final size:25
Alignment explanation
Indices: 5622417--5622469 Score: 61
Period size: 29 Copynumber: 2.0 Consensus size: 25
5622407 ATTATTAACC
*
5622417 TTGCTTTTATGTCATCTTTTTATAA
1 TTGCTTTTATGTCATCTTATTATAA
5622442 TTGCTTGTTATTGTCATTCATTATTATA
1 TTGCTT-TTA-TGTCA-TC-TTATTATA
5622470 CATTATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 6 0.26
26 3 0.13
27 5 0.22
28 2 0.09
29 7 0.30
ACGTcount: A:0.21, C:0.11, G:0.09, T:0.58
Consensus pattern (25 bp):
TTGCTTTTATGTCATCTTATTATAA
Found at i:5623472 original size:75 final size:75
Alignment explanation
Indices: 5623349--5623499 Score: 275
Period size: 75 Copynumber: 2.0 Consensus size: 75
5623339 GGTAATTTTG
*
5623349 TCGGTCAGCGTCCAATCGATGTGAATCAATCAATCAGCAGAGCAATCTCACCAAGCGCTGCTCCT
1 TCGGTAAGCGTCCAATCGATGTGAATCAATCAATCAGCAGAGCAATCTCACCAAGCGCTGCTCCT
5623414 GCACCATACT
66 GCACCATACT
* *
5623424 TCGGTAAGCTTCCAATCGATGTGAATCAATCAATCAGCAGAGCGATCTCACCAAGCGCTGCTCCT
1 TCGGTAAGCGTCCAATCGATGTGAATCAATCAATCAGCAGAGCAATCTCACCAAGCGCTGCTCCT
5623489 GCACCATACT
66 GCACCATACT
5623499 T
1 T
5623500 ATTTCCTTCG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (75 bp):
TCGGTAAGCGTCCAATCGATGTGAATCAATCAATCAGCAGAGCAATCTCACCAAGCGCTGCTCCT
GCACCATACT
Found at i:5624934 original size:18 final size:20
Alignment explanation
Indices: 5624911--5624954 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
5624901 TTTTTATTGT
5624911 AATTTTAATA-TTC-TATAA
1 AATTTTAATATTTCTTATAA
*
5624929 AATTTTAATATTTCTTATAT
1 AATTTTAATATTTCTTATAA
5624949 AATTTT
1 AATTTT
5624955 TTATTTCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.43
19 3 0.13
20 10 0.43
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTTTAATATTTCTTATAA
Found at i:5633202 original size:2 final size:2
Alignment explanation
Indices: 5633197--5633226 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5633187 GGTAAAAAAA
5633197 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5633227 TAAATCTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5633759 original size:26 final size:26
Alignment explanation
Indices: 5633730--5633815 Score: 145
Period size: 26 Copynumber: 3.3 Consensus size: 26
5633720 TGATACAAAT
*
5633730 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5633756 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5633782 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5633808 TGATAATA
1 TGATAATA
5633816 ATTTCATATC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:5638520 original size:15 final size:15
Alignment explanation
Indices: 5638478--5638528 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
5638468 CCCCTTTCCT
5638478 TTCTTTCT-T-TTTC
1 TTCTTTCTCTGTTTC
* *
5638491 GTCTGTTCCCTGTTTC
1 TTCT-TTCTCTGTTTC
5638507 TTCTTTCTCTGTTTC
1 TTCTTTCTCTGTTTC
5638522 TT-TTTCT
1 TTCTTTCT
5638529 TTTGTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 3 0.10
14 8 0.26
15 13 0.42
16 7 0.23
ACGTcount: A:0.00, C:0.25, G:0.08, T:0.67
Consensus pattern (15 bp):
TTCTTTCTCTGTTTC
Found at i:5639033 original size:3 final size:3
Alignment explanation
Indices: 5639025--5639085 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
5639015 AATTTATTTG
5639025 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5639073 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
5639086 AAAATATCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5639453 original size:73 final size:73
Alignment explanation
Indices: 5639366--5639523 Score: 284
Period size: 73 Copynumber: 2.2 Consensus size: 73
5639356 TTACTTTTCT
*
5639366 ATTAATCTATAATTCAACTTTTACCCCTTATTCAATTTAGTCTTTTTTTCTTAATTACCCTTAAT
1 ATTAATCTATAATTCAACTTTTACCCCTTATTCAATTTAGTCTTTTTTTCCTAATTACCCTTAAT
*
5639431 TAAGCTAA
66 TAAACTAA
5639439 ATTAATCTATAATTCAACTTTTACCCCTTATTCAATTTAGTCTTTTTTTCCTAATTACCCTTAAT
1 ATTAATCTATAATTCAACTTTTACCCCTTATTCAATTTAGTCTTTTTTTCCTAATTACCCTTAAT
5639504 TAAACTAA
66 TAAACTAA
5639512 ATTAA-CT-TAATT
1 ATTAATCTATAATT
5639524 ATAAACACAC
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
71 5 0.06
72 2 0.02
73 76 0.92
ACGTcount: A:0.32, C:0.19, G:0.02, T:0.47
Consensus pattern (73 bp):
ATTAATCTATAATTCAACTTTTACCCCTTATTCAATTTAGTCTTTTTTTCCTAATTACCCTTAAT
TAAACTAA
Found at i:5641749 original size:2 final size:2
Alignment explanation
Indices: 5641742--5641780 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5641732 GATATTTACA
5641742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5641781 AACATAATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5642170 original size:31 final size:29
Alignment explanation
Indices: 5642103--5642172 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
5642093 TGATAGTATG
*
5642103 TACATAATATATTAAAAAATATATATATA
1 TACATAATATATTAAAAAATATAAATATA
* *
5642132 CATATAATAT-TTATAAAAATATAAAAATATA
1 TACATAATATATTA-AAAAATAT--AAATATA
5642163 TACATAATAT
1 TACATAATAT
5642173 GCATAAAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 3 0.09
29 16 0.48
31 14 0.42
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (29 bp):
TACATAATATATTAAAAAATATAAATATA
Found at i:5647517 original size:50 final size:50
Alignment explanation
Indices: 5647442--5647618 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
5647432 CCATGGAAAC
*
5647442 AAGTGATAAGTGATAGCTTCGGCTACACATATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * *
5647492 AAGTGATAAGTAATAACTTTGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
5647542 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
5647592 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
5647619 CTGATCAGTG
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
50 86 0.78
51 24 0.22
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:5647804 original size:31 final size:31
Alignment explanation
Indices: 5647596--5647797 Score: 305
Period size: 31 Copynumber: 6.5 Consensus size: 31
5647586 AAATGACAAC
5647596 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
5647627 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
5647658 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
5647689 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * *
5647720 TGCAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
5647751 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
5647782 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
5647798 TGGCTACAAG
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 155 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:5667629 original size:20 final size:20
Alignment explanation
Indices: 5667604--5667674 Score: 101
Period size: 19 Copynumber: 3.6 Consensus size: 20
5667594 AGGTTCTTGA
5667604 TTTTTTTTTTGGGGTTAGG-
1 TTTTTTTTTTGGGGTTAGGT
*
5667623 TTTTTTTTTT-AGGTTAGGT
1 TTTTTTTTTTGGGGTTAGGT
**
5667642 TTTTTTTTTTTTGGTTAGGT
1 TTTTTTTTTTGGGGTTAGGT
5667662 TTTTTTTTTTGGG
1 TTTTTTTTTTGGG
5667675 AGGGCTTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
18 7 0.15
19 20 0.43
20 19 0.41
ACGTcount: A:0.06, C:0.00, G:0.24, T:0.70
Consensus pattern (20 bp):
TTTTTTTTTTGGGGTTAGGT
Found at i:5667671 original size:18 final size:18
Alignment explanation
Indices: 5667604--5667673 Score: 95
Period size: 18 Copynumber: 3.7 Consensus size: 18
5667594 AGGTTCTTGA
*
5667604 TTTTTTTTTTGGGGTTAGG
1 TTTTTTTTTT-TGGTTAGG
*
5667623 TTTTTTTTTTAGGTTAGG
1 TTTTTTTTTTTGGTTAGG
5667641 TTTTTTTTTTTTTGGTTAGG
1 --TTTTTTTTTTTGGTTAGG
5667661 TTTTTTTTTTTGG
1 TTTTTTTTTTTGG
5667674 GAGGGCTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
18 20 0.43
19 10 0.21
20 17 0.36
ACGTcount: A:0.06, C:0.00, G:0.23, T:0.71
Consensus pattern (18 bp):
TTTTTTTTTTTGGTTAGG
Found at i:5668420 original size:88 final size:87
Alignment explanation
Indices: 5668279--5668673 Score: 297
Period size: 88 Copynumber: 4.6 Consensus size: 87
5668269 GTGATCCTGA
** * *
5668279 GCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTG-AAACTTAACTTGAAAAGCAGATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAAAGCAGA-ATTGA
* *
5668343 AAATACCTCGATATGTGACTGAAG
64 AAATACCTCGACATGTGACCGAAG
* ** * *
5668367 GTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAAGACTCAACT-C
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAAAAG-CAGAATTGA
* * * * *
5668430 AACT-CTCACAGAAAT-T-A--AAAA
64 AAATAC-CTC-GACATGTGACCGAAG
*
5668451 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAA-A-AAA---AATAG-A-AATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTGAAAACAGAAATTGAAAAGCAGAATTG
* *
5668509 AAAATAGCTC-AGCACGTGAGCC-AAG
63 AAAATACCTCGA-CATGTGA-CCGAAG
* * * *
5668534 GCTCAACTCACTTTTCGCAATATGAGTTGATTTTTGAAAACAG-AATCTGAAAAACAGATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAAT-TGAAAAGCAGA-ATTGA
5668598 AAATACCTCGACATGTGACCCG-AG
64 AAATACCTCGACATGTGA-CCGAAG
** *
5668622 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAA
5668674 TTACCTCAAC
Statistics
Matches: 243, Mismatches: 36, Indels: 56
0.73 0.11 0.17
Matches are distributed among these distances:
78 1 0.00
79 4 0.02
80 16 0.07
81 4 0.02
82 5 0.02
83 29 0.12
