Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 144 of 240
Found at i:45181274 original size:15 final size:15
Alignment explanation
Indices: 45181254--45181285 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45181244 GGAATTTTAA
45181254 TTATTTTTTTAATTT
1 TTATTTTTTTAATTT
*
45181269 TTATTTTTTTTATTT
1 TTATTTTTTTAATTT
45181284 TT
1 TT
45181286 TAAATATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTATTTTTTTAATTT
Found at i:45181278 original size:16 final size:16
Alignment explanation
Indices: 45181257--45181287 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45181247 ATTTTAATTA
45181257 TTTTTTTAATTTTTAT
1 TTTTTTTAATTTTTAT
*
45181273 TTTTTTTATTTTTTA
1 TTTTTTTAATTTTTA
45181288 AATATCTTCT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTAATTTTTAT
Found at i:45184816 original size:21 final size:22
Alignment explanation
Indices: 45184792--45184840 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
45184782 ATTTAGTCTC
45184792 AATTCT-AAAATTCAAAAACAT
1 AATTCTAAAAATTCAAAAACAT
*
45184813 AATTATAAAAAATTCAAAAACAT
1 AATTCT-AAAAATTCAAAAACAT
45184836 -ATTCT
1 AATTCT
45184841 TATAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
23 15 0.62
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
AATTCTAAAAATTCAAAAACAT
Found at i:45184879 original size:43 final size:42
Alignment explanation
Indices: 45184813--45184906 Score: 104
Period size: 45 Copynumber: 2.2 Consensus size: 42
45184803 TCAAAAACAT
* *
45184813 AATTATAAAAAATTCAAAAACAT-ATTCTT-ATAAAAATAAAA
1 AATTATAAAAAAATCAAAAACATAATT-TTCAAAAAAATAAAA
45184854 AA-TATAAAAAAATCAATAAATACATAAATTTTCAAAAAAATAAAA
1 AATTATAAAAAAATC-A-AAA-ACAT-AATTTTCAAAAAAATAAAA
45184899 AATTATAA
1 AATTATAA
45184907 TTATTTACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
40 11 0.25
41 3 0.07
42 3 0.07
43 4 0.09
44 2 0.05
45 16 0.36
46 5 0.11
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (42 bp):
AATTATAAAAAAATCAAAAACATAATTTTCAAAAAAATAAAA
Found at i:45193450 original size:180 final size:179
Alignment explanation
Indices: 45193149--45193508 Score: 675
Period size: 180 Copynumber: 2.0 Consensus size: 179
45193139 ACTGTAGAAG
*
45193149 TTCCCCATACTCCTTCCTTACTATGGAGATAGATGGGCCTTTTGTTACAATCTGAAACTAAAGAT
1 TTCCCCATACTCCTTCCTTACTATGGAGATAGACGGGCCTTTTGTTACAATCTGAAACTAAAGAT
*
45193214 GCAAACTTCTCAACCTGTTCCATTGAAGGTGCAGTTCCAACCTCCACTGGAAATCTTATAAGTTC
66 GCAAACTTCTCAACCTGTTCCATTGAAGGAGCAGTTCCAACCTCCACTGGAAATCTTATAAGTTC
*
45193279 AACTTTCCCAGATGAAATAGCATTATTCATGACTGCTTGATAAAATTTA
131 AACTTTCCCAGATGAAATAGCATCATTCATGACTGCTTGATAAAATTTA
45193328 TTCCCCATACTCCTTCCTTACTATGGAGATAGACGGGCCTTTTTGTTACAATCTGAAACTAAAGA
1 TTCCCCATACTCCTTCCTTACTATGGAGATAGACGGGCC-TTTTGTTACAATCTGAAACTAAAGA
*
45193393 TGCAAACTTCTCAACTTGTTCCATTGAAGGAGCAGTTCCAACCTCCACTGGAAATCTTATAAGTT
65 TGCAAACTTCTCAACCTGTTCCATTGAAGGAGCAGTTCCAACCTCCACTGGAAATCTTATAAGTT
45193458 CAACTTTCCCAGATGAAATAGCATCATTCATGACTGCTTGATAAAATTTA
130 CAACTTTCCCAGATGAAATAGCATCATTCATGACTGCTTGATAAAATTTA
45193508 T
1 T
45193509 CCTTAATAGT
Statistics
Matches: 176, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
179 38 0.22
180 138 0.78
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (179 bp):
TTCCCCATACTCCTTCCTTACTATGGAGATAGACGGGCCTTTTGTTACAATCTGAAACTAAAGAT
GCAAACTTCTCAACCTGTTCCATTGAAGGAGCAGTTCCAACCTCCACTGGAAATCTTATAAGTTC
AACTTTCCCAGATGAAATAGCATCATTCATGACTGCTTGATAAAATTTA
Found at i:45193876 original size:9 final size:9
Alignment explanation
Indices: 45193845--45193886 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
45193835 GTTCAAGATG
45193845 TAATTAATT
1 TAATTAATT
45193854 TAA-TAATT
1 TAATTAATT
45193862 TCAATTAATT
1 T-AATTAATT
* *
45193872 AAATTTATT
1 TAATTAATT
45193881 TAATTA
1 TAATTA
45193887 CTTATTCTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.22
9 16 0.59
10 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (9 bp):
TAATTAATT
Found at i:45194959 original size:2 final size:2
Alignment explanation
Indices: 45194946--45195035 Score: 171
Period size: 2 Copynumber: 45.0 Consensus size: 2
45194936 AAAGAAATAA
*
45194946 TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
45194988 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
45195030 TG TG TG
1 TG TG TG
45195036 AATGCGCTTG
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.01, C:0.00, G:0.49, T:0.50
Consensus pattern (2 bp):
TG
Found at i:45197024 original size:20 final size:21
Alignment explanation
Indices: 45196981--45197025 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
45196971 CTAAATGACT
*
45196981 TAAAATACGTAAAAATATATC
1 TAAAATACGTAAAAATATAAC
45197002 TAAAATAC-TAAATAA-ATAAC
1 TAAAATACGTAAA-AATATAAC
45197022 TAAA
1 TAAA
45197026 GAAATGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAATACGTAAAAATATAAC
Found at i:45199868 original size:46 final size:44
Alignment explanation
Indices: 45199813--45199898 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 44
45199803 AGAAACCTTG
* * *
45199813 ACCCTCTATCAACTATGGTAGGAACCTTGGTATAAGATGAACCTCA
1 ACCCACTATCAACGATGATAGGAACCTTGGTAT--GATGAACCTCA
*
45199859 ACCCACTATCAAGGATGATAGGAACCTTGGTATGATGAAC
1 ACCCACTATCAACGATGATAGGAACCTTGGTATGATGAAC
45199899 ACCACACTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 7 0.19
46 29 0.81
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (44 bp):
ACCCACTATCAACGATGATAGGAACCTTGGTATGATGAACCTCA
Found at i:45200694 original size:20 final size:20
Alignment explanation
Indices: 45200669--45200706 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
45200659 GCAAGAAATG
45200669 ACTCAAAATGTACATATCGA
1 ACTCAAAATGTACATATCGA
45200689 ACTCAAAATGTACATATC
1 ACTCAAAATGTACATATC
45200707 CAAATGGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (20 bp):
ACTCAAAATGTACATATCGA
Found at i:45208483 original size:19 final size:19
Alignment explanation
Indices: 45208459--45208495 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45208449 TTGATACAGG
*
45208459 GACTAAAGCGTAAAAACTA
1 GACTAAAGCGAAAAAACTA
*
45208478 GACTAAATCGAAAAAACT
1 GACTAAAGCGAAAAAACT
45208496 TCAAAACTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.16, G:0.14, T:0.16
Consensus pattern (19 bp):
GACTAAAGCGAAAAAACTA
Found at i:45212524 original size:22 final size:22
Alignment explanation
Indices: 45212497--45212540 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
45212487 TATGTCATAA
45212497 TCTAGTAAAATATAAACTTATT
1 TCTAGTAAAATATAAACTTATT
* *
45212519 TCTAGTCAAATATAAGCTTATT
1 TCTAGTAAAATATAAACTTATT
45212541 GTGATTAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (22 bp):
TCTAGTAAAATATAAACTTATT
Found at i:45215297 original size:50 final size:50
Alignment explanation
Indices: 45215261--45215551 Score: 438
Period size: 50 Copynumber: 5.7 Consensus size: 50
45215251 AGCTACCCAT
* ** *
45215261 GCCATGTCCCGGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
45215311 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
45215361 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
45215411 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * * * *
45215461 ACCATGTCCCAGACATGGTTTTACATGGGACCTCTCATAATCTCAATGATGACAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGTGCCAAC
*
45215517 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
45215552 TTACCCAAAT
Statistics
Matches: 223, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
50 180 0.81
53 5 0.02
56 38 0.17
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:45215331 original size:100 final size:100
Alignment explanation
Indices: 45215211--45215543 Score: 351
Period size: 100 Copynumber: 3.3 Consensus size: 100
45215201 TACTGCCCAT
* * * ** * * *
45215211 GCCATATCCCAGATAGGGTCTTACATGAAAGTTCTCATATAGCTACCCATGCCATGTCCCGGACA
1 GCCATGTCCCAGACATGGTCTTACATGAAACCTCTCATATAGCTACCAACGCCATGTCCCAGACA
* *
45215276 TGGTCTTACGGGGGACCTCTCATCTTGGTGCCAAC
66 TGGTCTTACAGGGGACCTCTCATCTCGGTGCCAAC
** * * * *
45215311 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACATGAAACCTCTCATATAGCTACCAACGCCATGTCCCAGACA
*
45215376 TGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
66 TGGTCTTACAGGGGACCTCTCATCTCGGTGCCAAC
** * * * * *
45215411 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACATGAAACCTCTCATATAGCTACCAACGCCATGTCCCAGACA
* * * * *
45215476 TGGTTTTACATGGGACCTCTCATAATCTCAATGATGACAAT
66 TGGTCTTACAGGGGACCTCTC---ATCTC---GGTGCCAAC
45215517 GCCATGTCCCAGACATGGTCTTACATG
1 GCCATGTCCCAGACATGGTCTTACATG
45215544 GGATCTCTTT
Statistics
Matches: 205, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
100 167 0.81
103 5 0.02
106 33 0.16
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (100 bp):
GCCATGTCCCAGACATGGTCTTACATGAAACCTCTCATATAGCTACCAACGCCATGTCCCAGACA
TGGTCTTACAGGGGACCTCTCATCTCGGTGCCAAC
Found at i:45221404 original size:50 final size:50
Alignment explanation
Indices: 45221349--45221584 Score: 285
Period size: 50 Copynumber: 4.6 Consensus size: 50
45221339 AGGTGCCCAT
* * *
45221349 GCCATGTTCCAAATATGGTCTTACAGGGGACCTCTCATCTCTATGCCAAC
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGATGCCAAC
* *
45221399 ACCATGTCCCAAACATGGTCTTACATGGGG-CCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAAACATGGTCTTACA-GGGGACCTCTCATCTCGATGCCAAC
* *
45221449 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAAC
