Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 151 of 203
Found at i:47997249 original size:25 final size:24
Alignment explanation
Indices: 47997221--47997268 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
47997211 AATTTAATCA
*
47997221 TAAATATTAATATAAAATAATTTTT
1 TAAATAATAA-ATAAAATAATTTTT
* *
47997246 TAAATAATAAATTATATAATTTT
1 TAAATAATAAATAAAATAATTTT
47997269 AATGGGTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAATAATAAATAAAATAATTTTT
Found at i:48000864 original size:19 final size:20
Alignment explanation
Indices: 48000828--48000866 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48000818 ATTGTTAAAC
*
48000828 TTTATTTAATATATGTTGCT
1 TTTAATTAATATATGTTGCT
*
48000848 TTTAATTAATCTA-GTTGCT
1 TTTAATTAATATATGTTGCT
48000867 GAAATAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTAATTAATATATGTTGCT
Found at i:48001097 original size:23 final size:24
Alignment explanation
Indices: 48001070--48001128 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 24
48001060 AGTTATATAC
*
48001070 AAAGGGAGCATTATATATC-ATTT
1 AAAGGGAGCATTATATATCAATTA
48001093 AAA-GGAGC-TGT-TATATCAATTA
1 AAAGGGAGCAT-TATATATCAATTA
48001115 AAAGGAGAGCATTA
1 AAAGG-GAGCATTA
48001129 CACCTCCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
21 7 0.24
22 12 0.41
23 4 0.14
24 5 0.17
25 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAGGGAGCATTATATATCAATTA
Found at i:48003063 original size:18 final size:17
Alignment explanation
Indices: 48003029--48003070 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
48003019 AAATAGAGAG
48003029 AAGAAAAATGAAAGAAA
1 AAGAAAAATGAAAGAAA
48003046 AAGAAAAAT-AAATCGAAA
1 AAGAAAAATGAAA--GAAA
48003064 AAGAAAA
1 AAGAAAA
48003071 TGAGAGCGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.13
17 9 0.39
18 11 0.48
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.07
Consensus pattern (17 bp):
AAGAAAAATGAAAGAAA
Found at i:48004160 original size:83 final size:83
Alignment explanation
Indices: 48004021--48004185 Score: 312
Period size: 83 Copynumber: 2.0 Consensus size: 83
48004011 TTAATTCAGT
*
48004021 TGATTCAATTCATTTGAATGCTTAGGTTTCATTCTTAAGCATCCAAAGGTGTTTAAGAAAACTTT
1 TGATTCAATTCACTTGAATGCTTAGGTTTCATTCTTAAGCATCCAAAGGTGTTTAAGAAAACTTT
48004086 TGAAGTCCCTCTTGGCCC
66 TGAAGTCCCTCTTGGCCC
*
48004104 TGATTCAATTCACTTGAATGCTTAGGTTTTATTCTTAAGCATCCAAAGGTGTTTAAGAAAACTTT
1 TGATTCAATTCACTTGAATGCTTAGGTTTCATTCTTAAGCATCCAAAGGTGTTTAAGAAAACTTT
48004169 TGAAGTCCCTCTTGGCC
66 TGAAGTCCCTCTTGGCC
48004186 AGTCGAATGG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (83 bp):
TGATTCAATTCACTTGAATGCTTAGGTTTCATTCTTAAGCATCCAAAGGTGTTTAAGAAAACTTT
TGAAGTCCCTCTTGGCCC
Found at i:48008834 original size:26 final size:27
Alignment explanation
Indices: 48008805--48008868 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 27
48008795 AGCCCGGCCC
*
48008805 ATTTTTAAAAT-AAACATTAAAAAATT
1 ATTTTTAAAATAAAACATAAAAAAATT
*
48008831 ATTTTAAAAATAAAAAACATAAAAAAATT
1 ATTTTTAAAAT--AAAACATAAAAAAATT
48008860 A-TTTTAAAA
1 ATTTTTAAAA
48008869 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 10 0.31
28 7 0.22
29 15 0.47
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
ATTTTTAAAATAAAACATAAAAAAATT
Found at i:48013875 original size:18 final size:18
Alignment explanation
Indices: 48013848--48013883 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
48013838 ATGTTAAATT
48013848 TAAAAAATAAAAC-AAAA
1 TAAAAAATAAAACTAAAA
48013865 TAAATAAATAAAACTAAAA
1 TAAA-AAATAAAACTAAAA
48013884 GTAACTAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 9 0.53
19 4 0.24
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (18 bp):
TAAAAAATAAAACTAAAA
Found at i:48014222 original size:15 final size:16
Alignment explanation
Indices: 48014199--48014231 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
48014189 TATTAATAAA
48014199 AATTCTAAAA-TTTAT
1 AATTCTAAAATTTTAT
*
48014214 AATTTTAAAATTTTAT
1 AATTCTAAAATTTTAT
48014230 AA
1 AA
48014232 AAAATTACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTCTAAAATTTTAT
Found at i:48014661 original size:35 final size:34
Alignment explanation
Indices: 48014622--48014736 Score: 162
Period size: 35 Copynumber: 3.4 Consensus size: 34
48014612 TTGTCTTTTC
*
48014622 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTG
1 TTGCAGGGAATCTTTCCTGTTCACGCATTATT-TG
* *
48014657 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTTTCCTGTTCACGCATTATTTG
*
48014689 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTTTCCTGTTCACGCATTA-TTTG
48014724 TTGCAGGGAATCT
1 TTGCAGGGAATCT
48014737 NNNNNNNNNN
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
32 23 0.32
33 6 0.08
34 4 0.06
35 38 0.54
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (34 bp):
TTGCAGGGAATCTTTCCTGTTCACGCATTATTTG
Found at i:48028453 original size:39 final size:37
Alignment explanation
Indices: 48028393--48028490 Score: 125
Period size: 40 Copynumber: 2.7 Consensus size: 37
48028383 ACCAAAATTT
48028393 TATTTT-AAAAA--TTAAAAT-AAAAATTAAAAAAAAG
1 TATTTTAAAAAATTTTAAAATAAAAAATT-AAAAAAAG
48028427 TATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAAG
1 TATTTTAAAAA-ATTTTAAAA-T-AAAAAATTAAAAAAAG
48028467 TATTTTAAAAAATTTTAAAA-AAAA
1 TATTTTAAAAAATTTTAAAATAAAA
48028491 TTTAAAATTA
Statistics
Matches: 57, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
34 6 0.11
35 4 0.07
36 5 0.09
38 6 0.11
39 10 0.18
40 19 0.33
41 7 0.12
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (37 bp):
TATTTTAAAAAATTTTAAAATAAAAAATTAAAAAAAG
Found at i:48028465 original size:50 final size:50
Alignment explanation
Indices: 48028399--48028515 Score: 137
Period size: 50 Copynumber: 2.3 Consensus size: 50
48028389 ATTTTATTTT
* * *
48028399 AAAAATTAAAATAAA-AATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAA-AAAGTA-TAAAAAAAA--ATTTTAAAAAAAATTTAAAATTAA
***
48028452 AAAAATTAAAAAAAGTATTTTAAAAAATTTTAAAAAAAATTTAAAATTAA
1 AAAAATTAAAAAAAGTATAAAAAAAAATTTTAAAAAAAATTTAAAATTAA
48028502 AAAAATTAAAAAAA
1 AAAAATTAAAAAAA
48028516 AAGTATTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 36 0.63
52 9 0.16
53 12 0.21
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (50 bp):
AAAAATTAAAAAAAGTATAAAAAAAAATTTTAAAAAAAATTTAAAATTAA
Found at i:48028493 original size:22 final size:21
Alignment explanation
