Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 146 of 199
Found at i:48472702 original size:41 final size:41
Alignment explanation
Indices: 48472640--48472806 Score: 135
Period size: 41 Copynumber: 4.1 Consensus size: 41
48472630 CTTTCGGGGA
* *
48472640 TTTAGTGGCGTTTTTGAGAAAGCGTA-GTTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCG-ACGCTAATGCTCAGGGC
*
48472681 TTTAGCGGCGTTTTTGGGAAAGCGACGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGACGCTAATGCTCAGGGC
* ** * * * * **
48472722 TTTAGCAGTATTTTTGATAAAACGCCGCGAATGCTCTA--TT
1 TTTAGCGGCGTTTTTGAGAAAGCGACGCTAATGCTC-AGGGC
* * * *
48472762 TTTAACGGCGTTTTCT-AAAAAGCGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGTTTT-TGAGAAAGCGACGCTAATGCTCAGGGC
48472803 TTTA
1 TTTA
48472807 AAATAATTTA
Statistics
Matches: 99, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
39 1 0.01
40 28 0.28
41 69 0.70
42 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGACGCTAATGCTCAGGGC
Found at i:48473012 original size:7 final size:7
Alignment explanation
Indices: 48472981--48473056 Score: 82
Period size: 7 Copynumber: 10.7 Consensus size: 7
48472971 TATCACTATA
*
48472981 GTTTAGG
1 GTTTATG
*
48472988 GTATATG
1 GTTTATG
48472995 GTTTA-G
1 GTTTATG
48473001 AGTTTATG
1 -GTTTATG
48473009 GTTTATG
1 GTTTATG
*
48473016 GATTATGG
1 GTTTAT-G
*
48473024 GTTTAGG
1 GTTTATG
*
48473031 GGTTATG
1 GTTTATG
48473038 GTTTATG
1 GTTTATG
48473045 GTTTATG
1 GTTTATG
48473052 GTTTA
1 GTTTA
48473057 AAGGCTGGAG
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
6 1 0.02
7 50 0.88
8 6 0.11
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (7 bp):
GTTTATG
Found at i:48473036 original size:29 final size:28
Alignment explanation
Indices: 48472991--48473056 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
48472981 GTTTAGGGTA
*
48472991 TATGGTTTAGAGTTTATGGTTTATGGAT
1 TATGGTTTAGAGGTTATGGTTTATGGAT
* *
48473019 TATGGGTTTAGGGGTTATGGTTTATGGTT
1 TAT-GGTTTAGAGGTTATGGTTTATGGAT
48473048 TATGGTTTA
1 TATGGTTTA
48473057 AAGGCTGGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 9 0.26
29 25 0.74
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (28 bp):
TATGGTTTAGAGGTTATGGTTTATGGAT
Found at i:48473119 original size:21 final size:20
Alignment explanation
Indices: 48473095--48473134 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
48473085 TGTGTTAAGG
*
48473095 GTTTATGGTTTTAGGGTTTAA
1 GTTTATGG-TTTAGAGTTTAA
48473116 GTTTATGGTTTAGAGTTTA
1 GTTTATGGTTTAGAGTTTA
48473135 GATTAACTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (20 bp):
GTTTATGGTTTAGAGTTTAA
Found at i:48473120 original size:64 final size:64
Alignment explanation
Indices: 48473000--48473120 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 64
48472990 ATATGGTTTA
* * * *
48473000 GAGTTTATGGTTTATGGATTATGGGTTTAGGGGTTATGGTTTATGGTTTATGGTTTAAAGGCTG
1 GAGTTTAAGGTTTATGGATTATGGGTTAAGGGGTTATGGTTTAGGGTTTATAGTTTAAAGGCTG
* * *
48473064 GAGTTTAAGGTTTA-GAGGTTATGTGTTAAGGGTTTATGGTTTTAGGGTTTA-AGTTTA
1 GAGTTTAAGGTTTATG-GATTATGGGTTAAGGGGTTATGG-TTTAGGGTTTATAGTTTA
48473121 TGGTTTAGAG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
63 1 0.02
64 37 0.77
65 10 0.21
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.45
Consensus pattern (64 bp):
GAGTTTAAGGTTTATGGATTATGGGTTAAGGGGTTATGGTTTAGGGTTTATAGTTTAAAGGCTG
Found at i:48473413 original size:21 final size:21
Alignment explanation
Indices: 48473379--48473458 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
48473369 TATGGATTTA
*
48473379 GGGA-TTATGGTTTAAGGGTT
1 GGGATTTAGGGTTTAAGGGTT
*
48473399 GGGATTTAAGGTTTAAGGGTT
1 GGGATTTAGGGTTTAAGGGTT
* * * *
48473420 AGGAGTTAGGGGTTAAGAGTT
1 GGGATTTAGGGTTTAAGGGTT
48473441 AGGGATTTAGGGTTTAAG
1 -GGGATTTAGGGTTTAAG
48473459 ATTTAGGAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 4 0.08
21 31 0.63
22 14 0.29
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (21 bp):
GGGATTTAGGGTTTAAGGGTT
Found at i:48473434 original size:14 final size:14
Alignment explanation
Indices: 48473415--48473444 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48473405 TAAGGTTTAA
*
48473415 GGGTTAGGAGTTAG
1 GGGTTAAGAGTTAG
48473429 GGGTTAAGAGTTAG
1 GGGTTAAGAGTTAG
48473443 GG
1 GG
48473445 ATTTAGGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.50, T:0.27
Consensus pattern (14 bp):
GGGTTAAGAGTTAG
Found at i:48477536 original size:27 final size:26
Alignment explanation
Indices: 48477506--48477562 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
48477496 AATTTCGAGG
*
48477506 TTTACAATTTT-TAATTTTTATTAATT
1 TTTAC-ATTTTCTAACTTTTATTAATT
* *
48477532 ATTTACGTTTTCTCACTTTTATTAATT
1 -TTTACATTTTCTAACTTTTATTAATT
48477559 TTTA
1 TTTA
48477563 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTACATTTTCTAACTTTTATTAATT
Found at i:48477722 original size:20 final size:20
Alignment explanation
Indices: 48477686--48477730 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
48477676 AATAAAACAT
48477686 AATATAATATTTATCATAAA
1 AATATAATATTTATCATAAA
* *
48477706 AATA-AATATTATTTCATTAA
1 AATATAATATT-TATCATAAA
48477726 AATAT
1 AATAT
48477731 TTTTTTGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATAATATTTATCATAAA
Found at i:48477825 original size:43 final size:43
Alignment explanation
Indices: 48477778--48477956 Score: 218
Period size: 43 Copynumber: 4.2 Consensus size: 43
48477768 GAAGCGTCAT
* * * *
48477778 TAAAGGTT-TGTTCTATAGCGGCATTTGTGATAAAAAGCGCTGC
1 TAAAGGTTGTGGTCTTTAGCGGCGTTTGTGA-AAAAAGCGCCGC
** * *
48477821 TAAAGGTTGTGGTCTTTAGCGGCGTTTGCCACAAAAGCGCCAC
1 TAAAGGTTGTGGTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGC
* *
48477864 TAAAGGTCGTGGTCTTTAGCAGCGTTTGT-AACAAAAGCGCCGC
1 TAAAGGTTGTGGTCTTTAGCGGCGTTTGTGAA-AAAAGCGCCGC
**
48477907 TAAAGGTTGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTTGTGGTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGC
48477950 TAAAGGT
1 TAAAGGT
48477957 CATGACTTTT
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 98 0.84
44 17 0.15
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
TAAAGGTTGTGGTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGC
Found at i:48477968 original size:43 final size:43
Alignment explanation
Indices: 48477793--48477976 Score: 210
Period size: 43 Copynumber: 4.3 Consensus size: 43
48477783 GTTTGTTCTA
* * *
48477793 TAGCGGCATTTGTGATA-AAAAGCGCTGCTAAAGGTTGTGGTCTT
1 TAGCGGCGTTTGT-A-ACAAAAGCGCCGCTAAAGGTCGTGGTCTT
** *
48477837 TAGCGGCGTTTGCCACAAAAGCGCCACTAAAGGTCGTGGTCTT
1 TAGCGGCGTTTGTAACAAAAGCGCCGCTAAAGGTCGTGGTCTT
* *
48477880 TAGCAGCGTTTGTAACAAAAGCGCCGCTAAAGGTTGTGGTCTT
1 TAGCGGCGTTTGTAACAAAAGCGCCGCTAAAGGTCGTGGTCTT
*** * *
48477923 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAT-GACTTT
1 TAGCGGCGTTTGTAACAAAAGCGCCGCTAAAGGTCGTGGTC-TT
48477966 TAGCGGCGTTT
1 TAGCGGCGTTT
48477977 ATTTCTAAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 3 0.03
43 106 0.88
44 11 0.09
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTAACAAAAGCGCCGCTAAAGGTCGTGGTCTT
Found at i:48477968 original size:86 final size:86
Alignment explanation
Indices: 48477810--48477976 Score: 237
Period size: 86 Copynumber: 1.9 Consensus size: 86
48477800 ATTTGTGATA
* *
48477810 AAAAGCGCTGCTAAAGGTTGTGGTCTTTAGCGGCGTTTGCCACAAAAGCGCCACTAAAGGTCGTG
1 AAAAGCGCCGCTAAAGGTTGTGGTCTTTAGCGGCGTTTGCCACAAAAGCGCCACTAAAGGTCATG
*
48477875 GTCTTTAGCAGCGTTTGTAAC
66 CTCTTTAGCAGCGTTTGTAAC
**** *
48477896 AAAAGCGCCGCTAAAGGTTGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
1 AAAAGCGCCGCTAAAGGTTGTGGTCTTTAGCGGCGTTTGCCACAAAAGCGCCACTAAAGGTCATG
*
48477961 ACT-TTTAGCGGCGTTT
66 -CTCTTTAGCAGCGTTT
48477977 ATTTCTAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 70 0.99
87 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAGGTTGTGGTCTTTAGCGGCGTTTGCCACAAAAGCGCCACTAAAGGTCATG
CTCTTTAGCAGCGTTTGTAAC
Found at i:48490381 original size:40 final size:40
Alignment explanation
Indices: 48490325--48490433 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
48490315 TACTTTGGTA
* * *
48490325 CCTTGAATTGCACATACGTGCCCCTGTTTGTGCTTCGATAC
1 CCTTGAA-TGCACATACGTGCCCCTATTTGTACTCCGATAC
*
48490366 CCTTGAATGCACATACGTGCCCCTATTTGTACTCCGGTAC
1 CCTTGAATGCACATACGTGCCCCTATTTGTACTCCGATAC
* * *
48490406 CCCTAAATGCACACACGTGCCCCTATTT
1 CCTTGAATGCACATACGTGCCCCTATTT
48490434 TTATTTTGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
40 54 0.89
41 7 0.11
ACGTcount: A:0.20, C:0.33, G:0.17, T:0.30
Consensus pattern (40 bp):
CCTTGAATGCACATACGTGCCCCTATTTGTACTCCGATAC
Found at i:48506892 original size:27 final size:27
Alignment explanation
Indices: 48506862--48506938 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 27
48506852 AACTATTATT
48506862 ATATT-ATATATTATAATAAAATATATA
1 ATATTAATATATTATAATAAAATATA-A
*
48506889 ATATTACATTATATTATAGCAT-ATATATAA
1 ATATTA-A-TATATTATA--ATAAAATATAA
48506919 ATGATTAATATATTATAATA
1 AT-ATTAATATATTATAATA
48506939 TACTACTTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
27 7 0.17
29 10 0.24
30 13 0.31
31 10 0.24
32 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (27 bp):
ATATTAATATATTATAATAAAATATAA
Found at i:48507077 original size:200 final size:197
Alignment explanation
Indices: 48506746--48507106 Score: 501
Period size: 197 Copynumber: 1.8 Consensus size: 197
48506736 ATGAGGCTTA
* * * *
48506746 ACTTTCAAATGCACAAAAAGTATAAGGACTTAATGTATATTTCAATTAGTATAATAATAAACAAT
1 ACTTTCAAATGCACAAAAAGTATAAGGACTTAAGGCACATTTCAAATAGTATAATAATAAACAAT
* * * * *
48506811 AATACATGATAATTAATATATAATGTACTATTATTCTATATAACTATTATTATATTATATATTAT
66 AATACATAATAAGTAATATATAATGTACTACTATTATATATAACTATTATTATATTATAGATTAT
* * *
48506876 AA-TAAAATATATAATATTACATTATATTATAGCATATATATAAATGATTAATATATTATAATAT
131 AATTAAAAAATATAATACTACATGAT-TTATAGCATATATATAAATGATTAATATATTATAATAT
48506940 ACT
195 ACT
* **
48506943 ACTTTCAAATGTACAAAAAGTAT-AGAGACTTGGGGCACATTTCAAATAGTATAATAATAAACAA
1 ACTTTCAAATGCACAAAAAGTATAAG-GACTTAAGGCACATTTCAAATAGTATAATAATAAACAA
* *
48507007 TAATATATAACAATAAGTACTATATAATGTACTACTATTATATATAACTATTATTATATTATAGA
65 TAATACAT---AATAAGTAATATATAATGTACTACTATTATATATAACTATTATTATATTATAGA
*
48507072 TTATAATTAAAAAATATATTACTACATGATTTATA
127 TTATAATTAAAAAATATAATACTACATGATTTATA
48507107 ATGTTCAATC
Statistics
Matches: 141, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
196 2 0.01
197 61 0.43
200 59 0.42
201 19 0.13
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (197 bp):
ACTTTCAAATGCACAAAAAGTATAAGGACTTAAGGCACATTTCAAATAGTATAATAATAAACAAT
AATACATAATAAGTAATATATAATGTACTACTATTATATATAACTATTATTATATTATAGATTAT
AATTAAAAAATATAATACTACATGATTTATAGCATATATATAAATGATTAATATATTATAATATA
CT
Found at i:48514508 original size:11 final size:11
Alignment explanation
Indices: 48514494--48514578 Score: 53
Period size: 11 Copynumber: 8.5 Consensus size: 11
48514484 TTTTTTAAAA
48514494 TTTAAAATATT
1 TTTAAAATATT
48514505 TTTAAAATACTT
1 TTTAAAATA-TT
** *
48514517 TTTTTATTATT
1 TTTAAAATATT
*
48514528 TTT----TAAT
1 TTTAAAATATT
48514535 TTTAAAATATT
1 TTTAAAATATT
48514546 TTT---A-A-T
1 TTTAAAATATT
48514552 TTTAAAATATT
1 TTTAAAATATT
*
48514563 TTTAAAATTTT
1 TTTAAAATATT
48514574 TTTAA
1 TTTAA
48514579 TTTTTAAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
6 4 0.07
7 7 0.12
8 1 0.02
9 1 0.02
10 1 0.02
11 36 0.62
12 8 0.14
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTAAAATATT
Found at i:48514582 original size:17 final size:17
Alignment explanation
Indices: 48514527--48514567 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
48514517 TTTTTATTAT
48514527 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
48514544 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
48514561 TTTTTAA
1 TTTTTAA
48514568 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTAATTTTAAAATA
Found at i:48515274 original size:138 final size:138
Alignment explanation
Indices: 48514995--48515473 Score: 426