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGATGCCAAC
* * *
45221499 GCCATGTCCTAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTC---ATCTC---GATGCCAAC
* * *
45221555 TCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAAACATGGTCTTACAGGGGA
45221585 TCTCATTACC
Statistics
Matches: 163, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
49 3 0.02
50 116 0.71
51 4 0.02
53 5 0.03
56 35 0.21
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGATGCCAAC
Found at i:45226491 original size:39 final size:40
Alignment explanation
Indices: 45226396--45226657 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
45226386 TTGAATGATG
*
45226396 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
45226434 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
45226475 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
45226514 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
45226553 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
45226592 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
45226631 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
45226658 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 12, Indels: 17
0.87 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 58 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:45228093 original size:31 final size:31
Alignment explanation
Indices: 45228025--45228113 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 31
45228015 AACACATAAT
* *
45228025 AGAGATAATTCGTTGGGACAGTAAACATAGG
1 AGAGATAGTTCGTTGGGACAGTAAACATAGA
*
45228056 ATAGATAGTTCGTTGGGACAG-AAA-ATACCGA
1 AGAGATAGTTCGTTGGGACAGTAAACATA--GA
* ** *
45228087 AGAGATAGTCCACTGGGACAATAAACA
1 AGAGATAGTTCGTTGGGACAGTAAACA
45228114 AAAAAAGAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 3 0.07
30 3 0.07
31 36 0.78
32 3 0.07
33 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.20
Consensus pattern (31 bp):
AGAGATAGTTCGTTGGGACAGTAAACATAGA
Found at i:45229775 original size:27 final size:27
Alignment explanation
Indices: 45229745--45229804 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
45229735 TCGTTCTTGT
*
45229745 AGAGTTCTCCATACGTACTAATCCTTC
1 AGAGTTCACCATACGTACTAATCCTTC
** *
45229772 AGAGTTCACCATACGTACTGTTCCTTT
1 AGAGTTCACCATACGTACTAATCCTTC
45229799 AGAGTT
1 AGAGTT
45229805 TTTCGTACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (27 bp):
AGAGTTCACCATACGTACTAATCCTTC
Found at i:45229841 original size:27 final size:27
Alignment explanation
Indices: 45229792--45229848 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
45229782 ATACGTACTG
** * *
45229792 TTCCTTTAGAGTTTTTCGTACATATTA
1 TTCCTTTAGAGTTCATCGCACATATCA
45229819 TTCCTTTAGAGTTCATCGCACATATCA
1 TTCCTTTAGAGTTCATCGCACATATCA
45229846 TTC
1 TTC
45229849 TCTCAGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.46
Consensus pattern (27 bp):
TTCCTTTAGAGTTCATCGCACATATCA
Found at i:45230091 original size:27 final size:27
Alignment explanation
Indices: 45230031--45230100 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
45230021 ATAGATCACT
* * *
45230031 ACAAAGGCTTCTATTTCTTGGGTTGAC
1 ACAAAGGCTTCAATTTCTTAGATTGAC
*
45230058 ACAAAGGCTTCCATTTCTTAGATT-ACC
1 ACAAAGGCTTCAATTTCTTAGATTGA-C
*
45230085 ACGAAGGCTTCAATTT
1 ACAAAGGCTTCAATTT
45230101 ATGCGACATG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (27 bp):
ACAAAGGCTTCAATTTCTTAGATTGAC
Found at i:45230309 original size:50 final size:50
Alignment explanation
Indices: 45230213--45230309 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
45230203 CTTTTAATTC
* * * * *
45230213 TTTCCATATGATGCAATAACCCACTAGTTATGGTCTTATACAATATGTTA
1 TTTCCATATGATGCAATAACCCACCAGCTACGATCTTACACAATATGTTA
* * * *
45230263 TTTCCATATGATGCCATAGCCCACCAGCTACGATTTTACACGATATG
1 TTTCCATATGATGCAATAACCCACCAGCTACGATCTTACACAATATG
45230310 GTGTCATGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (50 bp):
TTTCCATATGATGCAATAACCCACCAGCTACGATCTTACACAATATGTTA
Found at i:45233475 original size:20 final size:20
Alignment explanation
Indices: 45233447--45233496 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
45233437 AATTTATCTT
* *
45233447 ATTTTATTTTATTCTAATCA
1 ATTTGATTTAATTCTAATCA
*
45233467 ATTTGATTTAATTTTAATCA
1 ATTTGATTTAATTCTAATCA
*
45233487 AATTGATTTA
1 ATTTGATTTA
45233497 TTGGCTCCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (20 bp):
ATTTGATTTAATTCTAATCA
Found at i:45234251 original size:21 final size:21
Alignment explanation
Indices: 45234222--45234262 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45234212 AATTTCGTTA
*
45234222 TCTTGCACCACAAATTTTCTT
1 TCTTACACCACAAATTTTCTT
* *
45234243 TCTTACACCAGAATTTTTCT
1 TCTTACACCACAAATTTTCT
45234263 AACATTATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.05, T:0.44
Consensus pattern (21 bp):
TCTTACACCACAAATTTTCTT
Found at i:45237117 original size:26 final size:26
Alignment explanation
Indices: 45237079--45237131 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
45237069 TTATGTATCG
*
45237079 TTTATGGTATGTT-TTTGTTA-TATTT
1 TTTATGGCATGTTATTT-TTAGTATTT
45237104 TTTATTGGCATGTTATTTTTAGTATTT
1 TTTA-TGGCATGTTATTTTTAGTATTT
45237131 T
1 T
45237132 AATATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 11 0.46
27 9 0.38
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (26 bp):
TTTATGGCATGTTATTTTTAGTATTT
Found at i:45243541 original size:27 final size:27
Alignment explanation
Indices: 45243509--45243560 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
45243499 GTGGGGAGCG
* *
45243509 GGTGCCACCTATGGGGATGGCTTGATT
1 GGTGCCACCTATGGGAAAGGCTTGATT
*
45243536 GGTGCCGCCTATGGGAAAGGCTTGA
1 GGTGCCACCTATGGGAAAGGCTTGA
45243561 CTAGTGTCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.19, G:0.38, T:0.25
Consensus pattern (27 bp):
GGTGCCACCTATGGGAAAGGCTTGATT
Found at i:45245347 original size:25 final size:25
Alignment explanation
Indices: 45245301--45245348 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
45245291 ACAGGGTACT
* * * *
45245301 TTTAATTTTATAATTTATTTATTTA
1 TTTAATATTAGAAATTAATTATTTA
45245326 TTTAATATTAGAAATTAATTATT
1 TTTAATATTAGAAATTAATTATT
45245349 ATAAAAGTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAATATTAGAAATTAATTATTTA
Found at i:45245540 original size:86 final size:85
Alignment explanation
Indices: 45245375--45245540 Score: 183
Period size: 86 Copynumber: 1.9 Consensus size: 85
45245365 TTAAATTTTA
** * * *
45245375 TTATATAATAATTTACAATTAGGTAGAGATTTTAAATTGATTCAAAATTAATGTGTACTATTTAA
1 TTATATAATAATTTACAATTAAATAGAAATTTTAAATTCATTCAAAATTAATGTGTACTATTAAA
** * **
45245440 ATTTTATATTAAAAATTAAT
66 AAATGATAAAAAAAATTAAT
* *
45245460 TTATGATAATAATTTATAATTAAATAGAAATTTTAAATTCATTCAAAAGTTAATGTGT-GTCATT
1 TTAT-ATAATAATTTACAATTAAATAGAAATTTTAAATTCATTCAAAA-TTAATGTGTACT-ATT
45245524 AAAAAATGA-AAAAAAAA
63 AAAAAATGATAAAAAAAA
45245541 CTTGTTTTCA
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
85 4 0.06
86 45 0.68
87 17 0.26
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (85 bp):
TTATATAATAATTTACAATTAAATAGAAATTTTAAATTCATTCAAAATTAATGTGTACTATTAAA
AAATGATAAAAAAAATTAAT
Found at i:45246234 original size:14 final size:14
Alignment explanation
Indices: 45246209--45246246 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
45246199 AAATAAATAA
45246209 TAAATATTAT-AATT
1 TAAAT-TTATAAATT
45246223 TATAATTTATAAATT
1 TA-AATTTATAAATT
45246238 TAAATTTAT
1 TAAATTTAT
45246247 TTTGTAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAATTTATAAATT
Found at i:45246650 original size:6 final size:6
Alignment explanation
Indices: 45246598--45246629 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
45246588 AGAGATAAGA
45246598 TTTATT TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
45246630 AGCTAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:45250439 original size:28 final size:28
Alignment explanation
Indices: 45250399--45250469 Score: 133
Period size: 28 Copynumber: 2.5 Consensus size: 28
45250389 ATCTTCTCTT
45250399 TCACCAGATTTCTTCCTCGACATTACCC
1 TCACCAGATTTCTTCCTCGACATTACCC
*
45250427 TCACTAGATTTCTTCCTCGACATTACCC
1 TCACCAGATTTCTTCCTCGACATTACCC
45250455 TCACCAGATTTCTTC
1 TCACCAGATTTCTTC
45250470 TTAATTGACG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.21, C:0.37, G:0.07, T:0.35
Consensus pattern (28 bp):
TCACCAGATTTCTTCCTCGACATTACCC
Found at i:45252950 original size:27 final size:27
Alignment explanation
Indices: 45252920--45253097 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45252910 ATATTGAGTC
* * * *
45252920 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45252947 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45252974 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45253002 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45253029 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45253056 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45253083 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45253098 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45253059 original size:82 final size:81
Alignment explanation
Indices: 45252941--45253096 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45252931 TGCTATATAA
* *
45252941 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45253006 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45253023 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45253087 CACTTAGTGC