Indices: 48028448--48028497 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
48028438 TATTTTAAAA
48028448 TTAAAAAAATTAAAAAAAGTATT
1 TTAAAAAAATTAAAAAAAG-A-T
*
48028471 TTAAAAAATTTTAAAAAAA-AT
1 TTAAAAAA-ATTAAAAAAAGAT
48028492 TTAAAA
1 TTAAAA
48028498 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 1 0.04
23 8 0.32
24 9 0.36
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
TTAAAAAAATTAAAAAAAGAT
Found at i:48028529 original size:50 final size:49
Alignment explanation
Indices: 48028428--48028539 Score: 158
Period size: 50 Copynumber: 2.3 Consensus size: 49
48028418 AAAAAAAAGT
* *
48028428 ATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 ATTTTAAAAAAAATTTAAAATTAAAAAAATTAAAAAAAGTATTTT-AAAA
48028478 ATTTTAAAAAAAATTTAAAATTAAAAAAATTAAAAAAAAAGTATTTT-AAA
1 ATTTTAAAAAAAATTTAAAATTAAAAAAATT--AAAAAAAGTATTTTAAAA
48028528 A--TTAAAAAAAAT
1 ATTTTAAAAAAAAT
48028540 AAAAAAAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
48 11 0.19
50 33 0.57
52 14 0.24
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (49 bp):
ATTTTAAAAAAAATTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAA
Found at i:48032635 original size:21 final size:22
Alignment explanation
Indices: 48032600--48032645 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
48032590 TCAAGTATAT
*
48032600 ACTCATAATTGTTCATTTCA-A
1 ACTCATAATTGTTCATATCAGA
48032621 ACTCAT-ATTGTTTCATATCAGA
1 ACTCATAATTG-TTCATATCAGA
48032643 ACT
1 ACT
48032646 TTGCCCGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 14 0.64
22 4 0.18
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.41
Consensus pattern (22 bp):
ACTCATAATTGTTCATATCAGA
Found at i:48037052 original size:44 final size:44
Alignment explanation
Indices: 48036981--48037064 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
48036971 ATTACATGAT
* * * *
48036981 TTTGTATAAGACCATAGCTGGGCTATGGCATTGATATATGAGAC
1 TTTGCATAAGACCATAGCTAGGATATGGCATCGATATATGAGAC
*
48037025 TTTGCATAAGACCATATCTAGGATATGGCATCGATATATG
1 TTTGCATAAGACCATAGCTAGGATATGGCATCGATATATG
48037065 TGATTACGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (44 bp):
TTTGCATAAGACCATAGCTAGGATATGGCATCGATATATGAGAC
Found at i:48037079 original size:44 final size:44
Alignment explanation
Indices: 48037031--48037242 Score: 197
Period size: 43 Copynumber: 5.0 Consensus size: 44
48037021 AGACTTTGCA
*
48037031 TAAGACCATATCTAGGATA-TGGCATCGATATATGTGATTACGTG
1 TAAGACCATATCTGGGATATTGGCATCG-TATATGTGATTACGTG
* * *
48037075 TAAGACCATGTCTGGGACATTGGCATCGT-TATGTGATTTCGTG
1 TAAGACCATATCTGGGATATTGGCATCGTATATGTGATTACGTG
* * * * * *
48037118 GAAGACCATGTCCGGGACATTGGCATCG-ATATATGATT-CATG
1 TAAGACCATATCTGGGATATTGGCATCGTATATGTGATTACGTG
* * * * * *
48037160 TAGGACCATAGCTGGGCTATTGGTATCG-ATATGTGATAACATG
1 TAAGACCATATCTGGGATATTGGCATCGTATATGTGATTACGTG
*
48037203 CAAGACCATATCTGGGATA-TGGCAT--TATATGTGATATACG
1 TAAGACCATATCTGGGATATTGGCATCGTATATGTGAT-TACG
48037243 AGACTTCCGA
Statistics
Matches: 138, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
41 9 0.07
42 38 0.28
43 66 0.48
44 17 0.12
45 8 0.06
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (44 bp):
TAAGACCATATCTGGGATATTGGCATCGTATATGTGATTACGTG
Found at i:48037208 original size:85 final size:87
Alignment explanation
Indices: 48037050--48037211 Score: 197
Period size: 85 Copynumber: 1.9 Consensus size: 87
48037040 ATCTAGGATA
* * **
48037050 TGGCATCGATATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTTC
1 TGGCATCGATATA-GTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATAAC
* *
48037115 GTGGAAGACCATGTCCGGGACAT
65 ATGCAAGACCATGTCCGGGACAT
* *
48037138 TGGCATCGATATA-TGATT-CATGTAGGACCATAG-CTGGG-CTATTGGTATCGATATGTGATAA
1 TGGCATCGATATAGTGATTACATGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATATGTGATAA
48037199 CATGCAAGACCAT
64 CATGCAAGACCAT
48037212 ATCTGGGATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
84 1 0.02
85 44 0.69
86 6 0.09
88 13 0.20
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (87 bp):
TGGCATCGATATAGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATAACA
TGCAAGACCATGTCCGGGACAT
Found at i:48054702 original size:81 final size:84
Alignment explanation
Indices: 48054596--48054747 Score: 186
Period size: 81 Copynumber: 1.8 Consensus size: 84
48054586 CACCTATCAT
* * ** **
48054596 CCATCAATTCCTTTGAATCAGAATCATTCATAATTTCACCCTCA-T-CTTT-CAAACAAACCACA
1 CCATCAATTCCTTTCAACCAGAATCACCCATAAGGTCACCCTCATTACTTTCCAAACAAACCACA
*
48054658 GTATCATCATTCGCATTGC
66 CTATCATCATTCGCATTGC
* *
48054677 CCATCAATTCC-TTCAAGCCAGAATCACCCATAAGGTCACCCTGATTATTTTCCAAACAAACCAC
1 CCATCAATTCCTTTCAA-CCAGAATCACCCATAAGGTCACCCTCATTACTTTCCAAACAAACCAC
48054741 ACTATCA
65 ACTATCA
48054748 CCGCACATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
80 4 0.07
81 32 0.55
82 1 0.02
83 3 0.05
84 18 0.31
ACGTcount: A:0.34, C:0.32, G:0.07, T:0.28
Consensus pattern (84 bp):
CCATCAATTCCTTTCAACCAGAATCACCCATAAGGTCACCCTCATTACTTTCCAAACAAACCACA
CTATCATCATTCGCATTGC
Found at i:48068936 original size:18 final size:18
Alignment explanation
Indices: 48068913--48068950 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
48068903 GATAGTGAGT
48068913 CATGTCATGACGTCAAAC
1 CATGTCATGACGTCAAAC
48068931 CATGTCATGACGTCAAAC
1 CATGTCATGACGTCAAAC
48068949 CA
1 CA
48068951 CTTGACATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (18 bp):
CATGTCATGACGTCAAAC
Found at i:48075398 original size:15 final size:16
Alignment explanation
Indices: 48075378--48075407 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48075368 ATTGTATTAT
48075378 TTAATTGTT-TAATAG
1 TTAATTGTTGTAATAG
48075393 TTAATTGTTGTAATA
1 TTAATTGTTGTAATA
48075408 CAATAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (16 bp):
TTAATTGTTGTAATAG
Found at i:48083134 original size:39 final size:39
Alignment explanation
Indices: 48083053--48083172 Score: 111
Period size: 39 Copynumber: 2.9 Consensus size: 39
48083043 ATTTGCCGGC
* * * *
48083053 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTA
48083091 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTA
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTA
48083130 TTACTG-TTACCGACTCGACACTTTGTGTGTCGAATACTGTTAC
1 TTACTGATT--CG----G-CACTTTGTGTGTCGAATACTGTTAC
48083173 CGTTACTGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
38 14 0.20
39 27 0.39
40 2 0.03
44 1 0.01
45 25 0.36