Period size: 138 Copynumber: 3.5 Consensus size: 138
48514985 AATTATCATT
* ** * * * *
48514995 TGTAAAATCAAGGTTCACAAGCA-AAGAGCCGTGACCTCCAACATAGTTAGCGAGAGCAAAACTT
1 TGTAAAATCAAGGTTCGCAAG-AGAAGAGCCACGACCTCCAACACAGTTAGCGAGAACAAAGCTC
* *** * * * * * ** *
48515059 CCATCTATAAAATCAA-AGTTCGTTGGCAAAGAGCCACGATCTCCAACACAGTTAGTGAGAGTAA
65 CCAACTATAAAATCAAGA-TTCACAGGCGAAGAGCCGCGACCTCCAAAATAGTTAGCAAGAGCAA
* * *
48515123 AACTCTCAGC
129 AGCTCCCAAC
* * * * * ** * *
48515133 TGTAAAATCGATGTTCGCAGGTA-AAGCGCCTCGGTCTCCAATACAGTTAGCGAGAACAAAGTTC
1 TGTAAAATCAAGGTTCGCAAG-AGAAGAGCCACGACCTCCAACACAGTTAGCGAGAACAAAGCTC
* * *
48515197 CCAGCTATAAAATCGAGGTTCACAGGCGAAGAGCCGCGACCTCCAAAATAGTTAGCAAGAGCAAA
65 CCAACTATAAAATCAAGATTCACAGGCGAAGAGCCGCGACCTCCAAAATAGTTAGCAAGAGCAAA
48515262 GCTCCCAAC
130 GCTCCCAAC
* * *
48515271 TGTAAAATCAAGGTTCGTAAGAGAAGAGCCACGACCTCTAACACAGTTAGCGAGAGCAAAGCTCC
1 TGTAAAATCAAGGTTCGCAAGAGAAGAGCCACGACCTCCAACACAGTTAGCGAGAACAAAGCTCC
* * **
48515336 CAACTGTAAAATCAAGATTCACAGGCGAAGAGTCGCGACCTCCAATGTAGTTAGCGAA-AGCAAA
66 CAACTATAAAATCAAGATTCACAGGCGAAGAGCCGCGACCTCCAAAATAGTTAGC-AAGAGCAAA
*
48515400 GCTCCTAAC
130 GCTCCCAAC
* * * * * * * * * *
48515409 TGTAAAATCAAGGTTTGTAGGTGAAGAGTCGCGACCTCTAACACAATTAGCAAGAGCAAAGCTCC
1 TGTAAAATCAAGGTTCGCAAGAGAAGAGCCACGACCTCCAACACAGTTAGCGAGAACAAAGCTCC
48515474 TAGCTGTAAA
Statistics
Matches: 278, Mismatches: 60, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
137 1 0.00
138 275 0.99
139 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (138 bp):
TGTAAAATCAAGGTTCGCAAGAGAAGAGCCACGACCTCCAACACAGTTAGCGAGAACAAAGCTCC
CAACTATAAAATCAAGATTCACAGGCGAAGAGCCGCGACCTCCAAAATAGTTAGCAAGAGCAAAG
CTCCCAAC
Found at i:48515278 original size:33 final size:33
Alignment explanation
Indices: 48515241--48515347 Score: 83
Period size: 33 Copynumber: 3.2 Consensus size: 33
48515231 CGCGACCTCC
48515241 AAAATAGTTAGCAAGAGCAAAGCTCCCAACTGT
1 AAAATAGTTAGCAAGAGCAAAGCTCCCAACTGT
* * * * *
48515274 AAAATCAAGGTTCGTAAGAG-AAGAGC-CACGACCTCT
1 AAAAT--A-GTTAGCAAGAGCAA-AGCTC-CCAACTGT
* * *
48515310 AACACAGTTAGCGAGAGCAAAGCTCCCAACTGT
1 AAAATAGTTAGCAAGAGCAAAGCTCCCAACTGT
48515343 AAAAT
1 AAAAT
48515348 CAAGATTCAC
Statistics
Matches: 52, Mismatches: 15, Indels: 14
0.64 0.19 0.17
Matches are distributed among these distances:
33 24 0.46
34 4 0.08
35 4 0.08
36 20 0.38
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (33 bp):
AAAATAGTTAGCAAGAGCAAAGCTCCCAACTGT
Found at i:48515293 original size:36 final size:36
Alignment explanation
Indices: 48515247--48515351 Score: 94
Period size: 36 Copynumber: 3.0 Consensus size: 36
48515237 CTCCAAAATA
48515247 GTTAGCAAGAGCAAAGCTCCCAACTGTAAAATCAAG
1 GTTAGCAAGAGCAAAGCTCCCAACTGTAAAATCAAG
* * * * * *
48515283 GTTCGTAAGAG-AAGAGC-CACGACCTCTAACA-C-A-
1 GTTAGCAAGAGCAA-AGCTC-CCAACTGTAAAATCAAG
*
48515316 GTTAGCGAGAGCAAAGCTCCCAACTGTAAAATCAAG
1 GTTAGCAAGAGCAAAGCTCCCAACTGTAAAATCAAG
48515352 ATTCACAGGC
Statistics
Matches: 49, Mismatches: 13, Indels: 14
0.64 0.17 0.18
Matches are distributed among these distances:
33 19 0.39
34 5 0.10
35 5 0.10
36 20 0.41
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (36 bp):
GTTAGCAAGAGCAAAGCTCCCAACTGTAAAATCAAG
Found at i:48515381 original size:207 final size:207
Alignment explanation
Indices: 48514997--48515494 Score: 525
Period size: 207 Copynumber: 2.4 Consensus size: 207
48514987 TTATCATTTG
* * * * * *
48514997 TAAAATCAAGGTTCACAAGCAAAGAGCCGTGACCTCCAACATAGTTAGCGAGAGCAAAACTTCCA
1 TAAAATCAAGGTTCACAGGCGAAGAGCCGCGACCTCCAACATAGTTAGCAAGAGCAAAGCTCCCA
* * * ** * * *
48515062 TCTATAAAATCAAAGTTCGTTGGCAAAGAGCCACGATCTCCAACACAGTTAGTGAGAGTAAAACT
66 ACTGTAAAATCAAGGTTCGTAAGCAAAGAGCCACGACCTCCAACACAGTTAGCGAGAGCAAAACT
* * * * * * * **
48515127 CTCAGCTGTAAAATCGATGTTCGCAGGTAAAGCGCCTCGGTCTCCAATACAGTTAGCGAGAA-CA
131 CCCAACTGTAAAATCGAAGTTCACAGGCAAAGAGCCGCGACCTCCAATACAGTTAGCGA-AAGCA
* *
48515191 AAGTTCCCAGCTA
195 AAGCTCCCAACTA
* *
48515204 TAAAATCGAGGTTCACAGGCGAAGAGCCGCGACCTCCAAAATAGTTAGCAAGAGCAAAGCTCCCA
1 TAAAATCAAGGTTCACAGGCGAAGAGCCGCGACCTCCAACATAGTTAGCAAGAGCAAAGCTCCCA
* *
48515269 ACTGTAAAATCAAGGTTCGTAAG-AGAAGAGCCACGACCTCTAACACAGTTAGCGAGAGCAAAGC
66 ACTGTAAAATCAAGGTTCGTAAGCA-AAGAGCCACGACCTCCAACACAGTTAGCGAGAGCAAAAC
* * **
48515333 TCCCAACTGTAAAATC-AAGATTCACAGGCGAAGAGTCGCGACCTCCAATGTAGTTAGCGAAAGC
130 TCCCAACTGTAAAATCGAAG-TTCACAGGCAAAGAGCCGCGACCTCCAATACAGTTAGCGAAAGC
* *
48515397 AAAGCTCCTAACTG
194 AAAGCTCCCAACTA
*** * * * * * *
48515411 TAAAATCAAGGTTTGTAGGTGAAGAGTCGCGACCTCTAACACAATTAGCAAGAGCAAAGCTCCTA
1 TAAAATCAAGGTTCACAGGCGAAGAGCCGCGACCTCCAACATAGTTAGCAAGAGCAAAGCTCCCA
* * *
48515476 GCTGTAAAACCAAGCTTCG
66 ACTGTAAAATCAAGGTTCG
48515495 CTTATAAAAA
Statistics
Matches: 239, Mismatches: 49, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
206 5 0.02
207 234 0.98
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (207 bp):
TAAAATCAAGGTTCACAGGCGAAGAGCCGCGACCTCCAACATAGTTAGCAAGAGCAAAGCTCCCA
ACTGTAAAATCAAGGTTCGTAAGCAAAGAGCCACGACCTCCAACACAGTTAGCGAGAGCAAAACT
CCCAACTGTAAAATCGAAGTTCACAGGCAAAGAGCCGCGACCTCCAATACAGTTAGCGAAAGCAA
AGCTCCCAACTA
Found at i:48515469 original size:69 final size:69
Alignment explanation
Indices: 48514995--48515494 Score: 387
Period size: 69 Copynumber: 7.2 Consensus size: 69
48514985 AATTATCATT
** * * * * * *
48514995 TGTAAAATCAAGGTTCACAAGCA-AAGAGCCGTGACCTCCAACATAGTTAGCGAGAGCAAAACTT
1 TGTAAAATCAAGGTTC-GTAGGAGAAGAGCCGCGACCTCCAACACAGTTAGCAAGAGCAAAGCTC
*
48515059 CCATC
65 CCAAC
* * * * * ** * *
48515064 TATAAAATCAAAGTTCGTTGGCA-AAGAGCCACGATCTCCAACACAGTTAGTGAGAGTAAAACTC
1 TGTAAAATCAAGGTTCGTAGG-AGAAGAGCCGCGACCTCCAACACAGTTAGCAAGAGCAAAGCTC
* *
48515128 TCAGC
65 CCAAC
* * * * * ** * * * *
48515133 TGTAAAATCGATGTTCGCAGGTA-AAGCGCCTCGGTCTCCAATACAGTTAGCGAGAACAAAGTTC
1 TGTAAAATCAAGGTTCGTAGG-AGAAGAGCCGCGACCTCCAACACAGTTAGCAAGAGCAAAGCTC
*
48515197 CCAGC
65 CCAAC
* * ** * * *
48515202 TATAAAATCGAGGTTCACAGGCGAAGAGCCGCGACCTCCAAAATAGTTAGCAAGAGCAAAGCTCC
1 TGTAAAATCAAGGTTCGTAGGAGAAGAGCCGCGACCTCCAACACAGTTAGCAAGAGCAAAGCTCC
48515267 CAAC
66 CAAC
* * * *
48515271 TGTAAAATCAAGGTTCGTAAGAGAAGAGCCACGACCTCTAACACAGTTAGCGAGAGCAAAGCTCC
1 TGTAAAATCAAGGTTCGTAGGAGAAGAGCCGCGACCTCCAACACAGTTAGCAAGAGCAAAGCTCC
48515336 CAAC
66 CAAC
* ** * * ***
48515340 TGTAAAATCAAGATTCACAGGCGAAGAGTCGCGACCTCCAATGTAGTTAGCGAA-AGCAAAGCTC
1 TGTAAAATCAAGGTTCGTAGGAGAAGAGCCGCGACCTCCAACACAGTTAGC-AAGAGCAAAGCTC
*
48515404 CTAAC
65 CCAAC
* * * * *
48515409 TGTAAAATCAAGGTTTGTAGGTGAAGAGTCGCGACCTCTAACACAATTAGCAAGAGCAAAGCTCC
1 TGTAAAATCAAGGTTCGTAGGAGAAGAGCCGCGACCTCCAACACAGTTAGCAAGAGCAAAGCTCC
* *
48515474 TAGC
66 CAAC
* *
48515478 TGTAAAACCAAGCTTCG
1 TGTAAAATCAAGGTTCG
48515495 CTTATAAAAA
Statistics
Matches: 344, Mismatches: 83, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
68 3 0.01
69 340 0.99
70 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (69 bp):
TGTAAAATCAAGGTTCGTAGGAGAAGAGCCGCGACCTCCAACACAGTTAGCAAGAGCAAAGCTCC
CAAC
Found at i:48515481 original size:138 final size:138
Alignment explanation
Indices: 48515179--48515489 Score: 435
Period size: 138 Copynumber: 2.3 Consensus size: 138
48515169 TCCAATACAG
* * * * *
48515179 TTAGCGAGAACAAAGTTCCCAGCTATAAAATCGAGGTTCACAGGCGAAGAGCCGCGACCTCCAAA
1 TTAGCGAGAGCAAAGCTCCCAGCTGTAAAATCAAGATTCACAGGCGAAGAGCCGCGACCTCCAAA
48515244 ATAGTTAGCAAGAGCAAAGCTCCCAACTGTAAAATCAAGGTTCGTAAGAGAAGAGCCACGACCTC
66 ATAGTTAGCAAGAGCAAAGCTCCCAACTGTAAAATCAAGGTTCGTAAGAGAAGAGCCACGACCTC
*
48515309 TAACACAG
131 TAACACAA
* * *
48515317 TTAGCGAGAGCAAAGCTCCCAACTGTAAAATCAAGATTCACAGGCGAAGAGTCGCGACCTCCAAT
1 TTAGCGAGAGCAAAGCTCCCAGCTGTAAAATCAAGATTCACAGGCGAAGAGCCGCGACCTCCAAA
* * * * * * *
48515382 GTAGTTAGCGAA-AGCAAAGCTCCTAACTGTAAAATCAAGGTTTGTAGGTGAAGAGTCGCGACCT
66 ATAGTTAGC-AAGAGCAAAGCTCCCAACTGTAAAATCAAGGTTCGTAAGAGAAGAGCCACGACCT
48515446 CTAACACAA
130 CTAACACAA
* * *
48515455 TTAGCAAGAGCAAAGCTCCTAGCTGTAAAACCAAG
1 TTAGCGAGAGCAAAGCTCCCAGCTGTAAAATCAAG
48515490 CTTCGCTTAT
Statistics
Matches: 152, Mismatches: 20, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
138 150 0.99
139 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (138 bp):
TTAGCGAGAGCAAAGCTCCCAGCTGTAAAATCAAGATTCACAGGCGAAGAGCCGCGACCTCCAAA
ATAGTTAGCAAGAGCAAAGCTCCCAACTGTAAAATCAAGGTTCGTAAGAGAAGAGCCACGACCTC
TAACACAA
Found at i:48519267 original size:41 final size:41
Alignment explanation
Indices: 48519196--48519306 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
48519186 TGAAAATAAG
* * *
48519196 ATGTTTCAGACTTTACGTCCAAG-AGACTTGATGCCGATGAA
1 ATGTTTCAGACTTTATGT-CTAGCAGGCTTGATGCCGATGAA
* *
48519237 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCTGGTGAA
1 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGATGAA
* **
48519278 TTACTTCAGACTTTATGTCTAGCAGGCTT
1 ATGTTTCAGACTTTATGTCTAGCAGGCTT
48519307 TGTGCCGGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 3 0.05
41 58 0.95
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (41 bp):
ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGATGAA
Found at i:48528175 original size:58 final size:57
Alignment explanation
Indices: 48528108--48528225 Score: 141
Period size: 58 Copynumber: 2.1 Consensus size: 57
48528098 AGATTATGAT
* *
48528108 TTAAAATAATGTAATAAAAATAATA-AATAATTTAACCATATTC-TAACATAATTATTA
1 TTAAAATAATGTAAT-AAAATAATATAA-AATTTAACAAAATTCTTAACATAATTATTA
* * * *
48528165 TTAAATATAATTTAATAAATTAATATAAAATTTAATAAAATTCTTAATATAATTATTA
1 TTAAA-ATAATGTAATAAAATAATATAAAATTTAACAAAATTCTTAACATAATTATTA
48528223 TTA
1 TTA
48528226 TATGAATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
57 25 0.48
58 27 0.52
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (57 bp):
TTAAAATAATGTAATAAAATAATATAAAATTTAACAAAATTCTTAACATAATTATTA
Found at i:48528198 original size:20 final size:19
Alignment explanation
Indices: 48528164--48528203 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
48528154 CATAATTATT
*
48528164 ATTAAATATAATTTAATAA
1 ATTAAATAAAATTTAATAA
48528183 ATTAATATAAAATTTAATAA
1 ATTAA-ATAAAATTTAATAA
48528203 A
1 A
48528204 ATTCTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAAATAAAATTTAATAA
Found at i:48534000 original size:9 final size:9
Alignment explanation
Indices: 48533986--48534044 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
48533976 TTTGGTTAAA
48533986 AATTAACTG
1 AATTAACTG
48533995 AATTAACTG
1 AATTAACTG
*
48534004 AATTAACCG
1 AATTAACTG
*
48534013 AATTAACTA
1 AATTAACTG
* *
48534022 AATTACCCG
1 AATTAACTG
48534031 AATTAACTG
1 AATTAACTG
48534040 AATTA
1 AATTA
48534045 CCCAAATTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (9 bp):
AATTAACTG
Found at i:48534009 original size:18 final size:18
Alignment explanation
Indices: 48533986--48534044 Score: 91
Period size: 18 Copynumber: 3.3 Consensus size: 18
48533976 TTTGGTTAAA
*
48533986 AATTAACTGAATTAACTG
1 AATTAACCGAATTAACTG
*
48534004 AATTAACCGAATTAACTA
1 AATTAACCGAATTAACTG
*
48534022 AATTACCCGAATTAACTG
1 AATTAACCGAATTAACTG
48534040 AATTA
1 AATTA
48534045 CCCAAATTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (18 bp):
AATTAACCGAATTAACTG
Found at i:48534045 original size:18 final size:18
Alignment explanation
Indices: 48533994--48534052 Score: 91
Period size: 18 Copynumber: 3.3 Consensus size: 18
48533984 AAAATTAACT
*
48533994 GAATTAACTGAATTAACC
1 GAATTAACTGAATTACCC
*
48534012 GAATTAACTAAATTACCC
1 GAATTAACTGAATTACCC
48534030 GAATTAACTGAATTACCC
1 GAATTAACTGAATTACCC
*
48534048 AAATT
1 GAATT
48534053 GAATCACTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (18 bp):
GAATTAACTGAATTACCC
Found at i:48534120 original size:17 final size:17
Alignment explanation
Indices: 48534060--48534122 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
48534050 ATTGAATCAC
*
48534060 TACATAATTAAAAACAG
1 TACATAATTAAAAACAT
** *
48534077 TACATAAGTATTTGAATCAT
1 TACAT-A--ATTAAAAACAT
*
48534097 TATATAATTAAAAACAT
1 TACATAATTAAAAACAT
48534114 TACATAATT
1 TACATAATT
