Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 143 of 325
Found at i:45064611 original size:22 final size:22
Alignment explanation
Indices: 45064583--45064627 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
45064573 CTCATAACTT
*
45064583 ATTGAGCATTGGACATTTAATG
1 ATTGAGCATTAGACATTTAATG
45064605 ATTGAGCATTAGACATTTAATG
1 ATTGAGCATTAGACATTTAATG
45064627 A
1 A
45064628 CTAGTGGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (22 bp):
ATTGAGCATTAGACATTTAATG
Found at i:45067812 original size:28 final size:28
Alignment explanation
Indices: 45067772--45067827 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
45067762 TTTCCTTACA
45067772 AAAACAAAATGAAAGGTATACGTGATGT
1 AAAACAAAATGAAAGGTATACGTGATGT
45067800 AAAACAAAATGAAAGGTATACGTGATGT
1 AAAACAAAATGAAAGGTATACGTGATGT
45067828 TGAGTGGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (28 bp):
AAAACAAAATGAAAGGTATACGTGATGT
Found at i:45071546 original size:22 final size:22
Alignment explanation
Indices: 45071508--45071555 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
45071498 AGAAATTAAG
45071508 TAGAAAAGAAGTATGAATTGAGT
1 TAGAAAAGAAG-ATGAATTGAGT
*
45071531 TAGAAAAGTAAG-TGAATTTAGT
1 TAGAAAAG-AAGATGAATTGAGT
45071553 TAG
1 TAG
45071556 GATTAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (22 bp):
TAGAAAAGAAGATGAATTGAGT
Found at i:45071891 original size:28 final size:28
Alignment explanation
Indices: 45071822--45071898 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
45071812 ATTATGGAAT
45071822 TGAAAAG-GAAATTGAATTGATGATGGA
1 TGAAAAGTGAAATTGAATTGATGATGGA
* * * *
45071849 T-AAGTATTGATATTGAATTGTAT-ATTGA
1 TGAA-AAGTGAAATTGAATTG-ATGATGGA
45071877 TGAAAAGTGAAATTGAATTGAT
1 TGAAAAGTGAAATTGAATTGAT
45071899 TCGTATATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 29 0.74
29 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (28 bp):
TGAAAAGTGAAATTGAATTGATGATGGA
Found at i:45072073 original size:41 final size:39
Alignment explanation
Indices: 45072027--45072123 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 39
45072017 TCGACCTTGA
* *
45072027 GTCGATGAGACACTGGGTGTCACTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGT-ACCACTTTACTTCGGATAG
* ** *
45072067 ATTCGATGAGGTACT-GG-GTACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTACCACTTTACTTCGGATAG
*
45072105 GCCGATGAGACACTGGGTG
1 GTCGATGAGACACTGGGTG
45072124 GCATTATATT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
37 10 0.23
38 18 0.41
39 3 0.07
40 2 0.05
41 11 0.25
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTACCACTTTACTTCGGATAG
Found at i:45079072 original size:16 final size:16
Alignment explanation
Indices: 45079053--45079096 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
45079043 ATTTTTGGGT
* *
45079053 ACTTATTTTTTTTATC
1 ACTTATTTTTTTCAGC
*
45079069 ACTTATTATTTTCAGC
1 ACTTATTTTTTTCAGC
45079085 ACTTAATTTTTT
1 ACTT-ATTTTTT
45079097 AGTTTTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.23, C:0.14, G:0.02, T:0.61
Consensus pattern (16 bp):
ACTTATTTTTTTCAGC
Found at i:45081569 original size:57 final size:58
Alignment explanation
Indices: 45081416--45081569 Score: 165
Period size: 57 Copynumber: 2.7 Consensus size: 58
45081406 CCACATATCA
* ** * * *
45081416 TATAACAGGATTACTTGTCCAAGCTAAAT-CTTGTTT-TCAACATATGCTCATAAGAGTT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTT-TTTGT-AACATATGCTCAGAAGAGCT
* * *
45081474 TA-ATCAGGATTACCCGTCCAGGCTAAATCCTATCTGTAA-ATATGCTCAAGAAG-GCT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACATATGCTC-AGAAGAGCT
45081530 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAA
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAA
45081570 TGAGGTCAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
56 12 0.15
57 64 0.79
58 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (58 bp):
TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACATATGCTCAGAAGAGCT
Found at i:45086249 original size:47 final size:47
Alignment explanation
Indices: 45086191--45086321 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
45086181 GTGCAAATAA
* * * *
45086191 TACCTTGATTTGGCAATGGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGAGAGAAGT
* * * * *
45086238 TACCTTGATTTGGCTACGGGGCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGAGAGAAGT
*
45086285 TACCTTGATTTGGCTACGGGTCATGGTATAGGTATTT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTT
45086322 ATCGATTGTG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGAGAGAAGT
Found at i:45090651 original size:22 final size:22
Alignment explanation
Indices: 45090610--45090651 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
45090600 ACATAAGCAT
*
45090610 TCAATTATATTAGCACAATAAA
1 TCAATTATATCAGCACAATAAA
* *
45090632 TCAATTATATCGGCATAATA
1 TCAATTATATCAGCACAATA
45090652 CATCTATGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (22 bp):
TCAATTATATCAGCACAATAAA
Found at i:45094638 original size:47 final size:45
Alignment explanation
Indices: 45094563--45094929 Score: 229
Period size: 47 Copynumber: 7.8 Consensus size: 45
45094553 GGGTTATGTA
* * * *
45094563 AGAGCTAATGTAAGACCATGTTTAGGACATGGCATCGGCATTAAGACG
1 AGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TTAAGATG
* * **
45094611 AGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTATATTATG
1 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-TAAGATG
** * * * *
45094657 ATCGCTAGTGTAAGACATGTTTGAGACATGGCATTGGCGTAGAGATG
1 AGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCTTA-AGATG
* * * * * *
45094704 AGTGCCAGTGTAAGACATGTTTGGGACATGCCTCGGCCTCGATGATG
1 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CT-TAAGATG
* * * *
45094751 ATAGCCAGTGTAAGACGTGTCTGGGACATGCATCAGC-TAAGCACT-
1 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTAAG-A-TG
* * * *
45094796 -GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACTTATATACG
1 AGAGCTAGTGTAAGACATGTCTGGGACATGCATC-G-GCTTA-AGATG
* *
45094843 AGAGCTACTGTAAGACCATGTCTGGGACATGGCATCGGC-CACGATGATG
1 AGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTA--A-GATG
* * *
45094892 ATAGCCAGTGTAAGACCTTGTCTGGGACATGGCATCGG
1 AGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
45094930 TAACTTAGCC
Statistics
Matches: 249, Mismatches: 53, Indels: 33
0.74 0.16 0.10
Matches are distributed among these distances:
44 31 0.12
45 2 0.01
46 46 0.18
47 85 0.34
48 29 0.12
49 51 0.20
50 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTAAGATG
Found at i:45094863 original size:140 final size:142
Alignment explanation
Indices: 45094563--45094927 Score: 393
Period size: 140 Copynumber: 2.6 Consensus size: 142
45094553 GGGTTATGTA
* * * * * ** *
45094563 AGAGCTAATGTAAGACCATGTTTAGGACATGGCATCGGCAT-TAAGACGAGGGCTAGTGTAAGAC
1 AGAGCTAATGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATGATGATAGCCAGTGTAAGAC
** * *
45094627 ATGTCTGGGACATGCATCAGCTATATTATGATCGCTAGTGTAAGACATGTTTGAGACATGGCATT
66 ATGTCTGGGACATGCATCAGCTATAGCATGATCGCTAGTGTAAGACATGTCTGAGACATGGCATA
* *
45094692 GGCGTAGAGATG
131 GACGTAGAGACG
* * * *
45094704 AGTGCCAGTGTAAGA-CATGTTTGGGACAT-GCCTCGGCCTCGATGATGATAGCCAGTGTAAGAC
1 AGAGCTAATGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATGATGATAGCCAGTGTAAGAC
* *
45094767 GTGTCTGGGACATGCATCAGCTA-AGCACTG-T-GCTAGTGTAAGACATGTCTGGGACAT-GCAT
66 ATGTCTGGGACATGCATCAGCTATAGCA-TGATCGCTAGTGTAAGACATGTCTGAGACATGGCAT
* * *
45094828 CAGCACTTATATACG
130 -AG-ACGTAGAGACG
* * *
45094843 AGAGCTACTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATGATGATAGCCAGTGTAAGAC
1 AGAGCTAATGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATGATGATAGCCAGTGTAAGA-
*
45094908 CTTGTCTGGGACATGGCATC
65 CATGTCTGGGACAT-GCATC
45094928 GGTAACTTAG
Statistics
Matches: 186, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
137 4 0.02
138 25 0.13
139 29 0.16
140 67 0.36
141 43 0.23
142 13 0.07
143 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (142 bp):
AGAGCTAATGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATGATGATAGCCAGTGTAAGAC
ATGTCTGGGACATGCATCAGCTATAGCATGATCGCTAGTGTAAGACATGTCTGAGACATGGCATA
GACGTAGAGACG
Found at i:45107437 original size:47 final size:47
Alignment explanation
Indices: 45107360--45107490 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
45107350 GTGCAAATAA
* * * * *
45107360 TACCTTGATTTTGCAATGGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGAGAGAAGT
* * * * *
45107407 TACCTTGATTTGGCTACGGGGCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGAGAGAAGT
*
45107454 TACCTTGATTTGGCTACGGGTCATGGTATAGGTATTT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTT
45107491 ATCGATTGTG
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGAGAGAAGT
Found at i:45111713 original size:22 final size:22
Alignment explanation