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.38
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTA
Found at i:48083152 original size:45 final size:45
Alignment explanation
Indices: 48083080--48083229 Score: 194
Period size: 45 Copynumber: 3.3 Consensus size: 45
48083070 ATGTGCCGAC
* *
48083080 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
* * *
48083125 TACTATTACTGTTACCGACTCGACACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
* * * *
48083170 TACCGTTACTGTTACAGGTTC-AGCACTTTGTATGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTGT
*
48083215 TACTGTTACCGTTAC
1 TACTGTTACTGTTAC
48083230 TGCTACCGTT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 90 0.99
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
Found at i:48083220 original size:6 final size:6
Alignment explanation
Indices: 48083209--48083257 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
48083199 GTATGTTGAA
* * *
48083209 TACTGT TACTGT TACCGT TACTGC TACCGT TACTGAT TACTGT TCACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T-ACTG
48083258 GTGTGTTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.41
Consensus pattern (6 bp):
TACTGT
Found at i:48083877 original size:9 final size:9
Alignment explanation
Indices: 48083860--48083893 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
48083850 GTGAAATGAT
48083860 TTGGTTGAA
1 TTGGTTGAA
*
48083869 TTTGTTGAA
1 TTGGTTGAA
48083878 TTGGTTGAA
1 TTGGTTGAA
48083887 TTGGTTG
1 TTGGTTG
48083894 TGATTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (9 bp):
TTGGTTGAA
Found at i:48084817 original size:42 final size:42
Alignment explanation
Indices: 48084713--48084875 Score: 181
Period size: 43 Copynumber: 3.8 Consensus size: 42
48084703 CAAAAATATC
*
48084713 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAA
* * * *
48084755 ATAACGATGTC-ACTGTCCCAGAC-CGAGTCTTACACGTAATCAT
1 AT-ACAATGCCAAC-GTCCCAGACATG-GTCTTACACGTAATCAA
* *
48084798 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCGCAA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGT-AAT--CAA
48084843 AT-CAATGCCAACGTCCCAGACA-GGTCTTACACG
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACG
48084876 ATATCACATA
Statistics
Matches: 102, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
42 32 0.31
43 48 0.47
44 18 0.18
45 4 0.04
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAA
Found at i:48084870 original size:85 final size:84
Alignment explanation
Indices: 48084713--48084875 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 84
48084703 CAAAAATATC
* * *
48084713 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATAACGATGTCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAAT-ACAATGCCACTGTCCCAGAC
*
48084778 CGAGTCTTACACGTAATCAT
65 AGAGTCTTACACGTAATCAT
* *
48084798 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCGCAAAT-CAATGCCAAC-GTCCCA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGT-AAT--CAAATACAATGCC-ACTGTCCCA
48084861 GACAG-GTCTTACACG
62 GACAGAGTCTTACACG
48084876 ATATCACATA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
85 43 0.63
86 18 0.26
87 2 0.03
88 5 0.07
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (84 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATACAATGCCACTGTCCCAGACA
GAGTCTTACACGTAATCAT
Found at i:48091410 original size:2 final size:2
Alignment explanation
Indices: 48091403--48091439 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
48091393 CTTAACTATA
48091403 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
48091440 AAGTATGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:48103530 original size:26 final size:27
Alignment explanation
Indices: 48103501--48103559 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
48103491 AACCTTAAAG
48103501 TAAAC-TTGTTTTCTCATTTTAATACC
1 TAAACTTTGTTTTCTCATTTTAATACC
* *
48103527 TAAACTTTTTTTTTTCTCATTTTGATACC
1 TAAAC--TTTGTTTTCTCATTTTAATACC
48103556 TAAA
1 TAAA
48103560 GTACTATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 5 0.18
29 23 0.82
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (27 bp):
TAAACTTTGTTTTCTCATTTTAATACC
Found at i:48103944 original size:19 final size:19
Alignment explanation
Indices: 48103922--48103981 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
48103912 ATAAAAAATA
*
48103922 AAAATAAATAAAATTTATT
1 AAAATAATTAAAATTTATT
* *
48103941 AAAAT-ATTAAATTTTAATA
1 AAAATAATTAAAATTT-ATT
*
48103960 AAAATATTTAAAATTTATT
1 AAAATAATTAAAATTTATT
48103979 AAA
1 AAA
48103982 TATTAGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 8 0.24
19 17 0.52
20 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATAATTAAAATTTATT
Found at i:48103956 original size:18 final size:18
Alignment explanation
Indices: 48103930--48103986 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
48103920 TAAAAATAAA
48103930 TAAAATTTATTAAAATAT
1 TAAAATTTATTAAAATAT
* *
48103948 TAAATTTTAATAAAAATATT
1 TAAAATTT-ATTAAAATA-T
48103968 TAAAATTTATT-AAATAT
1 TAAAATTTATTAAAATAT
48103985 TA
1 TA
48103987 GAAAAAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 3 0.09
18 12 0.36
19 10 0.30
20 8 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAATTTATTAAAATAT
Found at i:48104010 original size:19 final size:19
Alignment explanation
Indices: 48103988--48104061 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 19
48103978 TAAATATTAG
*
48103988 AAAAAATCATAAAAATCAT
1 AAAAAATTATAAAAATCAT
*
48104007 AAAAAAAATTATAAAAAAT-TT
1 --AAAAAATTAT-AAAAATCAT
* *
48104028 TAAAATTTAATAAAAATCAT
1 AAAAAATT-ATAAAAATCAT
48104048 AAAAAATTATAAAA
1 AAAAAATTATAAAA
48104062 TGCAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
19 18 0.42
20 9 0.21
21 10 0.23
22 6 0.14
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAAATTATAAAAATCAT
Found at i:48104011 original size:10 final size:10
Alignment explanation
Indices: 48103988--48104061 Score: 53
Period size: 10 Copynumber: 7.4 Consensus size: 10
48103978 TAAATATTAG
48103988 AAAAAATCAT
1 AAAAAATCAT
48103998 -AAAAATCAT
1 AAAAAATCAT
*
48104007 AAAAAAAATTAT
1 --AAAAAATCAT
**
48104019 AAAAAATTTT
1 AAAAAATCAT
** *
48104029 AAAATTTAAT
1 AAAAAATCAT
48104039 -AAAAATCAT
1 AAAAAATCAT
*
48104048 AAAAAATTAT
1 AAAAAATCAT
48104058 AAAA
1 AAAA
48104062 TGCAACAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
9 15 0.30