48534123 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 21 0.62
18 1 0.03
19 1 0.03
20 11 0.32
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.35
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:48534141 original size:37 final size:37
Alignment explanation
Indices: 48534051--48534142 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 37
48534041 ATTACCCAAA
48534051 TTGAATC-ACTACATAATTAAAAACAGTACATAAGTAT
1 TTGAATCAAC-ACATAATTAAAAACAGTACATAAGTAT
** * *
48534088 TTGAATCATTATATAATTAAAAACATTACATAA-T-T
1 TTGAATCAACACATAATTAAAAACAGTACATAAGTAT
*
48534123 CTTGAAATTAACACATAATT
1 -TTG-AATCAACACATAATT
48534143 GAAATGTCAG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
35 1 0.02
36 4 0.09
37 39 0.89
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (37 bp):
TTGAATCAACACATAATTAAAAACAGTACATAAGTAT
Found at i:48534294 original size:13 final size:13
Alignment explanation
Indices: 48534276--48534300 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48534266 TTTTAGTTTT
48534276 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
48534289 ATTGGGTTGGGT
1 ATTGGGTTGGGT
48534301 TGGATAATTT
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:48539439 original size:43 final size:43
Alignment explanation
Indices: 48539378--48539516 Score: 172
Period size: 43 Copynumber: 3.5 Consensus size: 43
48539368 ACCCCTTGGG
*
48539378 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGT
1 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAGATACGGT
* *
48539421 GGAATCAACACTTAGCAA-CCAC--CA-A--T-GA-AT-CGG-
1 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAGATACGGT
*
48539454 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGT
1 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAGATACGGT
48539497 GGAATCAACACTTAGCAACC
1 GGAATCAACACTTAGCAACC
48539517 ACCAATGAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 20
0.75 0.07 0.19
Matches are distributed among these distances:
33 17 0.22
34 6 0.08
35 2 0.03
36 3 0.04
37 2 0.03
39 2 0.03
40 3 0.04
41 2 0.03
42 6 0.08
43 36 0.46
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (43 bp):
GGAATCAACACTTAGCAACCCCCTTCACATTTAAAGATACGGT
Found at i:48539452 original size:103 final size:103
Alignment explanation
Indices: 48539273--48539475 Score: 370
Period size: 103 Copynumber: 2.0 Consensus size: 103
48539263 CCAGTGATTC
* * *
48539273 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAACACTTAGCAACC
48539338 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
*
48539376 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAACACTTAGCAACC
48539441 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCC
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCC
48539476 CTTCACATTT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAACACTTAGCAACC
ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:48539471 original size:76 final size:76
Alignment explanation
Indices: 48539376--48539551 Score: 352
Period size: 76 Copynumber: 2.3 Consensus size: 76
48539366 CAACCCCTTG
48539376 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
48539441 ACCAATGAATC
66 ACCAATGAATC
48539452 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
48539517 ACCAATGAATC
66 ACCAATGAATC
48539528 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
48539552 TTGGGGGAAT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 100 1.00
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (76 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
ACCAATGAATC
Found at i:48539538 original size:179 final size:179
Alignment explanation
Indices: 48539238--48539654 Score: 719
Period size: 179 Copynumber: 2.3 Consensus size: 179
48539228 TAACCGTTAT
* * * *
48539238 CGGTGGATTCAGA-ACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCA
1 CGGTGGAATCA-ACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCA
* *
48539302 CATTCAAAGATATGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGC
65 CATTCAAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGC
48539367 AACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATA
130 AACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATA
48539417 CGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
*
48539482 ATTTAAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCA
66 ATTCAAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCA
* *
48539547 ACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATA
131 ACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATA
* *
48539596 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCC
1 CGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCC
48539655 TTGATATTCA
Statistics
Matches: 226, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
178 1 0.00
179 225 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (179 bp):
CGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
ATTCAAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCA
ACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATA
Found at i:48539559 original size:103 final size:103
Alignment explanation
Indices: 48539452--48539657 Score: 376
Period size: 103 Copynumber: 2.0 Consensus size: 103
48539442 CCAATGAATC
48539452 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
*
48539517 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
66 ACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTG
* * *
48539555 GGGGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
48539620 ACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTG
66 ACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTG
48539658 ATATTCAATG
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACACTTAGCAACC
ACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTG
Found at i:48542307 original size:25 final size:25
Alignment explanation
Indices: 48542279--48542340 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
48542269 ACTAGCTGTA
* *
48542279 AATGGTAAGCTCTTCCAAGTTGAAT
1 AATGATAAGCTCTTCCAAGATGAAT
*
48542304 AATGATAAGCTCTTCCGAGATGAAT
1 AATGATAAGCTCTTCCAAGATGAAT
**
48542329 AACAATAAGCTC
1 AATGATAAGCTC
48542341 ATGCGAGCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (25 bp):
AATGATAAGCTCTTCCAAGATGAAT
Found at i:48542347 original size:25 final size:25
Alignment explanation
Indices: 48542284--48542347 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
48542274 CTGTAAATGG
* * * **
48542284 TAAGCTCTTCCAAGTTGAATAATGA
1 TAAGCTCATCCGAGATGAATAACAA
*
48542309 TAAGCTCTTCCGAGATGAATAACAA
1 TAAGCTCATCCGAGATGAATAACAA
*
48542334 TAAGCTCATGCGAG
1 TAAGCTCATCCGAG
48542348 CTGAGTATCG
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:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (25 bp):
TAAGCTCATCCGAGATGAATAACAA
Found at i:48543726 original size:52 final size:52
Alignment explanation
Indices: 48543644--48543748 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
48543634 AAGAGGTTCA
*
48543644 GATATTGATTTCTCATAGCTTCCTCGGGTTCCTAGGTAGCTTCTTTGATTCT
1 GATATTGATTTCTCATAGCTTCCTCGGGTTCCCAGGTAGCTTCTTTGATTCT
* * *
48543696 GATATTGGTTTCTCATAGCTTCCTCTGGTTCCCAGGTAGCTTCTTTTATTCT
1 GATATTGATTTCTCATAGCTTCCTCGGGTTCCCAGGTAGCTTCTTTGATTCT
48543748 G
1 G
48543749 TGTCGCTGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (52 bp):
GATATTGATTTCTCATAGCTTCCTCGGGTTCCCAGGTAGCTTCTTTGATTCT
Found at i:48548259 original size:24 final size:26
Alignment explanation
Indices: 48548184--48548278 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 26
48548174 TAAAATATAA
48548184 AATATAAAATATAAAAGAATAGTATGTAA-
1 AATATAAAATAT-AAA-AA-AGTATG-AAT
* * *
48548213 AATATATATATATACAAACGTAT-AA-
1 AATATA-AAATATAAAAAAGTATGAAT
*
48548238 AATGTAAAATATAAAAAAGTATGAAT
1 AATATAAAATATAAAAAAGTATGAAT
*
48548264 AGTATAAAATATAAA
1 AATATAAAATATAAA
48548279 TAGATATACG
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
24 13 0.24
25 9 0.17
26 13 0.24
27 4 0.07
28 2 0.04
29 8 0.15
30 5 0.09
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.28
Consensus pattern (26 bp):
AATATAAAATATAAAAAAGTATGAAT
Found at i:48548278 original size:7 final size:7
Alignment explanation
Indices: 48548170--48548253 Score: 69
Period size: 7 Copynumber: 11.3 Consensus size: 7
48548160 TTATATAAAT
48548170 AATATAA
1 AATATAA
48548177 AATATAA
1 AATATAA
48548184 AATATAA
1 AATATAA
48548191 AATATAA
1 AATATAA
* *
48548198 AAGAATAG
1 AA-TATAA
* *
48548206 TATGTAA
1 AATATAA
48548213 AATATATA
1 AATATA-A
*
48548221 TATATACA
1 AATATA-A
48548229 AACGTATAA
1 AA--TATAA
*
48548238 AATGTAA
1 AATATAA
48548245 AATATAA
1 AATATAA
48548252 AA
1 AA
48548254 AAGTATGAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
7 41 0.68
8 12 0.20
9 3 0.05
10 4 0.07
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (7 bp):
AATATAA
Found at i:48548281 original size:16 final size:15
Alignment explanation
Indices: 48548162--48548278 Score: 69
Period size: 14 Copynumber: 7.5 Consensus size: 15
48548152 TATATATATT
*
48548162 ATATAAATAATATAAA
1 ATATAAA-AGTATAAA
48548178 ATATAAAA-TATAAA
1 ATATAAAAGTATAAA
* **
48548192 ATATAAAAGAATAGT
1 ATATAAAAGTATAAA
* *
48548207 ATGTAAAA-TATATAT
1 ATATAAAAGTATA-AA
48548222 ATATACAAACGTATAAA
1 ATATA-AAA-GTATAAA
*
48548239 ATGTAAAA-TATAAAAA
1 ATATAAAAGTAT--AAA
*
48548255 AGTATGAATAGTATAAA
1 A-TAT-AAAAGTATAAA
48548272 ATATAAA
1 ATATAAA
48548279 TAGATATACG
Statistics
Matches: 79, Mismatches: 12, Indels: 21
0.71 0.11 0.19
Matches are distributed among these distances:
14 20 0.25
15 18 0.23
16 20 0.25
17 11 0.14
18 7 0.09
19 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (15 bp):
ATATAAAAGTATAAA
Found at i:48548957 original size:17 final size:18
Alignment explanation
Indices: 48548924--48548957 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48548914 ACAAAATAGA
*
48548924 AAATGAAAAAGGAAAAAC
1 AAATGAAAAAGAAAAAAC
48548942 AAAT-AAAAAGAAAAAA
1 AAATGAAAAAGAAAAAA
48548958 AGGAACAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (18 bp):
AAATGAAAAAGAAAAAAC
Found at i:48549920 original size:50 final size:50
Alignment explanation
Indices: 48549850--48550658 Score: 341
Period size: 50 Copynumber: 16.5 Consensus size: 50
48549840 TCGAGGAAAC
* * * * *
48549850 AAGACCCGCCGTCGTAGCTTCAATCTGTTCAACTGCACTGCTAAGGAGGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAGGGAAGT
* * * * * *
48549900 AAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTG-TCGGGGAAACT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AGGG-AAGT
* * * * * * *
48549951 -AGATCTGCCGCTGTGACTTCAATCTGCTCTACTGCACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAGGGAAGT
* * * * * **
48550000 AAGATCCGCTGTTGTGGCTTCAATCT-TTTAATTGGACTG-TCGGGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AGGGAAGT
* * * * *
48550049 CAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCA-TCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACT-GCTAGGGAAGT
* * * ** * *
48550099 AAGATCCGCCGCTGTGGCTTTAATC----C--TTGCGTTG-TCGGGAAAAT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAGGG-AAGT
* * * * ** *
48550143 CAGATCTGCCGTTGTGACTTCAATCTGCTCCGCTGCACCGCTAGGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAGGGAAGT
* * **
48550193 AAGATCTGCCGTTTTGGCTTCAATC--TT----TGCACTG-TCAGGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AGGGAAGT
* * * * * ** * *
48550237 CAGATCTGTCGTTGTGACTTCAATCTGCTCTGCTGCACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAGGGAAGT
* * * **
48550287 AAGATCTGCCGTTGTGGCTTCAATCT-TTTAATTGCACTG-TCAGGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AGGGAAGT
* * * * * *
48550336 AAGATCCACCGTTGTGACTTCAATCTGCTCCACT-CA-TCGCCAAGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACT-GCTAGGGAAGT
* * * * * **
48550385 AAGATCCACCGTTGTGGCTTCAATCT-TTTAATTGCGCTG-TCGGGGAAACC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AGGG-AAGT
* * * * *
