Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 70 of 125
Found at i:21882201 original size:17 final size:17
Alignment explanation
Indices: 21882179--21882217 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
21882169 AGGTGGAGAA
* *
21882179 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
*
21882196 CTTGTTTGTAGAGAATT
1 CTTGTTCGTAGAGAATT
21882213 CTTGT
1 CTTGT
21882218 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.26, T:0.49
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:21889048 original size:50 final size:50
Alignment explanation
Indices: 21888962--21889199 Score: 212
Period size: 50 Copynumber: 4.7 Consensus size: 50
21888952 GACAAAATAA
* * ** *
21888962 CGAATCTTATACCCTCTAAAGCTGTAGAAGAATAGATTGAAGTCGCAATGG
1 CGAATCTTATACAC-CTAAAGCTGTAGAGGGGTAGATTGAAGCCGCAATGG
*
21889013 CGAATCTTATACACCTACAGCTGTAGAGGGGTAGATTGAAGCCGCAATGG
1 CGAATCTTATACACCTAAAGCTGTAGAGGGGTAGATTGAAGCCGCAATGG
* * * *
21889063 CAAATCTCATACACCCAAAGCTGTAGAGGGGCAGATTGAAGCCGCAA-GG
1 CGAATCTTATACACCTAAAGCTGTAGAGGGGTAGATTGAAGCCGCAATGG
** * * * * * **
21889112 ACGAATCTTATATTCCTAAAGTTGGA-ATAGGATAAATTGAAGCTACAA-GAG
1 -CGAATCTTATACACCTAAAGCTGTAGA-GGGGTAGATTGAAGCCGCAATG-G
* * * *
21889163 CAAATCCTATACCCCTAAAGTTGTAGAGGGGTAGATT
1 CGAATCTTATACACCTAAAGCTGTAGAGGGGTAGATT
21889200 AAAACTCACA
Statistics
Matches: 151, Mismatches: 32, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
49 3 0.02
50 133 0.88
51 15 0.10
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (50 bp):
CGAATCTTATACACCTAAAGCTGTAGAGGGGTAGATTGAAGCCGCAATGG
Found at i:21889672 original size:15 final size:15
Alignment explanation
Indices: 21889654--21889687 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
21889644 CTAAGAAAGA
21889654 GAAACACCAGAAGGC
1 GAAACACCAGAAGGC
21889669 GAAACACCAGAAGGC
1 GAAACACCAGAAGGC
21889684 GAAA
1 GAAA
21889688 TTCAGCAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.24, G:0.26, T:0.00
Consensus pattern (15 bp):
GAAACACCAGAAGGC
Found at i:21890384 original size:23 final size:23
Alignment explanation
Indices: 21890354--21890406 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 23
21890344 TGTTTGATTA
21890354 TATATATATATATATTTATCTATTTTC
1 TATAT-TATATATA-TT-T-TATTTTC
*
21890381 TATATTCTATATATTTTATTTTC
1 TATATTATATATATTTTATTTTC
21890404 TAT
1 TAT
21890407 TTCAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 10 0.40
24 1 0.04
25 2 0.08
26 7 0.28
27 5 0.20
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (23 bp):
TATATTATATATATTTTATTTTC
Found at i:21892333 original size:9 final size:8
Alignment explanation
Indices: 21892305--21892335 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
21892295 AAGATAGGTG
21892305 TTCAATCT
1 TTCAATCT
21892313 TTCAATCT
1 TTCAATCT
21892321 TTCAATACT
1 TTCAAT-CT
21892330 TTCAAT
1 TTCAAT
21892336 TGGGTCTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (8 bp):
TTCAATCT
Found at i:21896038 original size:129 final size:129
Alignment explanation
Indices: 21895808--21896065 Score: 489
Period size: 129 Copynumber: 2.0 Consensus size: 129
21895798 GTGTCAGTTT
*
21895808 TGGGTAGTTTAAGGAAAATGAATAGTCAGAGCAAAATAGCTTCCTACTTTTTAGCCCGTATGTGC
1 TGGGTAGTTTAAGGAAAATGAATAGTCAGAGCAAAATAGCTTACTACTTTTTAGCCCGTATGTGC
*
21895873 AGCTAATGTTGGCTATAGTATATCATATTTAGGTGAATACTAAAGCAACACTTATGTTTTCGGG
66 AGCTAATGTTGGCTATAGTATATCATATTCAGGTGAATACTAAAGCAACACTTATGTTTTCGGG
*
21895937 TGGGTAGTTTAAGGAAAATGAGTAGTCAGAGCAAAATAGCTTACTACTTTTTAGCCCGTATGTGC
1 TGGGTAGTTTAAGGAAAATGAATAGTCAGAGCAAAATAGCTTACTACTTTTTAGCCCGTATGTGC
21896002 AGCTAATGTTGGCTATAGTATATCATATTCAGGTGAATACTAAAGCAACACTTATGTTTTCGGG
66 AGCTAATGTTGGCTATAGTATATCATATTCAGGTGAATACTAAAGCAACACTTATGTTTTCGGG
21896066 GATGATTAAT
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (129 bp):
TGGGTAGTTTAAGGAAAATGAATAGTCAGAGCAAAATAGCTTACTACTTTTTAGCCCGTATGTGC
AGCTAATGTTGGCTATAGTATATCATATTCAGGTGAATACTAAAGCAACACTTATGTTTTCGGG
Found at i:21896735 original size:23 final size:23
Alignment explanation
Indices: 21896669--21896735 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
21896659 TTTTTACAAG
21896669 ATTTTTTACTCATTTTTCTAATT
1 ATTTTTTACTCATTTTTCTAATT
* ** * *
21896692 -TTAAGTTTA-AAATTGTACTAATT
1 ATT--TTTTACTCATTTTTCTAATT
21896715 ATTTTTTACTCATTTTTCTAA
1 ATTTTTTACTCATTTTTCTAA
21896736 CGATTGTAAT
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
22 6 0.20
23 18 0.60
24 6 0.20
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.58
Consensus pattern (23 bp):
ATTTTTTACTCATTTTTCTAATT
Found at i:21897104 original size:6 final size:6
Alignment explanation
Indices: 21897095--21897133 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
21897085 ATAGTGATAT
* * *
21897095 TGAAGA TGAAGA TGAAGA TGAGGA TGAGGA TGAGGA TGA
1 TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGA
21897134 GAATGCTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.18
Consensus pattern (6 bp):
TGAAGA
Found at i:21897112 original size:12 final size:12
Alignment explanation
Indices: 21897095--21897133 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
21897085 ATAGTGATAT
*
21897095 TGAAGATGAAGA
1 TGAAGATGAGGA
21897107 TGAAGATGAGGA
1 TGAAGATGAGGA
*
21897119 TGAGGATGAGGA
1 TGAAGATGAGGA
21897131 TGA
1 TGA
21897134 GAATGCTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.18
Consensus pattern (12 bp):
TGAAGATGAGGA
Found at i:21897134 original size:6 final size:6
Alignment explanation
Indices: 21897099--21897134 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
21897089 TGATATTGAA
* *
21897099 GATGAA GATGAA GATGAG GATGAG GATGAG GATGAG
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG
21897135 AATGCTGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.44, T:0.17
Consensus pattern (6 bp):
GATGAG
Found at i:21898989 original size:20 final size:21
Alignment explanation
Indices: 21898964--21899002 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21898954 CAGAGAAGAG
*
21898964 GAGAGC-AAGGTCATCAAAAT
1 GAGAGCTAAAGTCATCAAAAT
21898984 GAGAGCTAAAGTCATCAAA
1 GAGAGCTAAAGTCATCAAA
21899003 GAGACATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (21 bp):
GAGAGCTAAAGTCATCAAAAT
Found at i:21910512 original size:12 final size:12
Alignment explanation
Indices: 21910492--21910538 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
21910482 TAGAAGAAGT
21910492 GGAAGAAGAAGAA
1 GGAA-AAGAAGAA
21910505 GGAAAAGAAGAA
1 GGAAAAGAAGAA
*
21910517 -GAAAGAGAGGAA
1 GGAAA-AGAAGAA
21910529 GGAAAAGAAG
1 GGAAAAGAAG
21910539 TCGAGGCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 4 0.13
12 18 0.60
13 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (12 bp):
GGAAAAGAAGAA
Found at i:21930989 original size:18 final size:18
Alignment explanation
Indices: 21930944--21930991 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
21930934 GAAAAAATTA
21930944 TCGATGCAACCTACGATG
1 TCGATGCAACCTACGATG
* *
21930962 TCGACGCAACCTATGATG
1 TCGATGCAACCTACGATG
*
21930980 TCGATACAACCT
1 TCGATGCAACCT
21930992 GATGTACCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (18 bp):
TCGATGCAACCTACGATG
Found at i:21937050 original size:18 final size:17
Alignment explanation
Indices: 21936995--21937053 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
21936985 ATTCCCTTTC
**
21936995 TCATTGCATTTTTAATTG
1 TCATTGCA-TTTCCATTG
* * *
21937013 TCACTGCATATGCATTG
1 TCATTGCATTTCCATTG
21937030 TCATTGCATTTCCATTTG
1 TCATTGCATTTCCA-TTG
21937048 TCATTG
1 TCATTG
21937054 GAAATTAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
17 17 0.52
18 16 0.48
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (17 bp):
TCATTGCATTTCCATTG
Found at i:21937075 original size:16 final size:16
Alignment explanation
Indices: 21937056--21937086 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21937046 TGTCATTGGA
21937056 AATTAATGTCAGTGCC
1 AATTAATGTCAGTGCC
21937072 AATTAATGTCAGTGC
1 AATTAATGTCAGTGC
21937087 ATTGGGGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (16 bp):
AATTAATGTCAGTGCC
Found at i:21937771 original size:18 final size:17
Alignment explanation
Indices: 21937716--21937774 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
21937706 ATTCCCTTTC
**
21937716 TCATTGCATTTTTAATTG
1 TCATTGCA-TTTCCATTG
* * *
21937734 TCACTGCATATGCATTG
1 TCATTGCATTTCCATTG
21937751 TCATTGCATTTCCATTTG
1 TCATTGCATTTCCA-TTG
21937769 TCATTG
1 TCATTG
21937775 TAAATTAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
17 17 0.52
18 16 0.48
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (17 bp):
TCATTGCATTTCCATTG
Found at i:21947891 original size:21 final size:22
Alignment explanation
Indices: 21947867--21947908 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
21947857 AATTATACTT
21947867 GTATCGGTAGAACT-TGCACAG
1 GTATCGGTAGAACTCTGCACAG
*
21947888 GTATTGGTAGAACTCTGCACA
1 GTATCGGTAGAACTCTGCACA
21947909 ATTTCTGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (22 bp):
GTATCGGTAGAACTCTGCACAG
Found at i:21948700 original size:20 final size:20
Alignment explanation
Indices: 21948663--21948700 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21948653 TCAATACACA