65 CACTTAGTGC
45253097 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45256130 original size:14 final size:14
Alignment explanation
Indices: 45256113--45256142 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45256103 TTCATTAAAT
45256113 TATATATTATTTTA
1 TATATATTATTTTA
45256127 TATATATTATTTTA
1 TATATATTATTTTA
45256141 TA
1 TA
45256143 GTATTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATATTATTTTA
Found at i:45256489 original size:45 final size:44
Alignment explanation
Indices: 45256398--45256490 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
45256388 ATTACAACAT
45256398 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
* *
45256442 CATTCCATTCAACCAAACA-ATTGAATTATTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
45256487 CATT
1 CATT
45256491 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 22 0.49
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:45256493 original size:16 final size:16
Alignment explanation
Indices: 45256472--45256511 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
45256462 TTGAATTATT
*
45256472 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
45256488 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
45256504 ATTACAGC
1 ATTACAGC
45256512 GAACCAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:45258854 original size:41 final size:42
Alignment explanation
Indices: 45258799--45258908 Score: 136
Period size: 41 Copynumber: 2.7 Consensus size: 42
45258789 TTTACGGTGT
* *
45258799 TTTTTGAAAAACGCCGCTAAAGCCCCGA-GCATTAGCGGCG-
1 TTTTTCAAAAACGCCGCTAAAGCCCCGATGCATTAGCGACGC
* * *
45258839 TTTTTCCAGAAACGCCGCTAAAGCCTC-ATGCGTTAGCGACGC
1 TTTTT-CAAAAACGCCGCTAAAGCCCCGATGCATTAGCGACGC
*
45258881 TTTTTCAAAAACGCCACTAAAGCCCCGA
1 TTTTTCAAAAACGCCGCTAAAGCCCCGA
45258909 AAACTCAAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
40 6 0.10
41 46 0.79
42 6 0.10
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (42 bp):
TTTTTCAAAAACGCCGCTAAAGCCCCGATGCATTAGCGACGC
Found at i:45275915 original size:40 final size:40
Alignment explanation
Indices: 45275860--45275940 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
45275850 AAATGTAATG
45275860 CTTCATATGAATATTAACCAGAAAAATCAAGTTATACCTT
1 CTTCATATGAATATTAACCAGAAAAATCAAGTTATACCTT
45275900 CTTCATATGAATATTAACCAGAAAAATCAAGTTATACCTT
1 CTTCATATGAATATTAACCAGAAAAATCAAGTTATACCTT
45275940 C
1 C
45275941 CCTCTGAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (40 bp):
CTTCATATGAATATTAACCAGAAAAATCAAGTTATACCTT
Found at i:45276574 original size:32 final size:32
Alignment explanation
Indices: 45276508--45276570 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
45276498 CCATAATTAA
45276508 TAAACACTTAAAAATAAATAAAACCCTAAACC
1 TAAACACTTAAAAATAAATAAAACCCTAAACC
* *
45276540 TAAACACTTACAAATTAA-AAAACCCTAAACC
1 TAAACACTTAAAAATAAATAAAACCCTAAACC
45276571 CTAATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.19
Consensus pattern (32 bp):
TAAACACTTAAAAATAAATAAAACCCTAAACC
Found at i:45279988 original size:29 final size:29
Alignment explanation
Indices: 45279929--45280030 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 29
45279919 GAAGACATCC
* * * *
45279929 TTTAACATAGATTGCCACAAAAGCT-TTCT
1 TTTAACAGAGATAGCCAC-AAAGGTGTCCT
45279958 TTTAACAGAGATAGCCACAAAGGTGTCCT
1 TTTAACAGAGATAGCCACAAAGGTGTCCT
* * * * * *
45279987 TTTTATAGATATAGTCAAAAAGGCGTCCT
1 TTTAACAGAGATAGCCACAAAGGTGTCCT
* *
45280016 TTTTATAGAGATAGC
1 TTTAACAGAGATAGC
45280031 TATAAACTCT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 5 0.08
29 55 0.92
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (29 bp):
TTTAACAGAGATAGCCACAAAGGTGTCCT
Found at i:45292953 original size:10 final size:10
Alignment explanation
Indices: 45292938--45292966 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
45292928 GAAATGATTG
45292938 ATGATATAAT
1 ATGATATAAT
45292948 ATGATATAAT
1 ATGATATAAT
45292958 A-GATATAAT
1 ATGATATAAT
45292967 TGTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATGATATAAT
Found at i:45293321 original size:36 final size:36
Alignment explanation
Indices: 45293205--45293326 Score: 106
Period size: 36 Copynumber: 3.4 Consensus size: 36
45293195 CTTTTATGAT
* * *
45293205 CAATTGGCGTGTTTCGGTTAGACTAACTCTTCGGAG
1 CAATTGGCGTGTTTAGGTTAGACTAGCTCTTCAGAG
* *
45293241 CAATTGGCGTGTTATTAGG-TAG-TTGAGCTCTT-ATGAC
1 CAATTGGCGTG-T-TTAGGTTAGACT-AGCTCTTCA-GAG
* * *
45293278 CATTTGGCGTGTTTAGGTTGGACTAGCTCTTCAAAG
1 CAATTGGCGTGTTTAGGTTAGACTAGCTCTTCAGAG
*
45293314 CAATTGGCATGTT
1 CAATTGGCGTGTT
45293327 GTCGAGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
35 5 0.07
36 34 0.51
37 24 0.36
38 4 0.06
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (36 bp):
CAATTGGCGTGTTTAGGTTAGACTAGCTCTTCAGAG
Found at i:45293341 original size:73 final size:73
Alignment explanation
Indices: 45293193--45293357 Score: 181
Period size: 73 Copynumber: 2.3 Consensus size: 73
45293183 CGAGTGGTTT
* * * * ** * *
45293193 AGCTTTTATGATCAATTGGCGTGTTTCGGTTAGACTAACTCTTCGGAGCAATTGGCGTGTTATTA
1 AGCTCTTATGACCATTTGGCGTGTTTAGGTTAGACTAACTCTTCAAAGCAATTGGCATGTTATGA
*
45293258 GGTAGTTG
66 GGTAGATG
* * *
45293266 AGCTCTTATGACCATTTGGCGTGTTTAGGTTGGACTAGCTCTTCAAAGCAATTGGCATGTTGTCG
1 AGCTCTTATGACCATTTGGCGTGTTTAGGTTAGACTAACTCTTCAAAGCAATTGGCATGTTAT-G
45293331 A-GT-GAATG
65 AGGTAG-ATG
*
45293339 AGCTCTTATGAGCATTTGG
1 AGCTCTTATGACCATTTGG
45293358 TCTATTTTCA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
72 1 0.01
73 75 0.97
74 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.36
Consensus pattern (73 bp):
AGCTCTTATGACCATTTGGCGTGTTTAGGTTAGACTAACTCTTCAAAGCAATTGGCATGTTATGA
GGTAGATG
Found at i:45295423 original size:25 final size:25
Alignment explanation
Indices: 45295368--45295438 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
45295358 TACCGGTTTT
* *
45295368 AGCTCGTATGAGCTTACCGA-TATTC
1 AGCTCGAATGAGCTTACC-ATTACTC
* *
45295393 AACTCGCATGAGCTTACCATTACTC
1 AGCTCGAATGAGCTTACCATTACTC
*
45295418 AGCTCGAAAGAGCTTACCATT
1 AGCTCGAATGAGCTTACCATT
45295439 TACAGCTCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (25 bp):
AGCTCGAATGAGCTTACCATTACTC
Found at i:45295452 original size:24 final size:24
Alignment explanation
Indices: 45295368--45295459 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 24
45295358 TACCGGTTTT
*
45295368 AGCTCGTATGAGCTTACCGATATT-C
1 AGCTCGTAAGAGCTTACC-AT-TTAC
* * *
45295393 AACTCGCATGAGCTTACCA-TTACTC
1 AGCTCGTAAGAGCTTACCATTTA--C
*
45295418 AGCTCGAAAGAGCTTACCATTTAC
1 AGCTCGTAAGAGCTTACCATTTAC
*
45295442 AGCTCGTAAGAGCATACC
1 AGCTCGTAAGAGCTTACC
45295460 GATTCTGAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
22 2 0.04
24 18 0.32
25 33 0.59
26 3 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACCATTTAC
Found at i:45301063 original size:14 final size:14
Alignment explanation
Indices: 45301028--45301065 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
45301018 TGTTTTACTA
*
45301028 AAAATGACTTCCGG
1 AAAATGATTTCCGG
*
45301042 AAAATGATTTCTGG
1 AAAATGATTTCCGG
45301056 AAAATGATTT
1 AAAATGATTT
45301066 AGTTTTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:45301639 original size:16 final size:16
Alignment explanation
Indices: 45301605--45301645 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 16
45301595 ATGTGAATAA
45301605 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
45301621 TATT-TTTAAAATT-T
1 TATTATTTAAAATTAT
45301635 T-TTA-TTAAAAT
1 TATTATTTAAAAT
45301646 AAAATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.38
14 2 0.08
15 9 0.38
16 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:45302653 original size:29 final size:28
Alignment explanation
Indices: 45302595--45302750 Score: 161
Period size: 29 Copynumber: 5.4 Consensus size: 28
45302585 ACGCGTTACA
* *
45302595 ATAGCCACAAAGACTTCTTTTAACAGAG
1 ATAGCCACAAAGGCTTCTTTTAATAGAG
*
45302623 ATAGCCACAAAGGCTTCCTTTTAATAAAG
1 ATAGCCACAAAGGCTT-CTTTTAATAGAG
* * *
45302652 ATCGCCATAGAGGCTTCTTTATAATAGAG
1 ATAGCCACAAAGGCTTCTTT-TAATAGAG
* *
45302681 ATCGCCACAAAGGCTTCTTTATAACAGAG
1 ATAGCCACAAAGGCTTCTTT-TAATAGAG
* * *
45302710 ATCGCCACAAAGACTT-TCTTTAATCAAAG
1 ATAGCCACAAAGGCTTCT-TTTAAT-AGAG
45302739 ATAGCCACAAAG
1 ATAGCCACAAAG
45302751 ACACTTCTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
28 23 0.21
29 87 0.79
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (28 bp):
ATAGCCACAAAGGCTTCTTTTAATAGAG
Found at i:45307180 original size:47 final size:47
Alignment explanation
Indices: 45307129--45307271 Score: 277
Period size: 47 Copynumber: 3.0 Consensus size: 47
45307119 TTTATTTATT
45307129 TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACTGGTTGGTTC
1 TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACTGGTTGGTTC
45307176 TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACTGGTTGGTTC
1 TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACTGGTTGGTTC
*
45307223 TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACCGGTTGGTTC
1 TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACTGGTTGGTTC
45307270 TG
1 TG
45307272 CTATCTCATA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 95 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.42
Consensus pattern (47 bp):
TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACTGGTTGGTTC
Found at i:45315653 original size:32 final size:32
Alignment explanation
Indices: 45315612--45315676 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
45315602 CTTAAGCAAA
*
45315612 ATCTTGAATTTGGGTAAGAAAAATGAAGAAAC
1 ATCTTGAATTTGGGTAAAAAAAATGAAGAAAC
45315644 ATCTTGAATTTGGGTAAAAAAAATGAAGAAAC
1 ATCTTGAATTTGGGTAAAAAAAATGAAGAAAC
45315676 A
1 A
45315677 ATTCATGCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.25
Consensus pattern (32 bp):
ATCTTGAATTTGGGTAAAAAAAATGAAGAAAC
Found at i:45317810 original size:12 final size:12
Alignment explanation
Indices: 45317793--45317819 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45317783 TGATATTGGC
45317793 GTAATAATTTAT
1 GTAATAATTTAT
45317805 GTAATAATTTAT
1 GTAATAATTTAT
45317817 GTA
1 GTA
45317820 TACTTCGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (12 bp):
GTAATAATTTAT
Found at i:45318238 original size:24 final size:25
Alignment explanation
Indices: 45318211--45318258 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
45318201 ATCATAAATC
45318211 AAGTAATTT-TACAATATTTAAAAA
1 AAGTAATTTATACAATATTTAAAAA
*
45318235 AAGTATTTTATACAATATTTAAAA
1 AAGTAATTTATACAATATTTAAAA
45318259 TATGGACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (25 bp):
AAGTAATTTATACAATATTTAAAAA
Found at i:45318258 original size:23 final size:23
Alignment explanation
Indices: 45318211--45318258 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
45318201 ATCATAAATC
45318211 AAGTAATTTTACAATATTTAAAAA
1 AAGTAATTTTACAATATTT-AAAA
*
45318235 AAGTATTTTATACAATATTTAAAA
1 AAGTAATTT-TACAATATTTAAAA
45318259 TATGGACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (23 bp):
AAGTAATTTTACAATATTTAAAA
Found at i:45318785 original size:21 final size:20
Alignment explanation
Indices: 45318756--45318804 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
45318746 AATTATGATT
45318756 TTAATGTATTAAATTTGTTAAA
1 TTAATGTATT-AATTT-TTAAA
45318778 TTAA-GTATTAATTTTTAAA
1 TTAATGTATTAATTTTTAAA
45318797 TATAATGT
1 T-TAATGT
45318805 GCTATAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.24
20 8 0.32
21 7 0.28
22 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
TTAATGTATTAATTTTTAAA
Found at i:45319724 original size:16 final size:17
Alignment explanation
Indices: 45319688--45319724 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
45319678 TAATTTATTT
*
45319688 TAATAATAAATTTTAGA
1 TAATAATAAATTTTAAA
45319705 -AATAAT-AATTTTAAA
1 TAATAATAAATTTTAAA
45319720 TAATA
1 TAATA
45319725 TTCTTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:45320128 original size:23 final size:25
Alignment explanation
Indices: 45320073--45320134 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 25
45320063 TATAAGGACT
45320073 TATGACATATTTTAACCTAGTATAAA
1 TATGA-ATATTTTAACCTAGTATAAA
*
45320099 TAAATGAATATTTTAA-TTA-TATAAA
1 T--ATGAATATTTTAACCTAGTATAAA
45320124 TATGAATATTT
1 TATGAATATTT
45320135 GTTTAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 10 0.30
25 7 0.21
26 3 0.09
27 9 0.27
28 4 0.12
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (25 bp):
TATGAATATTTTAACCTAGTATAAA
Found at i:45320259 original size:16 final size:17
Alignment explanation
Indices: 45320231--45320262 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45320221 TTAAGTTTTA
45320231 ATTAAGCTTTATTTATT
1 ATTAAGCTTTATTTATT
45320248 ATTAAG-TTTATTTAT
1 ATTAAGCTTTATTTAT
45320263 GACATTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTAAGCTTTATTTATT
Found at i:45320313 original size:21 final size:20
Alignment explanation
Indices: 45320269--45320315 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
45320259 TTATGACATT
*
45320269 GATTATTACAAAATATTTTC
1 GATTATTACAAAATAATTTC
*
45320289 --TTATTATAAAATAAATTTC
1 GATTATTACAAAAT-AATTTC
45320308 GATTATTA
1 GATTATTA
45320316 AAAGGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 11 0.50
19 5 0.23
21 6 0.27
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (20 bp):
GATTATTACAAAATAATTTC
Found at i:45325591 original size:11 final size:11
Alignment explanation
Indices: 45325562--45325592 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
45325552 CGAGATTATA
*
45325562 AAAAAAAATCG
1 AAAAAAATTCG
45325573 AAAAAAATTCG
1 AAAAAAATTCG
45325584 AAAAAAATT
1 AAAAAAATT
45325593 ATTGTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.16
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:45338634 original size:21 final size:22
Alignment explanation
Indices: 45338608--45338648 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
45338598 ATGGATTGGA
*
45338608 CATTCAAATC-TAAAATAAAAC
1 CATTCAAATCAGAAAATAAAAC
45338629 CATTCAAATCAGAAAATAAA
1 CATTCAAATCAGAAAATAAA
45338649 GGTAGAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.59, C:0.17, G:0.02, T:0.22
Consensus pattern (22 bp):
CATTCAAATCAGAAAATAAAAC
Found at i:45342966 original size:76 final size:75
Alignment explanation
Indices: 45342870--45343041 Score: 231
Period size: 76 Copynumber: 2.3 Consensus size: 75
45342860 TCCACCCCTT
* *
45342870 AAAATCCCTAATTGTTTTCCCAA-TCCCTTTCTTTTTTTCCCCAATTTATTTTCACCAAA-CCAG
1 AAAATCCCTAATTCTTTTCCCAATTCCCTTTC-TTTTTTCCCCAACTTATTTTCACCAAATCC-G
45342933 TTCCCCCTCCCC
64 TTCCCCCTCCCC
* * * * * *
45342945 GAAATCCCCAACTTTTTTTCCCAATTCCCTTTCTTTTTTCCCCAACTTCTTTTCCCCAAATTCGT
1 AAAATCCCTAA-TTCTTTTCCCAATTCCCTTTCTTTTTTCCCCAACTTATTTTCACCAAATCCGT
45343010 TCCCCCTCCCC
65 TCCCCCTCCCC
45343021 AAAATCCCTAATTCTTTTCCC
1 AAAATCCCTAATTCTTTTCCC
45343042 CAAAGCGCGT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
75 18 0.21
76 57 0.68
77 9 0.11
ACGTcount: A:0.20, C:0.39, G:0.02, T:0.39
Consensus pattern (75 bp):
AAAATCCCTAATTCTTTTCCCAATTCCCTTTCTTTTTTCCCCAACTTATTTTCACCAAATCCGTT
CCCCCTCCCC
Found at i:45346232 original size:22 final size:23
Alignment explanation
Indices: 45346183--45346239 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
45346173 TTGAGCCATT
*
45346183 AACCATTTCATACCAAAAACCCA
1 AACCATTTCATACCAAAAACCAA
* *
45346206 TACCATTTCGTACC-AAAACCAA
1 AACCATTTCATACCAAAAACCAA
*
45346228 AACCATTCCATA
1 AACCATTTCATA
45346240 ACTAAACATA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (23 bp):
AACCATTTCATACCAAAAACCAA
Found at i:45348281 original size:13 final size:13
Alignment explanation
Indices: 45348265--45348291 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45348255 TAATTAAAGG
45348265 GTTAAAATTTAAA
1 GTTAAAATTTAAA
45348278 GTTAAAATTTAAA
1 GTTAAAATTTAAA
45348291 G
1 G
45348292 ATGATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:45348356 original size:9 final size:9
Alignment explanation
Indices: 45348342--45348430 Score: 57
Period size: 9 Copynumber: 10.6 Consensus size: 9
45348332 AACTTTGGAT
45348342 CATAACTTA
1 CATAACTTA
45348351 CATAACTTA
1 CATAACTTA
45348360 CATAA--TA
1 CATAACTTA
*
45348367 CATAA-ATA
1 CATAACTTA
* * *
45348375 TATATCATA
1 CATAACTTA
45348384 TCAT-A-TT-
1 -CATAACTTA
45348391 -ATAACTTA
1 CATAACTTA
* *
45348399 CGTAACCTA
1 CATAACTTA
*
45348408 TATAACTTA
1 CATAACTTA
45348417 CATAACTTA
1 CATAACTTA
45348426 CATAA
1 CATAA
45348431 TGCATAAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
5 2 0.03
6 1 0.02
7 9 0.15
8 6 0.10
9 42 0.68
10 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:45354372 original size:31 final size:32
Alignment explanation
Indices: 45354330--45354396 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
45354320 AAGTGTCGCT
45354330 AAAA-GTCATGTTCTTTAG-GGCGTTTGTGGG
1 AAAAGGTCATGTTCTTTAGTGGCGTTTGTGGG
*
45354360 GAAAGGTCATGTTCTTTAGTGGCGTTTGTGGG
1 AAAAGGTCATGTTCTTTAGTGGCGTTTGTGGG
45354392 AAAAG
1 AAAAG
45354397 CACCGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 3 0.09
31 14 0.42
32 16 0.48
ACGTcount: A:0.22, C:0.09, G:0.34, T:0.34
Consensus pattern (32 bp):
AAAAGGTCATGTTCTTTAGTGGCGTTTGTGGG
Found at i:45354422 original size:43 final size:43
Alignment explanation
Indices: 45354361--45354643 Score: 282
Period size: 43 Copynumber: 6.6 Consensus size: 43
45354351 GTTTGTGGGG
*
45354361 AAAGGTCATGTTCTTTAGTGGCGTTTGTGGGAAAAGCACCGCT
1 AAAGGTCATGTTCTTTAGTGGCATTTGTGGGAAAAGCACCGCT
* * *
45354404 AAAGGTCGTGTTCTTTAGTGGCTTTTGTGGGAAAAGCACCGGT
1 AAAGGTCATGTTCTTTAGTGGCATTTGTGGGAAAAGCACCGCT
* * * *
45354447 AAAGGTCATGTTCTTTAGTGGAATTTTTGGGAAAAGCGCCACT
1 AAAGGTCATGTTCTTTAGTGGCATTTGTGGGAAAAGCACCGCT
* *** ** *
45354490 AAAGGTCATGTTCTATAGTGATTTTTGTGGGAAAAGTGCTGCT
1 AAAGGTCATGTTCTTTAGTGGCATTTGTGGGAAAAGCACCGCT
* * * * *
45354533 AAAGGTCATGTTCTTTAGCGACATTTGAGGGAAAAGAACCACT
1 AAAGGTCATGTTCTTTAGTGGCATTTGTGGGAAAAGCACCGCT
* * * * * **
45354576 -AAGGTCATGCTCTATAGCGGCATTTTTGTGAGAAA-CGTCGCT
1 AAAGGTCATGTTCTTTAGTGGCATTTGTGGGA-AAAGCACCGCT
* *
45354618 AAAGGTCATGTTCTCTAGCGGCATTT
1 AAAGGTCATGTTCTTTAGTGGCATTT
45354644 TTCCATATAA
Statistics
Matches: 199, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
42 28 0.14
43 171 0.86
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (43 bp):
AAAGGTCATGTTCTTTAGTGGCATTTGTGGGAAAAGCACCGCT
Found at i:45358716 original size:41 final size:41
Alignment explanation
Indices: 45358655--45358805 Score: 162
Period size: 41 Copynumber: 3.7 Consensus size: 41
45358645 CATAATTTAA
*
45358655 CATATTCACCGGCACATAGCCTGCTAGGCTTATAGCCTGATT
1 CATA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