10 27 0.54
12 8 0.16
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAAATCAT
Found at i:48104022 original size:9 final size:9
Alignment explanation
Indices: 48103904--48104061 Score: 52
Period size: 10 Copynumber: 16.4 Consensus size: 9
48103894 ACATGTGGCA
48103904 AAAAGATTAT
1 AAAA-ATTAT
48103914 AAAAA--AT
1 AAAAATTAT
*
48103921 AAAAATAAAT
1 AAAAAT-TAT
*
48103931 AAAATTTAT
1 AAAAATTAT
*
48103940 TAAAA-TATT
1 AAAAATTA-T
**
48103949 AAATTTTAAT
1 AAAAATT-AT
*
48103959 AAAAATATTT
1 AAAAAT-TAT
*
48103969 AAAATTTATT
1 AAAAATTA-T
* *
48103979 AAATATTAGA
1 AAAAATTA-T
*
48103989 AAAAATCAT
1 AAAAATTAT
*
48103998 AAAAATCATAAA
1 AAAAAT--T-AT
48104010 AAAAATTAT
1 AAAAATTAT
*
48104019 AAAAAATTTT
1 -AAAAATTAT
*
48104029 AAAATTTAAT
1 AAAAATT-AT
*
48104039 AAAAATCAT
1 AAAAATTAT
48104048 AAAAAATTAT
1 -AAAAATTAT
48104058 AAAA
1 AAAA
48104062 TGCAACAAAA
Statistics
Matches: 106, Mismatches: 28, Indels: 29
0.65 0.17 0.18
Matches are distributed among these distances:
7 7 0.07
8 2 0.02
9 29 0.27
10 59 0.56
11 2 0.02
12 7 0.07
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:48104043 original size:29 final size:30
Alignment explanation
Indices: 48103959--48104062 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 30
48103949 AAATTTTAAT
* * *
48103959 AAAAATATTTAAAATTTATTAAATATTAGA
1 AAAAATATTTAAAATTTAATAAAAATTATA
* * *
48103989 AAAAATCA-TAAAAATCATAAAAAAAATTATA
1 AAAAAT-ATTTAAAAT-TTAATAAAAATTATA
*
48104020 AAAAAT-TTTAAAATTTAATAAAAATCATA
1 AAAAATATTTAAAATTTAATAAAAATTATA
*
48104049 AAAAAT-TATAAAAT
1 AAAAATATTTAAAAT
48104063 GCAACAAAAG
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
29 25 0.42
30 18 0.30
31 17 0.28
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (30 bp):
AAAAATATTTAAAATTTAATAAAAATTATA
Found at i:48104071 original size:29 final size:29
Alignment explanation
Indices: 48104010--48104071 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
48104000 AAATCATAAA
* * ** *
48104010 AAAAATTATAAAAAATTTTAAAATTTAAT
1 AAAAATCATAAAAAATTATAAAATGCAAC
48104039 AAAAATCATAAAAAATTATAAAATGCAAC
1 AAAAATCATAAAAAATTATAAAATGCAAC
48104068 AAAA
1 AAAA
48104072 GCCCTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (29 bp):
AAAAATCATAAAAAATTATAAAATGCAAC
Found at i:48104266 original size:20 final size:19
Alignment explanation
Indices: 48104229--48104276 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
48104219 ATTTTATATG
48104229 AATTTTAT-ATTTCTTTAC
1 AATTTTATAATTTCTTTAC
48104247 ATATTTTATAATTT-TCTTAC
1 A-ATTTTATAATTTCT-TTAC
*
48104267 AACTTTATAA
1 AATTTTATAA
48104277 AATTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 16 0.62
20 9 0.35
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTTTATAATTTCTTTAC
Found at i:48104351 original size:20 final size:19
Alignment explanation
Indices: 48104308--48104369 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
48104298 TTTCTATATG
48104308 TTTTATAAAATTTTACGAT
1 TTTTATAAAATTTTACGAT
*
48104327 TTTTATAAAATTTTACAGTT
1 TTTTATAAAATTTTAC-GAT
**
48104347 TTTTATAATTTTTTTACGAT
1 TTTTATAA-AATTTTACGAT
48104367 TTT
1 TTT
48104370 GTAATTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 16 0.43
20 15 0.41
21 6 0.16
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTATAAAATTTTACGAT
Found at i:48104720 original size:13 final size:13
Alignment explanation
Indices: 48104702--48104726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48104692 ATAACAAATA
48104702 TAAAAATATATAT
1 TAAAAATATATAT
48104715 TAAAAATATATA
1 TAAAAATATATA
48104727 AAATAGAAGA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAAATATATAT
Found at i:48106660 original size:7 final size:7
Alignment explanation
Indices: 48106648--48106675 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
48106638 AGACATAATA
48106648 GTGAAAT
1 GTGAAAT
48106655 GTGAAAT
1 GTGAAAT
48106662 GTGAAAT
1 GTGAAAT
48106669 GTGAAAT
1 GTGAAAT
48106676 TAAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
GTGAAAT
Found at i:48110885 original size:12 final size:12
Alignment explanation
Indices: 48110868--48110892 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48110858 GTAAAAGTGC
48110868 ATATTTTATTAA
1 ATATTTTATTAA
48110880 ATATTTTATTAA
1 ATATTTTATTAA
48110892 A
1 A
48110893 ATTAGTGAAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATTTTATTAA
Found at i:48112094 original size:22 final size:22
Alignment explanation
Indices: 48112046--48112087 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
48112036 AATATAATAG
48112046 CAAAATGACAACAAAGCAACAT
1 CAAAATGACAACAAAGCAACAT
*
48112068 CAAAATGACAATAAA-CAACA
1 CAAAATGACAACAAAGCAACA
48112088 GTGAAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.62, C:0.21, G:0.07, T:0.10
Consensus pattern (22 bp):
CAAAATGACAACAAAGCAACAT
Found at i:48113032 original size:12 final size:12
Alignment explanation
Indices: 48113015--48113040 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48113005 CAAAACAGGC
48113015 TTTTAGCGGCGT
1 TTTTAGCGGCGT
48113027 TTTTAGCGGCGT
1 TTTTAGCGGCGT
48113039 TT
1 TT
48113041 AGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:48113099 original size:40 final size:38
Alignment explanation
Indices: 48113047--48113166 Score: 127
Period size: 40 Copynumber: 3.1 Consensus size: 38
48113037 GTTTAGACAA
* *
48113047 AAAACG-CACTAAAAATCAAGCTTTAGCGGCGCTTTTAT
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT-T
** *
48113085 AAAACCGCCGCTAAAGGTCGAGCATTAGCGGCGCTTTTT
1 AAAA-CGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTT
* *
48113124 GGAAAACGCCGCTAAAAAT-AAGCATTAACGGCGTTTTTT
1 --AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTT
48113163 AAAA
1 AAAA
48113167 AGCGTCGCAA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
37 4 0.06
38 4 0.06
39 20 0.29
40 36 0.53
41 4 0.06
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (38 bp):
AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTT
Found at i:48113306 original size:41 final size:41
Alignment explanation
Indices: 48113219--48113333 Score: 155
Period size: 41 Copynumber: 2.8 Consensus size: 41
48113209 TTTTTGGGGG
48113219 CTTTAGCGGCGTTTTT-ATGAAAGCGCCGCTAATGCTCGAGC
1 CTTTAGCGGCGTTTTTGA-GAAAGCGCCGCTAATGCTCGAGC
* * *
48113260 TTTTAGTGGCTTTTTTGAGAAAGCGCCGCTAATGCTCCG-GC
1 CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT-CGAGC