Indices: 45111688--45111729 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45111678 ACATAAGCAT
45111688 TCAATTATATTAGCACAATAAA
1 TCAATTATATTAGCACAATAAA
* *
45111710 TCAATTATATTGGCATAATA
1 TCAATTATATTAGCACAATA
45111730 CATCTATGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (22 bp):
TCAATTATATTAGCACAATAAA
Found at i:45113197 original size:47 final size:46
Alignment explanation
Indices: 45113140--45113365 Score: 162
Period size: 47 Copynumber: 4.8 Consensus size: 46
45113130 ATCGGGTTAT
* *
45113140 GTGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGA
1 GTGAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACATTGA
* * *
45113187 GTGAGGGCTAGTGTAAGACATGTTTGGGACAT-GCATCAGCCACATT-A
1 GTGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATC-G--ACATTGA
* * *
45113234 -TGATCA-CCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCGTAGA
1 GTGA-GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGA-CATTGA
* * * *
45113280 GATGAGTGCCAGTGTAAGACATGTCTGGGACAT-GCCTCAGCCTCAATGA
1 G-TGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATC-G--ACATTGA
* * *
45113329 -TGATAGCCAGTGTAAGACGTGTTTGGGACAT-GCATCG
1 GTGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCG
45113366 GCTAAGCGCT
Statistics
Matches: 143, Mismatches: 21, Indels: 31
0.73 0.11 0.16
Matches are distributed among these distances:
44 1 0.01
45 7 0.05
46 32 0.22
47 76 0.53
48 24 0.17
49 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GTGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACATTGA
Found at i:45120649 original size:47 final size:46
Alignment explanation
Indices: 45120585--45120948 Score: 204
Period size: 47 Copynumber: 7.7 Consensus size: 46
45120575 TTATGTAAGA
* * * *
45120585 GCTAATGTAAGACCATGTTTAGGACATGGCATCGGCATTAAGACGAGG
1 GCTAGTGTAAGA-CATGTTTGGGACATGGCATCGGC-TTAAGATGAGC
* * * ** *
45120633 GCTAGTGTGAGACATGTCTGGGACAT-GCATCAGCTATATTATGATC
1 GCTAGTGTAAGACATGTTTGGGACATGGCATCGGCT-TAAGATGAGC
* * * *
45120679 GCTAGTGTAAGACATGTTTGAGACATGGCATTGGCGTAGAGATGAGT
1 GCTAGTGTAAGACATGTTTGGGACATGGCATCGGCTTA-AGATGAGC
* * * **
45120726 GCTAGTGTAAGACATGTTTGGGACAT-GCCTCGGCCTCGATGATGATA
1 GCTAGTGTAAGACATGTTTGGGACATGGCATCGG-CT-TAAGATGAGC
* * * *
45120773 GCCAGTGTAAGACGTGTCTGGGACAT-GCATCGGC-TAAGCACT--GT
1 GCTAGTGTAAGACATGTTTGGGACATGGCATCGGCTTAAG-A-TGAGC
* * * *
45120817 GCTAGTGTAAGACATGTTTGGGACAT-GCATCAGCACTTATATACGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGGCATC-G-GCTTA-AGATGAGC
** * * * **
45120865 GCTACAGTAAGACCATGTCTGGGACATGGCCTCGGC-CACGATGATGATA
1 GCTAGTGTAAGA-CATGTTTGGGACATGGCATCGGCTTA--A-GATGAGC
* *
45120914 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCTAGTGTAAGA-CATGTTTGGGACATGGCATCGG
45120949 TAACTTAGCC
Statistics
Matches: 242, Mismatches: 57, Indels: 33
0.73 0.17 0.10
Matches are distributed among these distances:
44 30 0.12
45 3 0.01
46 45 0.19
47 86 0.36
48 25 0.10
49 49 0.20
50 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTTTGGGACATGGCATCGGCTTAAGATGAGC
Found at i:45120924 original size:49 final size:47
Alignment explanation
Indices: 45120636--45120948 Score: 207
Period size: 47 Copynumber: 6.6 Consensus size: 47
45120626 GACGAGGGCT
* * * * * * *
45120636 AGTGTGAGACATGTCTGGGACATGCATCAGCTA-TATTATGATCGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGATAGCC
* * * * *
45120682 AGTGTAAGACATGTTTGAGACATGGCATTGGCGTA-GA-GATGAGT-GCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CACGATGATGA-TAGCC
* * *
45120729 AGTGTAAGACATGTTTGGGACATGCCTCGGCCTCGATGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGATAGCC
* * *
45120776 AGTGTAAGACGTGTCTGGGACATGCATCGGCTA--A-GCACTG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGATG-A-TGATAGCC
* * * * *
45120820 AGTGTAAGACATGTTTGGGACATGCATCAG-CACTTAT-ATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-GATGAT--GATAGCC
** *
45120868 ACAGTAAGACCATGTCTGGGACATGGCCTCGGCCACGATGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGATGATGATAGCC
45120917 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
45120949 TAACTTAGCC
Statistics
Matches: 212, Mismatches: 35, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.00
44 31 0.15
45 4 0.02
46 33 0.16
47 70 0.33
48 14 0.07
49 47 0.22
50 7 0.03
51 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGATAGCC
Found at i:45132958 original size:41 final size:40
Alignment explanation
Indices: 45132861--45132969 Score: 105
Period size: 41 Copynumber: 2.7 Consensus size: 40
45132851 TGATATTTTG
* *
45132861 ATCTGCATTCTGTATCTGATTGGGCTGAGGCTCTAATATAT
1 ATCTG-ATTCTGTATCTGACTGGGCTAAGGCTCTAATATAT
* *
45132902 -TCCTGACTCTGTATCTGAGCTGGGCTAAGGC-CTTAATTTAT
1 AT-CTGATTCTGTATCTGA-CTGGGCTAAGGCTC-TAATATAT
* * *
45132943 ATCTGATTCTATATCTGAATGGACTAA
1 ATCTGATTCTGTATCTGACTGGGCTAA
45132970 CGCCCACACT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
40 21 0.38
41 34 0.61
42 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (40 bp):
ATCTGATTCTGTATCTGACTGGGCTAAGGCTCTAATATAT
Found at i:45138920 original size:55 final size:56
Alignment explanation
Indices: 45138860--45138987 Score: 145
Period size: 55 Copynumber: 2.3 Consensus size: 56
45138850 CGTGTCAATC
* * *
45138860 TAACAGGTTCGACCACGGGTGC-TAGACACGGGCGTGTCGCACGCCTGTGATGTTT
1 TAACAGGTTCGACCACGGGTGCTTACACACGGGCGTGTCGCACCCCCGTGATGTTT
* * * *
45138915 TAACAGGTTC-ACCCAC-GGTTCTTCCACACGGGCGTGTCTCACCCCCGTGTTGTTT
1 TAACAGGTTCGA-CCACGGGTGCTTACACACGGGCGTGTCGCACCCCCGTGATGTTT
**
45138970 TGGCAGGTTCGACCACGG
1 TAACAGGTTCGACCACGG
45138988 CCATGTAGCA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
54 5 0.08
55 53 0.88
56 2 0.03
ACGTcount: A:0.16, C:0.30, G:0.29, T:0.25
Consensus pattern (56 bp):
TAACAGGTTCGACCACGGGTGCTTACACACGGGCGTGTCGCACCCCCGTGATGTTT
Found at i:45151204 original size:41 final size:40
Alignment explanation
Indices: 45151147--45151245 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 40
45151137 TATTCTGTAT
* * *
45151147 CTGATTGGGCTGAGGCCCTAATATAT-TCCTAACTCTGTAC
1 CTGAGTGGGCTAAGGCCCTAATATATAT-CTAACTCTATAC
* * * *
45151187 CTGAGCTGGGCTAAGGCCCTAATTTATATCTGATTCTATAT
1 CTGAG-TGGGCTAAGGCCCTAATATATATCTAACTCTATAC
45151228 CTGAGTGGGCTAAGGCCC
1 CTGAGTGGGCTAAGGCCC
45151246 ATACTGATTC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 17 0.34
41 32 0.64
42 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.31
Consensus pattern (40 bp):
CTGAGTGGGCTAAGGCCCTAATATATATCTAACTCTATAC
Found at i:45153981 original size:17 final size:17
Alignment explanation
Indices: 45153961--45153995 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45153951 ATTGAACATA
*
45153961 ATAATAAATATATTCTT
1 ATAATAAAGATATTCTT
45153978 ATAATAAAGATATTCTT
1 ATAATAAAGATATTCTT
45153995 A
1 A
45153996 CTTCTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (17 bp):
ATAATAAAGATATTCTT
Found at i:45163270 original size:20 final size:20
Alignment explanation
Indices: 45163237--45163289 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
45163227 AAGCACCATT
*
45163237 AGCT-CTTTAATGCACCAGC
1 AGCTCCTTTATTGCACCAGC
45163256 AGCTCCTTTATTGCACCAGC
1 AGCTCCTTTATTGCACCAGC
*
45163276 AACTCCTTTATTGC
1 AGCTCCTTTATTGC
45163290 TGCTTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (20 bp):
AGCTCCTTTATTGCACCAGC
Found at i:45169748 original size:46 final size:45
Alignment explanation
Indices: 45169584--45169749 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 45
45169574 CCATCTGTGT
* *
45169584 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CACATGTAACCGT-GC
1 CGATG-CATGTCCCAGACATGTCTTACACTGAGCACATCT---CGTAGC
* *
45169631 CAATGCATGTCCCAGACATGTCTTACGCT-AGCACATCTCGTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGC
* * *
45169675 CGACGCATAT-CCAGACATGTCTGACACTGA-CTAACATCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGAGC--ACATCTCGTA-GC
*
45169720 CGATGCTTGTCCCAGACATGTCTTACACTG
1 CGATGCATGTCCCAGACATGTCTTACACTG
45169750 GCGCACATAT
Statistics
Matches: 99, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
43 20 0.20
44 11 0.11
45 18 0.18
46 46 0.46
47 4 0.04
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGC
Found at i:45175397 original size:43 final size:44
Alignment explanation
Indices: 45175339--45175457 Score: 159
Period size: 45 Copynumber: 2.7 Consensus size: 44
45175329 CATGCCAATA
*
45175339 CATGTCCCAGACATGTTTTACACTAGCACATCTCGTGGCCGACG
1 CATGTCCCAGACATGTTTTACACTAGCACATCTCGAGGCCGACG
* * *
45175383 CATGT-CCAGACATGTTTGACACTAACTAACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTTTTACACTAGC--ACATCTCGAGGCCGACG
* *
45175428 CATGTCCCAGACATGTCTTACACTGGCACA
1 CATGTCCCAGACATGTTTTACACTAGCACA
45175458 CATATCTCAT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 19 0.30
44 8 0.12
45 20 0.31
46 17 0.27
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (44 bp):