*
21948663 TTTTAAATTTGTACTATTAT
1 TTTTAAATTTGTAATATTAT
21948683 TTTTAAAATTT-TAATATT
1 TTTT-AAATTTGTAATATT
21948701 GCTAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTAAATTTGTAATATTAT
Found at i:21955901 original size:28 final size:28
Alignment explanation
Indices: 21955870--21956011 Score: 103
Period size: 28 Copynumber: 5.1 Consensus size: 28
21955860 ATAGAGTGAC
*
21955870 ATTCTGAATCTTGCTCAAGTAGAGCATT
1 ATTCTGAATCTTGCTCGAGTAGAGCATT
* * * *
21955898 ATTCT-ACTTTTGGCT-AAGGTAGAGCAGT
1 ATTCTGAATCTT-GCTCGA-GTAGAGCATT
* *
21955926 ATACTGAATCTTGCTCGGGTAGAGCATT
1 ATTCTGAATCTTGCTCGAGTAGAGCATT
* *
21955954 ATTCT-ACT-TGTGGCTCGGGTAGAGCATT
1 ATTCTGAATCT-T-GCTCGAGTAGAGCATT
* * * *
21955982 ATACTGAATCTTTCTTGAGTAGAGCGTT
1 ATTCTGAATCTTGCTCGAGTAGAGCATT
21956010 AT
1 AT
21956012 GAATTCATTA
Statistics
Matches: 89, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
26 1 0.01
27 9 0.10
28 71 0.80
29 7 0.08
30 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (28 bp):
ATTCTGAATCTTGCTCGAGTAGAGCATT
Found at i:21955948 original size:56 final size:56
Alignment explanation
Indices: 21955873--21956011 Score: 197
Period size: 56 Copynumber: 2.5 Consensus size: 56
21955863 GAGTGACATT
* *
21955873 CTGAATCTTGCTCAAGTAGAGCATTATTCTACTTTTGGCTAAGGTAGAGCAGTATA
1 CTGAATCTTGCTCGAGTAGAGCATTATTCTACTTGTGGCTAAGGTAGAGCAGTATA
* ** *
21955929 CTGAATCTTGCTCGGGTAGAGCATTATTCTACTTGTGGCTCGGGTAGAGCATTATA
1 CTGAATCTTGCTCGAGTAGAGCATTATTCTACTTGTGGCTAAGGTAGAGCAGTATA
* * *
21955985 CTGAATCTTTCTTGAGTAGAGCGTTAT
1 CTGAATCTTGCTCGAGTAGAGCATTAT
21956012 GAATTCATTA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (56 bp):
CTGAATCTTGCTCGAGTAGAGCATTATTCTACTTGTGGCTAAGGTAGAGCAGTATA
Found at i:21958072 original size:21 final size:21
Alignment explanation
Indices: 21958041--21958112 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
21958031 GGAGTTTTTA
* *
21958041 GTATCGGTAGAAGAAAGACTT
1 GTATTGGTAGAAGAAACACTT
* **
21958062 GTTTTGGTAGAAGAGTCACTT
1 GTATTGGTAGAAGAAACACTT
** *
21958083 GTATTGGTAGAACTATCACTT
1 GTATTGGTAGAAGAAACACTT
21958104 GTATTGGTA
1 GTATTGGTA
21958113 AAAGTCTACA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (21 bp):
GTATTGGTAGAAGAAACACTT
Found at i:21966979 original size:19 final size:20
Alignment explanation
Indices: 21966942--21966979 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21966932 ATAATTTTGT
*
21966942 AAAAATATCGATACTCATGA
1 AAAAATACCGATACTCATGA
21966962 AAAAATACCGATAC-CATG
1 AAAAATACCGATACTCATG
21966980 GGCTTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (20 bp):
AAAAATACCGATACTCATGA
Found at i:21969490 original size:62 final size:62
Alignment explanation
Indices: 21969393--21969691 Score: 447
Period size: 62 Copynumber: 4.8 Consensus size: 62
21969383 TATCATTCTT
* * *
21969393 GGATTCATTCCACATTTAATACTCATGATGACACAAAGTCATCAGACCTTTAATCCATAATA
1 GGATTCATTCCACATTTAATACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATA
*
21969455 GGATTCATTCCACATTTAATACTCACAATGACACAAAGTCATCGGACCTTTAATCCGTAATA
1 GGATTCATTCCACATTTAATACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATA
* * * *
21969517 GGATTCATTTCTCATTTAATACTCACGATGACACAAAGTCATCAGAGCTTTAATCCGTAATA
1 GGATTCATTCCACATTTAATACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATA
* * * *
21969579 AGATTCATTTCTCATTTAATACTCACGATGACACAAAGTCATTGGACCTTTAATCCGTAATA
1 GGATTCATTCCACATTTAATACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATA
* * *
21969641 GTATTCATT-TATCATTTAATACTCACGATGACACAAAGTTATCGGACCTTT
1 GGATTCATTCCA-CATTTAATACTCACGATGACACAAAGTCATCGGACCTTT
21969692 TTGTATTTAC
Statistics
Matches: 217, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
62 217 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.32
Consensus pattern (62 bp):
GGATTCATTCCACATTTAATACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATA
Found at i:21972347 original size:12 final size:12
Alignment explanation
Indices: 21972330--21972358 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
21972320 TGGTGGTAGG
21972330 TTGTTGTTGTTA
1 TTGTTGTTGTTA
21972342 TTGTTGTTGTTA
1 TTGTTGTTGTTA
21972354 TTGTT
1 TTGTT
21972359 ACTAGCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.24, T:0.69
Consensus pattern (12 bp):
TTGTTGTTGTTA
Found at i:21986706 original size:24 final size:24
Alignment explanation
Indices: 21986673--21986719 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
21986663 GTTAAGAGTA
**
21986673 AAAATTGTCAGTGCAAATGTAATAT
1 AAAATTGTCAAAGCAAAT-TAATAT
21986698 AAAA-TGTCAAAGCAAATTAATA
1 AAAATTGTCAAAGCAAATTAATA
21986720 AGAGATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.28
Consensus pattern (24 bp):
AAAATTGTCAAAGCAAATTAATAT
Found at i:21988813 original size:20 final size:20
Alignment explanation
Indices: 21988769--21988875 Score: 90
Period size: 20 Copynumber: 5.2 Consensus size: 20
21988759 GAAAAGTTTG
*
21988769 AAATAATTTTAAAATCAAGTTA
1 AAATAATTTT-AAA-CAAGTCA
*
21988791 AAATGATTTTAAACAAGTCA
1 AAATAATTTTAAACAAGTCA
* * *
21988811 AAATAATTTGAACCAAGTTA
1 AAATAATTTTAAACAAGTCA
* **
21988831 AAATCATTTT-AACACTTCA
1 AAATAATTTTAAACAAGTCA
**
21988850 AAATGTTTTTCAAACAAGTCA
1 AAATAATTTT-AAACAAGTCA
21988871 AAATA
1 AAATA
21988876 GCTCCAGGCC
Statistics
Matches: 66, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
19 13 0.20
20 30 0.45
21 14 0.21
22 9 0.14
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.33
Consensus pattern (20 bp):
AAATAATTTTAAACAAGTCA
Found at i:21989095 original size:19 final size:21
Alignment explanation
Indices: 21989071--21989109 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
21989061 TTTTATAAGA
21989071 AAAATTT-AAATAGA-AATTT
1 AAAATTTAAAATAGATAATTT
21989090 AAAATTTAAAATAGATAATT
1 AAAATTTAAAATAGATAATT
21989110 AAGTGGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAATTTAAAATAGATAATTT
Found at i:21989282 original size:26 final size:26
Alignment explanation
Indices: 21989245--21989294 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
21989235 TACTATTTTA
21989245 ATAATAAAAAGAAAGAGAAA-ATGATG
1 ATAATAAAAAGAAAG-GAAAGATGATG
21989271 ATAA-AAAGAAGAAAGGAAAGATGA
1 ATAATAAA-AAGAAAGGAAAGATGA
21989295 ATTTGGGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.66, C:0.00, G:0.22, T:0.12
Consensus pattern (26 bp):
ATAATAAAAAGAAAGGAAAGATGATG
Found at i:21989293 original size:23 final size:23
Alignment explanation
Indices: 21989248--21989294 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
21989238 TATTTTAATA
*
21989248 ATAAAAAGAAAGAGAAAATGATG
1 ATAAAAAGAAAAAGAAAATGATG
*
21989271 ATAAAAAGAAGAAAGGAAA-GATG
1 ATAAAAAGAA-AAAGAAAATGATG
21989294 A
1 A
21989295 ATTTGGGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (23 bp):
ATAAAAAGAAAAAGAAAATGATG
Found at i:21990009 original size:23 final size:23
Alignment explanation
Indices: 21989953--21990009 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
21989943 AAGGTATACT
**
21989953 CGTAAACAAATCATGCTGACGAG
1 CGTAAACGTATCATGCTGACGAG
* **
21989976 CGTAAATGTATCATGCTGGTGAG
1 CGTAAACGTATCATGCTGACGAG
21989999 CGTAAACGTAT
1 CGTAAACGTAT
21990010 TGTATTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (23 bp):
CGTAAACGTATCATGCTGACGAG
Found at i:21997246 original size:41 final size:41
Alignment explanation
Indices: 21997181--21997503 Score: 257
Period size: 41 Copynumber: 7.9 Consensus size: 41
21997171 AATGTAAAAA
* ** *
21997181 TTTTAGCGGCGCTTATGGAAAAGCGCCGCTATTGCTTAGAC
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
* *
21997222 TTTTAGCGGCTCTTTTCCATAAGCGCCGCAATTGCTTAGAC
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
* *
21997263 TTTTACCGACGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
* * * *
21997304 TTTTAGCGGCGCTTTTCCATATGCGCTGCTATTGATTTGA-
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
* * * **
21997344 TCTTTAGCGGTG-TTTATCGGA-AAGCGCCGCTATTTCTCGGA-
1 T-TTTAGCGGCGCTTT-TC-CATAAGCGCCGCTATTGCTTAGAC
* * *
21997385 TCTTTAGCGGCGCTTTTGCAAAAGCGCCGCTAATT-CTCT-TAC
1 T-TTTAGCGGCGCTTTTCCATAAGCGCCGCT-ATTGCT-TAGAC
* * * * *
21997427 CTTTAGCGGCGCTTTTCAATAAACGCCACTAATT-CTCT-TAC
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCT-ATTGCT-TAGAC
* ** *
21997468 CTTTAGCGGCGCTTTTAAATAAACGCCGCTATTGCT
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCT
21997504 CTATCTTTTG
Statistics
Matches: 236, Mismatches: 37, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
40 8 0.03
41 221 0.94
42 7 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
Found at i:21999642 original size:23 final size:23
Alignment explanation
Indices: 21999609--21999665 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
21999599 TATGTATACT
*
21999609 CGTAAACGTATCATGCTGACGAG
1 CGTAAATGTATCATGCTGACGAG
21999632 CGTAAATGTATCATGCTGACGAG
1 CGTAAATGTATCATGCTGACGAG
*
21999655 TGTAAATGTAT
1 CGTAAATGTAT
21999666 TGTATTGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (23 bp):
CGTAAATGTATCATGCTGACGAG
Found at i:22000336 original size:22 final size:21
Alignment explanation
Indices: 22000305--22000345 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