45358697 CATATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* ** * **
45358738 CCA-ATCACAGGCACTTAGCCTGCTAGATTTATAGTCTGAAA
1 -CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
45358779 AAT-TCACCGGCATTTAGCCTGCTAGGC
1 CATATCACCGGCACTTAGCCTGCTAGGC
45358806 GCTTAGCCTG
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
40 21 0.23
41 65 0.71
42 6 0.07
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (41 bp):
CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:45362037 original size:17 final size:19
Alignment explanation
Indices: 45362015--45362051 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
45362005 TGTTCCATAA
45362015 TTATATT-T-CTTAATGCT
1 TTATATTGTACTTAATGCT
45362032 TTATATTGTACTTAATGCT
1 TTATATTGTACTTAATGCT
45362051 T
1 T
45362052 GGATTATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
19 10 0.56
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.57
Consensus pattern (19 bp):
TTATATTGTACTTAATGCT
Found at i:45367941 original size:28 final size:28
Alignment explanation
Indices: 45367878--45368059 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
45367868 ATATTAAGTC
* *
45367878 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
45367905 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
45367933 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
45367961 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
45367989 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
45368017 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
45368045 CTCACACTTAGTGCT
1 CGCACACTTAGTGCT
45368060 GTACAATTTA
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.15
28 126 0.85
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:45383961 original size:47 final size:47
Alignment explanation
Indices: 45383909--45384604 Score: 1088
Period size: 47 Copynumber: 14.6 Consensus size: 47
45383899 GATAATTGTG
* *
45383909 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45383956 ATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45384003 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45384052 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45384101 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45384148 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
45384197 ATGTGAAAGTGTATATATGTGATGAGGCCTAATCGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
45384244 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45384291 ATGTGAAAGTGTATATATATGTGATAAGGCATAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45384340 ATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
45384389 ATATGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45384436 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45384485 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
45384532 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
45384579 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
45384605 TCCCGAAGGG
Statistics
Matches: 607, Mismatches: 32, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 326 0.54
48 2 0.00
49 277 0.46
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:45383979 original size:96 final size:95
Alignment explanation
Indices: 45383909--45384604 Score: 1103
Period size: 96 Copynumber: 7.3 Consensus size: 95
45383899 GATAATTGTG
* * *
45383909 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATA
*
45383973 TGTGATAAGGCCAAATGGCCGATGTGATGA
66 TGTGATAAGGCCTAATGGCCGATGTGATGA
*
45384003 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATAT
45384068 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
63 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
45384101 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATATAT
45384166 ATGTGATAAGGCCTAATGGCCGATGTGATGA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
45384197 ATGTGAAAGTGTATATATGTGATGAGGCCTAATCGCCGATGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATA
* *
45384261 TGTGATAAGGCCGAATGGCCAATGTGATGA
66 TGTGATAAGGCCTAATGGCCGATGTGATGA
* *
45384291 ATGTGAAAGTGTATATATATGTGATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATAT
*
45384356 ATATGTGATAAGGCCTAACGGCCGATGTGATGA
63 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45384389 ATATGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATATAT
45384454 ATGTGATAAGGCCTAATGGCCGATGTGATGA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGA
45384485 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATA
* * * * * *
45384549 TGTGA-CAGAGCCGAGTGGCCAACGTGATGG
66 TGTGATAAG-GCCTAATGGCCGATGTGATGA
*
45384579 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
45384605 TCCCGAAGGG
Statistics
Matches: 567, Mismatches: 26, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
93 2 0.00
94 106 0.19
96 370 0.65
98 89 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (95 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATA
TGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:45384398 original size:288 final size:288
Alignment explanation
Indices: 45383909--45384604 Score: 1236
Period size: 288 Copynumber: 2.4 Consensus size: 288
45383899 GATAATTGTG
* * *
45383909 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
45383974 GTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCATAATG
* *
45384039 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
131 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATA
45384104 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
196 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
45384169 TGATAAGGCCTAATGGCCGATGTGATGA
261 TGATAAGGCCTAATGGCCGATGTGATGA
* *
45384197 ATGTGAAAGTGTATATATGTGATGAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
45384262 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCATAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCATAATG
45384327 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATA
131 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATA
45384392 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
196 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
45384457 TGATAAGGCCTAATGGCCGATGTGATGA
261 TGATAAGGCCTAATGGCCGATGTGATGA
45384485 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * *
45384550 GTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATAAG-GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
45384605 TCCCGAAGGG
Statistics
Matches: 392, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
286 10 0.03
287 3 0.01
288 379 0.97
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (288 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCATAATG
GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATA
TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
TGATAAGGCCTAATGGCCGATGTGATGA
Found at i:45386611 original size:15 final size:15
Alignment explanation
Indices: 45386575--45386611 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
45386565 CTTTCTCAAA
*
45386575 TTCTTTCTCTTTTTC
1 TTCTTTTTCTTTTTC
45386590 TTCTTTTTCTTTTTC
1 TTCTTTTTCTTTTTC
45386605 TTCTTTT
1 TTCTTTT
45386612 CAATCTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCTTTTTCTTTTTC
Found at i:45396450 original size:47 final size:47
Alignment explanation
Indices: 45396372--45396820 Score: 763
Period size: 47 Copynumber: 9.5 Consensus size: 47
45396362 CCCTTCGAGA
* * * * * *
45396372 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45396419 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45396466 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45396513 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45396562 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45396609 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45396656 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45396703 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45396750 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45396797 CTTATCACATATATACAATTTCAC
1 CTTATCACATATATACACTTTCAC
45396821 GCCATACTAT
Statistics
Matches: 382, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 336 0.88
49 46 0.12
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45398232 original size:13 final size:13
Alignment explanation
Indices: 45398214--45398238 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45398204 TACTAAATTT
45398214 TCATGGATTCAAA
1 TCATGGATTCAAA
45398227 TCATGGATTCAA
1 TCATGGATTCAA
45398239 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:45405911 original size:33 final size:33
Alignment explanation
Indices: 45405866--45406047 Score: 136
Period size: 27 Copynumber: 5.6 Consensus size: 33
45405856 AAGATATGGT
45405866 GGAATCAGCACTTAGCAACCACCAATTAATCGG
1 GGAATCAGCACTTAGCAACCACCAATTAATCGG
*
45405899 GGAATCATCACTTAGCAACC-CC---T--TCGG
1 GGAATCAGCACTTAGCAACCACCAATTAATCGG
* *
45405926 GGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATATGG
1 GGAATCAGCACTTAGCAA-CCAC--C-AA-TT--AAT-CGG
* *
45405967 TGGAATCAGCACTTAGCAACCACCAATGAATAGG
1 -GGAATCAGCACTTAGCAACCACCAATTAATCGG
* *
45406001 AGAATCAGCACTTAGCAACC-CC---T-A-GGG
1 GGAATCAGCACTTAGCAACCACCAATTAATCGG
45406028 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
45406048 CCCTTTTTTA
Statistics
Matches: 124, Mismatches: 10, Indels: 36