84 33 0.14
85 5 0.02
86 7 0.03
87 19 0.08
88 106 0.44
89 14 0.06
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (87 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAGCAGAATTGAAA
ATACCTCGACATGTGACCGAAG
Found at i:5668443 original size:30 final size:30
Alignment explanation
Indices: 5668407--5668466 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
5668397 TTTTTGAAAA
5668407 ACAGAAATT-AAAAGACTCAACTCAACTCTC
1 ACAGAAATTAAAAAG-CTCAACTCAACTCTC
*
5668437 ACAGAAATTAAAAAGCTCAACTCACCTCTC
1 ACAGAAATTAAAAAGCTCAACTCAACTCTC
5668467 GCAATATGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.45, C:0.28, G:0.07, T:0.20
Consensus pattern (30 bp):
ACAGAAATTAAAAAGCTCAACTCAACTCTC
Found at i:5668834 original size:49 final size:50
Alignment explanation
Indices: 5668739--5668835 Score: 135
Period size: 49 Copynumber: 1.9 Consensus size: 50
5668729 TTTTTGAAAG
5668739 ACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACTCATTTTGA
1 ACAGAAATTGAAAATACCTCA-CATGTGGACCGAGGCTCAACTCATTTTGA
* * *
5668790 ACAGAAATTGAAATTACCTCA-ATGT-GTCTTGAGGCTCAACTCATTT
1 ACAGAAATTGAAAATACCTCACATGTGGAC-CGAGGCTCAACTCATTT
5668836 CTCGCAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 2 0.05
49 20 0.48
51 20 0.48
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (50 bp):
ACAGAAATTGAAAATACCTCACATGTGGACCGAGGCTCAACTCATTTTGA
Found at i:5668876 original size:72 final size:72
Alignment explanation
Indices: 5668789--5669014 Score: 285
Period size: 72 Copynumber: 3.0 Consensus size: 72
5668779 ACTCATTTTG
5668789 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
5668854 TTTTGAA
66 TTTTGAA
*
5668861 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
5668926 TTTTTTTTTTGAA
66 ------TTTTGAA
* * * ** *
5668939 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ATGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
5669003 TG-ATTTTGAA
62 TGAATTTTGAA
5669013 AA
1 AA
5669015 AGTAGAAATT
Statistics
Matches: 136, Mismatches: 8, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
72 64 0.47
73 1 0.01
74 8 0.06
78 8 0.06
79 20 0.15
80 1 0.01
81 33 0.24
82 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:5669105 original size:408 final size:407
Alignment explanation
Indices: 5668634--5669474 Score: 1614
Period size: 408 Copynumber: 2.1 Consensus size: 407
5668624 TCAACTCATT
5668634 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
5668699 ACTCATTTCTCGCAATATGAGTTGAA-TTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCA
66 ACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCA
*
5668763 TGTGGACCGAGGCTCAACTCATTTTGAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCA
131 TGT-GACCGAGGCTCAACTCATTTTGAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
*
5668828 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTG
195 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAACTGAAATTACCTCAACGTGTCTTG
5668893 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATAC
260 AGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTTTTTTTGAAAGACAGAAATTGAAAATAC
5668958 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAA
324 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAA
5669023 TTAAAAGGTTCAACCCACC
389 TTAAAAGGTTCAACCCACC
5669042 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
*
5669107 ACTCATTTCTCGCAATTTGAGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCA
66 ACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCA
5669172 TGTGACCGAGGCTCAACTCATTTTGAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
131 TGTGACCGAGGCTCAACTCATTTTGAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
5669237 CTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAACTGAAATTACCTCAACGTGTCTTGA
196 CTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAACTGAAATTACCTCAACGTGTCTTGA
5669302 GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCT
261 GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCT
5669367 CAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT
326 CAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT
5669432 AAAAGGTTCAACCCACC
391 AAAAGGTTCAACCCACC
5669449 TCTCGCAATATGAGTTG-ATTCTTGAA
1 TCTCGCAATATGAGTTGAATT-TTGAA
5669475 CAACGTAAAT
Statistics
Matches: 428, Mismatches: 3, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
406 3 0.01
407 139 0.32
408 245 0.57
409 41 0.10
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (407 bp):
TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
ACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCA
TGTGACCGAGGCTCAACTCATTTTGAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
CTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAACTGAAATTACCTCAACGTGTCTTGA
GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCT
CAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT
AAAAGGTTCAACCCACC
Found at i:5669217 original size:50 final size:49
Alignment explanation
Indices: 5669148--5669243 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 49
5669138 TTTTTGAAAG
*
5669148 ACAGAAATTGAAAATACCTCAGCATGTGAC-CGAGGCTCAACTCATTTTGA
1 ACAGAAATTGAAAATACCTCA--ACGTGACTCGAGGCTCAACTCATTTTGA
* * *
5669198 ACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 ACAGAAATTGAAAATACCTCAACGTGACTCGAGGCTCAACTCATTT
5669244 CTCGCAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
48 5 0.12
49 16 0.39
50 20 0.49
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (49 bp):
ACAGAAATTGAAAATACCTCAACGTGACTCGAGGCTCAACTCATTTTGA
Found at i:5669284 original size:72 final size:72
Alignment explanation
Indices: 5669197--5669421 Score: 274
Period size: 72 Copynumber: 3.0 Consensus size: 72
5669187 ACTCATTTTG
5669197 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
5669262 TTTTGAA
66 TTTTGAA
*
5669269 AACAGAAACTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
*
5669334 TTTTTTTTTGAA
65 ----ATTTTGAA
* * * * ** *
5669346 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
5669410 TG-ATTTTGAA
62 TGAATTTTGAA
5669420 AA
1 AA
5669422 AGTAGAAATT
Statistics
Matches: 133, Mismatches: 11, Indels: 17
0.83 0.07 0.11
Matches are distributed among these distances:
72 63 0.47
73 1 0.01
74 8 0.06
77 8 0.06
78 19 0.14
80 33 0.25
81 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:5669331 original size:201 final size:202
Alignment explanation
Indices: 5668619--5669392 Score: 1238
Period size: 201 Copynumber: 3.8 Consensus size: 202
5668609 CATGTGACCC
5668619 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
5668684 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTTTTTTGAAAGACAGAAATT
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATT
* *
5668748 GAAAATACCTCAGCATGTGGACCGAGGCTCAACTCATTTTGAACAGAAATTGAAATTACCTCAAT
131 GAAAATACCTCAGCATGTGAACCGAGGCTCAACTCATTTTGAACAGAAATTGAAATTACCTCAAA
5668813 GTGTCTT
196 GTGTCTT
5668820 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
5668885 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATT
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATT
* * * ** **
5668950 GAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATG-AGCTGATTTTGA--
131 GAAAATACCTCAGCATGTGAACCGAGGCTCAACTCA--TTTTG-AACA-GAAATTGAAATT-ACC
* **
5669012 -AAAAGTAGAAATT
191 TCAAAGT-G-TCTT
* * * **
5669025 AAAAGGTTCAACCCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 --GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
*
5669090 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATTTGAGTTGAATTTTTTTTTTGAAAGACAGAAA
64 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAA
5669155 TTGAAAATACCTCAGCATGTG-ACCGAGGCTCAACTCATTTTGAACAGAAATTGAAATTACCTCA
129 TTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCATTTTGAACAGAAATTGAAATTACCTCA
*
5669219 ACGTGTCTT
194 AAGTGTCTT
*
5669228 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAACTGAAATTACCTCAAC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
5669293 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTTTTTTTGAAAGACAGAAATT
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATT
5669357 GAAAATACCTCAGCATGTGAACCGAGGCTCAACTCA
131 GAAAATACCTCAGCATGTGAACCGAGGCTCAACTCA
5669393 CCTCTCGCAA
Statistics
Matches: 522, Mismatches: 36, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
200 44 0.08
201 219 0.42
202 60 0.11
203 15 0.03
204 8 0.02
205 15 0.03
206 18 0.03
207 143 0.27
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (202 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAAC
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTTTTTGAAAGACAGAAATT
GAAAATACCTCAGCATGTGAACCGAGGCTCAACTCATTTTGAACAGAAATTGAAATTACCTCAAA
GTGTCTT
Found at i:5669614 original size:71 final size:72
Alignment explanation
Indices: 5669487--5669645 Score: 243
Period size: 71 Copynumber: 2.2 Consensus size: 72
5669477 ACGTAAATCG
* * *
5669487 AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
5669552 A-ATT-A
66 ATATTGA
*
5669557 AAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTT
1 AAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTT
*
5669622 GATTTTGA
65 GATATTGA
5669630 AAAACAAAAATT-AAAA
1 AAAACAAAAATTGAAAA
5669646 GGCTTAACTC
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
70 3 0.04
71 63 0.78
72 11 0.14
73 4 0.05
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (72 bp):
AAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
ATATTGA
Found at i:5669741 original size:123 final size:123
Alignment explanation
Indices: 5669521--5669767 Score: 381
Period size: 123 Copynumber: 2.0 Consensus size: 123
5669511 GCGTGACCTG
* * * *
5669521 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTAAAACACAAAAATTGAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTAGCAATATGAGTTCAATTAAAACACAAAAACTAAAAATACCTCAGCGT
5669586 GCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 GCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* *
5669645 AGGCTTAACTCACCTCTAGCAATATGAG-TCAATTTAAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTAGCAATATGAGTTCAA-TTAAAACACAAAAACTAAAAATACCTCAGCG
* * *
5669708 TGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
65 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
5669767 A
1 A
5669768 ATACCTCAAC
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
122 16 0.14
123 65 0.58
124 32 0.28
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.25
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTAGCAATATGAGTTCAATTAAAACACAAAAACTAAAAATACCTCAGCGT
GCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:5669788 original size:71 final size:71
Alignment explanation
Indices: 5669645--5669820 Score: 230
Period size: 71 Copynumber: 2.5 Consensus size: 71
5669635 AAAAATTAAA
* * * * * * *
5669645 AGGCTTAACTCACCTCTAGCAATATGAG-TCAATTTAAAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAACAAAAACTAAAAATACCTCAACGT
5669709 GCCCTG
66 GCCCTG
* *
5669715 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAACAAAAACTAAAAATACCTCAACGT
* *
5669780 GTCTTG
66 GCCCTG
5669786 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
5669821 CCCTTGAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
70 26 0.28
71 67 0.72
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (71 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAACAAAAACTAAAAATACCTCAACGT
GCCCTG
Found at i:5679380 original size:25 final size:25
Alignment explanation
Indices: 5679352--5679423 Score: 103
Period size: 24 Copynumber: 2.9 Consensus size: 25
5679342 GGTTTCTTGA
5679352 TTTTTTTTTTGGGTTA-GTTTTTCT
1 TTTTTTTTTTGGGTTAGGTTTTTCT
**
5679376 TTTTTTTTGGGGGTTAGGTTTTTTCT
1 TTTTTTTTTTGGGTTAGG-TTTTTCT
5679402 TTTTTTTTTT-GGTTAGGTTTTT
1 TTTTTTTTTTGGGTTAGGTTTTT
5679424 TTTGGGAGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.45
25 8 0.19
26 15 0.36
ACGTcount: A:0.04, C:0.03, G:0.21, T:0.72
Consensus pattern (25 bp):
TTTTTTTTTTGGGTTAGGTTTTTCT
Found at i:5679424 original size:25 final size:25
Alignment explanation
Indices: 5679352--5679424 Score: 105
Period size: 26 Copynumber: 3.0 Consensus size: 25
5679342 GGTTTCTTGA
5679352 TTTTTTTTTTGGGTTA-G-TTTTTC
1 TTTTTTTTTTGGGTTAGGTTTTTTC
*
5679375 TTTTTTTTTGGGGGTTAGGTTTTTTC
1 TTTTTTTTT-TGGGTTAGGTTTTTTC
*
5679401 TTTTTTTTTTTGGTTAGGTTTTTT
1 TTTTTTTTTTGGGTTAGGTTTTTT
5679425 TTGGGAGGGC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 9 0.20
24 6 0.14
25 14 0.32
26 15 0.34
ACGTcount: A:0.04, C:0.03, G:0.21, T:0.73
Consensus pattern (25 bp):
TTTTTTTTTTGGGTTAGGTTTTTTC
Found at i:5680083 original size:17 final size:17
Alignment explanation
Indices: 5680063--5680142 Score: 56
Period size: 17 Copynumber: 4.6 Consensus size: 17
5680053 ATATATTAAA
5680063 AATATATATATACATAT
1 AATATATATATACATAT
* * *
5680080 AATATTTATAAAAATAT
1 AATATATATATACATAT
5680097 AA-A-ATATATACATAAT
1 AATATATATATACAT-AT
* *
5680113 ATACATAAAGTATACATAT
1 A-ATATATA-TATACATAT
*
5680132 ACATATTTATA
1 A-ATATATATA
5680143 ATACTTAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
15 7 0.15
16 4 0.09
17 17 0.36
18 3 0.06
19 9 0.19
20 7 0.15
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (17 bp):
AATATATATATACATAT
Found at i:5680112 original size:30 final size:28
Alignment explanation
Indices: 5680047--5680115 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 28
5680037 TGATAGTATG
*
5680047 TACATAATATATTAAAAATATATATATA
1 TACATAATATATTAAAAATATAAATATA
* * *
5680075 CATATAATATTTATAAAAATATAAAATATA
1 TACATAATATAT-TAAAAATAT-AAATATA
5680105 TACATAATATA
1 TACATAATATA
5680116 CATAAAGTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
28 9 0.28
29 9 0.28
30 14 0.44
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (28 bp):
TACATAATATATTAAAAATATAAATATA
Found at i:5684748 original size:3 final size:3
Alignment explanation
Indices: 5684740--5684809 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
5684730 AAAAGTAAAG
* *
5684740 TAA TAA TAA TAG TGA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5684787 TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
5684810 TATGAGTGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5688914 original size:3 final size:3
Alignment explanation
Indices: 5688906--5689126 Score: 207
Period size: 3 Copynumber: 73.3 Consensus size: 3
5688896 ATTAGTTTAT
* * *
5688906 TTA TTA TTA TTA TT- TTA CTA TTA CTTA -TA TTTA TTA TCA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA
* * ** * *
5688951 TCA TTTA TTA TCA TTA TTA CGA CTA TCA TTA TTA TTA TT- TTA TTTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * * * *
5688997 TTA TCA TTA TTC CTA TTA TTA TTA TT- TTT TTA CTG TTA ATA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
5689042 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5689090 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5689127 AATAGTTTTT
Statistics
Matches: 176, Mismatches: 33, Indels: 18
0.78 0.15 0.08
Matches are distributed among these distances:
2 8 0.05
3 156 0.89
4 12 0.07
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:5695122 original size:88 final size:89
Alignment explanation
Indices: 5694992--5695155 Score: 240
Period size: 88 Copynumber: 1.9 Consensus size: 89
5694982 CGGTGAATTC
** *
5694992 ACAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACATCAAATCTTGTCTCCCTAAG
1 ACAGATCTTATCTCCATGAAATAGCAATGGAGCAGATCGAAGACAACAAATCTTGTCTCCCTAAG
5695057 CAGTAGTGGAGTAGGCTGAAGATT
66 CAGTAGTGGAGTAGGCTGAAGATT
* * * * * *
5695081 ACAGATCTTATCTCCCT-AAATAGTAGTGGAGCAGATTGAAGACAACGAATCTTTTCTCCCTAAG
1 ACAGATCTTATCTCCATGAAATAGCAATGGAGCAGATCGAAGACAACAAATCTTGTCTCCCTAAG
5695145 CAGTAGTGGAG
66 CAGTAGTGGAG
5695156 CAGATTTAAG
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 50 0.76
89 16 0.24
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (89 bp):
ACAGATCTTATCTCCATGAAATAGCAATGGAGCAGATCGAAGACAACAAATCTTGTCTCCCTAAG
CAGTAGTGGAGTAGGCTGAAGATT
Found at i:5695187 original size:42 final size:44
Alignment explanation
Indices: 5695019--5695241 Score: 216
Period size: 44 Copynumber: 5.1 Consensus size: 44
5695009 GAGGTAGCAA
* * *
5695019 TGGAGCAGATCGAAGACATCAAATCTTGTCTCCCTAAGCAGTAG
1 TGGAGCAGATTGAAGACAACAAATCTTATCTCCCTAAGCAGTAG
* ** ** * **
5695063 TGGAGTAGGCTGAAGATTACAGATCTTATCTCCCTAAATAGTAG
1 TGGAGCAGATTGAAGACAACAAATCTTATCTCCCTAAGCAGTAG
* *
5695107 TGGAGCAGATTGAAGACAACGAATCTTTTCTCCCTAAGCAGTAG
1 TGGAGCAGATTGAAGACAACAAATCTTATCTCCCTAAGCAGTAG
* * * *
5695151 TGGAGCAGATTTAAG-CGAC-CATCTTATCTCCCTAAGCAGCAG
1 TGGAGCAGATTGAAGACAACAAATCTTATCTCCCTAAGCAGTAG
* ** ** * *
5695193 TGGAGTAGGCTGAAGATTACAGATCTTATCTCTCTAAGCAGTAG
1 TGGAGCAGATTGAAGACAACAAATCTTATCTCCCTAAGCAGTAG
5695237 TGGAG
1 TGGAG
5695242 TAAATTTAAG
Statistics
Matches: 142, Mismatches: 35, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
42 31 0.22
43 5 0.04
44 106 0.75
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
TGGAGCAGATTGAAGACAACAAATCTTATCTCCCTAAGCAGTAG
Found at i:5695219 original size:86 final size:86
Alignment explanation
Indices: 5695085--5695287 Score: 237
Period size: 86 Copynumber: 2.4 Consensus size: 86
5695075 AAGATTACAG
* * ** *
5695085 ATCTTATCTCCCTAAATAGTAGTGGAGCAGATTGAAGACAACGAATCTTTTCTCCCTAAGCAGTA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGACAACGAATCTTATCTCCCTAAGCAGTA
* *
5695150 GTGGAGCAGATTTAAGCGACC
66 GTGGAGCAAATTTAAGCCACC
* * ** *
5695171 ATCTTATCTCCCTAAGCAGCAGTGGAGTAGGCTGAAGATTAC-AGATCTTATCTCTCTAAGCAGT
1 ATCTTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGACAACGA-ATCTTATCTCCCTAAGCAGT
* *
5695235 AGTGGAGTAAATTTAAGCCACT
65 AGTGGAGCAAATTTAAGCCACC
* * *
5695257 ATCCTATCTTCCTAAGTAGTTGTGGAGTAGG
1 ATCTTATCTCCCTAAGTAGTAGTGGAGTAGG
5695288 TCAAAGCCAC
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 1 0.01
86 96 0.99
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (86 bp):
ATCTTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGACAACGAATCTTATCTCCCTAAGCAGTA
GTGGAGCAAATTTAAGCCACC
Found at i:5695330 original size:44 final size:44
Alignment explanation
Indices: 5695280--5695449 Score: 130
Period size: 44 Copynumber: 3.9 Consensus size: 44
5695270 AAGTAGTTGT
* *