22000295 GTCAAAAATT
*
22000305 GTATCAGTAGTTATATTTTTTG
1 GTATCAGTAGAT-TATTTTTTG
*
22000327 GTATCGGTAGATTATTTTT
1 GTATCAGTAGATTATTTTT
22000346 CTACCGGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.54
Consensus pattern (21 bp):
GTATCAGTAGATTATTTTTTG
Found at i:22005181 original size:31 final size:31
Alignment explanation
Indices: 22005116--22005174 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
22005106 AGGAGTGTAA
*
22005116 TAAAATGATAAAAGTACATAATAATAGTCAC
1 TAAAATGATAAAAATACATAATAATAGTCAC
*
22005147 TAAAATGA-AAACAATATATAATAATAGT
1 TAAAATGATAAA-AATACATAATAATAGT
22005175 ACCTAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.58, C:0.07, G:0.08, T:0.27
Consensus pattern (31 bp):
TAAAATGATAAAAATACATAATAATAGTCAC
Found at i:22014285 original size:24 final size:25
Alignment explanation
Indices: 22014241--22014288 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
22014231 AAAAGAAAAA
*
22014241 GAAAGAAGAAAAGCAACAAAATTTT
1 GAAAGAAGAAAAGCAAAAAAATTTT
*
22014266 GAAAGAA-AAAATCAAAAAAATTT
1 GAAAGAAGAAAAGCAAAAAAATTT
22014289 ATGTGATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.17
Consensus pattern (25 bp):
GAAAGAAGAAAAGCAAAAAAATTTT
Found at i:22014319 original size:20 final size:20
Alignment explanation
Indices: 22014294--22014332 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22014284 AATTTATGTG
22014294 ATAAAACATACT-AAAATTAA
1 ATAAAACA-ACTCAAAATTAA
*
22014314 ATAAAATAACTCAAAATTA
1 ATAAAACAACTCAAAATTA
22014333 TATCTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAAAACAACTCAAAATTAA
Found at i:22015086 original size:14 final size:14
Alignment explanation
Indices: 22015067--22015099 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22015057 AAAAGTGTGG
22015067 TGAAAAAGT-ATTT
1 TGAAAAAGTAATTT
*
22015080 TTAAAAAGTAATTT
1 TGAAAAAGTAATTT
22015094 TGAAAA
1 TGAAAA
22015100 GTTTGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (14 bp):
TGAAAAAGTAATTT
Found at i:22015099 original size:26 final size:25
Alignment explanation
Indices: 22015039--22015101 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
22015029 TTAGCATTGC
* *
22015039 TTTTGAAAAGTGCTTTTAAAAAGTG
1 TTTTGAAAAGTACTTTTAAAAAGTA
** *
22015064 TGGTGAAAAAGTATTTTTAAAAAGTAA
1 TTTTG-AAAAGTACTTTTAAAAAGT-A
22015091 TTTTGAAAAGT
1 TTTTGAAAAGT
22015102 TTGGTTAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
25 3 0.10
26 23 0.79
27 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.38
Consensus pattern (25 bp):
TTTTGAAAAGTACTTTTAAAAAGTA
Found at i:22017327 original size:72 final size:72
Alignment explanation
Indices: 22017119--22017301 Score: 314
Period size: 72 Copynumber: 2.6 Consensus size: 72
22017109 AACAAATTTT
* * * *
22017119 ATATCC-AAAATCAAATATAAACAACTATTGATAAAACTAGATTGCACATATATAAGTAGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
22017183 AAATTCA
66 AAATTCA
*
22017190 ATATCCTAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
22017255 AAATTCA
66 AAATTCA
22017262 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTA
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTA
22017302 ATTTAGCATT
Statistics
Matches: 106, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 6 0.06
72 100 0.94
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.24
Consensus pattern (72 bp):
ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
AAATTCA
Found at i:22018763 original size:16 final size:16
Alignment explanation
Indices: 22018738--22018769 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22018728 TGATTATATA
22018738 TGATTATCCACTTAGG
1 TGATTATCCACTTAGG
*
22018754 TGATTGTCCACTTAGG
1 TGATTATCCACTTAGG
22018770 CAAAGATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (16 bp):
TGATTATCCACTTAGG
Found at i:22022388 original size:77 final size:77
Alignment explanation
Indices: 22022261--22022416 Score: 303
Period size: 77 Copynumber: 2.0 Consensus size: 77
22022251 CAAGGGCATA
22022261 ATACAATGAGACTGGCTGCTTGTATTAACCAACAAGAGGTAATCATTCTAGTTGACTCAAGGAGC
1 ATACAATGAGACTGGCTGCTTGTATTAACCAACAAGAGGTAATCATTCTAGTTGACTCAAGGAGC
*
22022326 ACTCACGACTTC
66 ACTCAAGACTTC
22022338 ATACAATGAGACTGGCTGCTTGTATTAACCAACAAGAGGTAATCATTCTAGTTGACTCAAGGAGC
1 ATACAATGAGACTGGCTGCTTGTATTAACCAACAAGAGGTAATCATTCTAGTTGACTCAAGGAGC
22022403 ACTCAAGACTTC
66 ACTCAAGACTTC
22022415 AT
1 AT
22022417 TGACCACAAG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (77 bp):
ATACAATGAGACTGGCTGCTTGTATTAACCAACAAGAGGTAATCATTCTAGTTGACTCAAGGAGC
ACTCAAGACTTC
Found at i:22026868 original size:11 final size:11
Alignment explanation
Indices: 22026852--22026880 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
22026842 GACTGCTTGA
22026852 GATGAGTATGT
1 GATGAGTATGT
22026863 GATGAGTATGT
1 GATGAGTATGT
22026874 GATGAGT
1 GATGAGT
22026881 TGGACTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.34
Consensus pattern (11 bp):
GATGAGTATGT
Found at i:22032489 original size:16 final size:16
Alignment explanation
Indices: 22032448--22032491 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
22032438 TATATTATAA
*
22032448 ATAATAAAATATTATT
1 ATAATATAATATTATT
*
22032464 ATATTATAATATTATT
1 ATAATATAATATTATT
22032480 ATTAAT-TAATAT
1 A-TAATATAATAT
22032492 ATCTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 21 0.88
17 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATATAATATTATT
Found at i:22039673 original size:16 final size:16
Alignment explanation
Indices: 22039623--22039674 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 16
22039613 TTTATATTTT
22039623 ATATTATTAA-TAATAAA
1 ATATTATTAATTAAT--A
22039640 ATATTATTATATTATAATA
1 ATATTATTA-A-T-TAATA
22039659 ATATTATTAATTAATA
1 ATATTATTAATTAATA
22039675 TATCTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
16 5 0.16
17 10 0.32
18 2 0.06
19 10 0.32
21 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTATTAATTAATA
Found at i:22043851 original size:21 final size:23
Alignment explanation
Indices: 22043814--22043856 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22043804 ATCGTACCTA
*
22043814 TTTTTATTTTATAATATGTTATT
1 TTTTTATTTTATAATATATTATT
22043837 TTTTTATTTT-T-ATATATTAT
1 TTTTTATTTTATAATATATTAT
22043857 ATCATTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 1 0.05
23 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTTATTTTATAATATATTATT
Found at i:22043863 original size:26 final size:23
Alignment explanation
Indices: 22043814--22043863 Score: 55
Period size: 26 Copynumber: 2.0 Consensus size: 23
22043804 ATCGTACCTA
* *
22043814 TTTTTATTTTATAATATGTTATT
1 TTTTTATTTTATAATATATCATT
22043837 TTTTTATTTTTATATATTATATCATT
1 TTTTTA-TTTTATA-A-TATATCATT
22043863 T
1 T
22043864 GTATTGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 6 0.27
24 7 0.32
25 1 0.05
26 8 0.36
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTTATTTTATAATATATCATT
Found at i:22046093 original size:14 final size:14
Alignment explanation
Indices: 22046074--22046103 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22046064 TTTTACTTTA
22046074 TTTTATTTTTATCT
1 TTTTATTTTTATCT
*
22046088 TTTTATTTTTTTCT
1 TTTTATTTTTATCT
22046102 TT
1 TT
22046104 CAAACAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTTTATCT
Found at i:22054483 original size:29 final size:31
Alignment explanation
Indices: 22054441--22054513 Score: 114
Period size: 29 Copynumber: 2.4 Consensus size: 31
22054431 CAAATGATTT
22054441 TAAAATTATTAAAAATA-TTTTTTAAAAT-A
1 TAAAATTATTAAAAATATTTTTTTAAAATAA
* *
22054470 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAAATATTTTTTTAAAATAA
22054501 TAAAATTATTAAA
1 TAAAATTATTAAA
22054514 TAATTTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 16 0.40
30 10 0.25
31 14 0.35
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (31 bp):
TAAAATTATTAAAAATATTTTTTTAAAATAA
Found at i:22054520 original size:30 final size:29
Alignment explanation
Indices: 22054441--22054520 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 29
22054431 CAAATGATTT
22054441 TAAAATTATTAAA-AATATTTTTTAAAATA
1 TAAAATTATTAAATAAT-TTTTTTAAAATA
* *
22054470 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATT-AAATAATTTTTTTAAAAT-A
22054501 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATAATTTT
22054521 AATTTCCAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
29 10 0.22
30 22 0.49
31 13 0.29
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (29 bp):
TAAAATTATTAAATAATTTTTTTAAAATA
Found at i:22059655 original size:28 final size:28
Alignment explanation
Indices: 22059623--22059708 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 28
22059613 GCTGGTGAGT
22059623 GTAAACACATATGTATAAGCTGACAAGC
1 GTAAACACATATGTATAAGCTGACAAGC
* * * * *
22059651 AT-AA-AC--GTGTACAAGCTGGCGAGC
1 GTAAACACATATGTATAAGCTGACAAGC
* *
22059675 GTAACCGCATATGTATAAGCTGACAAGC
1 GTAAACACATATGTATAAGCTGACAAGC
22059703 GTAAAC
1 GTAAAC
22059709 GTGTGCAAGT
Statistics
Matches: 41, Mismatches: 13, Indels: 8
0.66 0.21 0.13
Matches are distributed among these distances:
24 15 0.37
25 1 0.02
26 3 0.07
27 2 0.05
28 20 0.49