48113301 CTTTAGCGGCGTTTTTGA-AAATGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGAGAAA-GCGCCGCTAAT
48113334 AATAATAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
40 3 0.05
41 59 0.91
42 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGAGC
Found at i:48114198 original size:33 final size:33
Alignment explanation
Indices: 48114152--48114224 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
48114142 ATTAAATAAT
* * *
48114152 GTTTAGGGGTTAAGGGTTCAGGG-CTGGGTTAGG
1 GTTTAGGGATTAAGGATCCAGGGTC-GGGTTAGG
48114185 GTTTAGGGATTAAGGATCCAGGGTCGGGTTAGG
1 GTTTAGGGATTAAGGATCCAGGGTCGGGTTAGG
48114218 GTTTAGG
1 GTTTAGG
48114225 ATTTAGATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 35 0.97
34 1 0.03
ACGTcount: A:0.18, C:0.07, G:0.45, T:0.30
Consensus pattern (33 bp):
GTTTAGGGATTAAGGATCCAGGGTCGGGTTAGG
Found at i:48119236 original size:24 final size:25
Alignment explanation
Indices: 48119209--48119255 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
48119199 TTGATAAATT
48119209 TTATGTGT-GGTG-TTTAATTTTTTG
1 TTAT-TGTCGGTGTTTTAATTTTTTG
*
48119233 TTATTGTCTGTGTTTTAATTTTT
1 TTATTGTCGGTGTTTTAATTTTT
48119256 CATATGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 7 0.35
25 10 0.50
ACGTcount: A:0.13, C:0.02, G:0.19, T:0.66
Consensus pattern (25 bp):
TTATTGTCGGTGTTTTAATTTTTTG
Found at i:48119721 original size:43 final size:43
Alignment explanation
Indices: 48119674--48119790 Score: 198
Period size: 43 Copynumber: 2.7 Consensus size: 43
48119664 CACGATCTAC
*
48119674 AGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCTTGGTCTTT
1 AGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTT
* *
48119717 AGCGGCGTTTGTGGGAAAAGCGCCTCTAAAGGTCTTGGTTTTT
1 AGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTT
*
48119760 AGCGGCGTTTATGGGAAAAGCGCCGCTAAAG
1 AGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
48119791 TTAGCGACGC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (43 bp):
AGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTT
Found at i:48121034 original size:20 final size:20
Alignment explanation
Indices: 48121009--48121048 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48120999 ATATATTAAT
*
48121009 TATATACAAAACTT-AAAATA
1 TATATA-AAAAATTCAAAATA
48121029 TATATAAAAAATTCAAAATA
1 TATATAAAAAATTCAAAATA
48121049 AAAGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
TATATAAAAAATTCAAAATA
Found at i:48121609 original size:27 final size:27
Alignment explanation
Indices: 48121567--48121620 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
48121557 TTGCACTCCA
**
48121567 AAATAGATAATGTTTATTAACTTTGTT
1 AAATAGATAAAATTTATTAACTTTGTT
48121594 AAATAGATAAAATTTATTAACTTTGTT
1 AAATAGATAAAATTTATTAACTTTGTT
48121621 GATGTGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (27 bp):
AAATAGATAAAATTTATTAACTTTGTT
Found at i:48125272 original size:19 final size:18
Alignment explanation
Indices: 48125239--48125277 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
48125229 GCAATTTAGA
*
48125239 AACGAAAATATTAATAAT
1 AACGAAAATAATAATAAT
48125257 AACGATAAATAATAATAAT
1 AACGA-AAATAATAATAAT
48125276 AA
1 AA
48125278 TAACAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AACGAAAATAATAATAAT
Found at i:48125275 original size:22 final size:22
Alignment explanation
Indices: 48125245--48125293 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
48125235 TAGAAACGAA
* * *
48125245 AATATTAATAATAACGATAAAT
1 AATAATAATAATAACAATAAAC
48125267 AATAATAATAATAACAATAAAC
1 AATAATAATAATAACAATAAAC
48125289 AATAA
1 AATAA
48125294 ACAATTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (22 bp):
AATAATAATAATAACAATAAAC
Found at i:48125509 original size:3 final size:3
Alignment explanation
Indices: 48125501--48125570 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
48125491 AAAGGGGAAC
48125501 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48125549 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
48125571 CAGAAAACAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48127179 original size:44 final size:44
Alignment explanation
Indices: 48127129--48127325 Score: 209
Period size: 44 Copynumber: 4.4 Consensus size: 44
48127119 TATCTACAGT
* *
48127129 CTGCTCCACTACAACTTCAAGGAGATAAGACTTGTTATTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATTTCAAC
*
48127173 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATTTCAAC
* * ** * *** * *
48127217 CTG-TCCCATTGCAACTTCAGGGGGATAAGGTTTATGGCTTCCAT
1 CTGCT-CCACTGCAACTTCAGGGAGATAAGACTTGTTATTTCAAC
* *
48127261 CTGCTCCGCTGCAACTTCAGGGAGATAAGA-TTGATTTATTTTTAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG--TTA-TTTCAAC
48127307 CTGCTCCACTGCAACTTCA
1 CTGCTCCACTGCAACTTCA
48127326 ATGAGGTCAG
Statistics
Matches: 124, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
43 3 0.02
44 98 0.79
45 2 0.02
46 21 0.17
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATTTCAAC
Found at i:48127353 original size:90 final size:87
Alignment explanation
Indices: 48127129--48127355 Score: 212
Period size: 88 Copynumber: 2.6 Consensus size: 87
48127119 TATCTACAGT
* * * *
48127129 CTGCTCCACTACAACTTCAAGGAGATAAGACTTGTTAT-TTCAACCTGCTCCACTACAACTTCAG
1 CTGCTCCACTGCAACTTCAAGGAGGTAAG-GTTG-TATCTTCAATCTGCTCCACTACAACTTCAG
48127193 GGAGATAAGACTTGTTATTTCAAC
64 GGAGATAAGACTTGTTATTTCAAC
* * * * *
48127217 CTG-TCCCATTGCAACTTC-AGGGGGATAAGGTT-TATGGCTTCCATCTGCTCCGCTGCAACTTC
1 CTGCT-CCACTGCAACTTCAAGGAGG-TAAGGTTGTAT--CTTCAATCTGCTCCACTACAACTTC
*
48127279 AGGGAGATAAGA-TTGATTTATTTTTAAC
62 AGGGAGATAAGACTTG--TTA-TTTCAAC
* * *
48127307 CTGCTCCACTGCAACTTCAATGAGGTCAGGTTGGTATCTTCGATCTGCT
1 CTGCTCCACTGCAACTTCAAGGAGGTAAGGTT-GTATCTTCAATCTGCT
48127356 TTGCTGCCAA
Statistics
Matches: 112, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
85 3 0.03
87 10 0.09
88 50 0.45
89 3 0.03
90 38 0.34
91 5 0.04
92 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (87 bp):
CTGCTCCACTGCAACTTCAAGGAGGTAAGGTTGTATCTTCAATCTGCTCCACTACAACTTCAGGG
AGATAAGACTTGTTATTTCAAC
Found at i:48127594 original size:89 final size:89
Alignment explanation
Indices: 48127328--48127599 Score: 364
Period size: 89 Copynumber: 3.1 Consensus size: 89
48127318 CAACTTCAAT
* * * ** * * *
48127328 GAGGTCAGGTTGGTATCTTCGATCTGCTTTGCTGCCAATATAGGAAGACAAGATCTACTATCTTC