48550435 AA-ATCTGCCGTTGTGACTTCAATCTGTTCCACTGCA-TCGCCAAGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACT-GCTAGGGAAGT
* * * * * * **
48550484 ATGATCTGCCGTTGTGGCTTCAATCT-TTTAATTGCACT-ATCGGGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AGGGAAGT
* * * * * *
48550533 CAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCA-TCGCCAAGGAAGT
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACT-GCTAGGGAAGT
* * * * * **
48550583 AAGATCCGTCGTTGTGGCTTCAATCT-TTTAATTGCGCTG-TCGGGGAAAC
1 AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCT-AGGGAAGT
* *
48550632 CAGATCCGCCGTTGTGACTTCAATCTG
1 AAGATCCGCCGTTGTGGCTTCAATCTG
48550659 CTCCGCTACA
Statistics
Matches: 541, Mismatches: 173, Indels: 90
0.67 0.22 0.11
Matches are distributed among these distances:
43 4 0.01
44 60 0.11
45 1 0.00
46 2 0.00
48 6 0.01
49 204 0.38
50 258 0.48
51 6 0.01
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.29
Consensus pattern (50 bp):
AAGATCCGCCGTTGTGGCTTCAATCTGTTCAACTGCACTGCTAGGGAAGT
Found at i:48550076 original size:99 final size:99
Alignment explanation
Indices: 48549838--48550662 Score: 1055
Period size: 99 Copynumber: 8.4 Consensus size: 99
48549828 CTAATTACAA
* * * * * * * * *
48549838 TGTCGAGGAAACAAGACCCGCCGTCGT-AGCTTCAATCTGTTCAACTGCACTGCTAAGGAGGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGA-CTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAA
48549902 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
65 GATCCGCCGTTGTGGCTTCAATC-TTTTAATTGCGC
* * * * *
48549938 TGTCGGGGAAACTAGATCTGCCGCTGTGACTTCAATCTGCTCTACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
*
48550003 ATCCGCTGTTGTGGCTTCAATCTTTTAATTG-GAC
66 ATCCGCCGTTGTGGCTTCAATCTTTTAATTGCG-C
* *
48550037 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCATCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
* * * *
48550102 ATCCGCCGCTGTGGCTTTAATC-----CTTGCGT
66 ATCCGCCGTTGTGGCTTCAATCTTTTAATTGCGC
* * * * * *
48550131 TGTCGGGAAAATCAGATCTGCCGTTGTGACTTCAATCTGCTCCGCTGCACCGCTAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
* * *
48550196 ATCTGCCGTTTTGGCTTCAATC---T--TTGCAC
66 ATCCGCCGTTGTGGCTTCAATCTTTTAATTGCGC
* * * ** *
48550225 TGTCAGGGAAACCAGATCTGTCGTTGTGACTTCAATCTGCTCTGCTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
* *
48550290 ATCTGCCGTTGTGGCTTCAATCTTTTAATTGCAC
66 ATCCGCCGTTGTGGCTTCAATCTTTTAATTGCGC
* * * *
48550324 TGTCAGGGAAACAAGATCCACCGTTGTGACTTCAATCTGCTCCACT-CATCGCCAAGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
*
48550388 ATCCACCGTTGTGGCTTCAATCTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTAATTGCGC
* * * * *
48550422 TGTCGGGGAAACCAAATCTGCCGTTGTGACTTCAATCTGTTCCACTGCATCGCCAAGGAAGTATG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
* *
48550487 ATCTGCCGTTGTGGCTTCAATCTTTTAATTGCAC
66 ATCCGCCGTTGTGGCTTCAATCTTTTAATTGCGC
* *
48550521 TATCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCATCGCCAAGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
*
48550586 ATCCGTCGTTGTGGCTTCAATCTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTAATTGCGC
48550620 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCC
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCC
48550663 GCTACAACGC
Statistics
Matches: 643, Mismatches: 72, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
94 164 0.26
95 1 0.00
97 1 0.00
98 88 0.14
99 316 0.49
100 72 0.11
101 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.29
Consensus pattern (99 bp):
TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAAGGAAGTAAG
ATCCGCCGTTGTGGCTTCAATCTTTTAATTGCGC
Found at i:48550348 original size:49 final size:50
Alignment explanation
Indices: 48550219--48550658 Score: 297
Period size: 49 Copynumber: 8.9 Consensus size: 50
48550209 GCTTCAATCT
* * * * *
48550219 TTGCACTGTCAGGGAAACCAGATCTGTCGTTGTGACTTCAATCTGCTCT-G
1 TTGCACTGTCAGGGAAACAAGATCCGCCGTTGTGACTTCAATCTG-TTTAA
* * * ** * *
48550269 CTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCT-TTTAA
1 TTGCACTGTCAGGGAAACAAGATCCGCCGTTGTGACTTCAATCTGTTTAA
* * **
48550318 TTGCACTGTCAGGGAAACAAGATCCACCGTTGTGACTTCAATCTGCTCCA
1 TTGCACTGTCAGGGAAACAAGATCCGCCGTTGTGACTTCAATCTGTTTAA
* * * ** * *
48550368 CT-CA-TCGCCAAGGAAGTAAGATCCACCGTTGTGGCTTCAATCT-TTTAA
1 TTGCACT-GTCAGGGAAACAAGATCCGCCGTTGTGACTTCAATCTGTTTAA
* * * **
48550416 TTGCGCTGTCGGGGAAACCAA-ATCTGCCGTTGTGACTTCAATCTGTTCCA
1 TTGCACTGTCAGGGAAA-CAAGATCCGCCGTTGTGACTTCAATCTGTTTAA
* * * ** * * *
48550466 CTGCA-TCGCCAAGGAAGTATGATCTGCCGTTGTGGCTTCAATCT-TTTAA
1 TTGCACT-GTCAGGGAAACAAGATCCGCCGTTGTGACTTCAATCTGTTTAA
* * * * **
48550515 TTGCACTATCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCA
1 TTGCACTGTCAGGGAAACAAGATCCGCCGTTGTGACTTCAATCTGTTTAA
* * * ** * *
48550565 CTGCA-TCGCCAAGGAAGTAAGATCCGTCGTTGTGGCTTCAATCT-TTTAA
1 TTGCACT-GTCAGGGAAACAAGATCCGCCGTTGTGACTTCAATCTGTTTAA
* * *
48550614 TTGCGCTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
1 TTGCACTGTCAGGGAAACAAGATCCGCCGTTGTGACTTCAATCTG
48550659 CTCCGCTACA
Statistics
Matches: 286, Mismatches: 90, Indels: 28
0.71 0.22 0.07
Matches are distributed among these distances:
48 6 0.02
49 168 0.59
50 112 0.39
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (50 bp):
TTGCACTGTCAGGGAAACAAGATCCGCCGTTGTGACTTCAATCTGTTTAA
Found at i:48557351 original size:25 final size:26
Alignment explanation
Indices: 48557306--48557356 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
48557296 TTGTTTTAAT
*
48557306 AAACAAAATAGAAAAGGAAAAAGGAA
1 AAACAAAATAGAAAAGAAAAAAGGAA
48557332 AAAC-AAATA-AAAAGAAAAAAAGGAA
1 AAACAAAATAGAAAAG-AAAAAAGGAA
48557357 CAGAACAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 14 0.61
26 4 0.17
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (26 bp):
AAACAAAATAGAAAAGAAAAAAGGAA
Found at i:48560223 original size:24 final size:25
Alignment explanation
Indices: 48560170--48560237 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
48560160 GAACATAAAT
*
48560170 GGGAAACTCATGTGAGCCATGTAAC
1 GGGAAACTCATGAGAGCCATGTAAC
*
48560195 AGGAAACTCCA-GAGAGCCAT-TAAC
1 GGGAAACT-CATGAGAGCCATGTAAC
*
48560219 GGGAAGCTCAT-ACGAGCCA
1 GGGAAACTCATGA-GAGCCA
48560238 ATATCAAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
23 3 0.08
24 16 0.44
25 15 0.42
26 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.26, T:0.15
Consensus pattern (25 bp):
GGGAAACTCATGAGAGCCATGTAAC
Found at i:48560384 original size:26 final size:26
Alignment explanation
Indices: 48560352--48560475 Score: 135
Period size: 26 Copynumber: 4.8 Consensus size: 26
48560342 GAAAGCTATT
* *
48560352 AACGGGAAGCT-ATGGAGAGCCAATTA
1 AACGGGAAGCTCATGAAGAGCC-CTTA
48560378 AACGGGAAGCTCATGAAGAGCCCTTA
1 AACGGGAAGCTCATGAAGAGCCCTTA
* *
48560404 AAAGGGAAGCTCACGAAGAGCCCTTA
1 AACGGGAAGCTCATGAAGAGCCCTTA
* * * *
48560430 AATGGGAAGCTCACGAAGAGCCATTT
1 AACGGGAAGCTCATGAAGAGCCCTTA
* *
48560456 ATCGGGACGCTCAT-AAGAGC
1 AACGGGAAGCTCATGAAGAGC
48560476 TACGGTGTGT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
25 6 0.07
26 71 0.83
27 9 0.10
ACGTcount: A:0.35, C:0.21, G:0.28, T:0.15
Consensus pattern (26 bp):
AACGGGAAGCTCATGAAGAGCCCTTA
Found at i:48560936 original size:21 final size:21
Alignment explanation
Indices: 48560912--48560954 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48560902 TAAATTTAAC
*
48560912 TCAATTTAATACAATTCGCAT
1 TCAATTTAATACAATTCACAT
* *
48560933 TCAATTTCATCCAATTCACAT
1 TCAATTTAATACAATTCACAT
48560954 T
1 T
48560955 TTAGGAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (21 bp):
TCAATTTAATACAATTCACAT
Found at i:48561211 original size:16 final size:16
Alignment explanation
Indices: 48561190--48561227 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
48561180 TTTGGTTCGT
48561190 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
48561206 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
48561222 CGTAAT
1 TGTAAT
48561228 AGTAATTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:48561273 original size:45 final size:44
Alignment explanation
Indices: 48561209--48561301 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
48561199 ATAGAGGTGT
*
48561209 AATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGACGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
48561254 AATGGAATAGA-ACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGAC-GTAATAGTATTCATGTGTTTGGTTGAATGG
48561298 AATG
1 AATG
48561302 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 24 0.55
45 19 0.43
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGACGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:48561741 original size:118 final size:117
Alignment explanation
Indices: 48561616--48561992 Score: 510
Period size: 120 Copynumber: 3.2 Consensus size: 117
48561606 TACTAAAATC
* * * * **
48561616 ATAATATATAATGCTATAAAATATAATTTAACATAA-TTATTATTAAATATAATTTAATAAAATT
1 ATAAAATATAAT-CTATAAAATATTATTAAATATAATTTATTAAAAAATATAATTTAATAAAATT
48561680 CTTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATATATAATGCT
65 CTTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATATATAATGCT
* *
48561733 AT-AAATATAATTTA-ACATAATTATTATTAAATATAATTTAATAAAAAATATAATTTAATAAAA
1 ATAAAATATAATCTATA-A-AA-TATTATTAAATATAATTTATTAAAAAATATAATTTAATAAAA
48561796 TTCTTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATATATAATGCT
63 TTCTTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATATATAATGCT
* *
48561851 ATAAAATATAATTTA-ACATAATTATTATTAAATATAATTTTTTAAAAAAATATAATTTAATAAA
1 ATAAAATATAATCTATA-A-AA-TATTATTAAATATAATTTATT-AAAAAATATAATTTAATAAA
* * *
48561915 ATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATACTATATAATACT
62 ATTCTTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATATATAATGCT
* *
48561971 AGAAAATATAATTTAATAAAAT
1 ATAAAATATAATCT-ATAAAAT
48561993 TCTTAATATT
Statistics
Matches: 238, Mismatches: 14, Indels: 14
0.89 0.05 0.05
Matches are distributed among these distances:
114 1 0.00
115 3 0.01
116 10 0.04
117 14 0.06
118 80 0.34
119 39 0.16
120 88 0.37
121 2 0.01
122 1 0.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (117 bp):
ATAAAATATAATCTATAAAATATTATTAAATATAATTTATTAAAAAATATAATTTAATAAAATTC
TTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATATATAATGCT
Found at i:48561783 original size:17 final size:17
Alignment explanation
Indices: 48561761--48561795 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
48561751 AATTATTATT
48561761 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
48561778 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
48561795 A
1 A
48561796 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:48561799 original size:102 final size:102
Alignment explanation
Indices: 48561438--48562161 Score: 680
Period size: 102 Copynumber: 7.0 Consensus size: 102
48561428 TTAATAATAT
48561438 TTTAACATAATTATTATTAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
*
48561503 TTACGAAAATCATAATATATAATACTATAAAATATAA
66 TTACGAAAATCATAATATATAATGCTATAAAATATAA
*
48561540 TTTAACATAATTATTATTAAATATAATTTAATAAAATTCTTAATATTAAATATTCTCATATGAAT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
*
48561605 TTACTAAAATCATAATATATAATGCTATAAAATATAA
66 TTACGAAAATCATAATATATAATGCTATAAAATATAA
48561642 TTTAACATAATTATTATTAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
48561707 TTACGAAAATCATAATATATAATGCTAT-AAATATAA
66 TTACGAAAATCATAATATATAATGCTATAAAATATAA
* * *
48561743 TTTAACATAATTATTATTAAATATAATTTAATAAAAAAT-ATAAT-TTAATAAAATTCTTA-AT-
1 TTTAACATAATTATTATTAAATATAATTTAAT-AAAATTCTTAATATT-A-AATATTCTTATATG
* * *
48561804 -A-TTA--AATATTC-T--TATATGAAT-TTACGAAAATCATAA
63 AATTTACGAA-AATCATAATATAT-AATGCTA-TAAAAT-ATAA
* ** * * * * * * *
48561840 --T-ATATAA-TGCTATAAAATATAATTTAACATAATTATTATTAAATATAAT-TTTTTAAAAAA
1 TTTAACATAATTATTATTAAATATAATTTAATAAAATTCTTAAT-ATTA-AATATTCTT------
** * * * *
48561900 ATAT-AATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAA
58 ATATGAATTTACGAAAA-TCATAATA-TATA-ATGC-TATA--AA-ATA-T-AA