CATGTCCCAGACATGTTTTACACTAGCACATCTCGAGGCCGACG
Found at i:45183606 original size:14 final size:15
Alignment explanation
Indices: 45183587--45183623 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
45183577 CGTGTTTTAA
45183587 AAAAATAATAA-AAG
1 AAAAATAATAATAAG
45183601 AAAAATAA-AATAAG
1 AAAAATAATAATAAG
*
45183615 ATAAATAAT
1 AAAAATAAT
45183624 CTAATTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (15 bp):
AAAAATAATAATAAG
Found at i:45194517 original size:13 final size:13
Alignment explanation
Indices: 45194499--45194523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45194489 GGGCGTTACC
45194499 ACGGCCGTACAAT
1 ACGGCCGTACAAT
45194512 ACGGCCGTACAA
1 ACGGCCGTACAA
45194524 AAATAGGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (13 bp):
ACGGCCGTACAAT
Found at i:45197899 original size:29 final size:29
Alignment explanation
Indices: 45197864--45198017 Score: 238
Period size: 29 Copynumber: 5.3 Consensus size: 29
45197854 GAAAGCATGA
* *
45197864 ATATGAATGTGATTTGGGCCTAATGAGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
45197893 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
45197922 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
45197951 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
45197980 ATATGAATGAGA-TTGGGCCTAGTGGGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
45198008 ATATGCATGT
1 ATATGAATGT
45198018 ATGTAGACTT
Statistics
Matches: 116, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 22 0.19
29 94 0.81
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:45212105 original size:29 final size:29
Alignment explanation
Indices: 45212063--45212187 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
45212053 GAAAGCATGA
45212063 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
45212092 ATATGAAGGTGATTTGGGTCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
**
45212121 ATAAAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
45212150 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
45212178 ATATGCATGT
1 ATATGAATGT
45212188 ATGTAGACTT
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 23 0.27
29 61 0.73
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:45219777 original size:27 final size:27
Alignment explanation
Indices: 45219715--45219807 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
45219705 AATACTTTAG
* *
45219715 TTTACCAAATTACTAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ** * *
45219742 CTTGTAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACCAAAATACCCTCGA
****
45219769 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
45219796 TTTACAAAATTA
1 TTTACAAAATTA
45219808 TTGAAATACC
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:45219833 original size:27 final size:25
Alignment explanation
Indices: 45219803--45219900 Score: 88
Period size: 27 Copynumber: 3.7 Consensus size: 25
45219793 CGATTTACAA
* *
45219803 AATTATTGAAATACCACTATAGGATAG
1 AATTACTGAAATACC-CTGTAGG-TAG
*
45219830 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCC-TGTA-GGTAG
*
45219857 AAATACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATA-CCCTGT-AGGTAG
* *
45219884 AATTACCGAGATACCCT
1 AATTACTGAAATACCCT
45219901 TGTGGGGTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
26 5 0.08
27 48 0.81
28 6 0.10
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (25 bp):
AATTACTGAAATACCCTGTAGGTAG
Found at i:45219867 original size:54 final size:53
Alignment explanation
Indices: 45219809--45219913 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 53
45219799 ACAAAATTAT
*
45219809 TGAAATACCACTAT-AGGATAGAATTACTAAAATACCCTTGTAGGGTAGAAATAC
1 TGAAATACCACTATAAGG-TAGAATTACCAAAATACCCTTGTAGGGTA-AAATAC
* * * * *
45219863 TGAAATACCCCTGTAAGGTAGAATTACCGAGATACCCTTGTGGGGTAAAAT
1 TGAAATACCACTATAAGGTAGAATTACCAAAATACCCTTGTAGGGTAAAAT
45219914 TACCATTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
53 4 0.09
54 37 0.84
55 3 0.07
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (53 bp):
TGAAATACCACTATAAGGTAGAATTACCAAAATACCCTTGTAGGGTAAAATAC
Found at i:45219909 original size:27 final size:27
Alignment explanation
Indices: 45219822--45219917 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 27
45219812 AATACCACTA
* **
45219822 TAGGATAGAATTACTAAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCTTG
* * *
45219849 TAGGGTAGAAATACTGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCTTG
* *
45219876 TAAGGTAGAATTACCGAGATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCTTG
* *
45219903 TGGGGTAAAATTACC
1 TAGGGTAGAATTACC
45219918 ATTTTGCCCC
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCTTG
Found at i:45220079 original size:16 final size:16
Alignment explanation
Indices: 45220058--45220089 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45220048 CAAATATGGG
*
45220058 CATGACATTTTGCATA
1 CATGACATGTTGCATA
45220074 CATGACATGTTGCATA
1 CATGACATGTTGCATA
45220090 GGTTGGGATT
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:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:45220319 original size:20 final size:20
Alignment explanation
Indices: 45220272--45220319 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
45220262 CAAAGGTTGT
*
45220272 GTGCCGTTATTGTGGGCTTC
1 GTGCCGATATTGTGGGCTTC
**
45220292 GTATCGATATTGTGGGCTTC
1 GTGCCGATATTGTGGGCTTC
45220312 GTGCCGAT
1 GTGCCGAT
45220320 TATAGACCCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.10, C:0.19, G:0.33, T:0.38
Consensus pattern (20 bp):
GTGCCGATATTGTGGGCTTC
Found at i:45220562 original size:25 final size:25
Alignment explanation
Indices: 45220534--45220597 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
45220524 CATTCACATT
*
45220534 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
* *
45220559 CTGATTCTAATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
* *
45220584 CTCATTTTGATTCT
1 CTGATTCTGATTCT
45220598 AGTTCTGATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:45220615 original size:18 final size:17
Alignment explanation
Indices: 45220594--45220627 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45220584 CTCATTTTGA
45220594 TTCTAGTTCTGATAATGT
1 TTCTAGTTCTG-TAATGT
*
45220612 TTCTTGTTCTGTAATG
1 TTCTAGTTCTGTAATG
45220628 GGCTAAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (17 bp):
TTCTAGTTCTGTAATGT
Found at i:45240677 original size:13 final size:13
Alignment explanation
Indices: 45240656--45240695 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
45240646 AGAGTAATCG
*
45240656 CACATGGGCGTGT
1 CACACGGGCGTGT
45240669 CACACGGGCGTGT
1 CACACGGGCGTGT
45240682 CACACGGGCGTGT
1 CACACGGGCGTGT
45240695 C
1 C
45240696 CTTGTCGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:45264283 original size:21 final size:20
Alignment explanation
Indices: 45264257--45264303 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 20
45264247 AACTGAATTA
45264257 CCTAACTAGCCTTAACTAACT
1 CCTAACTA-CCTTAACTAACT
45264278 CCT-A--ACCTTAACTAACT
1 CCTAACTACCTTAACTAACT
*
45264295 CTTAACTAC
1 CCTAACTAC
45264304 AACCTACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
17 14 0.64
18 2 0.09
20 3 0.14
21 3 0.14
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (20 bp):
CCTAACTACCTTAACTAACT
Found at i:45264288 original size:17 final size:17
Alignment explanation
Indices: 45264266--45264300 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45264256 ACCTAACTAG
45264266 CCTTAACTAACTCCTAA
1 CCTTAACTAACTCCTAA
*
45264283 CCTTAACTAACTCTTAA
1 CCTTAACTAACTCCTAA
45264300 C
1 C
45264301 TACAACCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (17 bp):
CCTTAACTAACTCCTAA
Found at i:45267071 original size:40 final size:40
Alignment explanation
Indices: 45267009--45267190 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
45266999 TATTCGAATG
* *
45267009 ATATTCGGGCTAAGTCCTGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
*
45267049 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
*
45267089 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
* * *
45267129 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAG-TGACT
*
45267169 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
45267191 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.88
41 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
Found at i:45273585 original size:34 final size:33
Alignment explanation
Indices: 45273537--45273602 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
45273527 TAGCATTATC
* *
45273537 AGTATGGGCTTTAG-CCTATTACAGTAACAGTATT
1 AGTATGGGCCTTAGCCCAATT-CAGT-ACAGTATT
45273571 AGTATGGGCCTTAGCCCAATTCAGTACAGTAT
1 AGTATGGGCCTTAGCCCAATTCAGTACAGTAT
45273603 CAATGATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 7 0.24
34 17 0.59