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (28 bp):
GTAAACACATATGTATAAGCTGACAAGC
Found at i:22059686 original size:52 final size:52
Alignment explanation
Indices: 22059600--22059733 Score: 205
Period size: 52 Copynumber: 2.6 Consensus size: 52
22059590 TTGATGAGCG
*
22059600 TAAACGTGTGCAAGCTGGTGAGTGTAAACACATATGTATAAGCTGACAAGCA
1 TAAACGTGTGCAAGCTGGTGAGCGTAAACACATATGTATAAGCTGACAAGCA
* * * * *
22059652 TAAACGTGTACAAGCTGGCGAGCGTAACCGCATATGTATAAGCTGACAAGCG
1 TAAACGTGTGCAAGCTGGTGAGCGTAAACACATATGTATAAGCTGACAAGCA
*
22059704 TAAACGTGTGCAAGTTGGTGAGCGTAAACA
1 TAAACGTGTGCAAGCTGGTGAGCGTAAACA
22059734 TGTGTTTATA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (52 bp):
TAAACGTGTGCAAGCTGGTGAGCGTAAACACATATGTATAAGCTGACAAGCA
Found at i:22066767 original size:45 final size:45
Alignment explanation
Indices: 22066703--22066792 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
22066693 TACCCAAAGG
*
22066703 CTCTTCAATCGTTTTCGTTATTTTTTTCTATTATTTTATATTTTT
1 CTCTTCAATCGTTTTCGTTATTTTATTCTATTATTTTATATTTTT
22066748 CTCTTCAATCGTTTTCGTTATTTTATTCTATTATTTTATATTTTT
1 CTCTTCAATCGTTTTCGTTATTTTATTCTATTATTTTATATTTTT
22066793 TCATATAAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.17, C:0.13, G:0.04, T:0.66
Consensus pattern (45 bp):
CTCTTCAATCGTTTTCGTTATTTTATTCTATTATTTTATATTTTT
Found at i:22092226 original size:20 final size:21
Alignment explanation
Indices: 22092201--22092241 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22092191 GTAATACTGA
22092201 CTAC-TTTAAGTTCAACTCAT
1 CTACTTTTAAGTTCAACTCAT
22092221 CTACTTTTAAGTTCAACTCAT
1 CTACTTTTAAGTTCAACTCAT
22092242 TGGAATAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (21 bp):
CTACTTTTAAGTTCAACTCAT
Found at i:22092935 original size:24 final size:24
Alignment explanation
Indices: 22092898--22092949 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
22092888 TTCATAGGTC
* *
22092898 AAATAAATTTTGCTAATAAATACA
1 AAATAAATTATGCTAAAAAATACA
* *
22092922 AAATATATTATGCTAAAAAATACT
1 AAATAAATTATGCTAAAAAATACA
22092946 AAAT
1 AAAT
22092950 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATGCTAAAAAATACA
Found at i:22095590 original size:195 final size:195
Alignment explanation
Indices: 22095222--22095654 Score: 539
Period size: 195 Copynumber: 2.2 Consensus size: 195
22095212 TACCAGTACC
* * ***
22095222 CGATGCTGCTCACACGAGCGGTCGAGGACTTGCAACATATGCGGTACCTTAGCCATTGGTACGAT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTTAGCCATCAATACGAT
* * * * *
22095287 GTCTGTCTATATAACTGTCTCCTAATGATGTTGCTCACATGAGTTGTCAAGAATATGCACTTAAG
66 ATCTATCTATATAACTGTCTCCTAATGATGCTGCTCACACGAGCTGTCAAGAATATGCACTTAAG
* * * * *
22095352 CATAAGTCCCAGCAATCCCAGGGTCTATAATCCATTCTAGGATTCATATCTCTTTTTTCGACTCA
131 CATAAATCCCAGCAATCCCAGGGTCTATAACCCATTATAGGATTCATATCTCATTTCTCGACTCA
* * * * *
22095417 CGATACTGCTCACAAGAGCTATCGAGGACTCGCAACATATGCGGTACCTTAGCCATCAATATGGT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTTAGCCATCAATACGAT
* * *
22095482 ATCTATGC-ATATAACTAT-TCCCTAATGATGCTGCTCACACGAGCTGTCGAGACTATGCACTTA
66 ATCTAT-CTATATAACTGTCT-CCTAATGATGCTGCTCACACGAGCTGTCAAGAATATGCACTTA
* * * ** * * *
22095545 TGCATAAATCTCAGCTATCGTAGGG-CTTGTAACCCATTATAGGATTCATTTTTCATTTCTCGAC
129 AGCATAAATCCCAGCAATCCCAGGGTC-TATAACCCATTATAGGATTCATATCTCATTTCTCGAC
22095609 TCA
193 TCA
22095612 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCG
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCG
22095655 ATATCTCAGT
Statistics
Matches: 201, Mismatches: 34, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
194 2 0.01
195 198 0.99
196 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (195 bp):
CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTTAGCCATCAATACGAT
ATCTATCTATATAACTGTCTCCTAATGATGCTGCTCACACGAGCTGTCAAGAATATGCACTTAAG
CATAAATCCCAGCAATCCCAGGGTCTATAACCCATTATAGGATTCATATCTCATTTCTCGACTCA
Found at i:22096176 original size:16 final size:16
Alignment explanation
Indices: 22096152--22096183 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22096142 TCCTTACAAA
*
22096152 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
22096168 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
22096184 AAAAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:22100723 original size:195 final size:196
Alignment explanation
Indices: 22100380--22100827 Score: 620
Period size: 195 Copynumber: 2.3 Consensus size: 196
22100370 TACCAGTCCT
* *
22100380 CGATGCTGCTCACACGGGCTATCGAGGACTCGCAACATATGCGGTACC-CTAGCCATC-AGTACG
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTC-AGCCATCGAGTACG
* * * * * *
22100443 ATGTTTATCTATATAACTGTCTTCTAATGATGCTGCTCACAAGAGCTGTCGAGAATATGCACTTA
65 ATATCTATCTATATAACTGTCTCCTAACGATACTGCTCACAAGAGCTATCGAGAATATGCACTTA
* * * * **
22100508 TGCATAAGTCCCAGCCATCGCAAGGTCTGTAATCC-ATTCTAGGATTCATATCTCTTTTTTCGAC
130 TGCATAAATCCCAACCATCGCAAGGACTGTAA-CCTATTCTAGGATTCATATCTCATTTCCCGAC
22100572 TCA
194 TCA
* *
22100575 CGATGCTGCTCACAAGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGA-TACGG
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGAGTACGA
* *
22100639 TATCTATGC-ATATAACTGT-TCCCTAACGGTACTGCTCACATGAGCTATCGAGAATATGCACTT
66 TATCTAT-CTATATAACTGTCT-CCTAACGATACTGCTCACAAGAGCTATCGAGAATATGCACTT
* * *
22100702 ATGCATAAATCCCAACCATCGCAGGGACTGTAACCTATTCTAGGATTCATTTTTCATTTCCCGAC
129 ATGCATAAATCCCAACCATCGCAAGGACTGTAACCTATTCTAGGATTCATATCTCATTTCCCGAC
22100767 TCA
194 TCA
*
22100770 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGATACCTCAGCCATCG
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
22100828 CGTTAGTTTC
Statistics
Matches: 225, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
194 3 0.01
195 219 0.97
196 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (196 bp):
CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGAGTACGA
TATCTATCTATATAACTGTCTCCTAACGATACTGCTCACAAGAGCTATCGAGAATATGCACTTAT
GCATAAATCCCAACCATCGCAAGGACTGTAACCTATTCTAGGATTCATATCTCATTTCCCGACTC
A
Found at i:22101254 original size:16 final size:16
Alignment explanation
Indices: 22101230--22101261 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22101220 TCCTTACAAA
*
22101230 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
22101246 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
22101262 AAAAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:22103814 original size:15 final size:15
Alignment explanation
Indices: 22103794--22103822 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22103784 AGTCATGGGA
22103794 AATAATAATTAAATT
1 AATAATAATTAAATT
22103809 AATAATAATTAAAT
1 AATAATAATTAAAT
22103823 ATAAAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATAATTAAATT
Found at i:22105195 original size:26 final size:25
Alignment explanation
Indices: 22105140--22105201 Score: 106
Period size: 25 Copynumber: 2.4 Consensus size: 25
22105130 TTTGTAAAAT
*
22105140 TTGGGCTAGTGGGTGTATTTGGGTA
1 TTGGGCTTGTGGGTGTATTTGGGTA
22105165 TTGGGCTTGTGGGTGTATTATGGGTA
1 TTGGGCTTGTGGGTGTATT-TGGGTA
22105191 TTGGGCTTGTG
1 TTGGGCTTGTG
22105202 ATTTTGTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 18 0.51
26 17 0.49
ACGTcount: A:0.10, C:0.05, G:0.44, T:0.42
Consensus pattern (25 bp):
TTGGGCTTGTGGGTGTATTTGGGTA
Found at i:22105841 original size:50 final size:50
Alignment explanation
Indices: 22105679--22105845 Score: 169
Period size: 50 Copynumber: 3.3 Consensus size: 50
22105669 CTCAATCCAA
* *** * *
22105679 TCCACTGCAACTTCAGGAGTATAAGATTTGAAGTTGTAACTTCATCTTGC
1 TCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAACTTCATCCTAC
* * *
22105729 TCCACTGCAACTTTAGGGAG-ATAAAGATTT-GTTTTGATAACTTTAATCCGAC
1 TCCACTGCAACTTCAGGG-GTAT-AAGATTTGGTTTTG-TAAC-TTCATCCTAC
* *
22105781 -CCACTGCAACTTCAGGGGTATAGGATTTGGTTTTGTAGCTTCATCCTAC
1 TCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAACTTCATCCTAC
*
22105830 TCTACTGCAACTTCAG
1 TCCACTGCAACTTCAG
22105846 AGAGATAAGG
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
49 8 0.08
50 45 0.47
51 36 0.38
52 6 0.06
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (50 bp):
TCCACTGCAACTTCAGGGGTATAAGATTTGGTTTTGTAACTTCATCCTAC
Found at i:22105959 original size:50 final size:50
Alignment explanation
Indices: 22105869--22106161 Score: 307
Period size: 50 Copynumber: 5.8 Consensus size: 50
22105859 CGCCTTCATA
* * * *
22105869 GCTTCAATTTGCCCCTCTTCCAGCTTTAGGAGTATAAGATTCGCCCTTGCG
1 GCTTCAATCTGCCCCT-TTACAGCTTCAGGAGTATAAGATTCGCCATTGCG
* * **
22105920 GCTTCGATCTGCCCCTTTACAGCTTCAGGAGTATAAGATTGGCCATTGAA
1 GCTTCAATCTGCCCCTTTACAGCTTCAGGAGTATAAGATTCGCCATTGCG
* *
22105970 GTTTCAATCTGCCCCTTTACAACTTCAGGAGTATAAGATTCGCCATTGCG
1 GCTTCAATCTGCCCCTTTACAGCTTCAGGAGTATAAGATTCGCCATTGCG
* * * * * * *
22106020 GCTTTAATCTACTCCTCTTCCAGCTTCAGGAGTATAAGATTCACCCTTGCA
1 GCTTCAATCTGCCCCT-TTACAGCTTCAGGAGTATAAGATTCGCCATTGCG
* * * * * * * * *
22106071 ACTTCAATCTTCCCCTCTATAGCTTTAGGTGTATGAGATTCACCATTGTG
1 GCTTCAATCTGCCCCTTTACAGCTTCAGGAGTATAAGATTCGCCATTGCG
* * *
22106121 GCTTCAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
1 GCTTCAATCTGCCCCTTTACAGCTTCAGGAGTATAAGATTC
22106162 ATTGTTTTGT
Statistics