* * * * ** *
48561953 ATCATACTATATAATACTAGAAAATATAATTTAATAAAATTCTTAATATTAAATATTCTCATATG
1 TTTA-AC-ATA-ATTATTATTAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG
*
48562018 AATTTACTAAAATCATAATATATAATGCTATAAAATATAA
63 AATTTACGAAAATCATAATATATAATGCTATAAAATATAA
* * * *
48562058 ATTAACATAATTATTATTAAATATAATTTAATAAAAATATATCTACTA-TAATTATTCTTATATG
1 TTTAACATAATTATTATTAAATATAATTTAAT-AAAAT-TCT-TAATATTAAATATTCTTATATG
* *
48562122 AATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
63 AATTTACGAAAATCATAATATATAATGCTATAAAATATAA
48562161 T
1 T
48562162 GTATAATCTA
Statistics
Matches: 520, Mismatches: 55, Indels: 93
0.78 0.08 0.14
Matches are distributed among these distances:
92 4 0.01
93 24 0.05
94 16 0.03
95 5 0.01
96 7 0.01
97 7 0.01
98 3 0.01
99 2 0.00
100 4 0.01
101 48 0.09
102 226 0.43
103 13 0.03
104 56 0.11
105 10 0.02
106 1 0.00
107 5 0.01
108 6 0.01
109 1 0.00
110 6 0.01
111 6 0.01
112 5 0.01
113 13 0.03
114 11 0.02
117 1 0.00
118 6 0.01
119 7 0.01
120 27 0.05
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (102 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
TTACGAAAATCATAATATATAATGCTATAAAATATAA
Found at i:48561914 original size:18 final size:18
Alignment explanation
Indices: 48561880--48561915 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48561870 AATTATTATT
**
48561880 AAATATAATTTTTTAAAA
1 AAATATAATTTAATAAAA
48561898 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
48561916 TTCTTAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATAATTTAATAAAA
Found at i:48561938 original size:120 final size:119
Alignment explanation
Indices: 48561660--48561986 Score: 584
Period size: 120 Copynumber: 2.7 Consensus size: 119
48561650 AATTATTATT
48561660 AAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATAT
1 AAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATAT
48561725 ATAATGCTAT-AAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
66 ATAATGCTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
48561778 AAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATAT
1 AAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATAT
**
48561843 ATAATGCTATAAAATATAATTTAACATAATTATTATTAAATATAATTTTTTAAAA
66 ATAATGCTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAAT-AAA
* *
48561898 AAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATACTAT
1 AAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATAT
* *
48561963 ATAATACTAGAAAATATAATTTAA
66 ATAATGCTATAAAATATAATTTAA
48561987 TAAAATTCTT
Statistics
Matches: 201, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
118 75 0.37
119 38 0.19
120 88 0.44
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (119 bp):
AAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACGAAAATCATAATAT
ATAATGCTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
Found at i:48561946 original size:38 final size:36
Alignment explanation
Indices: 48561899--48562038 Score: 120
Period size: 38 Copynumber: 3.7 Consensus size: 36
48561889 TTTTTAAAAA
*
48561899 AATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 AATATAATTTAATAAAA-TCATAATATTAAATATTCT
* * * ***
48561936 TATATGAATTTACTAAAATCATACTA-TATAATACTAGAA
1 AATAT-AATTTAATAAAATCATAATATTA-AATA-T-TCT
*
48561975 AATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 AATATAATTTAATAAAA-TCATAATATTAAATATTCT
* *
48562012 CATATGAATTTACTAAAATCATAATAT
1 AATAT-AATTTAATAAAATCATAATAT
48562039 ATAATGCTAT
Statistics
Matches: 79, Mismatches: 17, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
36 2 0.03
37 26 0.33
38 35 0.44
39 14 0.18
40 2 0.03
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (36 bp):
AATATAATTTAATAAAATCATAATATTAAATATTCT
Found at i:48561989 original size:76 final size:76
Alignment explanation
Indices: 48561897--48562062 Score: 287
Period size: 76 Copynumber: 2.2 Consensus size: 76
48561887 ATTTTTTAAA
* *
48561897 AAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATACTA
1 AAAATATAATTTAATAAAATTCTTAATATTAAATATTCTCATATGAATTTACTAAAATCATAATA
48561962 TATAATACTAG
66 TATAATACTAG
48561973 AAAATATAATTTAATAAAATTCTTAATATTAAATATTCTCATATGAATTTACTAAAATCATAATA
1 AAAATATAATTTAATAAAATTCTTAATATTAAATATTCTCATATGAATTTACTAAAATCATAATA
* *
48562038 TATAATGCTAT
66 TATAATACTAG
*
48562049 AAAATATAAATTAA
1 AAAATATAATTTAA
48562063 CATAATTATT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 85 1.00
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (76 bp):
AAAATATAATTTAATAAAATTCTTAATATTAAATATTCTCATATGAATTTACTAAAATCATAATA
TATAATACTAG
Found at i:48562093 original size:41 final size:41
Alignment explanation
Indices: 48562047--48562139 Score: 95
Period size: 40 Copynumber: 2.3 Consensus size: 41
48562037 ATATAATGCT
48562047 ATAAAATATAAAT-TAAC-ATAATTATTATTAAATAT-AATTTA
1 ATAAAATATAAATCT-ACTATAATTATTATT--ATATGAATTTA
* *
48562088 ATAAAA-ATATATCTACTATAATTATTCTTATATGAATTTA
1 ATAAAATATAAATCTACTATAATTATTATTATATGAATTTA
*
48562128 CTAAAATCATAA
1 ATAAAAT-ATAA
48562140 TATATAATAC
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
39 4 0.09
40 18 0.42
41 18 0.42
42 3 0.07
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (41 bp):
ATAAAATATAAATCTACTATAATTATTATTATATGAATTTA
Found at i:48563627 original size:49 final size:49
Alignment explanation
Indices: 48563555--48563652 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 49
48563545 ATACAAATAC
* * *
48563555 AAATTAAGTTTAATATCATGAATCAAAATG-TGAACACTTTATAAAATTA
1 AAATTAAGTTAAATATCATGAATCAAAA-GCTCAACACTGTATAAAATTA
48563604 AAATTAAGTTAAATATCATGAATCAAAAGCTCAACACTGTATAAAATTA
1 AAATTAAGTTAAATATCATGAATCAAAAGCTCAACACTGTATAAAATTA
48563653 TAACACATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 1 0.02
49 44 0.98
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAGTTAAATATCATGAATCAAAAGCTCAACACTGTATAAAATTA
Found at i:48565819 original size:27 final size:28
Alignment explanation
Indices: 48565780--48565850 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 28
48565770 TCAATAATAA
*
48565780 ATGTAATTAAATTATAAGTATTT-TTAAAT
1 ATGTAA-T-AATTATAAATATTTGTTAAAT
48565809 ATGTAATAATTATCACAATATTTGTTAAAT
1 ATGTAATAATTAT-A-AATATTTGTTAAAT
48565839 -T-T-ATAATTATAA
1 ATGTAATAATTATAA
48565851 CAAATTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 1 0.03
26 1 0.03
27 14 0.37
28 3 0.08
29 13 0.34
30 6 0.16
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (28 bp):
ATGTAATAATTATAAATATTTGTTAAAT
Found at i:48574776 original size:207 final size:207
Alignment explanation
Indices: 48574186--48574793 Score: 657
Period size: 207 Copynumber: 2.9 Consensus size: 207
48574176 CAGTTACGGG
* * * * * *
48574186 ACCTAGTACGTATTGATCCAGTACTTCACACCATTTCCACAAATCATTATACGAA-CTGTCCCAA
1 ACCTGGTACGTATCGATCCAGTACCTAACACCATTGCCACAAATCATTATAC-AACCTATCCCAA
* * * *
48574250 TCGTGATGCAACTTATCCATAGCCTTTTATTTTGTGACCTATGTCTTGTAGTATGATGGCTTGTA
65 TCGTGATGCAACTTATCCATAGCCTTTTATTTTGTGACCCATGCCTTGTAGTACGATGGCGTGTA
* * ** * *
48574315 ATTGTACTGGCTA-TGAATATTGGCAATCAACAC-CGAGAGGGGAATCCTGGGATTCACTTTCAC
130 ATCGTACTGGCTACTG-ATGTTGGCAATCAACACTCG-GACAGGAATCTTGGGACTCACTTTCAC
48574378 CAGATCGATTACAAA
193 CAGATCGATTACAAA
* * * * * ** * * * * **
48574393 ACTTGGTACTTACCAATCTAGTACCCGACACCTTTGCCACAAATCATTCTACGACCTATCTCAGC
1 ACCTGGTACGTATCGATCCAGTACCTAACACCATTGCCACAAATCATTATACAACCTATCCCAAT
* * * **
48574458 CATGATGCAACTTATCCATAGCCTTTTATTTTATGACCCATGCCTTGTAGTACAATGATGTGTAA
66 CGTGATGCAACTTATCCATAGCCTTTTATTTTGTGACCCATGCCTTGTAGTACGATGGCGTGTAA
* * ** * * * *
48574523 TCATACTGACTACAAAGGTTGGCAATCAATA-TCGGAACAAGAATCTTAGGACTCACTTTCACCA
131 TCGTACTGGCTACTGATGTTGGCAATCAACACTCGG-ACAGGAATCTTGGGACTCACTTTCACCA
***
48574587 GATCGATTATGGA
195 GATCGATTACAAA
* *
48574600 ACCTGGTACGTATCGATCCAGTACCTAAAACCATTGCCACAAGTCATTATACAACCTATCCCAAT
1 ACCTGGTACGTATCGATCCAGTACCTAACACCATTGCCACAAATCATTATACAACCTATCCCAAT
* * *
48574665 CGTGATGCAACTTATTCATAACCTTTTATTTTGTGACCCATGCCTTGTAGTACGATGGCGAGTAA
66 CGTGATGCAACTTATCCATAGCCTTTTATTTTGTGACCCATGCCTTGTAGTACGATGGCGTGTAA
* * * **
48574730 TCGTACTGGTTACTGATGTTGGCAATCAACACTAGGATAGGAATCTTGGGACTTGCTTTCACCA
131 TCGTACTGGCTACTGATGTTGGCAATCAACACTCGGACAGGAATCTTGGGACTCACTTTCACCA
48574794 TAGGTAAAAT
Statistics
Matches: 316, Mismatches: 80, Indels: 10
0.78 0.20 0.02
Matches are distributed among these distances:
206 2 0.01
207 311 0.98
208 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (207 bp):
ACCTGGTACGTATCGATCCAGTACCTAACACCATTGCCACAAATCATTATACAACCTATCCCAAT
CGTGATGCAACTTATCCATAGCCTTTTATTTTGTGACCCATGCCTTGTAGTACGATGGCGTGTAA
TCGTACTGGCTACTGATGTTGGCAATCAACACTCGGACAGGAATCTTGGGACTCACTTTCACCAG
ATCGATTACAAA
Found at i:48588872 original size:15 final size:17
Alignment explanation
Indices: 48588842--48588876 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
48588832 ATTCATCCCT
48588842 ATGCAATTCTAGCCTAA
1 ATGCAATTCTAGCCTAA
48588859 ATGCAATT-TA-CCTAA
1 ATGCAATTCTAGCCTAA
48588874 ATG
1 ATG
48588877 TATGAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 2 0.11
17 8 0.44
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (17 bp):
ATGCAATTCTAGCCTAA
Found at i:48589566 original size:36 final size:36
Alignment explanation
Indices: 48589519--48589589 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
48589509 AGTAAACTCT
* *
48589519 ATTCAGTTCAGCAGCCTTTCGGATCTATTTTGACTG
1 ATTCAGTTCAGCAGCCTTTCAGATCTATTCTGACTG
* *
48589555 ATTCAGTTCAGCAGCTTTTTAGATCTATTCTGACT
1 ATTCAGTTCAGCAGCCTTTCAGATCTATTCTGACT
48589590 TATGTGCTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (36 bp):
ATTCAGTTCAGCAGCCTTTCAGATCTATTCTGACTG
Found at i:48591407 original size:23 final size:23
Alignment explanation
Indices: 48591380--48591424 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
48591370 CTTGGGTAAG
48591380 TTGTGTTAGGGTTACCCCTCAGT
1 TTGTGTTAGGGTTACCCCTCAGT
48591403 TTGTGTTAGGGTTACCCCTCAG
1 TTGTGTTAGGGTTACCCCTCAG
48591425 CCCTTCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.13, C:0.22, G:0.27, T:0.38
Consensus pattern (23 bp):
TTGTGTTAGGGTTACCCCTCAGT
Found at i:48595307 original size:11 final size:11
Alignment explanation
Indices: 48595291--48595316 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48595281 TAGAAGAGAC
48595291 GAAACAGGGGA
1 GAAACAGGGGA
48595302 GAAACAGGGGA
1 GAAACAGGGGA
48595313 GAAA
1 GAAA
48595317 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:48596859 original size:39 final size:40
Alignment explanation
Indices: 48596742--48596926 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
48596732 GCTACTCGTT
*
48596742 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
48596782 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
48596822 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
48596861 CAAATGCCTTC-GGATCTTAGTCCGG-TTATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATT-TAGTAAC-TCGCA
48596902 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48596927 CATCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 75 0.60
41 13 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:48596859 original size:79 final size:82
Alignment explanation
Indices: 48596742--48596926 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
48596732 GCTACTCGTT
* * *
48596742 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
48596805 GGATT-TAGTAAC-TCGCA
65 GG-TTATAGTAACTTAGCA
* **
48596822 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
48596885 GTTATGGTCACTTAGCA
66 GTTATAGTAACTTAGCA
48596902 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48596927 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 52 0.57
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GTTATAGTAACTTAGCA
Found at i:48599213 original size:39 final size:40
Alignment explanation
Indices: 48599170--48599256 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
48599160 GAATTATGAG
* * *