35 5 0.17
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (33 bp):
AGTATGGGCCTTAGCCCAATTCAGTACAGTATT
Found at i:45282927 original size:25 final size:23
Alignment explanation
Indices: 45282861--45282927 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
45282851 ATTCATATTC
45282861 AGGAATGCTCATGTGAGCATATAA
1 AGGAA-GCTCATGTGAGCATATAA
* * *
45282885 ACGGGTAGCTCTTTTGAGCCATATAA
1 A--GGAAGCTCATGTGAG-CATATAA
45282911 TAGGAAGCTCATGTGAG
1 -AGGAAGCTCATGTGAG
45282928 TCATGTAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
24 1 0.03
25 21 0.64
26 10 0.30
27 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (23 bp):
AGGAAGCTCATGTGAGCATATAA
Found at i:45282993 original size:24 final size:25
Alignment explanation
Indices: 45282940--45282987 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
45282930 ATGTAACGCA
*
45282940 AAGCTTTTGCAAGCCAAATATCGGG
1 AAGCTTATGCAAGCCAAATATCGGG
*
45282965 AAGCTTATGCGAGCC-AATATCGG
1 AAGCTTATGCAAGCCAAATATCGG
45282988 ATAGCTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (25 bp):
AAGCTTATGCAAGCCAAATATCGGG
Found at i:45283026 original size:25 final size:25
Alignment explanation
Indices: 45282959--45283327 Score: 174
Period size: 25 Copynumber: 14.8 Consensus size: 25
45282949 CAAGCCAAAT
* * *
45282959 ATCGGGAAGCTTATGCGAGCCAAT-
1 ATCGGGAAGCTCATGAGAGCCATTA
*
45282983 ATC-GGATAGCTC-TAAAGAGCCATTA
1 ATCGGGA-AGCTCAT-GAGAGCCATTA
* * *
45283008 ATCGGGAAACTCATGAGAGAGCCTTTT
1 ATCGGGAAGCTCAT--GAGAGCCATTA
**
45283035 ATCGGGAAGCTCCGGAGAGCCAATT-
1 ATCGGGAAGCTCATGAGAGCC-ATTA
* * * *
45283060 ATTGAGAAGCTCAT-ACAAGCCATAA
1 ATCGGGAAGCTCATGA-GAGCCATTA
* *
45283085 AT-GGGAAACTCAAGAGAGCCATTA
1 ATCGGGAAGCTCATGAGAGCCATTA
*
45283109 ATCGGGAAGCTCGTGAGAGCCATATA
1 ATCGGGAAGCTCATGAGAGCCAT-TA
* *
45283135 A-CGGGATA-CTCATGAGAGCTAAATA
1 ATCGGGA-AGCTCATGAGAGC-CATTA
* * * *
45283160 A-CGAGAAGCTCGTAAGAGTCATATA
1 ATCGGGAAGCTCATGAGAGCCAT-TA
*
45283185 A-CGGGAAGCTCGTGAGAGCCATATA
1 ATCGGGAAGCTCATGAGAGCCAT-TA
* * *
45283210 A-CGGGATGCTCATGAGAGCTAAATA
1 ATCGGGAAGCTCATGAGAGC-CATTA
* * * *
45283235 A-CGAGAAGCTCGTAAGAGTCATATA
1 ATCGGGAAGCTCATGAGAGCCAT-TA
* * * *
45283260 A-CGGGATGCTCATGAAAGCTAAATA
1 ATCGGGAAGCTCATGAGAGC-CATTA
45283285 A-CGGGAAGCTCATGAGAGCCTATT-
1 ATCGGGAAGCTCATGAGAGCC-ATTA
* *
45283309 ATCGGGACGCTCATAAGAG
1 ATCGGGAAGCTCATGAGAG
45283328 TTGTGGTGTA
Statistics
Matches: 261, Mismatches: 63, Indels: 41
0.72 0.17 0.11
Matches are distributed among these distances:
23 4 0.02
24 38 0.15
25 186 0.71
26 13 0.05
27 20 0.08
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (25 bp):
ATCGGGAAGCTCATGAGAGCCATTA
Found at i:45283118 original size:49 final size:52
Alignment explanation
Indices: 45282998--45283153 Score: 128
Period size: 49 Copynumber: 3.1 Consensus size: 52
45282988 ATAGCTCTAA
* * * ** * **
45282998 AGAGCCATTAATCGGGAAACTCATGAGAGAGCCTTTTATCGGGAAGCTCCGG
1 AGAGCCATTAATCGGGAAGCTCATGACAGAGCCATAAATCGGGAAACTCAAG
* *
45283050 AGAGCCAATT-ATTGAGAAGCTCAT-ACA-AGCCATAAAT-GGGAAACTCAAG
1 AGAGCC-ATTAATCGGGAAGCTCATGACAGAGCCATAAATCGGGAAACTCAAG
* * *
45283099 AGAGCCATTAATCGGGAAGCTCGTG--AGAGCCATATAA-CGGGATACTCATG
1 AGAGCCATTAATCGGGAAGCTCATGACAGAGCCATA-AATCGGGAAACTCAAG
45283149 AGAGC
1 AGAGC
45283154 TAAATAACGA
Statistics
Matches: 83, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
48 4 0.05
49 33 0.40
50 24 0.29
51 2 0.02
52 17 0.20
53 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (52 bp):
AGAGCCATTAATCGGGAAGCTCATGACAGAGCCATAAATCGGGAAACTCAAG
Found at i:45283198 original size:75 final size:75
Alignment explanation
Indices: 45283111--45283303 Score: 316
Period size: 75 Copynumber: 2.6 Consensus size: 75
45283101 AGCCATTAAT
45283111 CGGGAAGCTCGTGAGAGCCATATAACGGGATACTCATGAGAGCTAAATAACGAGAAGCTCGTAAG
1 CGGGAAGCTCGTGAGAGCCATATAACGGGATACTCATGAGAGCTAAATAACGAGAAGCTCGTAAG
45283176 AGTCATATAA
66 AGTCATATAA
*
45283186 CGGGAAGCTCGTGAGAGCCATATAACGGGATGCTCATGAGAGCTAAATAACGAGAAGCTCGTAAG
1 CGGGAAGCTCGTGAGAGCCATATAACGGGATACTCATGAGAGCTAAATAACGAGAAGCTCGTAAG
45283251 AGTCATATAA
66 AGTCATATAA
* * * * *
45283261 CGGGATGCTCATGAAAGCTAAATAACGGGA-AGCTCATGAGAGC
1 CGGGAAGCTCGTGAGAGCCATATAACGGGATA-CTCATGAGAGC
45283304 CTATTATCGG
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
75 110 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (75 bp):
CGGGAAGCTCGTGAGAGCCATATAACGGGATACTCATGAGAGCTAAATAACGAGAAGCTCGTAAG
AGTCATATAA
Found at i:45283315 original size:50 final size:50
Alignment explanation
Indices: 45283182--45283322 Score: 203
Period size: 50 Copynumber: 2.8 Consensus size: 50
45283172 TAAGAGTCAT
*
45283182 ATAACGGGAAGCTCGTGAGAGCCATATAACGGGATGCTCATGAGAGCTAA
1 ATAACGGGAAGCTCGTGAGAGCCATATAACGGGATGCTCATGAAAGCTAA
* * *
45283232 ATAACGAGAAGCTCGTAAGAGTCATATAACGGGATGCTCATGAAAGCTAA
1 ATAACGGGAAGCTCGTGAGAGCCATATAACGGGATGCTCATGAAAGCTAA
* * *
45283282 ATAACGGGAAGCTCATGAGAGCC-TATTATCGGGACGCTCAT
1 ATAACGGGAAGCTCGTGAGAGCCATA-TAACGGGATGCTCAT
45283323 AAGAGTTGTG
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 2 0.03
50 78 0.98
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (50 bp):
ATAACGGGAAGCTCGTGAGAGCCATATAACGGGATGCTCATGAAAGCTAA
Found at i:45288792 original size:10 final size:10
Alignment explanation
Indices: 45288765--45288797 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
45288755 TTGTAGATTC
*
45288765 TTTTTTTCCT
1 TTTTTTTTCT
45288775 TTTTTTTTCT
1 TTTTTTTTCT
45288785 TTTTTTTT-T
1 TTTTTTTTCT
45288794 TTTT
1 TTTT
45288798 ATAAATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:45290372 original size:8 final size:8
Alignment explanation
Indices: 45290359--45290390 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
45290349 GCATAGGCAT
45290359 AGGCATAG
1 AGGCATAG
45290367 AGGCATAG
1 AGGCATAG
45290375 AGGCATAG
1 AGGCATAG
45290383 AGGCATAG
1 AGGCATAG
45290391 GCAGGATGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.38, T:0.12
Consensus pattern (8 bp):
AGGCATAG
Found at i:45307609 original size:6 final size:5
Alignment explanation
Indices: 45307585--45307641 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
45307575 ACGAGAAAAC
*
45307585 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
45307632 AAAGA AAAGA
1 AAAGA AAAGA
45307642 GAGGCAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:45307616 original size:15 final size:14
Alignment explanation
Indices: 45307585--45307641 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
45307575 ACGAGAAAAC
45307585 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
45307601 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
45307616 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
45307632 AAAGAAAAGA
1 AAAGAAAAGA
45307642 GAGGCAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:45307794 original size:18 final size:19
Alignment explanation
Indices: 45307758--45307796 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
45307748 TTTGAGAGAG
*
45307758 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
45307777 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
45307795 AA
1 AA
45307797 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:45309354 original size:25 final size:25
Alignment explanation
Indices: 45309320--45309369 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
45309310 GTAATCTAGT
45309320 TGCTTGAGCTAAACCGAGCTTACTC
1 TGCTTGAGCTAAACCGAGCTTACTC
45309345 TGCTTGAGCTAAACCGAGCTTACTC
1 TGCTTGAGCTAAACCGAGCTTACTC
45309370 CTAGCTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (25 bp):
TGCTTGAGCTAAACCGAGCTTACTC
Found at i:45309466 original size:30 final size:30
Alignment explanation
Indices: 45309390--45309475 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
45309380 TTCAACTCAT
* *
45309390 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTAAG
* * *
45309420 GAGTTTAACCTCAGCTCAACTTTAGCTCAAG
1 GAGCTAAACCTTAGCTCAACTTTAGCT-AAG
* *
45309451 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAACCTTAGCTCAACTTTAGCT
45309476 TAAACTCGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 8 0.18
30 34 0.76
31 3 0.07
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (30 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTAAG
Found at i:45323157 original size:37 final size:37
Alignment explanation
Indices: 45323116--45323188 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
45323106 CTAAAAAGAC
45323116 AAAAGACGAAGATGAACAATAATGATTCTCTGCAAAG
1 AAAAGACGAAGATGAACAATAATGATTCTCTGCAAAG
* * *
45323153 AAAAGATGGAGATGAACAATAATGATTCTTTGCAAA
1 AAAAGACGAAGATGAACAATAATGATTCTCTGCAAA
45323189 AATTCTTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (37 bp):
AAAAGACGAAGATGAACAATAATGATTCTCTGCAAAG
Found at i:45323557 original size:23 final size:23
Alignment explanation