Matches: 200, Mismatches: 41, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
50 145 0.73
51 55 0.28
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (50 bp):
GCTTCAATCTGCCCCTTTACAGCTTCAGGAGTATAAGATTCGCCATTGCG
Found at i:22106053 original size:101 final size:101
Alignment explanation
Indices: 22105870--22106162 Score: 340
Period size: 101 Copynumber: 2.9 Consensus size: 101
22105860 GCCTTCATAG
* * * *
22105870 CTTCAATTTGCCCCTCTTCCAGCTTTAGGAGTATAAGATTCGCCCTTGCGGCTTCGATCTGCCCC
1 CTTCAATCTGCCCCT-TTACAGCTTTAGGAGTATAAGATTCGCCATTGCGGCTTCAATCTGCCCC
**
22105935 T-TTACAGCTTCAGGAGTATAAGATTGGCCATTG-AA
65 TCTTACAGCTTCAGGAGTATAAGATTCACCATTGCAA
* * * * * *
22105970 GTTTCAATCTGCCCCTTTACAACTTCAGGAGTATAAGATTCGCCATTGCGGCTTTAATCTACTCC
1 -CTTCAATCTGCCCCTTTACAGCTTTAGGAGTATAAGATTCGCCATTGCGGCTTCAATCTGCCCC
* *
22106035 TCTTCCAGCTTCAGGAGTATAAGATTCACCCTTGCAA
65 TCTTACAGCTTCAGGAGTATAAGATTCACCATTGCAA
* * * * * * *
22106072 CTTCAATCTTCCCCTCTATAGCTTTAGGTGTATGAGATTCACCATTGTGGCTTCAATCTGCCCCT
1 CTTCAATCTGCCCCTTTACAGCTTTAGGAGTATAAGATTCGCCATTGCGGCTTCAATCTGCCCCT
* *
22106137 C-TACAGCTTTAGGGGTATAAGATTCA
66 CTTACAGCTTCAGGAGTATAAGATTCA
22106163 TTGTTTTGTC
Statistics
Matches: 160, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
100 64 0.40
101 94 0.59
102 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.33
Consensus pattern (101 bp):
CTTCAATCTGCCCCTTTACAGCTTTAGGAGTATAAGATTCGCCATTGCGGCTTCAATCTGCCCCT
CTTACAGCTTCAGGAGTATAAGATTCACCATTGCAA
Found at i:22106058 original size:151 final size:151
Alignment explanation
Indices: 22105882--22106161 Score: 380
Period size: 151 Copynumber: 1.9 Consensus size: 151
22105872 TCAATTTGCC
* * ** * *
22105882 CCTCTTCCAGCTTTAGGAGTATAAGATTCGCCCTTGCGGCTTCGATCTGCCCCTTTACAGCTTCA
1 CCTCTTCCAGCTTCAGGAGTATAAGATTCACCCTTGCAACTTCAATCTGCCCCTCTACAGCTTCA
** * *
22105947 GGAGTATAAGATTGGCCATTGAAGTTTCAATCTGCCCCTTTACAACTTCAGGAGTATAAGATTCG
66 GGAGTATAAGATTCACCATTGAAGCTTCAATCTGCCCCTCTACAACTTCAGGAGTATAAGATTCG
22106012 CCATTGCGGCTTTAATCTACT
131 CCATTGCGGCTTTAATCTACT
* * *
22106033 CCTCTTCCAGCTTCAGGAGTATAAGATTCACCCTTGCAACTTCAATCTTCCCCTCTATAGCTTTA
1 CCTCTTCCAGCTTCAGGAGTATAAGATTCACCCTTGCAACTTCAATCTGCCCCTCTACAGCTTCA
* * ** * * *
22106098 GGTGTATGAGATTCACCATTGTGGCTTCAATCTGCCCCTCTACAGCTTTAGGGGTATAAGATTC
66 GGAGTATAAGATTCACCATTGAAGCTTCAATCTGCCCCTCTACAACTTCAGGAGTATAAGATTC
22106162 ATTGTTTTGT
Statistics
Matches: 109, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
151 109 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (151 bp):
CCTCTTCCAGCTTCAGGAGTATAAGATTCACCCTTGCAACTTCAATCTGCCCCTCTACAGCTTCA
GGAGTATAAGATTCACCATTGAAGCTTCAATCTGCCCCTCTACAACTTCAGGAGTATAAGATTCG
CCATTGCGGCTTTAATCTACT
Found at i:22106411 original size:50 final size:50
Alignment explanation
Indices: 22106334--22106436 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 50
22106324 TTCTTTTTTA
22106334 GTCCTTAGGTCGTCATTGATCAACTTTTGCCTAAATTCTAACACTGATGT
1 GTCCTTAGGTCGTCATTGATCAACTTTTGCCTAAATTCTAACACTGATGT
** * *
22106384 GTCCTTAGGTCGTCATTGATCGTCTTTTGTCTAAATTCTCACACTGATGT
1 GTCCTTAGGTCGTCATTGATCAACTTTTGCCTAAATTCTAACACTGATGT
22106434 GTC
1 GTC
22106437 ACCATGCCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.40
Consensus pattern (50 bp):
GTCCTTAGGTCGTCATTGATCAACTTTTGCCTAAATTCTAACACTGATGT
Found at i:22114258 original size:51 final size:51
Alignment explanation
Indices: 22114200--22114534 Score: 517
Period size: 51 Copynumber: 6.6 Consensus size: 51
22114190 AAGAGTTCAG
*
22114200 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAAGGTCCGA
1 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
* * **
22114251 TGACTAAGTGCCATCATGAGTAAATGAATCCTTTACGGATTAAAGGTTTGA
1 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
22114302 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
1 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
* * * *
22114353 TGACTAAATGTCATCGTGAGTAAATGAATCATTTACAGATTAAAGGTCCTA
1 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
* * *
22114404 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTAAAGGTCTGG
1 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
* * *
22114455 TGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATTAAAGGTCCGA
1 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
* *
22114506 TGACTCAGTGTCATCGTGAGTATATGAAT
1 TGACTAAGTGTCATCGTGAGTAAATGAAT
22114535 TTCTATACGG
Statistics
Matches: 258, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 258 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.30
Consensus pattern (51 bp):
TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGA
Found at i:22121597 original size:51 final size:51
Alignment explanation
Indices: 22121533--22121916 Score: 590
Period size: 51 Copynumber: 7.5 Consensus size: 51
22121523 AACGAAAGAT
* *
22121533 TCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTCTACGGATTAAAGG
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
* *
22121584 TCCGATGACTAAGTGTCATCGTGAGTAAATGAACCCTTTACAGATTAAAGG
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
* *
22121635 TCCGATAACTAAGTGTCATCGTGCGTAAATGAATCCTTTACGGATTAAAGG
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
*
22121686 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGA
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
* * *
22121737 TTCAATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGAGTAAAGG
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
22121788 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
1 TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
* * * * * * *
22121839 T-CTAGTGACTAAGTGGCATCATAAGTAAATGAATCCATGACGAATTAAAGG
1 TCCGA-TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
*
22121890 TCCGATGACTCAGTGTCATCGTGAGTA
1 TCCGATGACTAAGTGTCATCGTGAGTA
22121917 TATGGATTTC
Statistics
Matches: 301, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
50 2 0.01
51 297 0.99
52 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (51 bp):
TCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGG
Found at i:22125465 original size:21 final size:21
Alignment explanation
Indices: 22125439--22125512 Score: 116
Period size: 21 Copynumber: 3.5 Consensus size: 21
22125429 AAAGTTTTTA
22125439 GTATCGGTAGAGGCAAGACTT
1 GTATCGGTAGAGGCAAGACTT
22125460 GTATCGGTAGAGGCAAGACTT
1 GTATCGGTAGAGGCAAGACTT
22125481 GTATCGGTAGAGG--AGTCACTT
1 GTATCGGTAGAGGCAAG--ACTT
22125502 GTATCGGTAGA
1 GTATCGGTAGA
22125513 ACTGTCACTT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
19 2 0.04
21 49 0.96
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.26
Consensus pattern (21 bp):
GTATCGGTAGAGGCAAGACTT
Found at i:22125519 original size:21 final size:21
Alignment explanation
Indices: 22125456--22125525 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
22125446 TAGAGGCAAG
*
22125456 ACTTGTATCGGTAGAGGCAAG--
1 ACTTGTATCGGTAGA-AC-AGTC
**
22125477 ACTTGTATCGGTAGAGGAGTC
1 ACTTGTATCGGTAGAACAGTC
*
22125498 ACTTGTATCGGTAGAACTGTC
1 ACTTGTATCGGTAGAACAGTC
22125519 ACTTGTA
1 ACTTGTA
22125526 GTGGTAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.05
20 1 0.02
21 40 0.93
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (21 bp):
ACTTGTATCGGTAGAACAGTC
Found at i:22127761 original size:12 final size:12
Alignment explanation
Indices: 22127744--22127769 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22127734 TCAGTTGTTA
22127744 ATGAGTATACAG
1 ATGAGTATACAG
22127756 ATGAGTATACAG
1 ATGAGTATACAG
22127768 AT
1 AT
22127770 TAGTTTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (12 bp):
ATGAGTATACAG
Found at i:22137134 original size:24 final size:24
Alignment explanation
Indices: 22137099--22137173 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
22137089 ACAGACAACA
* * * *
22137099 TTAGCTCCTACGAGTCTAGAATGG
1 TTAGCTCTTACGAGCCCAAAATGG
22137123 TTAGCTCTTACGAGCCCAAAATGG
1 TTAGCTCTTACGAGCCCAAAATGG
* *
22137147 TTAGCTCTTACGAGCCCAGAATAG
1 TTAGCTCTTACGAGCCCAAAATGG
22137171 TTA
1 TTA
22137174 ACCAGTATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAAAATGG
Found at i:22151211 original size:16 final size:17
Alignment explanation
Indices: 22151184--22151220 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
22151174 GCAACATATA
22151184 AAAATATAGTAA-ATAAT
1 AAAATATAGTAACA-AAT
22151201 AAAAT-TAGTAACAAAT
1 AAAATATAGTAACAAAT
22151217 AAAA
1 AAAA
22151221 AATTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAATATAGTAACAAAT
Found at i:22152508 original size:26 final size:25
Alignment explanation
Indices: 22152449--22152510 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 25
22152439 GGTTTAAAAT
*
22152449 TTGGGCTTATGGGTGTATTTATGTA
1 TTGGGCTTGTGGGTGTATTTATGTA
22152474 TTGGGCTTGTGGGTGTATTT-TGGATA
1 TTGGGCTTGTGGGTGTATTTAT-G-TA
22152500 TTGGGCTTGTG
1 TTGGGCTTGTG
22152511 ATTTTGTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 1 0.03
25 20 0.59
26 13 0.38
ACGTcount: A:0.11, C:0.05, G:0.37, T:0.47
Consensus pattern (25 bp):
TTGGGCTTGTGGGTGTATTTATGTA
Found at i:22156083 original size:16 final size:16
Alignment explanation