0.73 0.06 0.21
Matches are distributed among these distances:
27 42 0.34
28 3 0.02
29 2 0.02
31 1 0.01
32 4 0.03
33 38 0.31
34 2 0.02
35 3 0.02
36 1 0.01
37 1 0.01
38 2 0.02
39 1 0.01
40 1 0.01
41 5 0.04
42 18 0.15
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATTAATCGG
Found at i:45405986 original size:102 final size:103
Alignment explanation
Indices: 45405818--45406052 Score: 373
Period size: 102 Copynumber: 2.3 Consensus size: 103
45405808 CCACCAGTGA
* * *
45405818 TTCGGGGAATTAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCA
1 TTCGGGGAATCAGCACTTAGCAACCCCCTTCAAATTCAAAGATATGGTGGAATCAGCACTTAGCA
* * * *
45405883 ACCACCAATTAATCGGGGAATCATCACTTAGCAACCCC
66 ACCACCAATGAATAGGAGAATCAGCACTTAGCAACCCC
*
45405921 TTCGGGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAA-ATATGGTGGAATCAGCACTTAGCA
1 TTCGGGGAATCAGCACTTAGCAACCCCCTTCAAATTCAAAGATATGGTGGAATCAGCACTTAGCA
45405985 ACCACCAATGAATAGGAGAATCAGCACTTAGCAACCCC
66 ACCACCAATGAATAGGAGAATCAGCACTTAGCAACCCC
**
45406023 TAGGGGGAATCAGCACTTAGCAACCCCCTT
1 TTCGGGGAATCAGCACTTAGCAACCCCCTT
45406053 TTTTATTCAA
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
102 86 0.70
103 36 0.30
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (103 bp):
TTCGGGGAATCAGCACTTAGCAACCCCCTTCAAATTCAAAGATATGGTGGAATCAGCACTTAGCA
ACCACCAATGAATAGGAGAATCAGCACTTAGCAACCCC
Found at i:45409392 original size:19 final size:18
Alignment explanation
Indices: 45409346--45409392 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 18
45409336 TGTAATTGAA
45409346 AAAAAAACATATTCGAAGT
1 AAAAAAA-ATATTCGAAGT
45409365 ATAAAAAAAT-TTACGAAGTT
1 A-AAAAAAATATT-CGAAG-T
45409385 AAAAAAAA
1 AAAAAAAA
45409393 GTCTTGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
20 8 0.32
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (18 bp):
AAAAAAAATATTCGAAGT
Found at i:45415477 original size:26 final size:27
Alignment explanation
Indices: 45415431--45415502 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
45415421 CCCTTACATA
* * *
45415431 TATGCTCACATGAGTTGTGAAAA-GAG
1 TATGCTCACACGAGCTATGAAAATGAG
*
45415457 TATGCTCACACGAGCTATGAAAATGGG
1 TATGCTCACACGAGCTATGAAAATGAG
**
45415484 CCTGCTCACACGAGCTATG
1 TATGCTCACACGAGCTATG
45415503 GGTCAGAACG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 20 0.51
27 19 0.49
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (27 bp):
TATGCTCACACGAGCTATGAAAATGAG
Found at i:45418631 original size:25 final size:25
Alignment explanation
Indices: 45418603--45418680 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
45418593 TTACCGATAC
* *
45418603 TCAACTCGTATGAGCTTACCATTAT
1 TCAACTCGAAAGAGCTTACCATTAT
*
45418628 TCAACTCAAAAGAGCTTACCATTAT
1 TCAACTCGAAAGAGCTTACCATTAT
* * *
45418653 TCGACTCGGAGGAGCTTACCATTAT
1 TCAACTCGAAAGAGCTTACCATTAT
45418678 TCA
1 TCA
45418681 GCTAAGGGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (25 bp):
TCAACTCGAAAGAGCTTACCATTAT
Found at i:45418691 original size:25 final size:25
Alignment explanation
Indices: 45418614--45418700 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
45418604 CAACTCGTAT
* **
45418614 GAGCTTACCATTATTCAACTCAA-AA
1 GAGCTTACCATTATTCAGCT-AAGGG
*
45418639 GAGCTTACCATTATTC-GACT-CGGAG
1 GAGCTTACCATTATTCAG-CTAAGG-G
45418664 GAGCTTACCATTATTCAGCTAAGGG
1 GAGCTTACCATTATTCAGCTAAGGG
45418689 GAGCTTACCATT
1 GAGCTTACCATT
45418701 TACAGCTCGT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
25 49 0.94
26 3 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (25 bp):
GAGCTTACCATTATTCAGCTAAGGG
Found at i:45418903 original size:24 final size:25
Alignment explanation
Indices: 45418858--45418907 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
45418848 CACAGGTATT
45418858 TACATGAGATATATGAAAATGATTTG
1 TACATGAGATATAT-AAAATGATTTG
* *
45418884 TACATGATATATAT-ACATGATTTG
1 TACATGAGATATATAAAATGATTTG
45418908 GAAATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
26 13 0.59
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (25 bp):
TACATGAGATATATAAAATGATTTG
Found at i:45421323 original size:20 final size:21
Alignment explanation
Indices: 45421298--45421347 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
45421288 GGGTGCTTAG
45421298 ATGGCATTTC-GATAACCTTT
1 ATGGCATTTCTGATAACCTTT
* *
45421318 ATGGCATATTCTGTTAGCCTTT
1 ATGGCAT-TTCTGATAACCTTT
*
45421340 GTGGCATT
1 ATGGCATT
45421348 CTGCTAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.28
21 4 0.16
22 14 0.56
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (21 bp):
ATGGCATTTCTGATAACCTTT
Found at i:45421350 original size:20 final size:20
Alignment explanation
Indices: 45421325--45421409 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 20
45421315 TTTATGGCAT
*
45421325 ATTCTGTTAGCCTTTGTGGC
1 ATTCTGCTAGCCTTTGTGGC
* *
45421345 ATTCTGCTAGCATTTGTGGTGT
1 ATTCTGCTAGCCTTTGT-G-GC
* *
45421367 ACTCTGTGTATTGCCTTTGTGGC
1 ATTCTG-CTA--GCCTTTGTGGC
*
45421390 ATTCTGCTAGCCATTGTGGC
1 ATTCTGCTAGCCTTTGTGGC
45421410 GTACTCTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
20 25 0.50
21 1 0.02
22 8 0.16
23 8 0.16
24 1 0.02
25 7 0.14
ACGTcount: A:0.12, C:0.20, G:0.26, T:0.42
Consensus pattern (20 bp):
ATTCTGCTAGCCTTTGTGGC
Found at i:45421385 original size:25 final size:24
Alignment explanation
Indices: 45421357--45421433 Score: 63
Period size: 25 Copynumber: 3.3 Consensus size: 24
45421347 TCTGCTAGCA
45421357 TTTGTGGTGTACTCTGTGTATTGCC
1 TTTGTGG-GTACTCTGTGTATTGCC
* * *
45421382 TTTGT-GGCATTCTG-CTA--GCC
1 TTTGTGGGTACTCTGTGTATTGCC
* *
45421402 ATTGTGGCGTACTCTATGTATTGCC
1 TTTGTGG-GTACTCTGTGTATTGCC
45421427 TTTGTGG
1 TTTGTGG
45421434 CGTATTATGT
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
20 7 0.18
21 1 0.03
22 7 0.18
23 8 0.21
24 1 0.03
25 14 0.37
ACGTcount: A:0.10, C:0.18, G:0.27, T:0.44
Consensus pattern (24 bp):
TTTGTGGGTACTCTGTGTATTGCC
Found at i:45421389 original size:45 final size:45
Alignment explanation
Indices: 45421334--45421434 Score: 168
Period size: 45 Copynumber: 2.2 Consensus size: 45
45421324 TATTCTGTTA
* *
45421334 GCCTTTGTGGCATTCTGCTAG-CATTTGTGGTGTACTCTGTGTATT
1 GCCTTTGTGGCATTCTGCTAGCCA-TTGTGGCGTACTCTATGTATT
45421379 GCCTTTGTGGCATTCTGCTAGCCATTGTGGCGTACTCTATGTATT
1 GCCTTTGTGGCATTCTGCTAGCCATTGTGGCGTACTCTATGTATT
45421424 GCCTTTGTGGC
1 GCCTTTGTGGC
45421435 GTATTATGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
45 51 0.96
46 2 0.04
ACGTcount: A:0.11, C:0.21, G:0.27, T:0.42
Consensus pattern (45 bp):
GCCTTTGTGGCATTCTGCTAGCCATTGTGGCGTACTCTATGTATT
Found at i:45421437 original size:25 final size:23
Alignment explanation
Indices: 45421373--45421445 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 23
45421363 GTGTACTCTG
*
45421373 TGTATTGCCTTTGTGGC--ATTC
1 TGTATTGCCTTTGTGGCGTATTA
*
45421394 TGCTA--GCCATTGTGGCGTACTCTA
1 TG-TATTGCCTTTGTGGCGTA-T-TA
45421418 TGTATTGCCTTTGTGGCGTATTA
1 TGTATTGCCTTTGTGGCGTATTA
45421441 TGTAT
1 TGTAT
45421446 CTCACCTTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 10 0.24
21 2 0.05
22 3 0.07
23 10 0.24
24 4 0.10
25 13 0.31
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.44
Consensus pattern (23 bp):
TGTATTGCCTTTGTGGCGTATTA
Found at i:45421453 original size:25 final size:25
Alignment explanation
Indices: 45421403--45421457 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
45421393 CTGCTAGCCA
*
45421403 TTGTGGCGTACTCTATGTATTGCCT
1 TTGTGGCGTACTCTATGTATTACCT
45421428 TTGTGGCGTA-T-TATGTATCTCACCT
1 TTGTGGCGTACTCTATGTAT-T-ACCT
45421453 TTGTG
1 TTGTG
45421458 ACATATTCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 7 0.26
24 2 0.07
25 18 0.67
ACGTcount: A:0.13, C:0.18, G:0.24, T:0.45
Consensus pattern (25 bp):
TTGTGGCGTACTCTATGTATTACCT
Found at i:45422758 original size:26 final size:26
Alignment explanation
Indices: 45422728--45422800 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
45422718 CAATATCGCG
* * * *
45422728 GCAAAGTTGCCAGCAATAGTGATGCA
1 GCAAAGCTGCCAGCAACAGTAACGCA
*
45422754 GCAAAGCTGCCAGTAACAGTAACGCA
1 GCAAAGCTGCCAGCAACAGTAACGCA
*
45422780 GCAAAGCTGCCAGTAACAGTA
1 GCAAAGCTGCCAGCAACAGTA
45422801 TACGTGGCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (26 bp):
GCAAAGCTGCCAGCAACAGTAACGCA
Found at i:45422996 original size:27 final size:27
Alignment explanation
Indices: 45422973--45423337 Score: 323
Period size: 27 Copynumber: 13.5 Consensus size: 27
45422963 AGAGGTATAA
* * *
45422973 CAGTCATTTTACCCTTCGGGGGTATTC
1 CAGTAATTTTACCCTTCGAGGGTATTT
* * * *
45423000 CGGTACTTTTACCCTTTGGGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* *
45423027 CTGTAATTTTACCTTTCGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
*
45423054 TAGTAATTTTACCCTTCGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
*
45423081 C-GATAATTTTACCCTTCAAGGGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
* * *
45423108 CAGTAATTTTACCCTTTGAAGG-CTTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* *
45423134 CAGTAATTTTAACCTTTCAAGGGTATTT
1 CAGTAATTTT-ACCCTTCGAGGGTATTT
*
45423162 C-GATAATTTTATCCTTCGAGGGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
* * *
45423189 -TGATAATTTTATCCTTCGAGGGTTTTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
* * *
45423216 CGGTGATTTTACCCTTCTAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* * *
45423243 C-GATCACTTTACCCATCGAGGGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