Indices: 45323504--45323559 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
45323494 TTTGTTTTCA
45323504 AAAATTTAAA-TTCAAAACAATT
1 AAAATTTAAATTTCAAAACAATT
* *
45323526 CAAATTTAAATTTTCAAAA-ATTT
1 AAAATTTAAA-TTTCAAAACAATT
45323549 AAAATTTAAAT
1 AAAATTTAAAT
45323560 CCATTTGTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 10 0.34
23 12 0.41
24 7 0.24
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATTTAAATTTCAAAACAATT
Found at i:45326966 original size:15 final size:15
Alignment explanation
Indices: 45326946--45327000 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
45326936 AAAAGCGTTT
45326946 TTTAATATTTAAATA
1 TTTAATATTTAAATA
45326961 TTTAATATTATAAAT-
1 TTTAATATT-TAAATA
*
45326976 TTCT-ATTTTTAAA-A
1 TT-TAATATTTAAATA
45326990 TTTAA-ATTTAA
1 TTTAATATTTAA
45327001 TTTTTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 6 0.18
14 7 0.21
15 15 0.44
16 6 0.18
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAATATTTAAATA
Found at i:45327421 original size:18 final size:18
Alignment explanation
Indices: 45327398--45327436 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45327388 TATAATTTTA
*
45327398 AAATATA-TATAATACATC
1 AAATATACTA-AAAACATC
45327416 AAATATACTAAAAACATC
1 AAATATACTAAAAACATC
45327434 AAA
1 AAA
45327437 ATAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATATACTAAAAACATC
Found at i:45327470 original size:22 final size:22
Alignment explanation
Indices: 45327445--45327513 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
45327435 AAATAAATAT
45327445 TTTTCAACAAATTGAAAATAAA
1 TTTTCAACAAATTGAAAATAAA
* *
45327467 TTTT-AAAAAATATGTAAAT--A
1 TTTTCAACAAAT-TGAAAATAAA
45327487 TTTTCCAACAAATTGAAAATAAA
1 TTTT-CAACAAATTGAAAATAAA
45327510 TTTT
1 TTTT
45327514 AAAAAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
20 5 0.13
21 12 0.32
22 16 0.42
23 5 0.13
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (22 bp):
TTTTCAACAAATTGAAAATAAA
Found at i:45327486 original size:43 final size:43
Alignment explanation
Indices: 45327438--45327522 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
45327428 AACATCAAAA
*
45327438 TAAATATTTTTCAACAAATTGAAAATAAATTTTAAAAAATATG
1 TAAATATTTTCCAACAAATTGAAAATAAATTTTAAAAAATATG
45327481 TAAATATTTTCCAACAAATTGAAAATAAATTTTAAAAAATAT
1 TAAATATTTTCCAACAAATTGAAAATAAATTTTAAAAAATAT
45327523 TTATACTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (43 bp):
TAAATATTTTCCAACAAATTGAAAATAAATTTTAAAAAATATG
Found at i:45328450 original size:19 final size:20
Alignment explanation
Indices: 45328409--45328453 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
45328399 AAAATTTTAG
45328409 AAAAT-TAAAAAAATCATTC
1 AAAATATAAAAAAATCATTC
* *
45328428 AAAATATAAAAATAT-ATTT
1 AAAATATAAAAAAATCATTC
45328447 AAAATAT
1 AAAATAT
45328454 GAAATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATATAAAAAAATCATTC
Found at i:45328513 original size:19 final size:19
Alignment explanation
Indices: 45328481--45328523 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
45328471 TTCAAAATTA
45328481 TAAAAATGTAAAAA-ATATT
1 TAAAAATGTAAAAATATA-T
* *
45328500 TAAAAATTTTAAAATATAT
1 TAAAAATGTAAAAATATAT
45328519 TAAAA
1 TAAAA
45328524 TCATAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAAATGTAAAAATATAT
Found at i:45328652 original size:30 final size:30
Alignment explanation
Indices: 45328618--45328674 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
45328608 TTTTATTTAC
*
45328618 AAATTATTAAATGT-TTTTTATAATTTTAAT
1 AAATT-TTAAATATATTTTTATAATTTTAAT
45328648 AAATTTTAAATATATTTTTATAATTTT
1 AAATTTTAAATATATTTTTATAATTTT
45328675 TACATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (30 bp):
AAATTTTAAATATATTTTTATAATTTTAAT
Found at i:45329005 original size:29 final size:29
Alignment explanation
Indices: 45328952--45329007 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
45328942 AAAAATATAC
* * * *
45328952 TTTAAATACCAAATTGAACCCATAAATTT
1 TTTAAATACCAAAATAAAACAATAAATTT
45328981 TTTAAATACCAAAATAAAACAATAAAT
1 TTTAAATACCAAAATAAAACAATAAAT
45329008 ATACTTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.54, C:0.14, G:0.02, T:0.30
Consensus pattern (29 bp):
TTTAAATACCAAAATAAAACAATAAATTT
Found at i:45329345 original size:18 final size:20
Alignment explanation
Indices: 45329310--45329353 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
45329300 CCGCAACAGT
45329310 AAAAAAAAACACTGAAAAAG
1 AAAAAAAAACACTGAAAAAG
*
45329330 AAAAAAAAA-ACT-AAAAAT
1 AAAAAAAAACACTGAAAAAG
45329348 AAAAAA
1 AAAAAA
45329354 TGGGTCATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 3 0.13
20 9 0.39
ACGTcount: A:0.82, C:0.07, G:0.05, T:0.07
Consensus pattern (20 bp):
AAAAAAAAACACTGAAAAAG
Found at i:45329919 original size:212 final size:213
Alignment explanation
Indices: 45329515--45329973 Score: 791
Period size: 212 Copynumber: 2.2 Consensus size: 213
45329505 ACCTATGCAC
* *
45329515 ATTTTAATTTAATTTTAATAATGCATACTTTATCTGGATAAAGTATGTATTAGCAAATTCACTAA
1 ATTTTAATTTAATTTTAATAATGCATATTTTATCCGGATAAAGTATGTATTAGCAAATTCACTAA
45329580 TATGATTATATATATATATATAGATATTTAAGCATGTATCACATTACAAAAAAAAATTAAATACT
66 TATG--TATATATATATATATAGATATTTAAGCATGTATCACATTACAAAAAAAAATTAAATACT
45329645 TATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTAT
129 TATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTAT
45329710 AATTTTATTTCTTATTTAAT
194 AATTTTATTTCTTATTTAAT
* * *
45329730 ATTTTAGTTTAATTTTAATAATGCATATTTTATCCGGATAAAGTATGTATTAGTAGATTCACTAA
1 ATTTTAATTTAATTTTAATAATGCATATTTTATCCGGATAAAGTATGTATTAGCAAATTCACTAA
*
45329795 TATG-AT-TATATATATATAGAT-TTT-CGCATGTATCACATTACAAAAACAAAAATTTAAATAC
66 TATGTATATATATATATATAGATATTTAAGCATGTATCACATTAC-AAAA-AAAAA-TTAAATAC
45329856 TTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTA
128 TTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTA
45329921 TAATTTTATTTCTTATTTAAT
193 TAATTTTATTTCTTATTTAAT
45329942 ATTTTAATTTAATTTTAATAATGCATATTTTA
1 ATTTTAATTTAATTTTAATAATGCATATTTTA
45329974 ATTTTATTTT
Statistics
Matches: 234, Mismatches: 7, Indels: 9
0.94 0.03 0.04
Matches are distributed among these distances:
209 16 0.07
210 7 0.03
211 20 0.09
212 127 0.54
215 64 0.27
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (213 bp):
ATTTTAATTTAATTTTAATAATGCATATTTTATCCGGATAAAGTATGTATTAGCAAATTCACTAA
TATGTATATATATATATATAGATATTTAAGCATGTATCACATTACAAAAAAAAATTAAATACTTA
TACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAA
TTTTATTTCTTATTTAAT
Found at i:45330051 original size:18 final size:19
Alignment explanation
Indices: 45330028--45330071 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
45330018 ACATGACCCA
45330028 TTTTTTTTCGTTTT-AA-G
1 TTTTTTTTCGTTTTCAATG
*
45330045 TTTTTTTTCTTTTTCAATG
1 TTTTTTTTCGTTTTCAATG
45330064 TTTTTTTT
1 TTTTTTTT
45330072 ACTGTTGCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.54
18 2 0.08
19 9 0.38
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.77
Consensus pattern (19 bp):
TTTTTTTTCGTTTTCAATG
Found at i:45330540 original size:17 final size:17
Alignment explanation
Indices: 45330500--45330548 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
45330490 TGTATAAATA
*
45330500 AATATTAATTTATTAATT
1 AATATTAAATT-TTAATT
45330518 -AT-TTAAATTTTAATT
1 AATATTAAATTTTAATT
*
45330533 AATATTAAATTGTAAT
1 AATATTAAATTTTAAT
45330549 GCAATAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.22
16 8 0.30
17 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AATATTAAATTTTAATT
Found at i:45335229 original size:85 final size:83
Alignment explanation
Indices: 45335061--45335314 Score: 402
Period size: 83 Copynumber: 3.0 Consensus size: 83
45335051 AAAATGTAAG
*
45335061 TGGTATATATCTACATCTGTAGAGAAGAATAATGAAGACTTTCAAGTGAAGGTGCTAAAAAAAAA
1 TGGTATATATCTACATCTGTGGAGAAGAATAATGAAGACTTTCAAGTGAAGGTGCTAAAAAAAAA
*
45335126 CATAAATGCAACCCTTGA
66 CATAAGTGCAACCCTTGA
* * *
45335144 TGGTATATATCTACATCTGTGGAGAAGAATAAAAGAAGACTTTCGAGTGAAGGTTCTAAAAAAGA
1 TGGTATATATCTACATCTGTGGAGAAGAAT-AATGAAGACTTTCAAGTGAAGGTGCTAAAAAA-A
45335209 AACATAAGTGCAACCCTTGA
64 AACATAAGTGCAACCCTTGA
* * *
45335229 TGGTATATATCTACATATATGGAGAAGAATAATGAA-ACTTTCAAGTGAAGATGCTTAAAAAAAA
1 TGGTATATATCTACATCTGTGGAGAAGAATAATGAAGACTTTCAAGTGAAGGTGC-TAAAAAAAA
45335293 ACATAAGTGCAACCCTTGA
65 ACATAAGTGCAACCCTTGA
45335312 TGG
1 TGG
45335315 AAGGTGCAAA
Statistics
Matches: 157, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
83 68 0.43
84 41 0.26
85 48 0.31
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (83 bp):
TGGTATATATCTACATCTGTGGAGAAGAATAATGAAGACTTTCAAGTGAAGGTGCTAAAAAAAAA
CATAAGTGCAACCCTTGA
Found at i:45337081 original size:17 final size:18
Alignment explanation
Indices: 45337054--45337089 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
45337044 CAAAATCTCA
*
45337054 AAAAGGAGGTTGAGCCCC