48599170 ATACTGGATATTGTTTTG-ATTACTG-AGTGAATTGTGAAA
1 ATACTGAATATTGTTATGTA-TAATGCAGTGAATTGTGAAA
*
48599209 ATACTGAATATTGTTATGTATAATGCATTGAATTGTGAAA
1 ATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAAA
*
48599249 TTACTGAA
1 ATACTGAA
48599257 GTAAAGAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 20 0.49
40 21 0.51
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (40 bp):
ATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAAA
Found at i:48599483 original size:38 final size:39
Alignment explanation
Indices: 48599431--48599513 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
48599421 ATTTGCCGGC
*
48599431 TTACTGATCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATCAGGCACTTTATGTGCCGAATACTGTTACTG
* *
48599469 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGA-TCAGGCACTTTATGTGCCGAATACTGTTACTG
48599508 TTACTG
1 TTACTG
48599514 TTACTGACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 12 0.30
39 28 0.70
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (39 bp):
TTACTGATCAGGCACTTTATGTGCCGAATACTGTTACTG
Found at i:48599511 original size:39 final size:39
Alignment explanation
Indices: 48599431--48599603 Score: 152
Period size: 45 Copynumber: 4.2 Consensus size: 39
48599421 ATTTGCCGGC
* * *
48599431 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
48599469 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
48599508 TTACTGTTACTGACTCGGCACTTTGTGTGTCGAATACAGTTACCGTTACTG
1 TTACTG--A-T---TCGGCACTTTGTGTGTCGAATAC---T---GTTACTG
* * * *
48599559 TTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
48599598 TTACTG
1 TTACTG
48599604 TTACTGATTA
Statistics
Matches: 113, Mismatches: 8, Indels: 27
0.76 0.05 0.18
Matches are distributed among these distances:
38 12 0.11
39 40 0.35
41 1 0.01
42 2 0.02
45 44 0.39
48 2 0.02
51 12 0.11
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:48599526 original size:45 final size:45
Alignment explanation
Indices: 48599458--48599612 Score: 247
Period size: 45 Copynumber: 3.4 Consensus size: 45
48599448 ATGTGCCGAC
48599458 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
* *
48599503 TACTGTTACTGTTACTGACTCGGCACTTTGTGTGTCGAATACAGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
* * * * *
48599548 TACCGTTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
48599593 TACTGTTACTGTTACTGATT
1 TACTGTTACTGTTACTGATT
48599613 ACTGTATACT
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:48599622 original size:7 final size:6
Alignment explanation
Indices: 48599587--48599623 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
48599577 GTGTGTTGAA
48599587 TACTGT TACTGT TACTGT TACTGAT TACTGT ATACTG
1 TACTGT TACTGT TACTGT TACTG-T TACTGT -TACTG
48599624 GTGTGTTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:48601675 original size:20 final size:20
Alignment explanation
Indices: 48601650--48601698 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
48601640 GGTTCAACTT
* *
48601650 TGTTGAGATTCTAGAGGATA
1 TGTTGAGATTCTAGAAGACA
*
48601670 TGTTGAGATTCTGGAAGACA
1 TGTTGAGATTCTAGAAGACA
48601690 TGTTGAGAT
1 TGTTGAGAT
48601699 GTTGTATACT
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:0.29, C:0.06, G:0.31, T:0.35
Consensus pattern (20 bp):
TGTTGAGATTCTAGAAGACA
Found at i:48603866 original size:21 final size:20
Alignment explanation
Indices: 48603831--48603900 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
48603821 TTTACTTTCC
*
48603831 GTTTAGCTCTCATGAGCTTCT
1 GTTTAACTCT-ATGAGCTTCT
*
48603852 GTTTAACTCATATGAG-TTTT
1 GTTTAACTC-TATGAGCTTCT
* *
48603872 CGTTCAGCTCTATTGAGCTTCT
1 -GTTTAACTCTA-TGAGCTTCT
48603894 GTTTAAC
1 GTTTAAC
48603901 CCTTATGGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
20 5 0.13
21 29 0.76
22 4 0.11
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.44
Consensus pattern (20 bp):
GTTTAACTCTATGAGCTTCT
Found at i:48603894 original size:42 final size:42
Alignment explanation
Indices: 48603826--48603938 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
48603816 TCGTGTTTAC
* *
48603826 TTTCCGTTTAGCTCTCA-TGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCT-ATTGAGCTTCTGTTTAACCCATATGAG
* * *
48603868 TTTTCGTTCAGCTCTATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTATTGAGCTTCTGTTTAACCCATATGAG
* *
48603910 TTTCCGTTCAGCCCT-TACGAGCTTCTGTT
1 TTTCCGTTCAGCTCTAT-TGAGCTTCTGTT
48603939 CAGCCTTCGG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTATTGAGCTTCTGTTTAACCCATATGAG
Found at i:48603954 original size:19 final size:21
Alignment explanation
Indices: 48603886--48603955 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
48603876 CAGCTCTATT
* * *
48603886 GAGCTTCTGTTTAACCCTTAT
1 GAGCTTCTGTTCAGCCCTTAC
* * *
48603907 GGGTTTCCGTTCAGCCCTTAC
1 GAGCTTCTGTTCAGCCCTTAC
48603928 GAGCTTCTGTTCAG-CCTT-C
1 GAGCTTCTGTTCAGCCCTTAC
*
48603947 GGGCTTCTG
1 GAGCTTCTG
48603956 ATAATGATGT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 9 0.23
20 4 0.10
21 26 0.67
ACGTcount: A:0.11, C:0.29, G:0.23, T:0.37
Consensus pattern (21 bp):
GAGCTTCTGTTCAGCCCTTAC
Found at i:48608218 original size:29 final size:28
Alignment explanation
Indices: 48608163--48608220 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
48608153 AATTAATTAA
48608163 TTTTTAAAAAATTAAAAAAATTATAATT
1 TTTTTAAAAAATTAAAAAAATTATAATT
* *
48608191 TTTTTAAATAATGTAAATAAACTT-TAATT
1 TTTTTAAAAAAT-TAAA-AAAATTATAATT
48608220 T
1 T
48608221 ATTAAAACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 10 0.38
30 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (28 bp):
TTTTTAAAAAATTAAAAAAATTATAATT
Found at i:48608225 original size:28 final size:25
Alignment explanation
Indices: 48608159--48608227 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 25
48608149 TAGCAATTAA
48608159 TTAATTTTTAAAAAATTAAAAAAAT
1 TTAATTTTTAAAAAATTAAAAAAAT
* *
48608184 TATAATTTTTTTAAATAATGTAAATAAACT
1 T-TAA--TTTTTAAAAAAT-TAAA-AAAAT
48608214 TTAATTTATTAAAA
1 TTAATTT-TTAAAA
48608228 CGATTTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
27 3 0.09
28 16 0.46
29 7 0.20
30 5 0.14
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (25 bp):
TTAATTTTTAAAAAATTAAAAAAAT
Found at i:48609213 original size:16 final size:16
Alignment explanation
Indices: 48609180--48609212 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
48609170 ATAAAAATAT
48609180 AATAAATTATTAAAAA
1 AATAAATTATTAAAAA
48609196 AATAAA-TATTAAAAA
1 AATAAATTATTAAAAA
48609211 AA
1 AA
48609213 ACACTTGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAAATTATTAAAAA
Found at i:48609962 original size:21 final size:20
Alignment explanation
Indices: 48609932--48609971 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
48609922 TCGTTCTCTT
*
48609932 CTCCTCCTCATTTTATTTTC
1 CTCCTCCTCAATTTATTTTC
*
48609952 CTCCTTCCTCAATTTCTTTT
1 CTCC-TCCTCAATTTATTTT
48609972 AACATAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.35, G:0.00, T:0.55
Consensus pattern (20 bp):
CTCCTCCTCAATTTATTTTC
Found at i:48613568 original size:44 final size:42
Alignment explanation
Indices: 48613520--48614024 Score: 242
Period size: 44 Copynumber: 11.8 Consensus size: 42
48613510 TCATCGTTTT
48613520 AATCTGCTCCACTGCAACTTCAGGGAGAT-AGAATTAATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATT-AT-GCTTC
* * * *
48613564 AATCTACTCCGCTACAACTTCAGGGAGATAAGATTGAT--TGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATGCTTC
* * * * * * *
48613605 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATG-CTTC
* * * * *
48613649 AATCGGATCCACTGCTACTTCAGGGAGATAGGATTGATTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-A-TGCTTC
** * * ** *
48613693 TGTTTGCTCCACTACTGCTT-AGGGAGATAAGACTGGATG--T-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TATGCTTC
* * * ** * * *
48613733 GATCTGCTCTATTGCAACTTCAGAAAGATAAGATTTGTGATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTATG-CTTC
* *
48613777 AATCCGCTCCACTGCAACTTCAGGAAGAT-AGAATTAATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATT-AT-GCTTC
* * * *
48613821 AATCTACTCCGCTGTAACTTCAGGGAGATAAGA-T-TGGTTGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGCTT-C
* * * * * * * *
48613862 GATCTACTCTACTGCAACTTTAGAGAGATAAGATCTGTGATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATG-CTTC
* *
48613906 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-AT-GCTTC
* ** *
48613950 AATCTACTCTGCTGCAACTTCAGGGAGATAAGA-T-TGGTTAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGCTT-C
* * * *
48613991 GATCTACTCTACTGCAACTTCAGAGAGATAAGAT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
48614025 CTGTGTTTTT
Statistics
Matches: 345, Mismatches: 89, Indels: 56
0.70 0.18 0.11
Matches are distributed among these distances:
40 20 0.06
41 105 0.30
42 1 0.00
43 22 0.06
44 188 0.54
45 9 0.03
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (42 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGCTTC
Found at i:48613894 original size:129 final size:129
Alignment explanation
Indices: 48613516--48614044 Score: 736
Period size: 129 Copynumber: 4.1 Consensus size: 129
48613506 TGATTCATCG
* *
48613516 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTAATAGCTTCAATCTACTCCGCTACAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTAATAGCTTCAATCTACTCCGCTGCAA
* *
48613581 CTTCAGGGAGATAAGATTGATTGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGT
66 CTTCAGGGAGATAAGATTGGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGA
* * * * * ** ** * * * * **
48613645 TTTTAATCGGATCCACTGCTACTTCAGGGAGATAGGATTGATTTCTTCTGTTTGCTCCACTACTG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTAATAGCTTCAATCTACTCCGCTGCAA
* * * * * * *
48613710 CTT-AGGGAGATAAGACTGGATGTGATCTGCTCTATTGCAACTTCAGAAAGATAAGATTTGTGA
66 CTTCAGGGAGATAAGATTGGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGA
* *
48613773 TTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGAATTAATAGCTTCAATCTACTCCGCTGTAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTAATAGCTTCAATCTACTCCGCTGCAA
*
48613838 CTTCAGGGAGATAAGATTGGTTGCGATCTACTCTACTGCAACTTTAGAGAGATAAGATCTGTGA
66 CTTCAGGGAGATAAGATTGGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGA
* *
48613902 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTACTCTGCTGCAA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTAATAGCTTCAATCTACTCCGCTGCAA
* *
48613967 CTTCAGGGAGATAAGATTGGTTACGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGT
66 CTTCAGGGAGATAAGATTGGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGA
* *
48614031 TTTTATTCTGCTCC
1 TTTTAATCCGCTCC
48614045 TAAGATTGGT
Statistics
Matches: 342, Mismatches: 57, Indels: 2
0.85 0.14 0.00
Matches are distributed among these distances:
128 102 0.30
129 240 0.70
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (129 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTAATAGCTTCAATCTACTCCGCTGCAA
CTTCAGGGAGATAAGATTGGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGA
Found at i:48614064 original size:67 final size:67
Alignment explanation
Indices: 48613978--48614111 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
48613968 TTCAGGGAGA
*
48613978 TAAGATTGGTTACGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTATTCTGCT
1 TAAGATTGGTTACGATCTACTCAACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTATTCTGCT
48614043 CC
66 CC
48614045 TAAGATTGGTTACGATCTACTCAACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTATTCTGCT
1 TAAGATTGGTTACGATCTACTCAACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTATTCTGCT
48614110 CC
66 CC
48614112 ACTGCAACTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (67 bp):
TAAGATTGGTTACGATCTACTCAACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTATTCTGCT
CC
Found at i:48614117 original size:44 final size:44
Alignment explanation
Indices: 48614059--48614391 Score: 218
Period size: 44 Copynumber: 7.7 Consensus size: 44
48614049 ATTGGTTACG
* *