Indices: 22156062--22156092 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22156052 TTCAAAATTC
22156062 ATAAAAATAATATAAA
1 ATAAAAATAATATAAA
*
22156078 ATAAAATTAATATAA
1 ATAAAAATAATATAA
22156093 TTAGTCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAAAATAATATAAA
Found at i:22156397 original size:18 final size:17
Alignment explanation
Indices: 22156345--22156394 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
22156335 TGTTTTAAAA
*
22156345 TATTAATTAATAAAATAT
1 TATT-ATTAATAAAATAC
* *
22156363 TATTACTTATTATAATAC
1 TATTA-TTAATAAAATAC
22156381 TATTATTAATAAAA
1 TATTATTAATAAAA
22156395 ATATCATTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTATTAATAAAATAC
Found at i:22157527 original size:3 final size:3
Alignment explanation
Indices: 22157519--22157546 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22157509 ATTTTTCTAC
22157519 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22157547 GAAAAAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:22158789 original size:16 final size:16
Alignment explanation
Indices: 22158768--22158798 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22158758 TTCAAAATTC
22158768 ATAAAAATAATATAAG
1 ATAAAAATAATATAAG
*
22158784 ATAAAATTAATATAA
1 ATAAAAATAATATAA
22158799 TTAGTCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAAAAATAATATAAG
Found at i:22159701 original size:24 final size:24
Alignment explanation
Indices: 22159673--22159735 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
22159663 AGAAATAATC
22159673 TTTCAGTTAAACTTTATTTAATTA
1 TTTCAGTTAAACTTTATTTAATTA
* * * *
22159697 TTTCAATTAAACTCTATTTATTTG
1 TTTCAGTTAAACTTTATTTAATTA
* *
22159721 TTTGAGTCAAACTTT
1 TTTCAGTTAAACTTT
22159736 TATTAGTCTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTCAGTTAAACTTTATTTAATTA
Found at i:22160041 original size:8 final size:8
Alignment explanation
Indices: 22160028--22160052 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22160018 ATTTGTGTGT
22160028 TCAATTTC
1 TCAATTTC
22160036 TCAATTTC
1 TCAATTTC
22160044 TCAATTTC
1 TCAATTTC
22160052 T
1 T
22160053 TCCGCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCAATTTC
Found at i:22161698 original size:24 final size:23
Alignment explanation
Indices: 22161665--22161732 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
22161655 ATTTGAGAAA
22161665 TAATTTTTCAGTTAAACTTTATT
1 TAATTTTTCAGTTAAACTTTATT
* *
22161688 TAATTGTTTCAATTAAACTCTATT
1 TAATT-TTTCAGTTAAACTTTATT
* * *
22161712 TATTTATTTGAGTCAAACTTT
1 TAATT-TTTCAGTTAAACTTT
22161733 TATTAGTCTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 5 0.14
24 31 0.86
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (23 bp):
TAATTTTTCAGTTAAACTTTATT
Found at i:22162675 original size:24 final size:24
Alignment explanation
Indices: 22162643--22162692 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
22162633 TTAAATTCGT
* *
22162643 ATGTCAAATAAATTATGTTAATAA
1 ATGTAAAATAAATTATATTAATAA
*
22162667 ATGTAAAATATATTATATTAATAA
1 ATGTAAAATAAATTATATTAATAA
22162691 AT
1 AT
22162693 ATTGAATCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (24 bp):
ATGTAAAATAAATTATATTAATAA
Found at i:22162922 original size:27 final size:26
Alignment explanation
Indices: 22162869--22162922 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
22162859 TAATATTTAG
* *
22162869 ATTTTTTATCAATTTGACTTTTATTT
1 ATTTTTTAGCAATTTAACTTTTATTT
22162895 ATTTTTTAGCTAAGTTTAACTTTT-TTT
1 ATTTTTTAGC-AA-TTTAACTTTTATTT
22162922 A
1 A
22162923 AAAAAATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 6 0.25
28 9 0.38
ACGTcount: A:0.24, C:0.07, G:0.06, T:0.63
Consensus pattern (26 bp):
ATTTTTTAGCAATTTAACTTTTATTT
Found at i:22168381 original size:20 final size:22
Alignment explanation
Indices: 22168353--22168402 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
22168343 CTACATCAGC
*
22168353 AAATGATTTTAAAATT-A-TTA
1 AAATTATTTTAAAATTAATTTA
22168373 AAATTATTTTAAAATTAATTTA
1 AAATTATTTTAAAATTAATTTA
22168395 AAATTATT
1 AAATTATT
22168403 AAATAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 15 0.56
21 1 0.04
22 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAATTATTTTAAAATTAATTTA
Found at i:22168384 original size:11 final size:11
Alignment explanation
Indices: 22168353--22168402 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
22168343 CTACATCAGC
*
22168353 AAATGATTTTA
1 AAATTATTTTA
22168364 AAATTA--TTA
1 AAATTATTTTA
22168373 AAATTATTTTA
1 AAATTATTTTA
*
22168384 AAATTAATTTA
1 AAATTATTTTA
22168395 AAATTATT
1 AAATTATT
22168403 AAATAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 9 0.26
11 25 0.74
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:22169879 original size:24 final size:24
Alignment explanation
Indices: 22169852--22170137 Score: 341
Period size: 24 Copynumber: 12.2 Consensus size: 24
22169842 CAATGTTTCT
*
22169852 CGTATTCATGCTAACGAGCGTAAA
1 CGTATTCATGCTGACGAGCGTAAA
* *
22169876 CGTATTCATGTTGACGAGCTTAAA
1 CGTATTCATGCTGACGAGCGTAAA
* **
22169900 CGTATTCATGTTGGTGAGCGTAAA
1 CGTATTCATGCTGACGAGCGTAAA
*
22169924 CGTATTCATGCT----AGCG--AG
1 CGTATTCATGCTGACGAGCGTAAA
* *
22169942 CGTATTCATGTTGTCGAGCGTAAA
1 CGTATTCATGCTGACGAGCGTAAA
* * *
22169966 TGTATTCATGCTAATGAGCGTAAA
1 CGTATTCATGCTGACGAGCGTAAA
* *
22169990 TGTATTCATGCTGACGAGCGAAAA
1 CGTATTCATGCTGACGAGCGTAAA
22170014 CGTATTCATGCTGACGAGCGTAAA
1 CGTATTCATGCTGACGAGCGTAAA
* * *
22170038 CGTATTCATGTTAACGAGAGTAAA
1 CGTATTCATGCTGACGAGCGTAAA
* *
22170062 CGTATTCATGTTAACGAGCGTAAA
1 CGTATTCATGCTGACGAGCGTAAA
* *
22170086 CGTATTCATGTTAACGAGCGTAAA
1 CGTATTCATGCTGACGAGCGTAAA
22170110 CGTATTCATGCTGACGAGCGTAAA
1 CGTATTCATGCTGACGAGCGTAAA
22170134 CGTA
1 CGTA
22170138 ATGAACTTGC
Statistics
Matches: 230, Mismatches: 26, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
18 12 0.05
20 4 0.02
22 4 0.02
24 210 0.91
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (24 bp):
CGTATTCATGCTGACGAGCGTAAA
Found at i:22175102 original size:30 final size:28
Alignment explanation
Indices: 22175038--22175102 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
22175028 TCAACAATCA
22175038 TTTTTA-TTTTTTATATATATTTTAAAT
1 TTTTTAGTTTTTTATATATATTTTAAAT
* * *
22175065 TTATTTAGTATTTTTATTTATTTCTTTGAAT
1 TT-TTTAGT-TTTTTATATATAT-TTTAAAT
22175096 TTTTTAG
1 TTTTTAG
22175103 AATTAGGATC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.06
28 4 0.13
29 1 0.03
30 16 0.52
31 8 0.26
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.69
Consensus pattern (28 bp):
TTTTTAGTTTTTTATATATATTTTAAAT
Found at i:22180806 original size:20 final size:20
Alignment explanation
Indices: 22180781--22180820 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22180771 TGAGTAAGAA
22180781 CTCGAAGGAACTTCATTGTT
1 CTCGAAGGAACTTCATTGTT
22180801 CTCGAAGGAACTTCATTGTT
1 CTCGAAGGAACTTCATTGTT
22180821 ACAACAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (20 bp):
CTCGAAGGAACTTCATTGTT
Found at i:22189997 original size:17 final size:18
Alignment explanation
Indices: 22189975--22190014 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
22189965 AAAGTTTTAA
22189975 TGCATTTT-TATTATCAC
1 TGCATTTTATATTATCAC
*
22189992 TGCATTTTATTTTATCAC
1 TGCATTTTATATTATCAC
22190010 TGCAT
1 TGCAT
22190015 CATTTTGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.23, C:0.17, G:0.07, T:0.53
Consensus pattern (18 bp):
TGCATTTTATATTATCAC
Found at i:22194745 original size:5 final size:6
Alignment explanation
Indices: 22194717--22194742 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22194707 TTAACTGAAC
22194717 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
22194743 TAATTGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:22200293 original size:14 final size:14
Alignment explanation
Indices: 22200274--22200307 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
22200264 TATAACCTTT
22200274 ATAAATAATGTTTC
1 ATAAATAATGTTTC
22200288 ATAAATAATGTTTC
1 ATAAATAATGTTTC
22200302 ATAAAT
1 ATAAAT
22200308 GTCTAATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (14 bp):
ATAAATAATGTTTC
Found at i:22201672 original size:16 final size:17
Alignment explanation
Indices: 22201650--22201695 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
22201640 AATGTACTTG
22201650 TTAAAATTTATATAGCA
1 TTAAAATTTATATAGCA
*
22201667 -TAAAATATTA-AT-GTA
1 TTAAAAT-TTATATAGCA
22201682 TTAAAATTTATATA
1 TTAAAATTTATATA
22201696 AATATATGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
15 5 0.21
16 16 0.67
17 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (17 bp):
TTAAAATTTATATAGCA
Found at i:22210412 original size:52 final size:52
Alignment explanation
Indices: 22210302--22210645 Score: 480
Period size: 52 Copynumber: 6.6 Consensus size: 52
22210292 TAAATGCAAA
* *
22210302 AAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTATGGATTA-
1 AAGGTCCGATGACTATGTGTCATCGTGAG-TATATGAATCCT-TTACGGATTAT
*
22210355 AAGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * *
22210407 GAGGTCCGATAACTATGTGTCATCGTGAGTATACGAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * *
22210459 GAGGTCCGATGACTATGTGTC--CATGAGTATATGAATCCTTTACAGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