5695280 GGAGTAGGTCAAAGCCACAATTTGTATCTCCTTGAAGTTTCAGC
1 GGAGTAGATCAAAGCCACAATTTGTATCTCCTTGAAATTTCAGC
* * * * * ** **
5695324 GGAGTAGATC-GAGACTACAAATCTCT-TCTCCCTGAAATGGCATT
1 GGAGTAGATCAAAG-CCAC-AATTTGTATCTCCTTGAAATTTCAGC
* * *
5695368 GGAGCAGCTCAAAGCCACAATTCGTATCTCCTTGAAATTTCAGC
1 GGAGTAGATCAAAGCCACAATTTGTATCTCCTTGAAATTTCAGC
* * * *
5695412 GGAGTAGATCAAGGCTACAAATCTCT-TCTCCTTGAAAT
1 GGAGTAGATCAAAGCCAC-AATTTGTATCTCCTTGAAAT
5695450 GGCATTGGAG
Statistics
Matches: 91, Mismatches: 30, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
43 6 0.07
44 74 0.81
45 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
GGAGTAGATCAAAGCCACAATTTGTATCTCCTTGAAATTTCAGC
Found at i:5695330 original size:130 final size:130
Alignment explanation
Indices: 5695019--5695310 Score: 309
Period size: 130 Copynumber: 2.2 Consensus size: 130
5695009 GAGGTAGCAA
* * * * *
5695019 TGGAGCAGATCGAAGACATCAAATCTTGTCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACA
1 TGGAGCAGATCAAAGCCA-C-AATCTTATCTCCCTAAGCAGCAGCGGAGTAGGCTGAAGATTACA
* * * *
5695084 GATCTTATCTCCCTAAATAGTAGTGGAGCAGATTGAAGACAACGAATCTTTTCTCCCTAAGCAGT
64 GATCTTATCTCCCTAAACAGTAGTGGAGCAAATTGAAGACAACGAATCCTATCTCCCTAAGCAGT
5695149 AG
129 AG
** * * *
5695151 TGGAGCAGATTTAAGCGACCATCTTATCTCCCTAAGCAGCAGTGGAGTAGGCTGAAGATTACAGA
1 TGGAGCAGATCAAAGCCACAATCTTATCTCCCTAAGCAGCAGCGGAGTAGGCTGAAGATTACAGA
* * * * * * * * *
5695216 TCTTATCTCTCTAAGCAGTAGTGGAGTAAATTTAAG-CCAC-TATCCTATCTTCCTAAGTAGTTG
66 TCTTATCTCCCTAAACAGTAGTGGAGCAAATTGAAGACAACGAATCCTATCTCCCTAAGCAGTAG
* * *
5695279 TGGAGTAGGTCAAAGCCACAATTTGTATCTCC
1 TGGAGCAGATCAAAGCCACAATCT-TATCTCC
5695311 TTGAAGTTTC
Statistics
Matches: 132, Mismatches: 27, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
128 34 0.26
129 10 0.08
130 73 0.55
131 1 0.01
132 14 0.11
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (130 bp):
TGGAGCAGATCAAAGCCACAATCTTATCTCCCTAAGCAGCAGCGGAGTAGGCTGAAGATTACAGA
TCTTATCTCCCTAAACAGTAGTGGAGCAAATTGAAGACAACGAATCCTATCTCCCTAAGCAGTAG
Found at i:5695386 original size:88 final size:88
Alignment explanation
Indices: 5695291--5695882 Score: 815
Period size: 88 Copynumber: 6.7 Consensus size: 88
5695281 GAGTAGGTCA
* *
5695291 AAGCCACAATTTGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGACTACAAATCTCTTCTCCC
1 AAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
* *
5695356 TGAAATGGCATTGGAGCAGCTCA
66 TGAAATGGCATTGGAGCGGCTCG
* * *
5695379 AAGCCACAATTCGTATCTCCTTGAAATTTCAGCGGAGTAGATCAAGGCTACAAATCTCTTCTCCT
1 AAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
*
5695444 TGAAATGGCATTGGAGCGGCTTG
66 TGAAATGGCATTGGAGCGGCTCG
* ** * *
5695467 AAGCCAGAATTCGTATCTCCTTGAAGTTTCATTGGAGTAGATCAAGGCTACAAATCTCTTTTCCC
1 AAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
*
5695532 TGAAATGGCATTGGAGCGTCTCG
66 TGAAATGGCATTGGAGCGGCTCG
* * * * * * *
5695555 AAACCACAATTCATATCTCATTGAAATTTTAGCGGAGTAGATCGATGCTACAAATCCCTTCTCCC
1 AAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
* * *
5695620 TAAAATGGTATTGGAGCTGCTCG
66 TGAAATGGCATTGGAGCGGCTCG
* * * * * * * *
5695643 AAGCCACAATTCGTATCTCTTTAAAGTTCCAGTGGAGTAGATTGAAGCTATAAATCTCTGCTCCC
1 AAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
5695708 TGAAATGGCATTGGAGCGGCTCG
66 TGAAATGGCATTGGAGCGGCTCG
* * * *
5695731 AAGCCACAATTCGTATCTCTTTAAAGTTTCATCAGAGTAGATCGAGGCTACAAATCTCTTCTCCC
1 AAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
* *
5695796 TGAAATGGTATTAGAGCGGCTCG
66 TGAAATGGCATTGGAGCGGCTCG
* * *
5695819 AAGCCACAATTCTTATCTCTTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCC
1 AAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCC
5695883 TTGATCTCCT
Statistics
Matches: 443, Mismatches: 61, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 443 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (88 bp):
AAGCCACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCC
TGAAATGGCATTGGAGCGGCTCG
Found at i:5695544 original size:44 final size:44
Alignment explanation
Indices: 5695324--5695547 Score: 172
Period size: 44 Copynumber: 5.1 Consensus size: 44
5695314 AAGTTTCAGC
* * *
5695324 GGAGTAGATCGAGACTACAAATCTCTTCTCCCTGAAATGGCATT
1 GGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGCATT
* * * * ** **
5695368 GGAGCAGCTCAAAGCCAC-AAT-TCGTATCTCCTTGAAATTTCAGC
1 GGAGTAGATCAAGGCTACAAATCTC-T-TCTCCTTGAAATGGCATT
5695412 GGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGCATT
1 GGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGCATT
** * * * **
5695456 GGAGCGGCTTGAA-GC--CAGAAT-TCGTATCTCCTTGAAGTTTCATT
1 GGAGTAG-ATCAAGGCTACA-AATCTC-T-TCTCCTTGAAATGGCATT
* *
5695500 GGAGTAGATCAAGGCTACAAATCTCTTTTCCCTGAAATGGCATT
1 GGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGCATT
5695544 GGAG
1 GGAG
5695548 CGTCTCGAAA
Statistics
Matches: 133, Mismatches: 35, Indels: 24
0.69 0.18 0.12
Matches are distributed among these distances:
42 6 0.05
43 11 0.08
44 99 0.74
45 11 0.08
46 6 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (44 bp):
GGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGCATT
Found at i:5695913 original size:53 final size:53
Alignment explanation
Indices: 5695833--5695939 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
5695823 CACAATTCTT
* * *
5695833 ATCTCTTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
1 ATCTCCTTGAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCTTG
5695886 ATCTCCTTGAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCTTG
1 ATCTCCTTGAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCTTG
5695939 A
1 A
5695940 AATGGTATTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (53 bp):
ATCTCCTTGAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCTTG
Found at i:5695979 original size:44 final size:44
Alignment explanation
Indices: 5695931--5696069 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
5695921 ACAAATCTCT
5695931 TCTCCTTGAAATGGTATTGGAGCGGCTCGAAGCCACAATTCGTA
1 TCTCCTTGAAATGGTATTGGAGCGGCTCGAAGCCACAATTCGTA
* * ** ** * * *
5695975 TCTCCTTGAAGT-TTAAGCGGAGTAGATCGAGGCTACAAATCTC-T-
1 TCTCCTTGAAATGGT-ATTGGAGCGGCTCGAAGCCAC-AAT-TCGTA
* * *
5696019 TCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTA
1 TCTCCTTGAAATGGTATTGGAGCGGCTCGAAGCCACAATTCGTA
*
5696063 TATCCTT
1 TCTCCTT
5696070 AAAGTTTCAG
Statistics
Matches: 66, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
42 2 0.03
43 5 0.08
44 53 0.80
45 4 0.06
46 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTCCTTGAAATGGTATTGGAGCGGCTCGAAGCCACAATTCGTA
Found at i:5695999 original size:141 final size:141
Alignment explanation
Indices: 5695745--5696023 Score: 468
Period size: 141 Copynumber: 2.0 Consensus size: 141
5695735 CACAATTCGT
* * *
5695745 ATCTCTTTAAAGTTTCATCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGTATTAG
1 ATCTCCTTAAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCCTGAAATGGTATTAG
* * *
5695810 AGCGGCTCGAAGCCACAATTCTTATCTCTTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAATC
66 AGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTAAGCAGAGTAGATCGAGGCTACAAATC
5695875 TCTTCTCCTTG
131 TCTTCTCCTTG
* * *
5695886 ATCTCCTTGAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGTATTGG
1 ATCTCCTTAAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCCTGAAATGGTATTAG
*
5695951 AGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTAAGCGGAGTAGATCGAGGCTACAAATC
66 AGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTAAGCAGAGTAGATCGAGGCTACAAATC
5696016 TCTTCTCC
131 TCTTCTCC
5696024 CTAAAATGGC
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
141 128 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (141 bp):
ATCTCCTTAAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCCTGAAATGGTATTAG
AGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTAAGCAGAGTAGATCGAGGCTACAAATC
TCTTCTCCTTG
Found at i:5696078 original size:229 final size:229
Alignment explanation
Indices: 5695689--5696111 Score: 659
Period size: 229 Copynumber: 1.8 Consensus size: 229
5695679 GTAGATTGAA
* *
5695689 GCTATAAATCTCTGCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCTTTA
1 GCTACAAATCTCTGCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTA
* * * *
5695754 AAGTTTCATCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGTATTAGAGCGGCTCG
66 AAGTTTAAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTAAAATGGCATTAGAGCGGCTCG
* * * * * *
5695819 AAGCCACAATTCTTATCTCTTTGAAGTTTCAGC-AGAGTAGATCGAGGCTACAAATCTCTTCTCC
131 AAGCCACAATTCGTATATCCTTAAAGTTTCAGCTA-AGTAAATCGAAGCTACAAATCTCTTCTCC
5695883 TTGATCTCCTTGAAGTTTCAACAGAGTAGATCAAG
195 TTGATCTCCTTGAAGTTTCAACAGAGTAGATCAAG
* * * *
5695918 GCTACAAATCTCTTCTCCTTGAAATGGTATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTG
1 GCTACAAATCTCTGCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTA
* *
5695983 AAGTTTAAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTAAAATGGCATTGGAGCGGCTCG
66 AAGTTTAAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTAAAATGGCATTAGAGCGGCTCG
*
5696048 AAGCCACAATTCGTATATCCTTAAAGTTTCAGCTAAGTAAATCGAAGCTATAAATCTCTTCTCC