48614059 ATCTACTCAACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTA
* ** **** *
48614103 TTCTGCTCCACTGCAACTTCA-AGAAGATTGGA-CTAGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAG-AGATAAGATCT-GTGTTTTTA
* * * * ***
48614147 ATCTGCTCCACTGTAACTTTAGGGACATAAGAT-TG-G-TTGCG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTA
* *
48614188 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTA
* * * ***
48614232 ATCCGTTCCACTGCAACTTCAGGGAGATAAGAT-TG-G-TTGCG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTA
* *
48614273 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTA
* * * ** *** *
48614317 ATCCGGTCCACTGTAACTTCAG-GAAGATTGGA-CTAGTAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAG-AGATAAGATCT-GTGTTTTTA
* *
48614361 ATCTGCTCCACTACAACTTCAGGGAGATAAG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAG
48614392 GTTTGATATG
Statistics
Matches: 213, Mismatches: 63, Indels: 26
0.71 0.21 0.09
Matches are distributed among these distances:
41 59 0.28
42 5 0.02
43 12 0.06
44 135 0.63
45 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTA
Found at i:48614242 original size:85 final size:85
Alignment explanation
Indices: 48614153--48614339 Score: 338
Period size: 85 Copynumber: 2.2 Consensus size: 85
48614143 TTCAATCTGC
*
48614153 TCCACTGTAACTTTAGGGACATAAGATTGGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAA
1 TCCACTGTAACTTCAGGGACATAAGATTGGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAA
*
48614218 GATCTGTGTTTTTAATCCGT
66 GATCTGTGTTTTTAATCCGG
* *
48614238 TCCACTGCAACTTCAGGGAGATAAGATTGGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAA
1 TCCACTGTAACTTCAGGGACATAAGATTGGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAA
48614303 GATCTGTGTTTTTAATCCGG
66 GATCTGTGTTTTTAATCCGG
48614323 TCCACTGTAACTTCAGG
1 TCCACTGTAACTTCAGG
48614340 AAGATTGGAC
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (85 bp):
TCCACTGTAACTTCAGGGACATAAGATTGGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAA
GATCTGTGTTTTTAATCCGG
Found at i:48614368 original size:325 final size:324
Alignment explanation
Indices: 48613745--48614369 Score: 801
Period size: 325 Copynumber: 1.9 Consensus size: 324
48613735 TCTGCTCTAT
* *
48613745 TGCAACTTCAGAAAGATAAGATTTGTGATTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGAA
1 TGCAACTTCAGAAAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAAGAAGATAGAA
* * * * *
48613810 TTAATAGCTTCAATCTACTCCGCTGTAACTTCAGGGAGATAAGATTGGTTGCGATCTACTCTACT
66 CTAACAACTTCAATCTACTCCACTGTAACTTCAGGGACATAAGATTGGTTGCGATCTACTCTACT
* *
48613875 GCAACTTTAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
131 GCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * *
48613940 TAATAGCTTCAATCTACTCTGCTGCAACTTCAGGGAGATAAGATTGGTTACGATCTACTCTACTG
196 T-ATAGCTTCAATCTACTCTACTGCAACTTCAGAGAGATAAGATTGGTTACAATCCACTCCACTG
*** * *
48614005 CAACTTCAGAGAGATAAGATCTGTGTTTTTATTCTGCTCCTAAGATTGGTTACGATCTACTCAAC
260 CAACTTCAGAGAGATAAGATCTGTAACTTCAATCTGCTCCTAAGATTGGTTACGATCTACTCAAC
* * * * * *
48614070 TGCAACTTCAGAGAGATAAGATCTGTGTTTTTATTCTGCTCCACTGCAACTTCAAGAAGATTGGA
1 TGCAACTTCAGAAAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAAGAAGATAGAA
* * *
48614135 CTAGCAACTTCAATCTGCTCCACTGTAACTTTAGGGACATAAGATTGGTTGCGATCTACTCTACT
66 CTAACAACTTCAATCTACTCCACTGTAACTTCAGGGACATAAGATTGGTTGCGATCTACTCTACT
* *
48614200 GCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAAGA-
131 GCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
* * ** **
48614264 T-T-GGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCGGTCCA
196 TATAGCTT-CAATCTACTCTACTGCAACTTCAGAGAGATAAGAT-TG-G-TTACAATCCACTCCA
* **
48614327 CTGTAACTTCAG-GAAGATTGGA-CTAGTAACTTCAATCTGCTCC
257 CTGCAACTTCAGAG-AGATAAGATCT-GTAACTTCAATCTGCTCC
48614370 ACTACAACTT
Statistics
Matches: 255, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
321 3 0.01
322 33 0.13
323 2 0.01
324 5 0.02
325 212 0.83
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (324 bp):
TGCAACTTCAGAAAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAAGAAGATAGAA
CTAACAACTTCAATCTACTCCACTGTAACTTCAGGGACATAAGATTGGTTGCGATCTACTCTACT
GCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
TATAGCTTCAATCTACTCTACTGCAACTTCAGAGAGATAAGATTGGTTACAATCCACTCCACTGC
AACTTCAGAGAGATAAGATCTGTAACTTCAATCTGCTCCTAAGATTGGTTACGATCTACTCAAC
Found at i:48615198 original size:24 final size:23
Alignment explanation
Indices: 48615145--48615201 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
48615135 GGATTGCCCC
48615145 CACTGTAATATTCAAAGTTCAAT
1 CACTGTAATATTCAAAGTTCAAT
* * *
48615168 CAGCTGTAATCTTCAAGGTTCAGTT
1 CA-CTGTAATATTCAAAGTTCA-AT
48615193 CACTGTAAT
1 CACTGTAAT
48615202 TTTGGGACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 24 0.83
25 3 0.10
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (23 bp):
CACTGTAATATTCAAAGTTCAAT
Found at i:48615827 original size:97 final size:97
Alignment explanation
Indices: 48615657--48616041 Score: 626
Period size: 97 Copynumber: 4.0 Consensus size: 97
48615647 GAAAAATGCT
* *
48615657 TGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAACAAAGCTCGACATGAATAAAT
1 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAAT
* *
48615722 TAAGCAAGATAGCAAATTTTTCTAAGATAAGA
66 TAATCAAGATAGCAAATTTTGCTAAGATAAGA
* * * *
48615754 TGAAAAAGATTATCATAATGGATAAGATGAAATTTTATTGAGAGCACAGCTTGAAATGAATAAAT
1 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAAT
*
48615819 TAATCAAGATAGCAAATTTTGATAAGATAAGA
66 TAATCAAGATAGCAAATTTTGCTAAGATAAGA
* * *
48615851 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCACATCTCGAAATGAATAAAT
1 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAAT
*
48615916 TAATCAAGATAGTAAATTTTGCTAAGATAAGA
66 TAATCAAGATAGCAAATTTTGCTAAGATAAGA
* *
48615948 TGAAAAAGATTATCACAATGGATAAAATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAAC
1 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAAT
*
48616013 TAATCAAGATAGCAAATTTTGCTGAGATA
66 TAATCAAGATAGCAAATTTTGCTAAGATA
48616042 CGAAATGAAT
Statistics
Matches: 267, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 267 1.00
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (97 bp):
TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAAT
TAATCAAGATAGCAAATTTTGCTAAGATAAGA
Found at i:48615837 original size:49 final size:48
Alignment explanation
Indices: 48615777--48615935 Score: 125
Period size: 49 Copynumber: 3.3 Consensus size: 48
48615767 CATAATGGAT
48615777 AAGAT-GAAATTTTATTGAGAGCACAGCTTGAAATGAATAAATTAATC
1 AAGATAGAAATTTTATTGAGAGCACAGCTTGAAATGAATAAATTAATC
* * * * **
48615824 AAGATAGCAAATTTTGA-TAAGA-TA-AG-ATGAAAAAGATTATCACAATGGAT-
1 AAGATAG-AAATTTT-ATTGAGAGCACAGCTTG-AAATGA--AT-A-AATTAATC
* *
48615874 AAGAT-GAAATTTTATTGAGAGCACATCTCGAAATGAATAAATTAATC
1 AAGATAGAAATTTTATTGAGAGCACAGCTTGAAATGAATAAATTAATC
48615921 AAGATAGTAAATTTT
1 AAGATAG-AAATTTT
48615936 GCTAAGATAA
Statistics
Matches: 83, Mismatches: 14, Indels: 28
0.66 0.11 0.22
Matches are distributed among these distances:
46 7 0.08
47 19 0.23
48 16 0.19
49 22 0.27
50 13 0.16
51 6 0.07
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.30
Consensus pattern (48 bp):
AAGATAGAAATTTTATTGAGAGCACAGCTTGAAATGAATAAATTAATC
Found at i:48616335 original size:6 final size:6
Alignment explanation
Indices: 48616324--48616377 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
48616314 TTGGCCTCTC
* *
48616324 CTTTTT CTTTTT CTTTTT CTTTTC CTTTCTT TTCTTTT CTTTTT -TCTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTT-TT CT-TTTT CTTTTT CT-TTTT
48616374 CTTT
1 CTTT
48616378 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 1 0.03
6 31 0.77
7 6 0.15
8 2 0.05
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:48616340 original size:5 final size:5
Alignment explanation
Indices: 48616326--48616392 Score: 64
Period size: 5 Copynumber: 12.8 Consensus size: 5
48616316 GGCCTCTCCT
*
48616326 TTTTC TTTTTC TTTTTC TTTTC CTTTC TTTTC TTTTC TTTTTTC TTTTC
1 TTTTC -TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC --TTTTC TTTTC
* *
48616375 -TTTC TTTTT TTTTG TTTT
1 TTTTC TTTTC TTTTC TTTT
48616393 GAGCATTCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.07
5 34 0.63
6 11 0.20
7 5 0.09
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:48616354 original size:10 final size:9
Alignment explanation
Indices: 48616326--48616382 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
48616316 GGCCTCTCCT
48616326 TTTTCTTT-
1 TTTTCTTTC
48616334 TTCTT-TTTC
1 TT-TTCTTTC
48616343 TTTTCCTTTC
1 TTTT-CTTTC
48616353 TTTTCTTT-
1 TTTTCTTTC
48616361 TCTTT-TTTC
1 T-TTTCTTTC
48616370 TTTTCTTTC
1 TTTTCTTTC
48616379 TTTT
1 TTTT
48616383 TTTTTGTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
8 14 0.33
9 20 0.48
10 8 0.19
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:48616358 original size:27 final size:26
Alignment explanation
Indices: 48616326--48616392 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
48616316 GGCCTCTCCT
48616326 TTTTCTTTTTCTTTTTCTTTTCCTTTC
1 TTTTCTTTTTCTTTTTCTTTT-CTTTC
48616353 TTTTC-TTTTCTTTTTTCTTTTCTTTC
1 TTTTCTTTTTC-TTTTTCTTTTCTTTC
*
48616379 TTTT-TTTTTGTTTT
1 TTTTCTTTTTCTTTT
48616393 GAGCATTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 4 0.11
26 18 0.49
27 15 0.41
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.82
Consensus pattern (26 bp):
TTTTCTTTTTCTTTTTCTTTTCTTTC
Found at i:48621335 original size:3 final size:3
Alignment explanation
Indices: 48621327--48621379 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
48621317 AAATAGGAAT
** * * *
48621327 ATA ATA ATA ATA ATA ATA ACG ATA ATA ATA GTA ATA GTA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48621375 ATA AT
1 ATA AT
48621380 GGTACCATAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:48623352 original size:23 final size:23
Alignment explanation
Indices: 48623318--48623362 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
48623308 ATACATGCCA
*
48623318 TGTAATATCCCGAAAATTACTAT
1 TGTAATACCCCGAAAATTACTAT
48623341 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCGAAAATTACTA
48623363 CAGTAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAT
Found at i:48623368 original size:23 final size:23
Alignment explanation
Indices: 48623319--48623368 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
48623309 TACATGCCAT
* **
48623319 GTAATATCCCGAAAATTACTATT
1 GTAATACCCCGAAAATTACTACA
48623342 GTAATACCCCGAAAATTACTACA
1 GTAATACCCCGAAAATTACTACA
48623365 GTAA
1 GTAA
48623369 GAAAGTAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACTACA
Found at i:48626752 original size:51 final size:52
Alignment explanation
Indices: 48626693--48626913 Score: 236
Period size: 51 Copynumber: 4.3 Consensus size: 52
48626683 TTCGGTGGTT
* * *
48626693 TGCACATAGTACCACCCATGTGAACATTGTC-ATCCGATACACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* * * * * * * *
48626744 TACACATAGTACTACACACGTGATCA-AG-CTTTCCGGTTCACGTAGTAGCT
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* * * * *
48626794 TGCACATAGTACTACACAAGTGACCA-AGGCCATCCGATACACATAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* *
48626845 TGCACATAGTACTACACATGTGACCATTATCTAT-CGATAGACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
*
48626896 TGCACTTAGTACTACACA
1 TGCACATAGTACTACACA
48626914 CCTGTTCATA
Statistics
Matches: 140, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 1 0.01
50 42 0.30
51 94 0.67
52 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (52 bp):
TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
Found at i:48630293 original size:17 final size:17
Alignment explanation
Indices: 48630271--48630307 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
48630261 CTTTTGCAGT
48630271 AGCTTAGTCATAGAAGA
1 AGCTTAGTCATAGAAGA
*
48630288 AGCTTAGTCATAGGAGA
1 AGCTTAGTCATAGAAGA
48630305 AGC
1 AGC