*
22210509 AAGGTCCGATGACTATGTGTCATCGTGAGTATACGAATCCTTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCC-TTTACGGATTAT
* * * *
22210562 GAGGTCCGATGACTATGTGTCACCGTGAGCATATGGATCCTTTTACGGATT-T
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCC-TTTACGGATTAT
* *
22210614 AAGGTTCGATGACTTTGTGTCATCGTGAGTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTAT
22210646 TAAATGGGAA
Statistics
Matches: 262, Mismatches: 25, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
50 46 0.18
51 9 0.03
52 122 0.47
53 85 0.32
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (52 bp):
AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
Found at i:22211412 original size:24 final size:24
Alignment explanation
Indices: 22211342--22211412 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
22211332 GGCTTGAGTT
22211342 GTATCGGTAGTT-GTAT-CATAG--
1 GTATCGGTAGTTCGTATAC-TAGAA
*
22211363 GTATCGGTAGTTC-TACTTAC-AAAA
1 GTATCGGTAGTTCGTA--TACTAGAA
22211387 GTATCGGTAGTTCGTATACTAGAA
1 GTATCGGTAGTTCGTATACTAGAA
22211411 GT
1 GT
22211413 TGTAGGGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
21 14 0.35
22 1 0.03
23 4 0.10
24 19 0.47
25 2 0.05
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (24 bp):
GTATCGGTAGTTCGTATACTAGAA
Found at i:22215386 original size:52 final size:52
Alignment explanation
Indices: 22215276--22215618 Score: 397
Period size: 52 Copynumber: 6.6 Consensus size: 52
22215266 AAATGCAAAA
* * * *
22215276 AGGTCCGATGACTCTGTGTTATCGTGAGTTATATGAATCATATTACGGATTA-A
1 AGGTCCGATGACTATGTGTCATCGTGAG-TATATGAATCCT-TTACGGATTATG
* *
22215329 AGGTCCGATAACTATGTGCCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
22215381 AGGTCCGATGACTATGTGTCATTGTGAGTATACGAATCCTTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
22215433 AGGTCTGATGACTATGCGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
22215485 AGGTCC-ATGACTATGTGTTATCGTGAGTATACGAATCCTTTACAGATTTTG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * * * * * *
22215536 TGGTCCGATGATTTTATGTCA-CTGTAAGCATATGGATCCTTTTACTGATT-TA
1 AGGTCCGATGACTATGTGTCATC-GTGAGTATATGAATCC-TTTACGGATTATG
*
22215588 AGGTCCGATGACTTTGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
22215619 TAAATGGGAA
Statistics
Matches: 247, Mismatches: 38, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
51 56 0.23
52 157 0.64
53 34 0.14
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:22215575 original size:155 final size:156
Alignment explanation
Indices: 22215275--22215618 Score: 417
Period size: 155 Copynumber: 2.2 Consensus size: 156
22215265 TAAATGCAAA
* *
22215275 AAGGTCCGATGACTCTGTGTTATCGTGAGTTATATGAATCATATTACGGATTAAAGGTCCGATAA
1 AAGGTCCGATGACTATGTGTCATCGTGAG-TATATGAATCATATTACGGATTAAAGGTCCGATAA
* * * *
22215340 CTATGTGCCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATGTGTCATTG
65 CTATGTGCCATCGTGAGTATACGAATCCTTTACAGATTATGAGGTCCGATGACTATATGTCACTG
* *
22215405 TGAGTATACGAATCC-TTTAC-GAATTAT
130 TAAGCATACGAATCCTTTTACTG-ATT-T
* * * * * *
22215432 GAGGTCTGATGACTATGCGTCATCGTGAGTATATGAATCCT-TTACGGATTATGAGGTCC-ATGA
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATATTACGGATTA-AAGGTCCGATAA
** * * * *
22215495 CTATGTGTTATCGTGAGTATACGAATCCTTTACAGATTTTGTGGTCCGATGATTTTATGTCACTG
65 CTATGTGCCATCGTGAGTATACGAATCCTTTACAGATTATGAGGTCCGATGACTATATGTCACTG
* *
22215560 TAAGCATATGGATCCTTTTACTGATTT
130 TAAGCATACGAATCCTTTTACTGATTT
*
22215587 AAGGTCCGATGACTTTGTGTCATCGTGAGTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTAT
22215619 TAAATGGGAA
Statistics
Matches: 158, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
155 108 0.68
156 25 0.16
157 25 0.16
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (156 bp):
AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATATTACGGATTAAAGGTCCGATAAC
TATGTGCCATCGTGAGTATACGAATCCTTTACAGATTATGAGGTCCGATGACTATATGTCACTGT
AAGCATACGAATCCTTTTACTGATTT
Found at i:22216385 original size:24 final size:24
Alignment explanation
Indices: 22216315--22216385 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
22216305 GGCTTGAGTT
22216315 GTATCGGTAGTT-GTAT-CATAG--
1 GTATCGGTAGTTCGTATAC-TAGAA
*
22216336 GTATCGGTAGTTC-TACTTAC-AAAA
1 GTATCGGTAGTTCGTA--TACTAGAA
22216360 GTATCGGTAGTTCGTATACTAGAA
1 GTATCGGTAGTTCGTATACTAGAA
22216384 GT
1 GT
22216386 TGTAGGGTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
21 14 0.35
22 1 0.03
23 4 0.10
24 19 0.47
25 2 0.05
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (24 bp):
GTATCGGTAGTTCGTATACTAGAA
Found at i:22217180 original size:30 final size:30
Alignment explanation
Indices: 22217144--22217209 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
22217134 ACCAAAAACG
22217144 CCTTTGGTGTGGCATACCTAGTGAATATAC
1 CCTTTGGTGTGGCATACCTAGTGAATATAC
22217174 CCTTTGGTGTGGCATACCTAGTGAATATAC
1 CCTTTGGTGTGGCATACCTAGTGAATATAC
22217204 CCTTTG
1 CCTTTG
22217210 AATAGTGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (30 bp):
CCTTTGGTGTGGCATACCTAGTGAATATAC
Found at i:22221018 original size:24 final size:24
Alignment explanation
Indices: 22220986--22221203 Score: 314
Period size: 24 Copynumber: 9.1 Consensus size: 24
22220976 ACAAGTTCAT
*
22220986 TACGTTTACGCTCATCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
*
22221010 TACGTTTACACTCGTCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
*
22221034 TATGTTTACGCTCG-CTAGCATGAA
1 TACGTTTACGCTCGTC-AGCATGAA
22221058 TACGTTTACGCTC-TCCAGCATGAA
1 TACGTTTACGCTCGT-CAGCATGAA
*
22221082 TACGTTTACGCTCGCCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* *
22221106 TACATTTACACTCGTCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* *
22221130 TACGTTTACACTCGCCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* *
22221154 TACGTTTACACTTGTCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
22221178 TACGTTTACGCTCGTCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
22221202 TA
1 TA
22221204 TAAGAAACCT
Statistics
Matches: 175, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 173 0.99
25 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (24 bp):
TACGTTTACGCTCGTCAGCATGAA
Found at i:22222500 original size:16 final size:16
Alignment explanation
Indices: 22222479--22222524 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
22222469 ACTTAAATCA
22222479 TTCATTTTACTTTTAT
1 TTCATTTTACTTTTAT
* *
22222495 TTCATTTTTTCTTTTCT
1 TTCA-TTTTACTTTTAT
22222512 TT-ATTTTA-TTTTA
1 TTCATTTTACTTTTA
22222525 AATTAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.16
15 4 0.16
16 5 0.20
17 12 0.48
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCATTTTACTTTTAT
Found at i:22232560 original size:70 final size:67
Alignment explanation
Indices: 22232434--22232566 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 67
22232424 ATAAACAATA
* * * *
22232434 TAATGATTTTGCCTTTTAACTTAATGGGTAAACATTTATCAAAATGACATAATTTTACCTTTTAA
1 TAATGATTTTGACTTTTAACTTAAAGGGTAAACATTTATCAAAACGACATAATTTTACATTTTAA
22232499 CT
66 CT
* * *
22232501 TAATGGTTTTGACTTTTAACTTTAGAAAGGGTAAACATTTATCAAAACGACGTAGTTTTACATTT
1 TAATGATTTTGACTTTTAAC-TT--AAAGGGTAAACATTTATCAAAACGACATAATTTTACATTT
22232566 T
63 T
22232567 CTTATTCAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 18 0.32
68 2 0.04
70 36 0.64
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (67 bp):
TAATGATTTTGACTTTTAACTTAAAGGGTAAACATTTATCAAAACGACATAATTTTACATTTTAA
CT
Found at i:22235484 original size:2 final size:2
Alignment explanation
Indices: 22235472--22235519 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
22235462 AAGGACAGAA
* * * *
22235472 AG AG AG GG AG AG AG AG GG AG AG GG AG AG GG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22235514 AG AG AG
1 AG AG AG
22235520 TAGGGATTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22235487 original size:10 final size:10
Alignment explanation
Indices: 22235472--22235519 Score: 69
Period size: 10 Copynumber: 4.6 Consensus size: 10
22235462 AAGGACAGAA
22235472 AGAGAGGGAG
1 AGAGAGGGAG
22235482 AGAGAGGGAG
1 AGAGAGGGAG
22235492 AGGGAGAGGGAG
1 A--GAGAGGGAG
*
22235504 AGAGAGAGAG
1 AGAGAGGGAG
22235514 AGAGAG
1 AGAGAG
22235520 TAGGGATTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
10 25 0.71
12 10 0.29
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (10 bp):
AGAGAGGGAG
Found at i:22239212 original size:21 final size:22
Alignment explanation
Indices: 22239177--22239217 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
22239167 GATATTATAA
*
22239177 TTTATTTCATTATTA-AATATT
1 TTTATTTCATAATTATAATATT
*
22239198 TTTATTTTATAATTATAATA
1 TTTATTTCATAATTATAATA
22239218 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTATTTCATAATTATAATATT
Found at i:22241615 original size:18 final size:19
Alignment explanation
Indices: 22241585--22241621 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
22241575 GCTATAAAAT
22241585 TTATTAAGAAATT-TTAAA
1 TTATTAAGAAATTATTAAA
22241603 TTATTAA-AGAATTATTAAA
1 TTATTAAGA-AATTATTAAA
22241622 AATTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.06
18 11 0.65