131 AAGCCACAATTCGTATATCCTTAAAGTTTCAGCTAAGTAAATCGAAGCTACAAATCTCTTCTCC
5696112 CTAAAATGGC
Statistics
Matches: 174, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
229 173 0.99
230 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (229 bp):
GCTACAAATCTCTGCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTA
AAGTTTAAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTAAAATGGCATTAGAGCGGCTCG
AAGCCACAATTCGTATATCCTTAAAGTTTCAGCTAAGTAAATCGAAGCTACAAATCTCTTCTCCT
TGATCTCCTTGAAGTTTCAACAGAGTAGATCAAG
Found at i:5696164 original size:317 final size:317
Alignment explanation
Indices: 5695589--5696203 Score: 926
Period size: 317 Copynumber: 1.9 Consensus size: 317
5695579 AATTTTAGCG
* * *
5695589 GAGTAGATCGATGCTACAAATCCCTTCTCCCTAAAATGGTATTGGAGCTGCTCGAAGCCACAATT
1 GAGTAGATCAAGGCTACAAATCCCTTCTCCCTAAAATGGTATTGGAGCGGCTCGAAGCCACAATT
* * * * * *
5695654 CGTATCTCTTTAAAGTTCCAGTGGAGTAGATTGAAGCTATAAATCTCTGCTCCCTGAAATGGCAT
66 CGTATCTCCTTAAAGTTCAAGCGGAGTAGATCGAAGCTACAAATCTCTGCTCCCTAAAATGGCAT
* * * * *
5695719 TGGAGCGGCTCGAAGCCACAATTCGTATCTCTTTAAAGTTTCATCAGAGTAGATCGAGGCTACAA
131 TGGAGCGGCTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAGCAGAGTAAATCGAAGCTACAA
* * * * *
5695784 ATCTCTTCTCCCTGAAATGGTATTAGAGCGGCTCGAAGCCACAATTCTTATCTCTTTGAAGTTTC
196 ATCTCTTCTCCCTAAAATGGCATTAGAGCAGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTC
5695849 AGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGATCTCCTTGAAGTTTCAACA
261 AGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGATCTCCTTGAAGTTTCAACA
* * *
5695906 GAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGTATTGGAGCGGCTCGAAGCCACAATT
1 GAGTAGATCAAGGCTACAAATCCCTTCTCCCTAAAATGGTATTGGAGCGGCTCGAAGCCACAATT
* * * *
5695971 CGTATCTCCTTGAAGTTTAAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTAAAATGGCAT
66 CGTATCTCCTTAAAGTTCAAGCGGAGTAGATCGAAGCTACAAATCTCTGCTCCCTAAAATGGCAT
*
5696036 TGGAGCGGCTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAGCTA-AGTAAATCGAAGCTATA
131 TGGAGCGGCTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAGC-AGAGTAAATCGAAGCTACA
* *
5696100 AATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTTGAAGCCACAATTCGTATCTCCTTGAAGTTT
195 AATCTCTTCTCCCTAAAATGGCATTAGAGCAGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTT
* * *
5696165 TAGCGGAGTAGATCGAGGCTACAAATCTCTTTTCCTTGA
260 CAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGA
5696204 AATGGCATTG
Statistics
Matches: 265, Mismatches: 32, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
317 264 1.00
318 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (317 bp):
GAGTAGATCAAGGCTACAAATCCCTTCTCCCTAAAATGGTATTGGAGCGGCTCGAAGCCACAATT
CGTATCTCCTTAAAGTTCAAGCGGAGTAGATCGAAGCTACAAATCTCTGCTCCCTAAAATGGCAT
TGGAGCGGCTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAGCAGAGTAAATCGAAGCTACAA
ATCTCTTCTCCCTAAAATGGCATTAGAGCAGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTC
AGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGATCTCCTTGAAGTTTCAACA
Found at i:5696250 original size:405 final size:405
Alignment explanation
Indices: 5695481--5696287 Score: 1197
Period size: 405 Copynumber: 2.0 Consensus size: 405
5695471 CAGAATTCGT
*** *
5695481 ATCTCCTTGAAGTTTCATTGGAGTAGATCAAGGCTACAAATCTCTTTTCCCTGAAATGGCATTGG
1 ATCTCCTTGAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
* * *
5695546 AGCGTCTCGAAACCACAATTCATATCTCATTGAAATTTTAGCGGAGTAGATCGATGCTACAAATC
66 AGCGGCTCGAAACCACAATTCATATCTCATTGAAATTTAAGCGGAGTAGATCGAGGCTACAAATC
* * * *
5695611 CCTTCTCCCTAAAATGGTATTGGAGCTGCTCGAAGCCACAATTCGTATCTCTTTAAAGTTCCAGT
131 CCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATATCCTTAAAGTTCCAGT
* * * * *
5695676 GGAGTAGATTGAAGCTATAAATCTCTGCTCCCTGAAATGGCATTGGAGCGGCTCGAAGCCACAAT
196 GAAGTAAATCGAAGCTATAAATCTCTGCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACAAT
* * *
5695741 TCGTATCTCTTTAAAGTTTCATCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGTA
261 TCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCA
* * *
5695806 TTAGAGCGGCTCGAAGCCACAATTCTTATCTCTTTGAAGTTTCAGCAG-AGTAGATCGAGGCTAC
326 TTAGAGCGGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGC-GTAGTAGATCAAAGCTAC
5695870 AAATCTCTTCTCCTTG
390 AAATCTCTTCTCCTTG
* *
5695886 ATCTCCTTGAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGTATTGG
1 ATCTCCTTGAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
* * * *
5695951 AGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTAAGCGGAGTAGATCGAGGCTACAAATC
66 AGCGGCTCGAAACCACAATTCATATCTCATTGAAATTTAAGCGGAGTAGATCGAGGCTACAAATC
* *
5696016 TCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATATCCTTAAAGTTTCAGC
131 CCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATATCCTTAAAGTTCCAG-
* *
5696081 T-AAGTAAATCGAAGCTATAAATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTTGAAGCCACAA
195 TGAAGTAAATCGAAGCTATAAATCTCTGCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACAA
* * * * *
5696145 TTCGTATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTACAAATCTCTTTTCCTTGAAATGGC
260 TTCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
* * *
5696210 ATTGGAGCGGCTCGAAGCCATAATT-TGTATCTCCTTGAAGTTTCAGCGTAGTAGATCAAAGTTA
325 ATTAGAGCGGCTCGAAGCCACAATTCT-TATCTCCTTGAAGTTTCAGCGTAGTAGATCAAAGCTA
*
5696274 TAAATCTCTTCTCC
389 CAAATCTCTTCTCC
5696288 CTGAAATAGC
Statistics
Matches: 358, Mismatches: 41, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
404 2 0.01
405 355 0.99
406 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (405 bp):
ATCTCCTTGAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
AGCGGCTCGAAACCACAATTCATATCTCATTGAAATTTAAGCGGAGTAGATCGAGGCTACAAATC
CCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATATCCTTAAAGTTCCAGT
GAAGTAAATCGAAGCTATAAATCTCTGCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACAAT
TCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCA
TTAGAGCGGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGCGTAGTAGATCAAAGCTACA
AATCTCTTCTCCTTG
Found at i:5696319 original size:493 final size:493
Alignment explanation
Indices: 5695393--5696374 Score: 1437
Period size: 493 Copynumber: 2.0 Consensus size: 493
5695383 CACAATTCGT
* *
5695393 ATCTCCTTGAAATTTCAGCGGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGCATTGG
1 ATCTCCTTGAAATTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGCATTGG
* * * **
5695458 AGCGGCTTGAAGCCAGAATTCGTATCTCCTTGAAGTTTCATTGGAGTAGATCAAGGCTACAAATC
66 AGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTAAGCGGAGTAGATCAAGGCTACAAATC
* * * * *
5695523 TCTTTTCCCTGAAATGGCATTGGAGCGTCTCGAAACCACAATTCATATCTCATTGAAATTTTAGC
131 TCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAACCACAATTCATATATCATTGAAATTTCAGC
* * * * *
5695588 GGAGTAGATCGATGCTACAAATCCCTTCTCCCTAAAATGGTATTGGAGCTGCTCGAAGCCACAAT
196 GAAGTAAATCGAAGCTACAAATCCCTTCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACAAT
* * * *
5695653 TCGTATCTCTTTAAAGTTCCAGTGGAGTAGATTGAAGCTATAAATCTCTGCTCCCTGAAATGGCA
261 TCGTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTGCTCCCTGAAATGGCA
* * * *
5695718 TTGGAGCGGCTCGAAGCCACAATTCGTATCTCTTTAAAGTTTCATCAGAGTAGATCGAGGCTACA
326 TTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCAAAGCTACA
* * * * *
5695783 AATCTCTTCTCCCTGAAATGGTATTAGAGCGGCTCGAAGCCACAATTCTTATCTCTTTGAAGTTT
391 AATCTCTTCTCCCTGAAATAGCATTAGAGCGGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTT
*
5695848 CAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
456 CAGCAGAGTAGATCGAGGCTACAAATATCTTCTCCTTG
* *
5695886 ATCTCCTTGAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGTATTGG
1 ATCTCCTTGAAATTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGCATTGG
*
5695951 AGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTAAGCGGAGTAGATCGAGGCTACAAATC
66 AGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTAAGCGGAGTAGATCAAGGCTACAAATC
* * *
5696016 TCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATATCCTT-AAAGTTTCAG
131 TCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAACCACAATTCATATATCATTGAAA-TTTCAG
* * * *
5696080 CTAAGTAAATCGAAGCTATAAATCTCTTCTCCCTAAAATGGCATTGGAGCAGCTTGAAGCCACAA
195 CGAAGTAAATCGAAGCTACAAATCCCTTCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACAA
* ** * ** *
5696145 TTCGTATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTACAAATCTCTTTTCCTTGAAATGGC
260 TTCGTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTGCTCCCTGAAATGGC
* * * *
5696210 ATTGGAGCGGCTCGAAGCCATAATTTGTATCTCCTTGAAGTTTCAGC-GTAGTAGATCAAAGTTA
325 ATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCAG-AGTAGATCAAAGCTA
* *
5696274 TAAATCTCTTCTCCCTGAAATAGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTAAAGT
389 CAAATCTCTTCTCCCTGAAATAGCATTAGAGCGGCTCGAAGCCACAATTCGTATCTCCTTAAAGT
*
5696339 TTCAGCGGAGTAGATCGAGGCTACAAATATCTTCTC
454 TTCAGCAGAGTAGATCGAGGCTACAAATATCTTCTC
5696375 TCTGAAATGG
Statistics
Matches: 432, Mismatches: 55, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
492 4 0.01
493 428 0.99
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (493 bp):
ATCTCCTTGAAATTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGCATTGG
AGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTAAGCGGAGTAGATCAAGGCTACAAATC
TCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAACCACAATTCATATATCATTGAAATTTCAGC
GAAGTAAATCGAAGCTACAAATCCCTTCTCCCTAAAATGGCATTGGAGCAGCTCGAAGCCACAAT
TCGTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTGCTCCCTGAAATGGCA
TTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTTCAGCAGAGTAGATCAAAGCTACA
AATCTCTTCTCCCTGAAATAGCATTAGAGCGGCTCGAAGCCACAATTCGTATCTCCTTAAAGTTT
CAGCAGAGTAGATCGAGGCTACAAATATCTTCTCCTTG
Found at i:5696405 original size:88 final size:88
Alignment explanation
Indices: 5695886--5696397 Score: 736
Period size: 88 Copynumber: 5.8 Consensus size: 88
5695876 CTTCTCCTTG
* * * * *
5695886 ATCTCCTTGAAGTTTCAACAGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGTATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
5695951 AGCGGCTCGAAGCCACAATTCGT
66 AGCGGCTCGAAGCCACAATTCGT
* *
5695974 ATCTCCTTGAAGTTTAAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTAAAATGGCATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
5696039 AGCGGCTCGAAGCCACAATTCGT
66 AGCGGCTCGAAGCCACAATTCGT
* * ** * * * *
5696062 ATATCCTTAAAGTTTCAGCTAAGTAAATCGAAGCTATAAATCTCTTCTCCCTAAAATGGCATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
* *
5696127 AGCAGCTTGAAGCCACAATTCGT
66 AGCGGCTCGAAGCCACAATTCGT
* * *
5696150 ATCTCCTTGAAGTTTTAGCGGAGTAGATCGAGGCTACAAATCTCTTTTCCTTGAAATGGCATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
* *
5696215 AGCGGCTCGAAGCCATAATTTGT
66 AGCGGCTCGAAGCCACAATTCGT
* * * * * *
5696238 ATCTCCTTGAAGTTTCAGCGTAGTAGATCAAAGTTATAAATCTCTTCTCCCTGAAATAGCATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
5696303 AGCGGCTCGAAGCCACAATTCGT
66 AGCGGCTCGAAGCCACAATTCGT
* * * *
5696326 ATCTCCTTAAAGTTTCAGCGGAGTAGATCGAGGCTACAAATATCTTCTCTCTGAAATGGAATTGG
1 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
5696391 AGCGGCT
66 AGCGGCT
5696398 TAAAGCCAGA
Statistics
Matches: 371, Mismatches: 53, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 371 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (88 bp):
ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGG
AGCGGCTCGAAGCCACAATTCGT
Found at i:5696521 original size:45 final size:44
Alignment explanation
Indices: 5696455--5697392 Score: 355
Period size: 45 Copynumber: 21.0 Consensus size: 44
5696445 AGGTCGAAGT
* * *
5696455 TACAAGTCTTATCTC-CATGAAGTTGTAGT-GCAGTAGACTAAAGA
1 TACAAATCTTATCTCTC-TGAAGTTGCAGTAG-AGCAGACTAAAGA
* * * *
5696499 TAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGGTTGAAGCTATGAATA
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA----G-A-CTA--AAGA
* * *
5696552 AACAAATCTTATCTCTTTGAAGTTGCAGTAGAGCAGA-TCAA-A
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGA
* * ** *
5696594 -ACAAACCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAGA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGA
* * * *
5696637 CACAAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTAAAGA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGA
* * * * *
5696681 TAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT-AA---A-GA
* * *
5696731 TTACAGATCTTATTTC-CTTGAAGTTGCAGTAGAGCAGA-TCAA-A
1 -TACAAATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGACTAAAGA
* * * * ** *
5696774 -ACAAACCTTATCT-TCCTAAAGTTGCAGTGGAACAGGTTGAAG-
1 TACAAATCTTATCTCT-CTGAAGTTGCAGTAGAGCAGACTAAAGA
* * * *
5696816 TCACTAATCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGA
1 T-ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGA
* * * * * * *
5696861 TAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAA
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT-AA---A-GA
* * * * *
5696911 TTACAGATGTTATCTCTTTGAAATTGCCGTAGAGCAGA-TAAA-A
1 -TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGA
* * ** *
5696954 -ACAAA-CATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGT
1 TACAAATC-TTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGA
* * * * *
5696997 TA-AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGGA-TGAAGA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA-GACTAAAGA
* * * * *
5697040 TAGCGAATCTTATTTCTTTGAAGTTGCAGTAGAGCA-AGTTGAAGA
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-CTAAAGA
* * * *
5697085 T--AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGA
* * * * * ** *
5697127 TAGCGAATCTTATTTCTTTGAAGTTGTAGTTGAGCAGGTTGAAG-
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGA
* * *
5697171 -ACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGA
* * * * * * * * *
5697214 TGGCGAATCTTAT-TTTCCTAAAGTTGTAGTGGAACAGATTGAAGCTA
1 T-ACAAATCTTATCTCT-CTGAAGTTGCAGTAGAGCAGACTAAAG--A
* * * *
5697261 TAATTGCAGATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA-TCAA-A
1 T-A---CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGA
* * * * * ** *
5697307 -ACAAACCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAA-T
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACT-AAAGA
* * * * *
5697350 TACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAG
1 TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAG
5697393 CGACAAGTCC
Statistics
Matches: 679, Mismatches: 150, Indels: 130
0.71 0.16 0.14
Matches are distributed among these distances:
41 113 0.17
42 79 0.12
43 47 0.07
44 111 0.16
45 184 0.27
46 6 0.01
47 3 0.00
48 4 0.01
49 9 0.01
50 81 0.12
51 9 0.01
52 29 0.04
53 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
TACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGA
Found at i:5696829 original size:180 final size:181
Alignment explanation
Indices: 5696412--5697392 Score: 1169
Period size: 180 Copynumber: 5.5 Consensus size: 181
5696402 GCCAGAAATC
* * *
5696412 ACAAACCTTATC-TCGT-TAAAGTAGCAGTGGAGCAGGTCGAAGTTACAAGTCTTATCTCCATGA
1 ACAAACCTTATCTTC-TCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGA
** * * *
5696475 AGTTGTAGTGCAGTAGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGGTTG
65 AGTTACAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTG
* *
5696540 AAGCTATGAATAAACAAATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAA
130 AAGCTAT-AAT-TACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAA
* ** * *
5696594 ACAAACCTTATC-TCTCTAAAGTTGCAGTAGAGCAGGTTGAAGACACAAGTCTTATCTCTCTAAA
1 ACAAACCTTATCTTCTCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAA
*
5696658 GTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTGA
66 GTTACAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTGA
* *
5696723 AGCTATAATTACAGATCTTATTTCCTTGAAGTTGCAGTAGAGCAGATCAAA
131 AGCTATAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAA
* *
5696774 ACAAACCTTATCTTC-CTAAAGTTGCAGTGGAACAGGTTGAAGTCACTAA-TCTTATCTCCCTGA
1 ACAAACCTTATCTTCTCTAAAGTTGCAGTGGAGCAGGTTGAAGTTAC-AAGTCTTATCTCCCTGA
* * * *
5696837 AGTTACAGTAGAGCAGACTGAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTG
65 AGTTACAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTG
* * * *
5696902 AAGCTATAATTACAGATGTTATCTCTTTGAAATTGCCGTAGAGCAGATAAAA
130 AAGCTATAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAA
* * * *
5696954 ACAAACATTATC-TCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTA-AAGTCTTATCTCCCTGAA
1 ACAAACCTTATCTTCTCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAA
* * * * *
5697017 GTTACAGTGGAGCAGGA-TGAAGATAGCGAATCTTATTTCTTTGAAGTTGCAGTAGAGCA-AGTT
66 GTTACAGTGGAGCA-GACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGA-TT
** * *
5697080 GAAG-----A-TA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
129 GAAGCTATAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGA-TCAA-A
* * * * * * *
5697127 TAGCGAATCTTAT-TTCTTTGAAGTTGTAGTTGAGCAGGTTGAAG--ACAAGTCTTATCTCTCTG
1 -A-CAAACCTTATCTTCTCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTG
* * * * * *
5697189 AAGTTGCAGTGGAGCAGACTGAAGATGGCGAATCTTATTT-TCCTAAAGTTGTAGTGGAACAGAT
64 AAGTTACAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCT-CTGAAGTTGCAGTGGAACAGAT
* *
5697253 TGAAGCTATAATTGCAGATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATCAAA
128 TGAAGCTATAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAA
* * *
5697307 ACAAACCTTATC-TCCCTAAAGTTGCAGTGGAGTAGGTTGAAATTACAAGTCTTATCTCCCTGAA
1 ACAAACCTTATCTTCTCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAA
*
5697371 GTTACAGTGGAGCAGATTAAAG
66 GTTACAGTGGAGCAGACTAAAG
5697393 CGACAAGTCC
Statistics
Matches: 686, Mismatches: 86, Indels: 56
0.83 0.10 0.07
Matches are distributed among these distances:
171 25 0.04
172 5 0.01
173 7 0.01
174 72 0.10
175 33 0.05
178 34 0.05
179 74 0.11
180 275 0.40
181 13 0.02
182 148 0.22
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (181 bp):
ACAAACCTTATCTTCTCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAA
GTTACAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTGA
AGCTATAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAA
Found at i:5697102 original size:87 final size:87