1 AAAAGGAGGTTAAGCCCC
45337072 AAAA-GAGGTTAAGCCCC
1 AAAAGGAGGTTAAGCCCC
45337089 A
1 A
45337090 CTTTAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.39, C:0.22, G:0.28, T:0.11
Consensus pattern (18 bp):
AAAAGGAGGTTAAGCCCC
Found at i:45340092 original size:20 final size:20
Alignment explanation
Indices: 45340066--45340114 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
45340056 CCTGTTCTTA
45340066 AGAAAAATTTTAAGATTTTG
1 AGAAAAATTTTAAGATTTTG
* *
45340086 GGAAAAATTTTAAGATTTTT
1 AGAAAAATTTTAAGATTTTG
45340106 AGAAAAATT
1 AGAAAAATT
45340115 CCCTAAGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (20 bp):
AGAAAAATTTTAAGATTTTG
Found at i:45355910 original size:28 final size:28
Alignment explanation
Indices: 45355876--45355931 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
45355866 AATGGGTTTC
45355876 AGTTAAACTCTTACGAGTTTCAGTTTAA
1 AGTTAAACTCTTACGAGTTTCAGTTTAA
45355904 AGTTAAACTCTTACGAGTTTCAGTTTAA
1 AGTTAAACTCTTACGAGTTTCAGTTTAA
45355932 CCCTCATGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (28 bp):
AGTTAAACTCTTACGAGTTTCAGTTTAA
Found at i:45358646 original size:19 final size:19
Alignment explanation
Indices: 45358624--45358662 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45358614 GTAAGTGTTT
45358624 TTAACCCCACATGGTGTGA
1 TTAACCCCACATGGTGTGA
45358643 TTAACCCCACATGGTGTGA
1 TTAACCCCACATGGTGTGA
45358662 T
1 T
45358663 GGGATGATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (19 bp):
TTAACCCCACATGGTGTGA
Found at i:45373071 original size:3 final size:3
Alignment explanation
Indices: 45373057--45373124 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
45373047 GTTACTTATG
*
45373057 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45373105 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
45373125 CCCTATATTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:45378238 original size:13 final size:13
Alignment explanation
Indices: 45378222--45378246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45378212 AAAATGCACA
45378222 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
45378235 AAAAAAGAAAAA
1 AAAAAAGAAAAA
45378247 AATGAGAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:45378812 original size:53 final size:53
Alignment explanation
Indices: 45378732--45378832 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 53
45378722 GCTCCCAATC
*
45378732 AATTTCCTTCTTATTATATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
1 AATTTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
* ** *
45378785 AATTTCCTTCTTATTGCATTTTTTATCTTTGATTAATTTATTCATTTC
1 AATTTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTC
45378833 AAGCTATGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.22, C:0.15, G:0.06, T:0.57
Consensus pattern (53 bp):
AATTTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
Found at i:45379334 original size:46 final size:46
Alignment explanation
Indices: 45379245--45379334 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
45379235 ATTGAAGAAT
*
45379245 ATACAAATCCTATACCTCTGAGTTGCAGTAAGATGGATTGAAGATG
1 ATACAAATCCTATACCTCTGAGTTGCAGTAAGATGGATAGAAGATG
* ** *
45379291 ATACAAATCCTATACC-CTTGAGTTGTAGTGGGTTGGATAGAAGA
1 ATACAAATCCTATACCTC-TGAGTTGCAGTAAGATGGATAGAAGA
45379335 AGGCAAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
45 1 0.03
46 37 0.97
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (46 bp):
ATACAAATCCTATACCTCTGAGTTGCAGTAAGATGGATAGAAGATG
Found at i:45380570 original size:15 final size:17
Alignment explanation
Indices: 45380550--45380605 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
45380540 TCTAAAGGTG
45380550 TTTTCTTTTT-T-TTCT
1 TTTTCTTTTTATCTTCT
45380565 TTTTCTTTTTGATCTTCT
1 TTTTCTTTTT-ATCTTCT
* *
45380583 TTATTCTTTTTATTTTAT
1 TT-TTCTTTTTATCTTCT
45380601 TTTTC
1 TTTTC
45380606 ACTTCGTCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 10 0.29
17 4 0.11
18 13 0.37
19 8 0.23
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTCTTTTTATCTTCT
Found at i:45381290 original size:3 final size:3
Alignment explanation
Indices: 45381282--45381320 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
45381272 ATTAATCCCC
45381282 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45381321 ATTTTAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45389602 original size:19 final size:18
Alignment explanation
Indices: 45389578--45389627 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
45389568 ATACAAATTA
* *
45389578 AAAAATCAAAATATTATAT
1 AAAAATCAAAAAAGT-TAT
45389597 AAAAATTCAAAAAAGTTAT
1 AAAAA-TCAAAAAAGTTAT
*
45389616 AAAAATTAAAAA
1 AAAAATCAAAAA
45389628 TATATATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.22
19 13 0.48
20 8 0.30
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAATCAAAAAAGTTAT
Found at i:45389947 original size:48 final size:46
Alignment explanation
Indices: 45389874--45389964 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 46
45389864 TTTATATATA
**
45389874 TTTTAATAATTTTTAAAAATTTTCAATCTTTATATAATATTTTGAT
1 TTTTAATAATTTTTAAAAAAATTCAATCTTTATATAATATTTTGAT
*
45389920 TTTTATATAATTTTTTAAAAAAATTCAATTTTTATATAATATTTT
1 TTTTA-ATAA-TTTTTAAAAAAATTCAATCTTTATATAATATTTT
45389965 TTGAAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 5 0.12
47 4 0.10
48 31 0.77
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (46 bp):
TTTTAATAATTTTTAAAAAAATTCAATCTTTATATAATATTTTGAT
Found at i:45389972 original size:31 final size:29
Alignment explanation
Indices: 45389918--45389975 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 29
45389908 TAATATTTTG
45389918 ATTTTTATATAATTTTTTAAAAAAATTCA
1 ATTTTTATATAATTTTTTAAAAAAATTCA
*
45389947 ATTTTTATATAATATTTTTTGAAAAAATT
1 ATTTTTATAT-A-ATTTTTTAAAAAAATT
45389976 ATATTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.38
30 1 0.04
31 15 0.58
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
ATTTTTATATAATTTTTTAAAAAAATTCA
Found at i:45389982 original size:29 final size:28
Alignment explanation
Indices: 45389921--45389985 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
45389911 TATTTTGATT
*
45389921 TTTATATAATTTTTTAAAAAAATTCAATT
1 TTTATATAATTTTTTAAAAAAATT-AATA
*
45389950 TTTATATAATATTTTTTGAAAAAATT-ATA
1 TTTATAT-A-ATTTTTTAAAAAAATTAATA
45389979 TTTATAT
1 TTTATAT
45389986 TTTTAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 16 0.50
30 1 0.03
31 15 0.47
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
TTTATATAATTTTTTAAAAAAATTAATA
Found at i:45396311 original size:28 final size:28
Alignment explanation
Indices: 45396248--45396345 Score: 137
Period size: 28 Copynumber: 3.5 Consensus size: 28
45396238 ATATTAAGTC
*
45396248 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
45396275 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
45396303 CGCACACTTAGTGCTGA-ATAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
45396332 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45396346 CAATCTCATG
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
27 22 0.34
28 23 0.35
29 20 0.31
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45404576 original size:28 final size:28
Alignment explanation
Indices: 45404513--45404610 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
45404503 ATATTAAGTC
*
45404513 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
45404540 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
45404568 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
45404597 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45404611 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45411137 original size:18 final size:17
Alignment explanation
Indices: 45411114--45411159 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
45411104 TTTGTTTCAC
45411114 TTTCTTTTTCATTCTCCT
1 TTTCTTTTTCATTCT-CT
*
45411132 TTTCTTTTTCATTCTTT
1 TTTCTTTTTCATTCTCT
*
45411149 TTTCTTCTTCA
1 TTTCTTTTTCA
45411160 CTCTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTCTTTTTCATTCTCT
Found at i:45411151 original size:17 final size:17
Alignment explanation
Indices: 45411114--45411168 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
45411104 TTTGTTTCAC
*
45411114 TTTCTTTTTCATTCTCCT
1 TTTCTTTTTCATTCT-TT
45411132 TTTCTTTTTCATTCTTT
1 TTTCTTTTTCATTCTTT
* *
45411149 TTTCTTCTTCACTCTTT
1 TTTCTTTTTCATTCTTT
45411166 TTT
1 TTT
45411169 TCTCTCAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 19 0.56
18 15 0.44
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCTTTTTCATTCTTT
Found at i:45414017 original size:14 final size:14
Alignment explanation
Indices: 45413998--45414028 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45413988 CATGGGCATG
45413998 CTTTTACTTTCATT
1 CTTTTACTTTCATT
*
45414012 CTTTTACTTTCTTT