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
TTATTAAGAAATTATTAAA
Found at i:22241627 original size:10 final size:10
Alignment explanation
Indices: 22241579--22241632 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
22241569 TAAAAAGCTA
*
22241579 TAAAATTTAT
1 TAAAAATTAT
22241589 TAAGAAATT-T
1 TAA-AAATTAT
22241599 T--AAATTAT
1 TAAAAATTAT
22241607 TAAAGAATTAT
1 TAAA-AATTAT
22241618 TAAAAATTA-
1 TAAAAATTAT
22241627 TAAAAA
1 TAAAAA
22241633 CTAAAAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
7 5 0.13
8 2 0.05
9 6 0.16
10 11 0.29
11 14 0.37
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:22253665 original size:26 final size:26
Alignment explanation
Indices: 22253631--22253685 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
22253621 ATTATGTTTC
22253631 TTTTGCTAGTACTTTATAACCAATGT
1 TTTTGCTAGTACTTTATAACCAATGT
22253657 TTTTGCTAGTACTTTATAACCAATGT
1 TTTTGCTAGTACTTTATAACCAATGT
22253683 TTT
1 TTT
22253686 GATGAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (26 bp):
TTTTGCTAGTACTTTATAACCAATGT
Found at i:22255003 original size:75 final size:75
Alignment explanation
Indices: 22254880--22255027 Score: 287
Period size: 75 Copynumber: 2.0 Consensus size: 75
22254870 AAATGGGGTT
22254880 AGATAAAGAGAAAGTGGATGATAAAACTTAAGGAAGAAGGCCGATTGGTTCTAGTTCACAGCCAC
1 AGATAAAGAGAAAGTGGATGATAAAACTTAAGGAAGAAGGCCGATTGGTTCTAGTTCACAGCCAC
22254945 CTTCTAAACG
66 CTTCTAAACG
*
22254955 AGATAAAGAGAAAGTGGATGATAAAACTTAAGGAAGAAGGCCGATTGGTTCTAGTTCACAGTCAC
1 AGATAAAGAGAAAGTGGATGATAAAACTTAAGGAAGAAGGCCGATTGGTTCTAGTTCACAGCCAC
22255020 CTTCTAAA
66 CTTCTAAA
22255028 TGAGCTAGAG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (75 bp):
AGATAAAGAGAAAGTGGATGATAAAACTTAAGGAAGAAGGCCGATTGGTTCTAGTTCACAGCCAC
CTTCTAAACG
Found at i:22263718 original size:52 final size:52
Alignment explanation
Indices: 22263640--22263981 Score: 436
Period size: 52 Copynumber: 6.6 Consensus size: 52
22263630 TAAATGAAAT
*
22263640 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCATTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACGGATTATG
* * * *
22263692 AGGTCTGATTACTATGTGTCATCGTGAGTATATGAATCCTTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACGGATTATG
* * * * *
22263744 AGGTCCGATTACTATGTGTCATTGTGAGCATATAAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACGGATTATG
* * *
22263796 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTCACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACGGATTATG
* * *
22263848 AAGTTCGATGACTATGTGTCATCATGAGTATATGAA-TCTTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTC-TTTACGGATTATG
* * * * *
22263900 AGGTTCGATGACTATGCGTTATCGTGAGTATATGAATTCTTTATGGATTA-A
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACGGATTATG
* * * *
22263951 AGATCCGATGACTCTGTGTTATTGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
22263982 CAAATACACA
Statistics
Matches: 257, Mismatches: 31, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
51 27 0.11
52 228 0.89
53 2 0.01
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACGGATTATG
Found at i:22264694 original size:21 final size:21
Alignment explanation
Indices: 22264670--22264720 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
22264660 TAGAATCAAG
22264670 ACTTGTATCGGTAG-AGGAGTC
1 ACTTGTATCGGTAGAAGG-GTC
*
22264691 ACTTGTATCGGTAGAATGGTC
1 ACTTGTATCGGTAGAAGGGTC
22264712 ACTTGTATC
1 ACTTGTATC
22264721 TGTGGAGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (21 bp):
ACTTGTATCGGTAGAAGGGTC
Found at i:22270571 original size:52 final size:52
Alignment explanation
Indices: 22270488--22270673 Score: 232
Period size: 52 Copynumber: 3.6 Consensus size: 52
22270478 TAAATGAAAT
22270488 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
22270540 AGGTTCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *** * ** *
22270592 AGGGT-AGATGACTATACATTATCGTGAGTATATGAATTTTTTACGGATTA-A
1 A-GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
22270643 AGGTCCAATGACTTTGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
22270674 CAAATACACA
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
50 3 0.03
51 20 0.18
52 86 0.77
53 3 0.03
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:22271388 original size:21 final size:20
Alignment explanation
Indices: 22271364--22271420 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
22271354 GAATCAAGAT
22271364 TTGTATCGGTAGAGGAGTCAC
1 TTGTATCGGTAGAGG-GTCAC
* *
22271385 TTGTACCGGTAGAATGGTCAC
1 TTGTATCGGTAG-AGGGTCAC
22271406 TTGTATCGGTAGAGG
1 TTGTATCGGTAGAGG
22271421 TCTGCACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (20 bp):
TTGTATCGGTAGAGGGTCAC
Found at i:22278847 original size:16 final size:18
Alignment explanation
Indices: 22278820--22278854 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
22278810 ATAAACATCT
22278820 TTAAATTAA-TTTCTCAA
1 TTAAATTAATTTTCTCAA
22278837 TTAAA-TAATTTTCTCAA
1 TTAAATTAATTTTCTCAA
22278854 T
1 T
22278855 CCAATTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAATTAATTTTCTCAA
Found at i:22283912 original size:9 final size:9
Alignment explanation
Indices: 22283882--22283941 Score: 50
Period size: 10 Copynumber: 6.2 Consensus size: 9
22283872 AATTATTAAT
22283882 ATTTTTATTA
1 ATTTTTA-TA
*
22283892 A-TTTAATAA
1 ATTTTTAT-A
22283901 ATTTTTATA
1 ATTTTTATA
*
22283910 ATTATTTACA
1 ATT-TTTATA
22283920 TATTTTTAATA
1 -ATTTTT-ATA
22283931 ATTTTTATA
1 ATTTTTATA
22283940 AT
1 AT
22283942 ATTCTGAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 1 0.02
9 15 0.37
10 20 0.49
11 5 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTTTATA
Found at i:22283943 original size:21 final size:21
Alignment explanation
Indices: 22283878--22283944 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 21
22283868 AAATAATTAT
* *
22283878 TAATATTTTTATTAA-TTTAA
1 TAATATTTTTAATAATTTTTA
22283898 TAA-ATTTTT-ATAATTATTTA
1 TAATATTTTTAATAATT-TTTA
*
22283918 -CATATTTTTAATAATTTTTA
1 TAATATTTTTAATAATTTTTA
22283938 TAATATT
1 TAATATT
22283945 CTGAAACACA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
18 3 0.08
19 8 0.21
20 16 0.42
21 11 0.29
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATATTTTTAATAATTTTTA
Found at i:22290014 original size:11 final size:11
Alignment explanation
Indices: 22289992--22290022 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
22289982 AATGTAATAT
22289992 AAATATATTTAA
1 AAATA-ATTTAA
22290004 AAATAATTTAA
1 AAATAATTTAA
22290015 AAATAATT
1 AAATAATT
22290023 CGGGCAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAATAATTTAA
Found at i:22291020 original size:15 final size:17
Alignment explanation
Indices: 22291000--22291033 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
22290990 TTAAGCTTCT
22291000 TAAAAATA-A-TTAAAA
1 TAAAAATACATTTAAAA
22291015 TAAAAATACATTTAAAA
1 TAAAAATACATTTAAAA
22291032 TA
1 TA
22291034 TCCAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATACATTTAAAA
Found at i:22298222 original size:50 final size:50
Alignment explanation
Indices: 22298168--22298278 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
22298158 TAGAGTATCG
* * ** * *
22298168 CTCTTATGAGCTAGACATAATTATGCTCTTGCGAGCCAGACAAAATATTA
1 CTCTTACGAGCTAGACAGAATTACACTCTTGCAAGCCAAACAAAATATTA
* **
22298218 CTCTTACGAGCTAGACAGAATTACACTCTTTCAAGCCAAACAAAATATCG
1 CTCTTACGAGCTAGACAGAATTACACTCTTGCAAGCCAAACAAAATATTA
22298268 CTCTTACGAGC
1 CTCTTACGAGC
22298279 CATATAGAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (50 bp):
CTCTTACGAGCTAGACAGAATTACACTCTTGCAAGCCAAACAAAATATTA
Found at i:22298279 original size:25 final size:25
Alignment explanation
Indices: 22298137--22298280 Score: 96
Period size: 25 Copynumber: 5.8 Consensus size: 25
22298127 GCCTAGATAG
* * * *
22298137 AATATCGCTCATACGAGTC-GATAG
1 AATATCGCTCTTACGAGCCAGACAA
* * *
22298161 AGTATCGCTCTTATGAGCTAGACATA
1 AATATCGCTCTTACGAGCCAGACA-A
* *
22298187 ATTAT-GCTCTTGCGAGCCAGACAA
1 AATATCGCTCTTACGAGCCAGACAA
** * *
22298211 AATATTACTCTTACGAGCTAGACAG
1 AATATCGCTCTTACGAGCCAGACAA
* * * *
22298236 AAT-TACACTCTTTCAAGCCAAACAA
1 AATAT-CGCTCTTACGAGCCAGACAA
22298261 AATATCGCTCTTACGAGCCA
1 AATATCGCTCTTACGAGCCA
22298281 TATAGAATTA
Statistics
Matches: 90, Mismatches: 25, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
24 20 0.22
25 65 0.72
26 5 0.06
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
AATATCGCTCTTACGAGCCAGACAA
Found at i:22299094 original size:2 final size:2
Alignment explanation
Indices: 22299087--22299115 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22299077 CTTTAATTTA
22299087 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 A
22299116 CTAATGACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22304399 original size:21 final size:22
Alignment explanation
Indices: 22304375--22304419 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
22304365 TCTCAAAGAA
*
22304375 CATTACT-GGGGCACCGAAATG
1 CATTACTAAGGGCACCGAAATG
* *
22304396 CATTTCTAAGGGCACCGTAATG
1 CATTACTAAGGGCACCGAAATG
22304418 CA
1 CA
22304420 AGACAAGGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (22 bp):
CATTACTAAGGGCACCGAAATG
Done.