Alignment explanation
Indices: 5696970--5697228 Score: 403
Period size: 87 Copynumber: 3.0 Consensus size: 87
5696960 ATTATCTCCC
* * * *
5696970 TGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGGA-
1 TGAAGTTGCAGTAGAGCAGGTTGAAGAT-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GAC
5697034 TGAAGATAGCGAATCTTATTTCTT
64 TGAAGATAGCGAATCTTATTTCTT
*
5697058 TGAAGTTGCAGTAGAGCAAGTTGAAGATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
1 TGAAGTTGCAGTAGAGCAGGTTGAAGATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
5697123 AAGATAGCGAATCTTATTTCTT
66 AAGATAGCGAATCTTATTTCTT
* * * *
5697145 TGAAGTTGTAGTTGAGCAGGTTGAAGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTG
1 TGAAGTTGCAGTAGAGCAGGTTGAAGATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
*
5697210 AAGATGGCGAATCTTATTT
66 AAGATAGCGAATCTTATTT
5697229 TCCTAAAGTT
Statistics
Matches: 159, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
86 2 0.01
87 133 0.84
88 24 0.15
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (87 bp):
TGAAGTTGCAGTAGAGCAGGTTGAAGATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
AAGATAGCGAATCTTATTTCTT
Found at i:5697247 original size:353 final size:355
Alignment explanation
Indices: 5696412--5697385 Score: 1211
Period size: 353 Copynumber: 2.7 Consensus size: 355
5696402 GCCAGAAATC
* * *
5696412 ACAAACCTTATC-TCGTTAAAGTAGCAGTGGAGCAGGTCGAAGTTACAAGTCTTATCTCCATGAA
1 ACAAACCTTATCTTC-CTAAAGTTGCAGTGGAGCAGGTTGAAG-TACAAGTCTTATCTCC-TGAA
* * * * * *
5696476 GTTGTAGTGCAGTAGACTAAAGATAGCAAATCTTA-TTTCTCTGAAGTTGCAGTGGAACAGGTTG
63 GTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTC-CTAAAGTTGCAGTGGAACAGATTG
* *
5696540 AAGCTATGAATAAACAAATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTAT
127 AAGCTAT-AAT-TACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTAT
* * * ** * * *
5696605 CTCTCTAAAGTTGCAGTAGAGCAGGTTGAAGACACAAGTCTTATCTCTCTAAAGTTGCAGTGGAG
190 CTCCCTAAAGTTGCAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTACAGTGGAG
*
5696670 CA-GACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTGAAGCTATAATTA
255 CAGGACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTAGAACAGATTGAAG----AATTA
* *
5696734 CAGATCTTATTTCCTTGAAGTTGCAGTAGAGCAGATCAAA
316 CAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAA
*
5696774 ACAAACCTTATCTTCCTAAAGTTGCAGTGGAACAGGTTGAAGTCACTAA-TCTTATCTCCCTGAA
1 ACAAACCTTATCTTCCTAAAGTTGCAGTGGAGCAGGTTGAAGT-AC-AAGTCTTATCT-CCTGAA
* * *
5696838 GTTACAGTAGAGCAGACTGAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGA
63 GTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTCCTAAAGTTGCAGTGGAACAGATTGA
* * * * *
5696903 AGCTATAATTACAGATGTTATCTCTTTGAAATTGCCGTAGAGCAGATAAAAACAAACATTATCTC
128 AGCTATAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTC
*
5696968 CCTGAAGTTGCAGTGGAGCAGGTTAAAGTTA-AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAG
193 CCTAAAGTTGCAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAG
* * * *
5697032 GA-TGAAGATAGCGAATCTTATTTCTTTGAAGTTGCAGTAGAGCA-AGTTGAAG-A-TA-AG-TC
258 GACTAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTAGAACAGA-TTGAAGAATTACAGATC
* *
5697091 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
322 TTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAA-A
* * * * * *
5697127 TAGCGAATCTTAT-TTCTTTGAAGTTGTAGTTGAGCAGGTTGAAG-ACAAGTCTTATCTCTCTGA
1 -A-CAAACCTTATCTTC-CTAAAGTTGCAGTGGAGCAGGTTGAAGTACAAGTCTTATCTC-CTGA
* * *
5697190 AGTTGCAGTGGAGCAGACTGAAGATGGCGAATCTTATTTTCCTAAAGTTGTAGTGGAACAGATTG
62 AGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTCCTAAAGTTGCAGTGGAACAGATTG
* *
5697255 AAGCTATAATTGCAGATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATCAAAACAAACCTTATCT
127 AAGCTATAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCT
*
5697320 CCCTAAAGTTGCAGTGGAGTAGGTTGAAA-TTACAAGTCTTATCTCCCTGAAGTTACAGTGGAGC
192 CCCTAAAGTTGCAGTGGAGCAGGTT-AAAGTTACAAGTCTTATCTCCCTGAAGTTACAGTGGAGC
5697384 AG
256 AG
5697386 ATTAAAGCGA
Statistics
Matches: 536, Mismatches: 60, Indels: 40
0.84 0.09 0.06
Matches are distributed among these distances:
351 28 0.05
352 8 0.01
353 160 0.30
354 41 0.08
355 30 0.06
358 1 0.00
359 72 0.13
360 76 0.14
361 4 0.01
362 107 0.20
363 9 0.02
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (355 bp):
ACAAACCTTATCTTCCTAAAGTTGCAGTGGAGCAGGTTGAAGTACAAGTCTTATCTCCTGAAGTT
GCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTCCTAAAGTTGCAGTGGAACAGATTGAAGC
TATAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCCT
AAAGTTGCAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGGAC
TAAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTAGAACAGATTGAAGAATTACAGATCTTAT
CTCCCTGAAGTTGCAGTAGAGCAGATCAAA
Found at i:5697256 original size:87 final size:87
Alignment explanation
Indices: 5696999--5697257 Score: 371
Period size: 87 Copynumber: 3.0 Consensus size: 87
5696989 GTTAAAGTTA
*
5696999 AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGGA-TGAAGATAGCGAATCTTATTTCTTTGAAG
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTGAAGATAGCGAATCTTATTTCTTTGAAG
* *
5697063 TTGCAGTAGAGCA-AGTTGAAGAT
65 TTGTAGTAGAGCAGA-TTGAAGAC
5697086 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCTTTGAAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCTTTGAAGT
* *
5697151 TGTAGTTGAGCAGGTTGAAGAC
66 TGTAGTAGAGCAGATTGAAGAC
* * * *
5697173 AAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCGAATCTTATTT-TCCTAAAG
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCT-TTGAAG
* *
5697237 TTGTAGTGGAACAGATTGAAG
65 TTGTAGTAGAGCAGATTGAAG
5697258 CTATAATTGC
Statistics
Matches: 157, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
86 3 0.02
87 154 0.98
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (87 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCTTTGAAGT
TGTAGTAGAGCAGATTGAAGAC
Found at i:5699038 original size:13 final size:13
Alignment explanation
Indices: 5699022--5699054 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
5699012 TTTAATTAAA
*
5699022 TTAGTTAATTAGT
1 TTAGATAATTAGT
5699035 TTAGATAATTAGT
1 TTAGATAATTAGT
5699048 TTA-ATAA
1 TTAGATAA
5699055 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:5700299 original size:68 final size:68
Alignment explanation
Indices: 5700215--5700350 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
5700205 TTATGAGGAT
5700215 AAAGCCAACGAAAATAGCCGGCGTTTATAACATCAATTCAGTCACCATGCTCTCTAATCAGGTAG
1 AAAGCCAACGAAAATAGCCGGCGTTTATAACATCAATTCAGTCACCATGCTCTCTAATCAGGTAG
5700280 AAC
66 AAC
*
5700283 AAAGCCAACGAAAATAGCCGGCGTTTATAACATCGATTCAGTCACCATGCTCTCTAATCAGGTAG
1 AAAGCCAACGAAAATAGCCGGCGTTTATAACATCAATTCAGTCACCATGCTCTCTAATCAGGTAG
5700348 AAC
66 AAC
5700351 TTCTCAATAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (68 bp):
AAAGCCAACGAAAATAGCCGGCGTTTATAACATCAATTCAGTCACCATGCTCTCTAATCAGGTAG
AAC
Found at i:5708618 original size:3 final size:3
Alignment explanation
Indices: 5708610--5708930 Score: 294
Period size: 3 Copynumber: 107.3 Consensus size: 3
5708600 ATTAGTTTAT
* *
5708610 TTA TTA TTA TTA TTA TT- TTA CTA TTA CTTA -TA TTTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA
** * * * * *
5708655 TTA CGA CTA TCA TTA TTA TTA TT- TTA TTTA TTA TCA TTA TTC CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * *
5708700 TTA TTA TTA TTA TT- TTA TTG TTA ATA TTTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * ** * *
5708745 CTA TTA TTA TTA TT- TTT TTA TGG TTA ATA TTTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * *
5708790 TTA CTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
5708838 TTA TTA TTA TTA TTA TTA TTA CTA TTA GTA TTA TTT TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
5708886 TTT TTA TTA CTA TTA CTA CTA TTA TTA TTA -TA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5708931 AGTTTTTTTA
Statistics
Matches: 254, Mismatches: 53, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
2 12 0.05
3 230 0.91
4 12 0.05
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:5708626 original size:33 final size:33
Alignment explanation
Indices: 5708584--5708657 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
5708574 CCTTTTTTTG
* *
5708584 TCATT-TTATTAAATTAATTAGTT-TATTTATTA
1 TCATTATTATTAAACT-ATTACTTATATTTATTA
* **
5708616 TTATTATTATTTTACTATTACTTATATTTATTA
1 TCATTATTATTAAACTATTACTTATATTTATTA
5708649 TCATTATTA
1 TCATTATTA
5708658 CGACTATCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
32 10 0.29
33 24 0.71
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (33 bp):
TCATTATTATTAAACTATTACTTATATTTATTA
Found at i:5712121 original size:93 final size:93
Alignment explanation
Indices: 5712014--5712185 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
5712004 GCCCCTAAGT
* *
5712014 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5712079 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
5712107 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5712172 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