1 GAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGACAAGATCTGCTATCTTT
* *
48127393 AGTCTGTTCCGCTACAAACTCAAG
66 AGTCTGTTCCGCTGCAAACTCAGG
48127417 GAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGACAAGATCTGCTATCTTT
1 GAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGACAAGATCTGCTATCTTT
*
48127482 AGTCTGTTCTGCTGCAAACTCAGG
66 AGTCTGTTCCGCTGCAAACTCAGG
* * *
48127506 GAGGTCAGGCTGATGTCTTCGATCTGCTTCGCTGCTGGTACAGGAAGACAAGATCTGCTATTTTT
1 GAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGACAAGATCTGCTATCTTT
* ** * **
48127571 AATCTACTCCGCTGTAATTTCAGG
66 AGTCTGTTCCGCTGCAAACTCAGG
48127595 GAGGT
1 GAGGT
48127600 AAAAATTGAT
Statistics
Matches: 162, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 162 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (89 bp):
GAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGACAAGATCTGCTATCTTT
AGTCTGTTCCGCTGCAAACTCAGG
Found at i:48128599 original size:51 final size:51
Alignment explanation
Indices: 48128492--48129522 Score: 1852
Period size: 51 Copynumber: 20.3 Consensus size: 51
48128482 CTTGCGTATG
** * *
48128492 ATCACTTATCACTTGTCC-CTGATCAGATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTGCCACTTG-CCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
* * * * *
48128542 ATCACTTGCCATTTACCACTGATCAGGTAAGTGTAGCTGAAGCTACCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
* *
48128593 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
*
48128644 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48128695 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48128746 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48128797 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48128848 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48128899 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48128950 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48129001 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48129052 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48129103 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48129154 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48129205 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48129256 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48129307 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
48129358 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
*
48129409 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
* * * * *
48129460 ATCACTTGCCATTTGTCACTGATTAGATAAGTGTAGCTG-AGCTACCACTT
1 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
* *
48129510 ATCGCTTGTCACT
1 ATCACTTGCCACT
48129523 GATCAGAAGT
Statistics
Matches: 955, Mismatches: 24, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
49 2 0.00
50 50 0.05
51 903 0.95
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (51 bp):
ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
Found at i:48132629 original size:14 final size:14
Alignment explanation
Indices: 48132610--48132641 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
48132600 TTGCCTCTCA
48132610 TTTTTCTTTTTCAT
1 TTTTTCTTTTTCAT
*
48132624 TTTTTCTTTTTCCT
1 TTTTTCTTTTTCAT
48132638 TTTT
1 TTTT
48132642 ATGAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTTTCAT
Found at i:48137160 original size:16 final size:16
Alignment explanation
Indices: 48137139--48137189 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
48137129 AAGAAAGAGC
48137139 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
*
48137155 AAATACGTTAGTAAAT
1 AAATACGCTAGTAAAT
* * *
48137171 AAACATGCGAGTAAAT
1 AAATACGCTAGTAAAT
48137187 AAA
1 AAA
48137190 ATACTAGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.24
Consensus pattern (16 bp):
AAATACGCTAGTAAAT
Found at i:48138086 original size:19 final size:18
Alignment explanation
Indices: 48138053--48138091 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
48138043 GCAATTTAGA
*
48138053 AACGAAAATATTAATAAT
1 AACGAAAATAATAATAAT
48138071 AACGATAAATAATAATAAT
1 AACGA-AAATAATAATAAT
48138090 AA
1 AA
48138092 TAACAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AACGAAAATAATAATAAT
Found at i:48138089 original size:22 final size:22
Alignment explanation
Indices: 48138059--48138107 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
48138049 TAGAAACGAA
* * *
48138059 AATATTAATAATAACGATAAAT
1 AATAATAATAATAACAATAAAC
48138081 AATAATAATAATAACAATAAAC
1 AATAATAATAATAACAATAAAC
48138103 AATAA
1 AATAA
48138108 ACAATTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (22 bp):
AATAATAATAATAACAATAAAC
Found at i:48138323 original size:3 final size:3
Alignment explanation
Indices: 48138315--48138348 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
48138305 AAAGGGGAAC
48138315 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
48138349 CAGAAAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:48145399 original size:22 final size:21
Alignment explanation
Indices: 48145374--48145429 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
48145364 AATGAAATTA
48145374 TCGAGACTTAAACGATGTTGTC
1 TCGAGACTTAAACGAT-TTGTC
* ** *
48145396 TCGATACTTGTACGGTTTGTC
1 TCGAGACTTAAACGATTTGTC
*
48145417 TCGAGACCTAAAC
1 TCGAGACTTAAAC
48145430 TAATGTAATG
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (21 bp):
TCGAGACTTAAACGATTTGTC
Found at i:48146347 original size:28 final size:28
Alignment explanation
Indices: 48146315--48146393 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
48146305 GAATCATTGC
* * *
48146315 AATATAGCACACATTAAATGTTGAGTCA
1 AATATAACACACATTAAACGTTGAATCA
*
48146343 AATATAACACACATTAACCGTTGAATCA
1 AATATAACACACATTAAACGTTGAATCA
** *
48146371 AATATAACATGCATTAAGCGTTG
1 AATATAACACACATTAAACGTTG
48146394 GATCTCCCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (28 bp):
AATATAACACACATTAAACGTTGAATCA
Found at i:48147594 original size:5 final size:5
Alignment explanation
Indices: 48147584--48147612 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
48147574 ACAACCGATC
48147584 TAATT TAATT TAATT TAATT TAATT TAAT
1 TAATT TAATT TAATT TAATT TAATT TAAT
48147613 AATTCAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:48147791 original size:4 final size:4
Alignment explanation
Indices: 48147782--48147808 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
48147772 TCTTCCTCAA