48630308 AATCATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (17 bp):
AGCTTAGTCATAGAAGA
Found at i:48634542 original size:51 final size:50
Alignment explanation
Indices: 48634343--48634563 Score: 194
Period size: 51 Copynumber: 4.4 Consensus size: 50
48634333 TTCGGTGGTT
* * * *
48634343 TGCACATAGTACCACCCATGTGAACATTG-TCATCCGATACACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCA-AGCT-ATCCGATACACGTAGTAGCC
** * * * * *
48634394 TATACATAGTACTACACATGTGATCAAGCTTTCTGGTTCACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCAAGCTATCCGATACACGTAGTAGCC
* * * * * *
48634444 TACACATAGTACTACAAACGTGACCAAGGCCATCCGATAAACATAGTAGCC
1 TGCACATAGTACTACACATGTGACCAA-GCTATCCGATACACGTAGTAGCC
* * *
48634495 TGCACATAGTACTACACATGTGACCATTATCTAT-CAATAGACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCA--AGCTATCCGATACACGTAGTAGCC
*
48634546 TGCACTTAGTACTACACA
1 TGCACATAGTACTACACA
48634564 CCTGTTCATT
Statistics
Matches: 136, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
50 40 0.29
51 92 0.68
52 3 0.02
53 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
TGCACATAGTACTACACATGTGACCAAGCTATCCGATACACGTAGTAGCC
Found at i:48636002 original size:17 final size:17
Alignment explanation
Indices: 48635980--48636033 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
48635970 TGAGAGAAAT
48635980 TAAATAACAAAAATAAA
1 TAAATAACAAAAATAAA
*
48635997 TAAATAA-GAAAATAAA
1 TAAATAACAAAAATAAA
* * * *
48636013 CAAATGACTAAAATCAA
1 TAAATAACAAAAATAAA
48636030 TAAA
1 TAAA
48636034 ACCAAACAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.19
Consensus pattern (17 bp):
TAAATAACAAAAATAAA
Found at i:48642907 original size:16 final size:15
Alignment explanation
Indices: 48642875--48642914 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
48642865 TAAAAAAGAC
48642875 TTTATTTTTTAAAAT
1 TTTATTTTTTAAAAT
*
48642890 TTTATTTATTTCAAAT
1 TTTATTT-TTTAAAAT
*
48642906 TTTCTTTTT
1 TTTATTTTT
48642915 CGTTGCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATTTTTTAAAAT
Found at i:48646266 original size:41 final size:40
Alignment explanation
Indices: 48646186--48646325 Score: 144
Period size: 41 Copynumber: 3.5 Consensus size: 40
48646176 ACAAACCAAT
* * **
48646186 TTGGCACTCAGTGCCTCATC-AGATAATTCGAAGTAGTAAA
1 TTGGCACCCAGTGTCTCATCGA-ATAAACCGAAGTAGTAAA
*
48646226 TTGGCACCCAGTGTCTCCTCGAATAAATCCGAAGTAGTAAA
1 TTGGCACCCAGTGTCTCATCGAATAAA-CCGAAGTAGTAAA
* **
48646267 TTGACACCCAGTGTCTCATCGGTTAAACC-AA--AGTAAA
1 TTGGCACCCAGTGTCTCATCGAATAAACCGAAGTAGTAAA
* *
48646304 TTGGCACCTAGTGCCTCATCGA
1 TTGGCACCCAGTGTCTCATCGA
48646326 CTCGAAGTTG
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
37 24 0.28
39 2 0.02
40 23 0.27
41 36 0.42
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (40 bp):
TTGGCACCCAGTGTCTCATCGAATAAACCGAAGTAGTAAA
Found at i:48646948 original size:29 final size:28
Alignment explanation
Indices: 48646903--48646971 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
48646893 TTAACTCCCT
* *
48646903 ATTTT-CACTTTAATCCCTAAATT-TTGAA
1 ATTTTACAATTTAATCCCT--ATTATTCAA
*
48646931 ATTTTACAATTTAGTCCCTATTATTCAA
1 ATTTTACAATTTAATCCCTATTATTCAA
48646959 ATTTTACAATTTA
1 ATTTTACAATTTA
48646972 TTTTACAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 3 0.08
28 22 0.61
29 11 0.31
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.48
Consensus pattern (28 bp):
ATTTTACAATTTAATCCCTATTATTCAA
Found at i:48646976 original size:12 final size:12
Alignment explanation
Indices: 48646959--48646983 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48646949 TATTATTCAA
48646959 ATTTTACAATTT
1 ATTTTACAATTT
48646971 ATTTTACAATTT
1 ATTTTACAATTT
48646983 A
1 A
48646984 GTCCTTTTTC
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTTACAATTT
Found at i:48656398 original size:16 final size:17
Alignment explanation
Indices: 48656379--48656422 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
48656369 TACAAATTAA
48656379 AAATAAT-TATAAAAAT
1 AAATAATATATAAAAAT
48656395 AAATAATGATATAAAAAT
1 AAATAAT-ATATAAAAAT
*
48656413 AAAAAATATA
1 AAATAATATA
48656423 GAATATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 7 0.28
17 3 0.12
18 15 0.60
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAATAATATATAAAAAT
Found at i:48658424 original size:27 final size:27
Alignment explanation
Indices: 48658394--48658457 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
48658384 TTACCCCATG
*
48658394 TTTACTATCCC-GACGGACTATCCCGTA
1 TTTACTATCCCAG-CGGACAATCCCGTA
* * * *
48658421 TTTACTGTCTCAGCGGACAATCCTGTG
1 TTTACTATCCCAGCGGACAATCCCGTA
48658448 TTTACTATCC
1 TTTACTATCC
48658458 TAGTGGACTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (27 bp):
TTTACTATCCCAGCGGACAATCCCGTA
Found at i:48673118 original size:29 final size:29
Alignment explanation
Indices: 48673086--48673340 Score: 97
Period size: 29 Copynumber: 8.9 Consensus size: 29
48673076 TTAAAATTGA
48673086 GCCTTTGTGGCTATCTCTATTAAAGAAGT
1 GCCTTTGTGGCTATCTCTATTAAAGAAGT
* * *
48673115 GCCTTTGTGG-TAGTTTCT-GT-AAGAA-A
1 GCCTTTGTGGCTA-TCTCTATTAAAGAAGT
* * *
48673141 GCCTTTGTGG-TGATCTTTGTTATAAGAA-A
1 GCCTTTGTGGCT-ATCTCTATTA-AAGAAGT
* * * *
48673170 GCATTTTTGGCGATCTCTATTATAAGAA-A
1 GCCTTTGTGGCTATCTCTATTA-AAGAAGT
* *
48673199 GCCTTTGTGGCAATC-CTTATTATAAGAAAT
1 GCCTTTGTGGCTATCTC-TATTA-AAGAAGT
** * *
48673229 -CCTTTGTGGAGATCTCTGTTATA-AAGAT
1 GCCTTTGTGGCTATCTCTATTAAAGAAG-T
** * * *
48673257 GTTTTTGTAGCTATCTCTGTCAAAAGAACGT
1 GCCTTTGTGGCTATCTCTAT-TAAAGAA-GT
* *
48673288 --CTTTGTGGCTATCTCTATCAAAAGGAG-
1 GCCTTTGTGGCTATCTCTAT-TAAAGAAGT
* *
48673315 G-CATTGTGGCTATCTCTGTTAAAGAA
1 GCCTTTGTGGCTATCTCTATTAAAGAA
48673341 ATGTTTGGTG
Statistics
Matches: 176, Mismatches: 35, Indels: 32
0.72 0.14 0.13
Matches are distributed among these distances:
26 14 0.08
27 14 0.08
28 23 0.13
29 118 0.67
30 3 0.02
31 3 0.02
32 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (29 bp):
GCCTTTGTGGCTATCTCTATTAAAGAAGT
Found at i:48673202 original size:58 final size:58
Alignment explanation
Indices: 48673134--48673252 Score: 157
Period size: 58 Copynumber: 2.1 Consensus size: 58
48673124 GTAGTTTCTG
** * * * *
48673134 TAAGAAAGCCTTTGTGGTGATCTTTGTTATAAGAAAGCATTTTTGGCGATCTCTATTA
1 TAAGAAAGCCTTTGTGGCAATCCTTATTATAAGAAAGCATTTGTGGAGATCTCTATTA
* * *
48673192 TAAGAAAGCCTTTGTGGCAATCCTTATTATAAGAAATCCTTTGTGGAGATCTCTGTTA
1 TAAGAAAGCCTTTGTGGCAATCCTTATTATAAGAAAGCATTTGTGGAGATCTCTATTA
48673250 TAA
1 TAA
48673253 AGATGTTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (58 bp):
TAAGAAAGCCTTTGTGGCAATCCTTATTATAAGAAAGCATTTGTGGAGATCTCTATTA
Found at i:48679680 original size:43 final size:42
Alignment explanation
Indices: 48679584--48679746 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 42
48679574 AGGGTTACCA
* *
48679584 AGATTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
1 AGATTACGTGTAAGACCATATCTGGGACATGGCATCGATATG
* * *
48679626 AGACTT-TGTGTAAGACCATGTCTGGGACATCGGCATTGATATG
1 AGA-TTACGTGTAAGACCATATCTGGGACAT-GGCATCGATATG
* * ** * *
48679669 TGATTTCGTGTAAGACCATGGCTGGG-CTATTAGCATCGATACG
1 AGATTACGTGTAAGACCATATCTGGGAC-A-TGGCATCGATATG
* *
48679712 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGATTACGTGTAAGACCATATCTGGGACATGGCAT
48679747 TGTTACGGTA
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
42 32 0.33
43 64 0.66
44 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTGGGACATGGCATCGATATG
Found at i:48695038 original size:25 final size:25
Alignment explanation
Indices: 48695010--48695126 Score: 138
Period size: 25 Copynumber: 4.9 Consensus size: 25
48695000 CATCTGTTGC
* *
48695010 TTCTTTGATCCTCTACTGGTGCTGG
1 TTCTTTGTTCCTCTGCTGGTGCTGG
* *
48695035 TTCTTTGTTCTTCTGCTGGTGCTAG
1 TTCTTTGTTCCTCTGCTGGTGCTGG
*
48695060 TTCTTT-TT--TC--CT-TTGCTGG
1 TTCTTTGTTCCTCTGCTGGTGCTGG
*
48695079 TTATTTGTTCCTCTGCTGGTGCTGG
1 TTCTTTGTTCCTCTGCTGGTGCTGG
48695104 TTCTTTGTTCCTCTGCTGGTGCT
1 TTCTTTGTTCCTCTGCTGGTGCT
48695127 TTGTTCCTCT
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.13
20 4 0.05
22 4 0.05
24 4 0.05
25 55 0.71
ACGTcount: A:0.03, C:0.22, G:0.23, T:0.51
Consensus pattern (25 bp):
TTCTTTGTTCCTCTGCTGGTGCTGG
Found at i:48695077 original size:44 final size:44
Alignment explanation
Indices: 48695029--48695136 Score: 162
Period size: 44 Copynumber: 2.5 Consensus size: 44
48695019 CCTCTACTGG
* * *
48695029 TGCTGGTTCTTTGTTCTTCTGCTGGTGCTAGTTCTTTTTTCCTT
1 TGCTGGTTCTTTGTTCCTCTGCTGGTGCTAGTTCTTTGTTCCTC
* *
48695073 TGCTGGTTATTTGTTCCTCTGCTGGTGCTGGTTCTTTGTTCCTC
1 TGCTGGTTCTTTGTTCCTCTGCTGGTGCTAGTTCTTTGTTCCTC
*
48695117 TGCTGGTGCTTTGTTCCTCT
1 TGCTGGTTCTTTGTTCCTCT
48695137 TCTCCACCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.02, C:0.22, G:0.23, T:0.53
Consensus pattern (44 bp):
TGCTGGTTCTTTGTTCCTCTGCTGGTGCTAGTTCTTTGTTCCTC
Found at i:48695122 original size:19 final size:19
Alignment explanation
Indices: 48695098--48695136 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
48695088 CCTCTGCTGG
*
48695098 TGCTGGTTCTTTGTTCCTC
1 TGCTGGTGCTTTGTTCCTC
48695117 TGCTGGTGCTTTGTTCCTC
1 TGCTGGTGCTTTGTTCCTC
48695136 T
1 T
48695137 TCTCCACCAC
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:0.00, C:0.26, G:0.23, T:0.51
Consensus pattern (19 bp):
TGCTGGTGCTTTGTTCCTC
Found at i:48695842 original size:13 final size:13
Alignment explanation
Indices: 48695824--48695848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48695814 ATTTGATCTT
48695824 AGAAGAAAAAAAA
1 AGAAGAAAAAAAA
48695837 AGAAGAAAAAAA
1 AGAAGAAAAAAA
48695849 CTCATTGCTT
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAAAA
Found at i:48697576 original size:24 final size:24
Alignment explanation
Indices: 48697549--48697609 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
48697539 TATTCTGCGA
48697549 TTTCCTTCCCCTTTCATTCCTCAG
1 TTTCCTTCCCCTTTCATTCCTCAG
48697573 TTTCCTTCCCCTTTCATTCCTCAG
1 TTTCCTTCCCCTTTCATTCCTCAG
48697597 TTTCCTTCCCCTT
1 TTTCCTTCCCCTT
48697610 AGGTTACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.07, C:0.43, G:0.03, T:0.48
Consensus pattern (24 bp):
TTTCCTTCCCCTTTCATTCCTCAG
Found at i:48697581 original size:13 final size:13
Alignment explanation
Indices: 48697560--48697605 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
48697550 TTCCTTCCCC
48697560 TTTCATTCCTCAG
1 TTTCATTCCTCAG
* *
48697573 TTTCCTTCC-C-C
1 TTTCATTCCTCAG
48697584 TTTCATTCCTCAG
1 TTTCATTCCTCAG
*
48697597 TTTCCTTCC
1 TTTCATTCC
48697606 CCTTAGGTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 16 0.62
ACGTcount: A:0.09, C:0.39, G:0.04, T:0.48
Consensus pattern (13 bp):
TTTCATTCCTCAG
Found at i:48699238 original size:18 final size:18
Alignment explanation
Indices: 48699215--48699262 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
48699205 AAAATATGAG
48699215 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
48699233 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
48699251 AAATGATGTTCA
1 AAATGATGTTCA
48699263 AATTGATGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:48699793 original size:72 final size:73
Alignment explanation
Indices: 48699686--48699858 Score: 228
Period size: 72 Copynumber: 2.4 Consensus size: 73
48699676 AACAACAATG
* * * * *
48699686 CTAAA-CTAGTTTTATCAACAGTTATTTATGCTTGGTTTTTGGATATTGAATTTATGTTCTACTT
1 CTAAATCTAGTTTTATCAAAAGTTGTTTATGCTTGGTCTTTAGATATTGAATTTATATTCTACTT
48699750 ATTTATTT-
66 ATTT-TTTA
* * *
48699758 GT-AATCTAGTTTTATTAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTT
1 CTAAATCTAGTTTTATCAAAAGTTGTTTATGCTTGGTCTTTAGATATTGAATTTATATTCTACTT
48699822 ATTTTTTA
66 ATTTTTTA
*
48699830 CTAAAT-TAGTTTTATCAATAGTTGTTTAT
1 CTAAATCTAGTTTTATCAAAAGTTGTTTAT
48699859 ATGTGATTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
71 5 0.06
72 79 0.91
73 3 0.03
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.54
Consensus pattern (73 bp):
CTAAATCTAGTTTTATCAAAAGTTGTTTATGCTTGGTCTTTAGATATTGAATTTATATTCTACTT
ATTTTTTA
Done.