5712186 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:5712181 original size:46 final size:46
Alignment explanation
Indices: 5712009--5712181 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
5711999 AACCCGCCCC
* * *
5712009 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
5712055 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
5712103 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
5712148 TAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
5712182 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:5713549 original size:17 final size:17
Alignment explanation
Indices: 5713527--5713560 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5713517 CCTTCTTTCA
5713527 TGTAGAAGAAGATTTAG
1 TGTAGAAGAAGATTTAG
*
5713544 TGTAGAATAAGATTTAG
1 TGTAGAAGAAGATTTAG
5713561 GACCACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.32
Consensus pattern (17 bp):
TGTAGAAGAAGATTTAG
Found at i:5714475 original size:32 final size:33
Alignment explanation
Indices: 5714423--5714484 Score: 76
Period size: 32 Copynumber: 1.9 Consensus size: 33
5714413 TTATTTCCTT
*
5714423 TTTTATTTTAGCTTCTTCATT-TTATTCATTTA
1 TTTTATTTTAGCTTCTTCATTATCATTCATTTA
5714455 TTTTATTTT-GC-TCTTATCATTATCATTCAT
1 TTTTATTTTAGCTTC-T-TCATTATCATTCAT
5714485 ATCCGCATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
30 2 0.08
31 3 0.12
32 14 0.54
33 7 0.27
ACGTcount: A:0.19, C:0.15, G:0.03, T:0.63
Consensus pattern (33 bp):
TTTTATTTTAGCTTCTTCATTATCATTCATTTA
Found at i:5717353 original size:30 final size:30
Alignment explanation
Indices: 5717308--5717367 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
5717298 ATTTAATACG
5717308 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
5717338 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
5717368 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:5723577 original size:26 final size:26
Alignment explanation
Indices: 5723539--5723594 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
5723529 TGATACAAAT
*
5723539 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGAGTTAGGTAAATGTTCCA
*
5723565 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
5723591 TGAT
1 TGAT
5723595 GGGAATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGAGTTAGGTAAATGTTCCA
Found at i:5725158 original size:21 final size:20
Alignment explanation
Indices: 5725132--5725174 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
5725122 CATGTTTGAC
5725132 TGTTGTTATT-TACTGCATGCA
1 TGTTGTTATTAT-CTG-ATGCA
5725153 TGTTGTTATTATCTGATGCA
1 TGTTGTTATTATCTGATGCA
5725173 TG
1 TG
5725175 GGATTGGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 13 0.62
22 1 0.05
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.49
Consensus pattern (20 bp):
TGTTGTTATTATCTGATGCA
Found at i:5729308 original size:26 final size:26
Alignment explanation
Indices: 5729270--5729377 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
5729260 TGATACAAAT
*
5729270 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5729296 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5729322 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5729348 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5729374 TGAT
1 TGAT
5729378 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:5730911 original size:26 final size:25
Alignment explanation
Indices: 5730859--5730911 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
5730849 TTTACAGTTT
5730859 TACCCCTAGTAGGTAAATTACCGAAA
1 TACCCCTAG-AGGTAAATTACCGAAA
*
5730885 TACCCCTAG-GGTTAAATTGACCTAAA
1 TACCCCTAGAGG-TAAATT-ACCGAAA
5730911 T
1 T
5730912 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGGTAAATTACCGAAA
Found at i:5733906 original size:25 final size:26
Alignment explanation
Indices: 5733877--5733951 Score: 93
Period size: 25 Copynumber: 3.0 Consensus size: 26
5733867 CAGACACACC
5733877 ATGGCTCTCATGAGCTTCTCGATATT
1 ATGGCTCTCATGAGCTTCTCGATATT
5733903 -TGGCTCTCATGAGCTTCTC-A-ATT
1 ATGGCTCTCATGAGCTTCTCGATATT
* * *
5733926 AGTGACTCTCTTGAGCTTCCCGATAT
1 A-TGGCTCTCATGAGCTTCTCGATAT
5733952 ACAGCTCGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 3 0.07
24 1 0.02
25 35 0.83
26 1 0.02
27 2 0.05
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (26 bp):
ATGGCTCTCATGAGCTTCTCGATATT
Found at i:5733977 original size:25 final size:25
Alignment explanation
Indices: 5733938--5734000 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
5733928 TGACTCTCTT
* *
5733938 GAGCTTCCCGATATACAGCTCGGAA
1 GAGCTTCCCGTTATACAGCTCGAAA
* **
5733963 GAGTTTCCCGTTATATGGCTCGAAA
1 GAGCTTCCCGTTATACAGCTCGAAA
5733988 GAGCTTCCCGTTA
1 GAGCTTCCCGTTA
5734001 ATATGCTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (25 bp):
GAGCTTCCCGTTATACAGCTCGAAA
Found at i:5735775 original size:20 final size:18
Alignment explanation
Indices: 5735750--5735787 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 18
5735740 GCAGGGGAAG
5735750 GAAAGAAAGAAAGGAGAAAA
1 GAAAG-AAGAAAGG-GAAAA
5735770 GAAAGAAGAAAGGGAAAA
1 GAAAGAAGAAAGGGAAAA
5735788 TTGAGGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
GAAAGAAGAAAGGGAAAA
Found at i:5741666 original size:16 final size:16
Alignment explanation
Indices: 5741631--5741682 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
5741621 CTAATCGAGA
* *
5741631 AAGAAGAAAACTAAAG
1 AAGAAGAAAAATAGAG
5741647 -AGAAGAAAAATAGAG
1 AAGAAGAAAAATAGAG
*
5741662 AAGAAGGAAAAA-AGAA
1 AAGAA-GAAAAATAGAG
5741678 AAGAA
1 AAGAA
5741683 TTTCGGCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 13 0.42
16 12 0.39
17 6 0.19
ACGTcount: A:0.71, C:0.02, G:0.23, T:0.04
Consensus pattern (16 bp):
AAGAAGAAAAATAGAG
Found at i:5743793 original size:16 final size:16
Alignment explanation
Indices: 5743772--5743813 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
5743762 CAAGGGAAGG
*
5743772 AAAGAAAGAAAGTAGA
1 AAAGAAAGAAAGGAGA
5743788 AAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGGAGA
5743804 AAAGAAAGAA
1 AAAGAAAGAA
5743814 GAAAGGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.02
Consensus pattern (16 bp):
AAAGAAAGAAAGGAGA
Found at i:5744566 original size:18 final size:18
Alignment explanation
Indices: 5744522--5744568 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
5744512 AAGGTACTGG
5744522 ATAATTGACTGTTATTGA
1 ATAATTGACTGTTATTGA
*
5744540 A-AGACTGACTGTTATTGA
1 ATA-ATTGACTGTTATTGA
5744558 ATAATTGACTG
1 ATAATTGACTG
5744569 ATATAAAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (18 bp):
ATAATTGACTGTTATTGA
Found at i:5744824 original size:35 final size:35
Alignment explanation
Indices: 5744785--5744856 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
5744775 AATGAATGAT
*
5744785 TGAATATTTGTGATCGCTATATGGTTTTAAATGTA
1 TGAATATTTATGATCGCTATATGGTTTTAAATGTA
*
5744820 TGAATATTTATGATCGCTATATGGTTTTAAGTGTA
1 TGAATATTTATGATCGCTATATGGTTTTAAATGTA
5744855 TG
1 TG
5744857 TTATGTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.46
Consensus pattern (35 bp):
TGAATATTTATGATCGCTATATGGTTTTAAATGTA
Found at i:5746360 original size:13 final size:13
Alignment explanation
Indices: 5746326--5746362 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
5746316 ATTATTCTAA
5746326 TATTTGA-TTTAT
1 TATTTGATTTTAT
5746338 TATTTGATTTTAGT
1 TATTTGATTTTA-T
5746352 TATTT-ATTTTA
1 TATTTGATTTTA
5746363 ATAATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 10 0.43
14 6 0.26
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
TATTTGATTTTAT
Found at i:5751080 original size:13 final size:13
Alignment explanation
Indices: 5751062--5751125 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
5751052 AGTTTGGCAA
5751062 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
5751075 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
5751088 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
* *
5751101 TGCTTTCGAGAAG
1 TGCTTTTGAAAAG
5751114 TGCTTTTGAAAA
1 TGCTTTTGAAAA
5751126 ATTTAAGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 3 0.07
13 38 0.88
14 2 0.05
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:5753300 original size:72 final size:72
Alignment explanation
Indices: 5753152--5753389 Score: 349
Period size: 72 Copynumber: 3.3 Consensus size: 72
5753142 AAAATCATAT
**
5753152 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAA-TCAATAT-CAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
5753213 ATACCAAAC
65 A-ACCAAAC
* *
5753222 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACACAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
5753287 ACCAAAC
66 ACCAAAC
* * *
5753294 ATAAACAACCATTGGTAAAACTAGATTACACATTAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
5753359 ACCAAAC
66 ACCAAAC
* *
5753366 ATAAATAACTATTGACAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
5753390 TTTAGCATTT
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
70 25 0.17
71 20 0.13
72 101 0.67
73 5 0.03
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.23
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Done.