* *
45423270 C-GATCATTTTACCCATT-AAGGGTATTT
1 CAG-TAATTTTACCC-TTCGAGGGTATTT
*
45423297 CAGTCATTTTACCCATT-GAGGGTATTT
1 CAGTAATTTTACCC-TTCGAGGGTATTT
* *
45423324 CTGTCATTTTACCC
1 CAGTAATTTTACCC
45423338 ATCCTTGGGT
Statistics
Matches: 286, Mismatches: 42, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
26 15 0.05
27 256 0.90
28 15 0.05
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.43
Consensus pattern (27 bp):
CAGTAATTTTACCCTTCGAGGGTATTT
Found at i:45423104 original size:81 final size:82
Alignment explanation
Indices: 45422973--45423337 Score: 377
Period size: 81 Copynumber: 4.5 Consensus size: 82
45422963 AGAGGTATAA
* * * * * * *
45422973 CAGTCATTTTACCCTTCGGGGGTATTCCGGTACTTTTACCCTTTGGGGGTATTTCTG-TAATTTT
1 CAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCTGATAATTTT
45423037 A-CCTTTCGAGGGTATTT
66 ACCCTTT-GAGGGTATTT
* * *
45423054 TAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCAAGGGTATTTCAG-TAATTTT
1 CAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCTGATAATTTT
* *
45423118 ACCCTTTGAAGG-CTTT
66 ACCCTTTGAGGGTATTT
* * *
45423134 CAGTAATTTTAACCTTTCAAGGGTATTTCGATAATTTTATCCTTCGAGGGTATTT-TGATAATTT
1 CAGTAATTTT-ACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCTGATAATTT
* * *
45423198 TATCCTTCGAGGGTTTTT
65 TACCCTTTGAGGGTATTT
* * * * * * *
45423216 CGGTGATTTTACCCTTCTAGGGTATTTCGATCACTTTACCCATCGAGGGTATTTC-GATCATTTT
1 CAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCTGATAATTTT
* *
45423280 ACCCATTAAGGGTATTT
66 ACCCTTTGAGGGTATTT
* *
45423297 CAGTCATTTTACCCATT-GAGGGTATTTCTG-TCATTTTACCC
1 CAGTAATTTTACCC-TTCGAGGGTATTTC-GATAATTTTACCC
45423338 ATCCTTGGGT
Statistics
Matches: 237, Mismatches: 40, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
80 13 0.05
81 205 0.86
82 19 0.08
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.43
Consensus pattern (82 bp):
CAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCTGATAATTTT
ACCCTTTGAGGGTATTT
Found at i:45439913 original size:20 final size:19
Alignment explanation
Indices: 45439882--45439973 Score: 67
Period size: 20 Copynumber: 4.7 Consensus size: 19
45439872 GAGTTACTCG
*
45439882 AGTATAAACAGGGGCACAAA
1 AGTACAAACAGGGGCAC-AA
* * **
45439902 AGTACAATCAGGGGTACCGG
1 AGTACAAACAGGGGCA-CAA
**
45439922 AGTACAAACAGGGGCATGTA
1 AGTACAAACAGGGGCA-CAA
* * *
45439942 AGTGCAATCAGGGGTACAA
1 AGTACAAACAGGGGCACAA
45439961 AGTACAAACAGGG
1 AGTACAAACAGGG
45439974 CCATGTAACT
Statistics
Matches: 53, Mismatches: 18, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
19 12 0.23
20 40 0.75
21 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.30, T:0.13
Consensus pattern (19 bp):
AGTACAAACAGGGGCACAA
Found at i:45439936 original size:40 final size:40
Alignment explanation
Indices: 45439882--45440070 Score: 202
Period size: 40 Copynumber: 4.8 Consensus size: 40
45439872 GAGTTACTCG
* * * **
45439882 AGTATAAACAGGGGCACAAAAGTACAATCAGGGGTACCGG
1 AGTACAAACAGGGGCACGAAAGTGCAATCAGGGGTACCAA
* *
45439922 AGTACAAACAGGGGCATGTAAGTGCAATCAGGGGTA-CAA
1 AGTACAAACAGGGGCACGAAAGTGCAATCAGGGGTACCAA
* * * * * * *
45439961 AGTACAAACAGGGCCATGTAACTGTAATCAAGGGTACCGA
1 AGTACAAACAGGGGCACGAAAGTGCAATCAGGGGTACCAA
*
45440001 AGTACAAACAGGGGCACGTAAA-TGCAATCAGGAGTACCAA
1 AGTACAAACAGGGGCACG-AAAGTGCAATCAGGGGTACCAA
* *
45440041 AGTACAAACAAGGGCACGCAAGTGCAATCA
1 AGTACAAACAGGGGCACGAAAGTGCAATCA
45440071 TTTAAAAATT
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 35 0.28
40 88 0.70
41 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGAAAGTGCAATCAGGGGTACCAA
Found at i:45440027 original size:79 final size:81
Alignment explanation
Indices: 45439907--45440055 Score: 239
Period size: 79 Copynumber: 1.9 Consensus size: 81
45439897 ACAAAAGTAC
* * * * *
45439907 AATCAGGGGTACCGGAGTACAAACAGGGGCATGTAAGTGCAATCAGGGGTA-CAAAGTACAAAC-
1 AATCAAGGGTACCGAAGTACAAACAGGGGCACGTAAATGCAATCAGGAGTACCAAAGTACAAACA
45439970 AGGGCCATGTAACTGT
66 AGGGCCATGTAACTGT
45439986 AATCAAGGGTACCGAAGTACAAACAGGGGCACGTAAATGCAATCAGGAGTACCAAAGTACAAACA
1 AATCAAGGGTACCGAAGTACAAACAGGGGCACGTAAATGCAATCAGGAGTACCAAAGTACAAACA
45440051 AGGGC
66 AGGGC
45440056 ACGCAAGTGC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
79 46 0.73
80 12 0.19
81 5 0.08
ACGTcount: A:0.39, C:0.19, G:0.28, T:0.14
Consensus pattern (81 bp):
AATCAAGGGTACCGAAGTACAAACAGGGGCACGTAAATGCAATCAGGAGTACCAAAGTACAAACA
AGGGCCATGTAACTGT
Found at i:45444338 original size:19 final size:19
Alignment explanation
Indices: 45444311--45444347 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
45444301 TTATTCCAGC
*
45444311 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
45444330 AACTCAATTAACTAAGAT
1 AACTCAATTAACTAAGAT
45444348 AAGTAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:45446143 original size:18 final size:18
Alignment explanation
Indices: 45446116--45446168 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
45446106 TCTCTAACTC
*
45446116 TCACTCTCTTTTTCTTTT
1 TCACTTTCTTTTTCTTTT
45446134 TCACTTTCTTTTTCTTTT
1 TCACTTTCTTTTTCTTTT
* *
45446152 TCAATTGCTTTTTCTTT
1 TCACTTTCTTTTTCTTT
45446169 ATTTTCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.08, C:0.23, G:0.02, T:0.68
Consensus pattern (18 bp):
TCACTTTCTTTTTCTTTT
Found at i:45446165 original size:36 final size:36
Alignment explanation
Indices: 45446123--45446202 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
45446113 CTCTCACTCT
*
45446123 CTTTTTCTTT-TTCAC-TTTCTTTTTCTTTTTCAATTG
1 CTTTTTCTTTATTCACTTTTC-TTTT-TTTCTCAATTG
** *
45446159 CTTTTTCTTTATTTTCTTTTCTTTTTTTCTCAATTT
1 CTTTTTCTTTATTCACTTTTCTTTTTTTCTCAATTG
45446195 CTTTTTCT
1 CTTTTTCT
45446203 CGCTTCTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 27 0.71
37 7 0.18
38 4 0.11
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.72
Consensus pattern (36 bp):
CTTTTTCTTTATTCACTTTTCTTTTTTTCTCAATTG
Found at i:45446202 original size:6 final size:6
Alignment explanation
Indices: 45446122--45446184 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
45446112 ACTCTCACTC
** ** *
45446122 TCTTTT TCTTTT TCACTT TCTTTT TCTTTT TCAATT GCTTTT TCTTTAT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTT-T
*
45446171 TTTCTTT TCTTTT T
1 TCT-TTT TCTTTT T
45446185 TTCTCAATTT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
6 35 0.81
7 6 0.14
8 2 0.05
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (6 bp):
TCTTTT
Found at i:45447963 original size:24 final size:23
Alignment explanation
Indices: 45447936--45448001 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 23
45447926 AATTTAAAGG
45447936 ATGTATAATGCTTTCCTTTAAATA
1 ATGTATAATGC-TTCCTTTAAATA
* * *
45447960 ATGTA-ACA-AC-TCCTTTGAATG
1 ATGTATA-ATGCTTCCTTTAAATA
45447981 ATGTATAATGCTCTCCTTTAA
1 ATGTATAATGCT-TCCTTTAA
45448002 TTGATGTAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
21 15 0.47
22 2 0.06
23 2 0.06
24 13 0.41
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.41
Consensus pattern (23 bp):
ATGTATAATGCTTCCTTTAAATA
Found at i:45448175 original size:74 final size:75
Alignment explanation
Indices: 45448089--45448237 Score: 219
Period size: 74 Copynumber: 2.0 Consensus size: 75
45448079 TAACTTACTC
* * * *
45448089 CAACTACATAGTCACCTGTAAATATTTATTAACAAACACATTAAAACACATTTAA-ACATACTAA
1 CAACTAAATAGTCACCTGCAAACATTTATTAACAAACACATTAAAACACATTAAACACATACTAA
45448153 ACTTAATAAG
66 ACTTAATAAG
* * * *
45448163 CAACTAAATAGTCACCTGCAAGCATTTATTCACAAACACATTAAAACACATTAAACACATATTAG
1 CAACTAAATAGTCACCTGCAAACATTTATTAACAAACACATTAAAACACATTAAACACATACTAA
45448228 ACTTAATAAG
66 ACTTAATAAG
45448238 TTTAATTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
74 49 0.74
75 17 0.26
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (75 bp):
CAACTAAATAGTCACCTGCAAACATTTATTAACAAACACATTAAAACACATTAAACACATACTAA
ACTTAATAAG
Found at i:45448377 original size:54 final size:54
Alignment explanation
Indices: 45448314--45448439 Score: 225
Period size: 54 Copynumber: 2.3 Consensus size: 54
45448304 CAACAATAAA
* *
45448314 TTATTCCAGCAACTAAATTAACTAAGATGAATTTAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
*
45448368 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
45448422 TTATTCCAGCAACTAAAT
1 TTATTCCAGCAACTAAAT
45448440 ACTTATTCCA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:45448405 original size:19 final size:19
Alignment explanation
Indices: 45448378--45448416 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
45448368 TTATTCCAGC
*
45448378 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
45448397 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
45448416 A
1 A
45448417 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:45465602 original size:11 final size:11
Alignment explanation
Indices: 45465586--45465610 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45465576 CCAAGGTAAG
45465586 CTCAATAGATA
1 CTCAATAGATA
45465597 CTCAATAGATA
1 CTCAATAGATA
45465608 CTC
1 CTC
45465611 TCTTGTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (11 bp):
CTCAATAGATA
Found at i:45473477 original size:13 final size:12
Alignment explanation
Indices: 45473459--45473500 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
45473449 GTCCGGCATA
45473459 AAAAATAATATTT
1 AAAAATAATA-TT
45473472 AAAAATAATATT
1 AAAAATAATATT
45473484 AAAATTATAATA-T