1 CTTTTACTTTCATT
45414026 CTT
1 CTT
45414029 CCATCAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.68
Consensus pattern (14 bp):
CTTTTACTTTCATT
Found at i:45414269 original size:102 final size:104
Alignment explanation
Indices: 45414038--45414315 Score: 304
Period size: 102 Copynumber: 2.7 Consensus size: 104
45414028 TCCATCAAAC
*
45414038 CCCCTCAAAA-TTTCTCTCA-TTTGCTTACCATCCAATCACCATCAAAA--T-TTC-TTCTTTAT
1 CCCC-CAAAATTTTCTCTCACTTT-CTCACCATCCAATCACCATCAAAATTTCTTCTTTCTTTAT
* *
45414097 TCTATCAAATTATACACTAAATCTTTCTTCTTTCTTTCGTTAAAAA
64 TCTGTCAAATTATACACTAAATCTTTCTTCTGTC--TC--T-AAAA
* * ** * *
45414143 CCCCCTAAATTTTCTCTCATTTTCTTGCCATCCAATCACCACCAAAATTTCTTCTTTCTTTCTTC
1 CCCCCAAAATTTTCTCTCACTTTCTCACCATCCAATCACCATCAAAATTTCTTCTTTCTTTATTC
45414208 TGTCAAATTATACACTAAATCTTTCTTCTGTC-C-AAAA
66 TGTCAAATTATACACTAAATCTTTCTTCTGTCTCTAAAA
* * *
45414245 CCCCCAAAATTTTC-CTTCACTTTCTCACTATCCAATCACCATGAAAATTTCTTCTTTCTTTTTT
1 CCCCCAAAATTTTCTC-TCACTTTCTCACCATCCAATCACCATCAAAATTTCTTCTTTCTTTATT
*
45414309 TTGTCAA
65 CTGTCAA
45414316 CCCCCCCAAA
Statistics
Matches: 151, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
101 1 0.01
102 64 0.42
104 4 0.03
105 35 0.23
106 4 0.03
107 1 0.01
108 3 0.02
109 39 0.26
ACGTcount: A:0.27, C:0.29, G:0.03, T:0.42
Consensus pattern (104 bp):
CCCCCAAAATTTTCTCTCACTTTCTCACCATCCAATCACCATCAAAATTTCTTCTTTCTTTATTC
TGTCAAATTATACACTAAATCTTTCTTCTGTCTCTAAAA
Found at i:45419991 original size:17 final size:18
Alignment explanation
Indices: 45419969--45420004 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
45419959 TCAATTAATT
45419969 AATTTT-AAAATATAAAA
1 AATTTTAAAAATATAAAA
45419986 AATTTTAAAAATATAAAA
1 AATTTTAAAAATATAAAA
45420004 A
1 A
45420005 TGTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTTTAAAAATATAAAA
Found at i:45433707 original size:22 final size:23
Alignment explanation
Indices: 45433677--45433721 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
45433667 TTGTAATCTT
*
45433677 AGATTTGA-TATGTAATATTAGA
1 AGATATGATTATGTAATATTAGA
* *
45433699 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATATTAGA
45433722 GATTTGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (23 bp):
AGATATGATTATGTAATATTAGA
Found at i:45433724 original size:22 final size:21
Alignment explanation
Indices: 45433664--45433734 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 21
45433654 AATCTTCAAA
*
45433664 GATTTGTAATCTT--AGATTT
1 GATTTGTAATCTTAGAGATAT
* *
45433683 GATATGTAATATTAGAAGATAT
1 GATTTGTAATCTTAG-AGATAT
*
45433705 GATTTTGTAATCTTAGAGATTT
1 GA-TTTGTAATCTTAGAGATAT
*
45433727 GAATTGTA
1 GATTTGTA
45433735 GATACCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 11 0.27
21 5 0.12
22 14 0.34
23 11 0.27
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (21 bp):
GATTTGTAATCTTAGAGATAT
Found at i:45437302 original size:21 final size:22
Alignment explanation
Indices: 45437262--45437302 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
45437252 GCGATTTTGG
**
45437262 CTCAAGGGACAATTTCTATACA
1 CTCAAGGGACAACGTCTATACA
45437284 CTCAAGGG-CAACGTCTATA
1 CTCAAGGGACAACGTCTATA
45437303 TGTGCCTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (22 bp):
CTCAAGGGACAACGTCTATACA
Found at i:45442040 original size:27 final size:27
Alignment explanation
Indices: 45442003--45442068 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
45441993 CACACTTAAT
45442003 CTCTT-ATGAGCTTCTCGATTATATGG
1 CTCTTCATGAGCTTCTCGATTATATGG
45442029 CTCTTCATGAGCTTCTCGATTATATGG
1 CTCTTCATGAGCTTCTCGATTATATGG
45442056 CTCTTCATGAGCT
1 CTCTTCATGAGCT
45442069 CCCTGATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
26 5 0.13
27 34 0.87
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (27 bp):
CTCTTCATGAGCTTCTCGATTATATGG
Found at i:45466421 original size:16 final size:16
Alignment explanation
Indices: 45466400--45466432 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45466390 ATTCTGGAAC
45466400 ATGTCGTACGTCACTA
1 ATGTCGTACGTCACTA
45466416 ATGTCGTACGTCACTA
1 ATGTCGTACGTCACTA
45466432 A
1 A
45466433 GTGTTTTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (16 bp):
ATGTCGTACGTCACTA
Found at i:45478152 original size:12 final size:13
Alignment explanation
Indices: 45478135--45478165 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
45478125 CTAATGTGTC
45478135 TATATTATGTAT-
1 TATATTATGTATA
45478147 TATATTATGTATA
1 TATATTATGTATA
45478160 TATATT
1 TATATT
45478166 TTTTATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (13 bp):
TATATTATGTATA
Found at i:45484406 original size:20 final size:19
Alignment explanation
Indices: 45484360--45484407 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
45484350 CACATTTTTT
*
45484360 TTTTATTAAAATTTTTTAA
1 TTTTATTAAAATCTTTTAA
45484379 TTTATATTAAAA-CTTTTAGCA
1 TTT-TATTAAAATCTTTTA--A
45484400 TTTTATTA
1 TTTTATTA
45484408 TATCTCTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 8 0.32
20 13 0.52
21 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTATTAAAATCTTTTAA
Found at i:45486615 original size:13 final size:12
Alignment explanation
Indices: 45486593--45486626 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
45486583 GACCCGCCCG
45486593 TATTAATTTTTTA
1 TATT-ATTTTTTA
45486606 TATTA-TTTTTA
1 TATTATTTTTTA
45486617 TATTATTTTT
1 TATTATTTTT
45486627 AAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 5 0.25
13 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:45486632 original size:13 final size:11
Alignment explanation
Indices: 45486600--45486627 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
45486590 CCGTATTAAT
45486600 TTTTTATATTA
1 TTTTTATATTA
45486611 TTTTTATATTA
1 TTTTTATATTA
45486622 TTTTTA
1 TTTTTA
45486628 AATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:45486783 original size:30 final size:30
Alignment explanation
Indices: 45486749--45486811 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
45486739 ACTTAACAAG
*
45486749 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
45486779 CAAATGCCTTTAAAATTATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
45486809 CAA
1 CAA
45486812 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:45486866 original size:22 final size:22
Alignment explanation
Indices: 45486841--45486883 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45486831 TATCTAAACA
45486841 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
45486863 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
45486884 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:45488105 original size:38 final size:38
Alignment explanation
Indices: 45488057--45488229 Score: 188
Period size: 38 Copynumber: 4.6 Consensus size: 38
45488047 ATACCGACAT
* *
45488057 AAAGCCTGCTAGGCACGGAGCCCTAATAAT-ATCTGCAC
1 AAAGCCTGCTAGGCACGGAGCCCAAAT-ATCATCGGCAC
* ** ** * *
45488095 AAAGCATGCTAGATACAAAGCCCAAATAACATAGGCAC
1 AAAGCCTGCTAGGCACGGAGCCCAAATATCATCGGCAC
* * *
45488133 AAAGCCTACTAGGCACGAAGCTCAAATATCATCGGCAC
1 AAAGCCTGCTAGGCACGGAGCCCAAATATCATCGGCAC
* *
45488171 AAAGCCTGTTAGGCACTGAGCCCAAATATCA-CTGGCAC
1 AAAGCCTGCTAGGCACGGAGCCCAAATATCATC-GGCAC
45488209 AAAGCCTGCTAGGCACGGAGC
1 AAAGCCTGCTAGGCACGGAGC
45488230 TCGTATAATG
Statistics
Matches: 109, Mismatches: 24, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
37 2 0.02
38 107 0.98
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (38 bp):
AAAGCCTGCTAGGCACGGAGCCCAAATATCATCGGCAC
Found at i:45490606 original size:19 final size:19
Alignment explanation
Indices: 45490556--45490606 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
45490546 TTAATTTTTT
* *
45490556 ATATGTTATAAATTATATA
1 ATATATTATAAATAATATA
* *
45490575 ATATATAAAAAATAATATA
1 ATATATTATAAATAATATA
45490594 ATATATTATAAAT
1 ATATATTATAAAT
45490607 TTAAAAAACC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
ATATATTATAAATAATATA
Found at i:45499220 original size:27 final size:27
Alignment explanation
Indices: 45499179--45499233 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
45499169 TTAAGCTAGA
*
45499179 ACTTATTTTCTATCTAACCTCACCATC
1 ACTTATTTTCCATCTAACCTCACCATC
45499206 ACTTATTTTCCATCTAACCTCACCATC
1 ACTTATTTTCCATCTAACCTCACCATC
45499233 A
1 A
45499234 TCCAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.35, G:0.00, T:0.38
Consensus pattern (27 bp):
ACTTATTTTCCATCTAACCTCACCATC
Found at i:45499673 original size:24 final size:24
Alignment explanation
Indices: 45499644--45499716 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
45499634 AACGACTCAT
*
45499644 CTGGAAGAAACAGTCATGTCAGCA
1 CTGGAAGAAGCAGTCATGTCAGCA
* *
45499668 CTGGAAGAAGCAGTCACGTAAGCA
1 CTGGAAGAAGCAGTCATGTCAGCA
* *
45499692 CTGGAAGAAGCAGCCATGGCAGCA
1 CTGGAAGAAGCAGTCATGTCAGCA
45499716 C
1 C