1 AAAA--ATAATATT
45473497 AAAA
1 AAAA
45473501 TAAATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.22
13 15 0.56
14 6 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAAATAATATT
Found at i:45476783 original size:52 final size:50
Alignment explanation
Indices: 45476712--45476814 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 50
45476702 GTGTTCTGCA
* *
45476712 TTTAATAAAGTCATGCATTATGTAACTCTCA-TGTTAATTATAGTTTGCATCT
1 TTTAATAAAGTCATGCATTAAGTAA-T-TCATTGTTAATT-TAGTTTCCATCT
* *
45476764 TTTAATGAAGTCATGCATTAAGTAATTCATTGTTCATTTAGTTTCCATCT
1 TTTAATAAAGTCATGCATTAAGTAATTCATTGTTAATTTAGTTTCCATCT
45476814 T
1 T
45476815 AATTAAAACC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
50 15 0.33
51 8 0.17
52 23 0.50
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.46
Consensus pattern (50 bp):
TTTAATAAAGTCATGCATTAAGTAATTCATTGTTAATTTAGTTTCCATCT
Found at i:45477722 original size:58 final size:58
Alignment explanation
Indices: 45477652--45477762 Score: 222
Period size: 58 Copynumber: 1.9 Consensus size: 58
45477642 AAGTGTGGCG
45477652 TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTATTGAT
1 TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTATTGAT
45477710 TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTA
1 TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTA
45477763 CTAATTTCAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (58 bp):
TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTATTGAT
Found at i:45481012 original size:20 final size:20
Alignment explanation
Indices: 45480987--45481024 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45480977 TAACTAATAG
* *
45480987 TTAAAATTTTTTTAATGTCC
1 TTAAAAATTATTTAATGTCC
45481007 TTAAAAATTATTTAATGT
1 TTAAAAATTATTTAATGT
45481025 AGTAGCGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
TTAAAAATTATTTAATGTCC
Found at i:45481504 original size:25 final size:25
Alignment explanation
Indices: 45481476--45481527 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
45481466 AATGAAATCC
45481476 ACATTGACCATAATTTATTAATCTA
1 ACATTGACCATAATTTATTAATCTA
45481501 ACATTGACCATAATTTATTAATCTA
1 ACATTGACCATAATTTATTAATCTA
45481526 AC
1 AC
45481528 CCTAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.38
Consensus pattern (25 bp):
ACATTGACCATAATTTATTAATCTA
Found at i:45481926 original size:19 final size:21
Alignment explanation
Indices: 45481891--45481939 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
45481881 ATATAATATT
**
45481891 AAAAACAAATATATGTAACTA
1 AAAAACAAATATATGTAAAAA
45481912 AAAAACAAAT-T-TGTAAAAA
1 AAAAACAAATATATGTAAAAA
45481931 AAAAACAAA
1 AAAAACAAA
45481940 CAGAATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 15 0.58
20 1 0.04
21 10 0.38
ACGTcount: A:0.69, C:0.08, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAAACAAATATATGTAAAAA
Found at i:45482230 original size:18 final size:19
Alignment explanation
Indices: 45482191--45482230 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
45482181 CCAGTTTTGT
* *
45482191 AATATGTATATTATATTAA
1 AATATGTATATAATAATAA
45482210 AATATGTATA-AATAATAA
1 AATATGTATATAATAATAA
45482228 AAT
1 AAT
45482231 TTATAGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
AATATGTATATAATAATAA
Found at i:45495744 original size:22 final size:23
Alignment explanation
Indices: 45495716--45495771 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
45495706 TAGTAGTTTC
45495716 TTCAAAAAAAATTC-AAAAAAAA
1 TTCAAAAAAAATTCAAAAAAAAA
45495738 TTCAAAAAAAATTCAAAAAAAAA
1 TTCAAAAAAAATTCAAAAAAAAA
45495761 TTCAAAAAAAA
1 TTCAAAAAAAA
45495772 AATTTGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (23 bp):
TTCAAAAAAAATTCAAAAAAAAA
Found at i:45495772 original size:12 final size:11
Alignment explanation
Indices: 45495716--45495771 Score: 103
Period size: 11 Copynumber: 5.0 Consensus size: 11
45495706 TAGTAGTTTC
45495716 TTCAAAAAAAA
1 TTCAAAAAAAA
45495727 TTCAAAAAAAA
1 TTCAAAAAAAA
45495738 TTCAAAAAAAA
1 TTCAAAAAAAA
45495749 TTCAAAAAAAAA
1 TTC-AAAAAAAA
45495761 TTCAAAAAAAA
1 TTCAAAAAAAA
45495772 AATTTGGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
11 33 0.75
12 11 0.25
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:45495834 original size:16 final size:16
Alignment explanation
Indices: 45495813--45495871 Score: 100
Period size: 16 Copynumber: 3.6 Consensus size: 16
45495803 GATATCAAGT
45495813 TGAAAAAAAAAATTCG
1 TGAAAAAAAAAATTCG
45495829 TGAAAAAAAAAATTCG
1 TGAAAAAAAAAATTCG
45495845 TGAAAAAAAAAATTTTCG
1 TGAAAAAAAAAA--TTCG
45495863 TGAAAAAAA
1 TGAAAAAAA
45495872 GAAGAAGCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 28 0.68
18 13 0.32
ACGTcount: A:0.63, C:0.05, G:0.12, T:0.20
Consensus pattern (16 bp):
TGAAAAAAAAAATTCG
Found at i:45495838 original size:18 final size:18
Alignment explanation
Indices: 45495815--45495871 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
45495805 TATCAAGTTG
45495815 AAAAAAAAAATTCGTG--
1 AAAAAAAAAATTCGTGAA
45495831 AAAAAAAAAATTCGTGAA
1 AAAAAAAAAATTCGTGAA
**
45495849 AAAAAAAATTTTCGTGAA
1 AAAAAAAAAATTCGTGAA
45495867 AAAAA
1 AAAAA
45495872 GAAGAAGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 16 0.43
18 21 0.57
ACGTcount: A:0.65, C:0.05, G:0.11, T:0.19
Consensus pattern (18 bp):
AAAAAAAAAATTCGTGAA
Found at i:45509349 original size:32 final size:32
Alignment explanation
Indices: 45509326--45509407 Score: 146
Period size: 32 Copynumber: 2.6 Consensus size: 32
45509316 TAGAATAAAT
45509326 ACATAAAAATGTATATAAGTTATACTAAATTA
1 ACATAAAAATGTATATAAGTTATACTAAATTA
*
45509358 ACATAAAAGTGTATATAAGTTATACTAAATTA
1 ACATAAAAATGTATATAAGTTATACTAAATTA
*
45509390 ACATAAAAATATATATAA
1 ACATAAAAATGTATATAA
45509408 TAATACATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (32 bp):
ACATAAAAATGTATATAAGTTATACTAAATTA
Found at i:45516028 original size:23 final size:22
Alignment explanation
Indices: 45515991--45516033 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
45515981 TAATCTATTA
*
45515991 ATAATTAATTATTTTAAATTTT
1 ATAATAAATTATTTTAAATTTT
45516013 ATAATAAATATATTTTAAATT
1 ATAATAAAT-TATTTTAAATT
45516034 AATCTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATAATAAATTATTTTAAATTTT
Found at i:45522513 original size:7 final size:7
Alignment explanation
Indices: 45522501--45522542 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
45522491 AGACTGCAGG
45522501 GTGCTCA
1 GTGCTCA
45522508 GTGCTCA
1 GTGCTCA
45522515 GTGCTCA
1 GTGCTCA
45522522 GTGCTCA
1 GTGCTCA
45522529 GTGCTCA
1 GTGCTCA
45522536 GTGCTCA
1 GTGCTCA
45522543 CGGCTTGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (7 bp):
GTGCTCA
Found at i:45536540 original size:30 final size:30
Alignment explanation
Indices: 45536505--45536570 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
45536495 TCGTATCACT
45536505 TTTTCATTAATCAATGGTCATCACCATCCC
1 TTTTCATTAATCAATGGTCATCACCATCCC
* ** *
45536535 TTTTCA-TAGTTGATGGTCATCACCGTCCC
1 TTTTCATTAATCAATGGTCATCACCATCCC
45536564 TTTTCAT
1 TTTTCAT
45536571 AGTCAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.21, C:0.27, G:0.11, T:0.41
Consensus pattern (30 bp):
TTTTCATTAATCAATGGTCATCACCATCCC
Found at i:45536553 original size:29 final size:29
Alignment explanation
Indices: 45536518--45536659 Score: 128
Period size: 29 Copynumber: 4.9 Consensus size: 29
45536508 TCATTAATCA
45536518 ATGGTCATCACCATCCCTTTTCATAGTTG
1 ATGGTCATCACCATCCCTTTTCATAGTTG
* **
45536547 ATGGTCATCACCGTCCCTTTTCATAGTCA
1 ATGGTCATCACCATCCCTTTTCATAGTTG
** * * * **
45536576 ATAATTGA-AACTATCCCTTTAAATA-TTCG
1 AT-GGTCATCACCATCCCTTTTCATAGTT-G
**
45536605 ATGGTCATCA-CATCATTTTTCATAGTTG
1 ATGGTCATCACCATCCCTTTTCATAGTTG
*
45536633 ATGGCCATCACCATCCCTTTTCATAGT
1 ATGGTCATCACCATCCCTTTTCATAGT
45536660 CGATAGTTGA
Statistics
Matches: 83, Mismatches: 25, Indels: 10
0.70 0.21 0.08
Matches are distributed among these distances:
28 22 0.27
29 59 0.71
30 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (29 bp):
ATGGTCATCACCATCCCTTTTCATAGTTG
Found at i:45536670 original size:86 final size:87
Alignment explanation
Indices: 45536518--45536681 Score: 267
Period size: 86 Copynumber: 1.9 Consensus size: 87
45536508 TCATTAATCA
* * *
45536518 ATGGTCATCACCATCCCTTTTCATAGTTGATGGTCATCACCGTCCCTTTTCATAGTCAATAATTG
1 ATGGTCATCACCATCACTTTTCATAGTTGATGGCCATCACCATCCCTTTTCATAGTCAATAATTG
45536583 AAACTATCCCTTTAAATATTCG
66 AAACTATCCCTTTAAATATTCG
* * *
45536605 ATGGTCATCA-CATCATTTTTCATAGTTGATGGCCATCACCATCCCTTTTCATAGTCGATAGTTG
1 ATGGTCATCACCATCACTTTTCATAGTTGATGGCCATCACCATCCCTTTTCATAGTCAATAATTG
45536669 AAACTATCCCTTT
66 AAACTATCCCTTT
45536682 TCTTTAATTG
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 61 0.86
87 10 0.14
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (87 bp):
ATGGTCATCACCATCACTTTTCATAGTTGATGGCCATCACCATCCCTTTTCATAGTCAATAATTG
AAACTATCCCTTTAAATATTCG
Found at i:45538537 original size:25 final size:25
Alignment explanation
Indices: 45538508--45538562 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
45538498 AGCTCGTCAA
* *
45538508 AGCATACTAATTTGTAGCTCATGAG
1 AGCATACCAATTTATAGCTCATGAG
* **
45538533 TGCATACCGTTTTATAGCTCATGAG
1 AGCATACCAATTTATAGCTCATGAG
45538558 AGCAT
1 AGCAT
45538563 TTTGATTTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (25 bp):
AGCATACCAATTTATAGCTCATGAG
Done.