45499717 AATTACACTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.36, C:0.23, G:0.29, T:0.12
Consensus pattern (24 bp):
CTGGAAGAAGCAGTCATGTCAGCA
Found at i:45503622 original size:23 final size:23
Alignment explanation
Indices: 45503592--45503637 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
45503582 TAGGATTGAT
* *
45503592 ATCGCGACATGAGGGAGTTCCTC
1 ATCGCGACACGAGGAAGTTCCTC
45503615 ATCGCGACACGAGGAAGTTCCTC
1 ATCGCGACACGAGGAAGTTCCTC
45503638 GTCGTGACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.20
Consensus pattern (23 bp):
ATCGCGACACGAGGAAGTTCCTC
Found at i:45518751 original size:5 final size:5
Alignment explanation
Indices: 45518741--45518765 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45518731 AACATTATTC
45518741 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
45518766 AAGTGTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:45522102 original size:26 final size:27
Alignment explanation
Indices: 45522062--45522115 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
45522052 TTTAAATTTG
45522062 ACATATTTAATTTTTTAAAAAAATTAA
1 ACATATTTAATTTTTTAAAAAAATTAA
45522089 ACATATTTAATTTTTTAAAAAAATTAA
1 ACATATTTAATTTTTTAAAAAAATTAA
45522116 CTCAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (27 bp):
ACATATTTAATTTTTTAAAAAAATTAA
Found at i:45522125 original size:26 final size:27
Alignment explanation
Indices: 45522069--45522127 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
45522059 TTGACATATT
**
45522069 TAATTTTTTAAAAAAATTAAACATATT
1 TAATTTTTTAAAAAAATTAAACATAAA
45522096 TAATTTTTTAAAAAAATT-AAC-TCAAA
1 TAATTTTTTAAAAAAATTAAACAT-AAA
45522122 TAATTT
1 TAATTT
45522128 CACTCGATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 10 0.34
27 18 0.62
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (27 bp):
TAATTTTTTAAAAAAATTAAACATAAA
Found at i:45522717 original size:16 final size:16
Alignment explanation
Indices: 45522688--45522739 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
45522678 TTAATATTTT
* *
45522688 TATAATATATAAATTA
1 TATAAAATAAAAATTA
45522704 TATAAAATAAAAATTA
1 TATAAAATAAAAATTA
*
45522720 TAAAAACATTAAAAA-TA
1 TATAAA-A-TAAAAATTA
45522737 TAT
1 TAT
45522740 TAATGATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 19 0.63
17 5 0.17
18 6 0.20
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
TATAAAATAAAAATTA
Found at i:45523062 original size:26 final size:26
Alignment explanation
Indices: 45523033--45523086 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
45523023 GTCAATAACT
45523033 AATGATCACAACATCGTTGACATGGA
1 AATGATCACAACATCGTTGACATGGA
45523059 AATGATCACAACATCGTTGACATGGA
1 AATGATCACAACATCGTTGACATGGA
45523085 AA
1 AA
45523087 AAAAGAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (26 bp):
AATGATCACAACATCGTTGACATGGA
Found at i:45526882 original size:31 final size:31
Alignment explanation
Indices: 45526839--45526912 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
45526829 TGGATATGGG
45526839 ACACGCCCGTGTGGGCAGGCCGTGTGGTCAC
1 ACACGCCCGTGTGGGCAGGCCGTGTGGTCAC
*
45526870 ACACACCCGTGTGGGCAGGCCGTGTGGTCAC
1 ACACGCCCGTGTGGGCAGGCCGTGTGGTCAC
*
45526901 ATACGCCCGTGT
1 ACACGCCCGTGT
45526913 CCCGACCTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.18
Consensus pattern (31 bp):
ACACGCCCGTGTGGGCAGGCCGTGTGGTCAC
Found at i:45532739 original size:101 final size:101
Alignment explanation
Indices: 45532564--45532765 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
45532554 AACTAGTTAA
45532564 AAAGGACTAAATCGAAAAAGATGCAAAAGTTGGTTTCTATTAGTCAAATAGATCAAAAAGCTTTA
1 AAAGGACTAAATCGAAAAAGATGCAAAAGTTGGTTTCTATTAGTCAAATAGATCAAAAAGCTTTA
45532629 AAAAGATAAACTAATGGACTTCAATGGTAATTATAC
66 AAAAGATAAACTAATGGACTTCAATGGTAATTATAC
45532665 AAAGGACTAAATCGAAAAAGATGCAAAAGTTGGTTTCTATTAGTCAAATAGATCAAAAAGCTTTA
1 AAAGGACTAAATCGAAAAAGATGCAAAAGTTGGTTTCTATTAGTCAAATAGATCAAAAAGCTTTA
45532730 AAAAGATAAACTAATGGACTTCAATGGTAATTATAC
66 AAAAGATAAACTAATGGACTTCAATGGTAATTATAC
45532766 CATACTTAAA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.27
Consensus pattern (101 bp):
AAAGGACTAAATCGAAAAAGATGCAAAAGTTGGTTTCTATTAGTCAAATAGATCAAAAAGCTTTA
AAAAGATAAACTAATGGACTTCAATGGTAATTATAC
Found at i:45536140 original size:12 final size:12
Alignment explanation
Indices: 45536096--45536144 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
45536086 CATTAATTAA
45536096 TTAATTTTTATG
1 TTAATTTTTATG
*
45536108 TTAACTTTTTTTG
1 TTAA-TTTTTATG
*
45536121 TGACAATTTTTATG
1 T--TAATTTTTATG
45536135 TTAATTTTTA
1 TTAATTTTTA
45536145 ATAAACATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 12 0.40
13 8 0.27
14 8 0.27
15 2 0.07
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.63
Consensus pattern (12 bp):
TTAATTTTTATG
Found at i:45557351 original size:20 final size:20
Alignment explanation
Indices: 45557322--45557361 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
45557312 CAGAATGCTA
45557322 ATTTAGTATC-AAATTTTTT
1 ATTTAGTATCGAAATTTTTT
*
45557341 ATTTGAGTATCGATATTTTTT
1 ATTT-AGTATCGAAATTTTTT
45557362 TTATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (20 bp):
ATTTAGTATCGAAATTTTTT
Found at i:45557451 original size:12 final size:12
Alignment explanation
Indices: 45557436--45557460 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45557426 TTTTGGTATC
45557436 GATTTTCAAAAA
1 GATTTTCAAAAA
45557448 GATTTTCAAAAA
1 GATTTTCAAAAA
45557460 G
1 G
45557461 GTATCGATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (12 bp):
GATTTTCAAAAA
Found at i:45558529 original size:34 final size:33
Alignment explanation
Indices: 45558484--45558572 Score: 124
Period size: 34 Copynumber: 2.6 Consensus size: 33
45558474 TTTTTTTAAA
* *
45558484 AAATAATTAAATTAGGTTTTAAAGGTTTAAAAT
1 AAATAAATAAATTAGGGTTTAAAGGTTTAAAAT
**
45558517 AAATAAACTAAATTAGGGTTTATGGGTTTAAAAT
1 AAATAAA-TAAATTAGGGTTTAAAGGTTTAAAAT
45558551 AAATAAATAAAATTAGGGTTTA
1 AAATAAAT-AAATTAGGGTTTA
45558573 GTTTTTTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
33 7 0.14
34 43 0.86
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (33 bp):
AAATAAATAAATTAGGGTTTAAAGGTTTAAAAT
Found at i:45558941 original size:125 final size:127
Alignment explanation
Indices: 45558673--45558941 Score: 350
Period size: 126 Copynumber: 2.1 Consensus size: 127
45558663 GATTTTATTT
* * *
45558673 TTTTATCTACAGTAGTT-TTAGAAAAATTAATTTTGAGAAGATAGTTCTGAAAAGATAATGTCAA
1 TTTT-TCTACAGTAGTTCCTAGAAAAACTAATTTTGAGAAGACAGTTCTGAAAAGATAATGTCAA
* * *
45558737 AAACGCTTCAAGCAGGACGCACTGTCAGCAAAATTACTGAAAAATGCTTCTATGTGGACGCTC
65 AAACGCTTCAAGCAGGACGCACTGTCAACAAAATTACTGAAAAAAGCTTCTATGTGAACGCTC
* * *
45558800 TTTTTCTACAGTAGTTCCT-GAAAAACTAATTTTGAGAAGACGGTTTTGAACAA-ATAGTGTCAA
1 TTTTTCTACAGTAGTTCCTAGAAAAACTAATTTTGAGAAGACAGTTCTGAA-AAGATAATGTCAA
* * * * *
45558863 AAACGTTTCAAGCAGG-TGCACTGTTAACAAAATTACTGAAAAAAGC-TCTCATGTGAATGTTC
65 AAACGCTTCAAGCAGGACGCACTGTCAACAAAATTACTGAAAAAAGCTTCT-ATGTGAACGCTC
45558925 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
45558942 ATGCTTGGCC
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
124 3 0.02
125 52 0.42
126 63 0.50
127 7 0.06
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (127 bp):
TTTTTCTACAGTAGTTCCTAGAAAAACTAATTTTGAGAAGACAGTTCTGAAAAGATAATGTCAAA
AACGCTTCAAGCAGGACGCACTGTCAACAAAATTACTGAAAAAAGCTTCTATGTGAACGCTC
Found at i:45561972 original size:14 final size:14
Alignment explanation
Indices: 45561955--45561985 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45561945 TTAAATGAAA
*
45561955 TTATGTTGCATTAT
1 TTATATTGCATTAT
45561969 TTATATTGCATTAT
1 TTATATTGCATTAT
45561983 TTA
1 TTA
45561986 AAAGAACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (14 bp):
TTATATTGCATTAT
Found at i:45562377 original size:12 final size:12
Alignment explanation
Indices: 45562362--45562386 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45562352 GCTCCCCGAT
45562362 GATGTCTCGTGC
1 GATGTCTCGTGC
45562374 GATGTCTCGTGC
1 GATGTCTCGTGC
45562386 G
1 G
45562387 GTCCCTCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.36, T:0.32
Consensus pattern (12 bp):
GATGTCTCGTGC
Found at i:45573914 original size:27 final size:26
Alignment explanation
Indices: 45573884--45573967 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 26
45573874 AAAATATAAG
*
45573884 TACTTAATTAGGACAAAAAAACTTAAA
1 TACTTAAATAGGA-AAAAAAACTTAAA
* * *** *
45573911 TACTAAAATATTGAAGTTAAACTAAAA
1 TACTTAAATA-GGAAAAAAAACTTAAA
45573938 TACTTAAATAGGATAAAAAGAACTTAAA
1 TACTTAAATAGGA-AAAAA-AACTTAAA
45573966 TA
1 TA
45573968 TCAATTTTTT
Statistics
Matches: 41, Mismatches: 13, Indels: 5
0.69 0.22 0.08
Matches are distributed among these distances:
26 2 0.05
27 28 0.68
28 11 0.27
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.27
Consensus pattern (26 bp):
TACTTAAATAGGAAAAAAAACTTAAA
Done.