48147782 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
48147809 GCATGACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:48151421 original size:19 final size:20
Alignment explanation
Indices: 48151388--48151432 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
48151378 CCATATTGCC
48151388 CAAAAAAATAGATGGCGCAAA
1 CAAAAAAATA-ATGGCGCAAA
48151409 CAAAAAAAT-ATGGCGCAAA
1 CAAAAAAATAATGGCGCAAA
48151428 -AAAAA
1 CAAAAA
48151433 CTCTACCGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.21
19 10 0.42
21 9 0.38
ACGTcount: A:0.62, C:0.13, G:0.16, T:0.09
Consensus pattern (20 bp):
CAAAAAAATAATGGCGCAAA
Found at i:48153193 original size:88 final size:88
Alignment explanation
Indices: 48153044--48153366 Score: 513
Period size: 88 Copynumber: 3.7 Consensus size: 88
48153034 AAGATAACAG
* **
48153044 ATCTTGCCTTCCTACACCGACAGCGAAGCAGATTAAAGACACCAACCTTGTCTCCCTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGTCTCCCTGGGTTGTA
48153109 GCGGAGCAGGTTAAAAATAGCAA
66 GCGGAGCAGGTTAAAAATAGCAA
*
48153132 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAACCTTGTCTCCCTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGTCTCCCTGGGTTGTA
48153197 GCGGAGCAGGTTAAAAATAGCAA
66 GCGGAGCAGGTTAAAAATAGCAA
*
48153220 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTG-CTTCCCTGGGTTGC
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGTC-TCCCTGGGTTGT
*
48153284 AGCGGAGCAGGTTAAAAATAGCAG
65 AGCGGAGCAGGTTAAAAATAGCAA
* * * * * * *
48153308 ATCTTACCTTCCTGCACCTACAACGAAGCAGATCGATGACCCCAACCCTATCTCCCTGG
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGTCTCCCTGG
48153367 ACAGCAGTGG
Statistics
Matches: 221, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
87 1 0.00
88 219 0.99
89 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (88 bp):
ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGTCTCCCTGGGTTGTA
GCGGAGCAGGTTAAAAATAGCAA
Found at i:48153274 original size:43 final size:44
Alignment explanation
Indices: 48153046--48153274 Score: 140
Period size: 44 Copynumber: 5.2 Consensus size: 44
48153036 GATAACAGAT
* *
48153046 CTTGCCTTCCTACACCGACAGCGAAGCAGATTAAAGACACCAAC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAAC
* * **** * * * * * * * *
48153090 CTTGTCTCCCTGGGTTG-TAGCGGAGCAGGTTAAAAATAGCAAAT
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACA-CCAAC
48153134 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAAC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAAC
* * **** * * * * * * * *
48153178 CTTGTCTCCCTGGGTTG-TAGCGGAGCAGGTTAAAAATAGCAAAT
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACA-CCAAC
*
48153222 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAAC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAAC
48153266 CTTG-CTTCC
1 CTTGCCTTCC
48153275 CTGGGTTGCA
Statistics
Matches: 124, Mismatches: 57, Indels: 9
0.65 0.30 0.05
Matches are distributed among these distances:
43 36 0.29
44 59 0.48
45 29 0.23
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAAC
Found at i:48153854 original size:44 final size:44
Alignment explanation
Indices: 48153795--48153916 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
48153785 AAAGATGGTG
* *
48153795 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-A
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* * *
48153838 TAATCCTATCTTCCTGAAGTTGCAATGGAGCGGATTAAAACCACA
1 -AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* * *
48153883 GATCTTATC-TCTCTGAAGTTGCAGTAGAGTAGAT
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGAT
48153917 CACATCGAGT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.03
44 62 0.95
45 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
Found at i:48154398 original size:21 final size:21
Alignment explanation
Indices: 48154358--48154429 Score: 87
Period size: 19 Copynumber: 3.4 Consensus size: 21
48154348 AAGGATACGT
48154358 AATCTTAGATATGA--TATGC
1 AATCTTAGATATGATTTATGC
48154377 AATCTTAGATATGATTTATGC
1 AATCTTAGATATGATTTATGC
*
48154398 AATCTTAGAAGATATGATTT-TGT
1 AATCTT---AGATATGATTTATGC
48154421 AATCTTAGA
1 AATCTTAGA
48154430 GATTTAATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
19 14 0.30
20 3 0.06
21 11 0.23
23 8 0.17
24 11 0.23
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.40
Consensus pattern (21 bp):
AATCTTAGATATGATTTATGC
Found at i:48154428 original size:23 final size:24
Alignment explanation
Indices: 48154364--48154429 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 24
48154354 ACGTAATCTT
48154364 AGATATGA--TATGCAATCTT---
1 AGATATGATTTATGCAATCTTAGA
48154383 AGATATGATTTATGCAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
*
48154407 AGATATGATTT-TGTAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
48154430 GATTTAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
19 8 0.20
21 11 0.27
23 11 0.27
24 11 0.27
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (24 bp):
AGATATGATTTATGCAATCTTAGA
Found at i:48154759 original size:20 final size:20
Alignment explanation
Indices: 48154703--48154762 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
48154693 CTTTTTTTAT
* *
48154703 TTATTATTTATTTTTATTAAAT
1 TTATTA-TTATTGTTATT-AAG
*
48154725 TTGATT-TTCTTGTTATTAAG
1 TT-ATTATTATTGTTATTAAG
48154745 TTATTATTATTGTTATTA
1 TTATTATTATTGTTATTA
48154763 TTACCAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.09
20 15 0.47
21 9 0.28
22 2 0.06
23 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.65
Consensus pattern (20 bp):
TTATTATTATTGTTATTAAG
Found at i:48154940 original size:17 final size:17
Alignment explanation
Indices: 48154909--48154952 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
48154899 CATAACTTTT
*
48154909 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
48154925 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
48154942 ATATACATTTT
1 ATATACATTTT
48154953 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:48155057 original size:24 final size:24
Alignment explanation
Indices: 48155030--48155076 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
48155020 ATACGTATGT
48155030 TTTTTTATAT-TATTCTTCATAAAA
1 TTTTTTATATATATTCTTC-TAAAA
*
48155054 TTTTTTATATATATTTTTCTAAA
1 TTTTTTATATATATTCTTCTAAA
48155077 TTAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTTATATATATTCTTCTAAAA
Found at i:48155389 original size:23 final size:21
Alignment explanation
Indices: 48155321--48155389 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 21
48155311 GTTATTGATT
48155321 TATT-TTTATTTATT-TATT-
1 TATTGTTTATTTATTCTATTG
48155339 TATTTGTTTATATTATTTCTA-TG
1 TA-TTGTTTAT-TTA-TTCTATTG
48155362 CTATTGTTGTATTTATTACTATTG
1 -TATTGTT-TATTTATT-CTATTG
48155386 TATT
1 TATT
48155390 TGTTATCACG
Statistics
Matches: 41, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 5 0.12
21 3 0.07
22 5 0.12
23 17 0.41
24 7 0.17
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (21 bp):
TATTGTTTATTTATTCTATTG
Found at i:48156740 original size:17 final size:16
Alignment explanation
Indices: 48156699--48156740 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
48156689 AAATATATCA
48156699 TTTAAAA-ATAATTTT
1 TTTAAAATATAATTTT
**
48156714 TTTATGATATGAATTTT
1 TTTAAAATAT-AATTTT
48156731 TTTAAAATAT
1 TTTAAAATAT
48156741 TACACAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 5 0.24
16 2 0.10
17 14 0.67
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
TTTAAAATATAATTTT
Found at i:48161512 original size:14 final size:14
Alignment explanation
Indices: 48161491--48161524 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
48161481 TGGTATGGGT
48161491 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
48161504 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
48161518 TTATAGG
1 TTATAGG
48161525 CAAATAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:48167620 original size:6 final size:6
Alignment explanation
Indices: 48167609--48167634 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48167599 TTTATCATTT
48167609 TAATCA TAATCA TAATCA TAATCA TA
1 TAATCA TAATCA TAATCA TAATCA TA
48167635 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
TAATCA
Found at i:48171904 original size:26 final size:26
Alignment explanation
Indices: 48171841--48171924 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
48171831 ATATTGAAAT
*
48171841 AATTTTCTCAAAATTTTATCGAGGGTA
1 AATTTT-TCAAAATTTTATCGGGGGTA
* ***
48171868 AAATCGCCAAAATTTTATCGGGGGTA
1 AATTTTTCAAAATTTTATCGGGGGTA
*
48171894 AATTTTTCAAAAATTTTA-CTGGGGTA
1 AATTTTTC-AAAATTTTATCGGGGGTA
48171920 AATTT
1 AATTT
48171925 GCGATAAGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
26 34 0.74
27 12 0.26
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (26 bp):
AATTTTTCAAAATTTTATCGGGGGTA
Found at i:48180710 original size:70 final size:70
Alignment explanation
Indices: 48180629--48180768 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
48180619 TCTTCAAAAG
48180629 TTAAATTCATGCCAAAATTCACCTATTCAAACACCTAATAGACAAACCAATGTATCTTCATTGAC
1 TTAAATTCATGCCAAAATTCACCTATTCAAACACCTAATAGACAAACCAATGTATCTTCATTGAC
48180694 ACTAC
66 ACTAC
48180699 TTAAATTCATGCCAAAATTCACCTATTCAAACACCTAATAGACAAACCAATGTATCTTCATTGAC
1 TTAAATTCATGCCAAAATTCACCTATTCAAACACCTAATAGACAAACCAATGTATCTTCATTGAC
48180764 ACTAC
66 ACTAC
48180769 AATTCAATAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.29
Consensus pattern (70 bp):
TTAAATTCATGCCAAAATTCACCTATTCAAACACCTAATAGACAAACCAATGTATCTTCATTGAC
ACTAC
Found at i:48184168 original size:2 final size:2
Alignment explanation
Indices: 48184163--48184192 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48184153 TATATATATA
48184163 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
48184193 AGTGATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:48204638 original size:39 final size:39
Alignment explanation
Indices: 48204584--48204658 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
48204574 GGTTTGGCAT
48204584 TCCTGCCACCATATTTATTCCAACTGTCTCTTCTACTTC
1 TCCTGCCACCATATTTATTCCAACTGTCTCTTCTACTTC
48204623 TCCTGCCACCATATTTATTCCAACTGTCTCTTCTAC
1 TCCTGCCACCATATTTATTCCAACTGTCTCTTCTAC
48204659 CTTTTCCCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.19, C:0.36, G:0.05, T:0.40
Consensus pattern (39 bp):
TCCTGCCACCATATTTATTCCAACTGTCTCTTCTACTTC
Found at i:48204680 original size:18 final size:18
Alignment explanation
Indices: 48204657--48204691 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48204647 TGTCTCTTCT
*
48204657 ACCTTTTCCCCTTCCTCG
1 ACCTTTGCCCCTTCCTCG
*
48204675 ACCTTTGCCTCTTCCTC
1 ACCTTTGCCCCTTCCTC
48204692 TGAAAGAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.49, G:0.06, T:0.40
Consensus pattern (18 bp):
ACCTTTGCCCCTTCCTCG
Found at i:48208876 original size:50 final size:54
Alignment explanation
Indices: 48208814--48208952 Score: 169
Period size: 50 Copynumber: 2.6 Consensus size: 54
48208804 TGATCATAAC
* *
48208814 ATGCCAAAGCCATGTCCTAGACATGGTCTTACGGGGGACCT-C-TCATCTC-GG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCCATCATCTCAGG
* * *
48208865 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCGCATGATCTCAAGG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTC-CATCATCTC-AGG
* *
48208920 ATGCCAATGCCATGTCCCAAACATGGTCTTACA
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACA
48208953 TGAGATCTCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
50 36 0.48
52 1 0.01
53 6 0.08
55 2 0.03
56 30 0.40
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.23
Consensus pattern (54 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGACCTCCATCATCTCAGG
Found at i:48209335 original size:30 final size:30
Alignment explanation
Indices: 48209301--48209358 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48209291 CCTCGAATCT
*
48209301 AACTTTGGCAAAATTACAATTTTGCCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
* * *
48209331 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTGACAAAATTACAATTTTGCCCC
48209359 ATGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:48225616 original size:103 final size:98
Alignment explanation
Indices: 48225405--48225604 Score: 215
Period size: 103 Copynumber: 2.0 Consensus size: 98
48225395 TTATAGGCCA
** * *
48225405 AAAAGTATCGATACCTTTTTGGCCCAGTATCGATAATTTTTGAATTATCGATACCATTAAAAGCG
1 AAAAGTATCGATACCTTTTTGGCAAAGTATCGATAATTTTTGAAATATCGATACCATTAAAAACG
* *
48225470 ATACCAAAATAACATTCTCTTTTTGAAAAACCC
66 ATACCAAAATAACATTCTCTTTCTAAAAAACCC
* * *
48225503 AATTAAGTATCGATACC-TTTTGGTAAAGTATCGAT-ATTTTCTTAAATATCGATATCCCGTCTT
1 AA--AAGTATCGATACCTTTTTGGCAAAGTATCGATAATTTT-TGAAATATCGATA--CC--ATT
* *
48225566 AAAAACGATACCAAAATAACATTTTGTTTCTAACAAAAC
59 AAAAACGATACCAAAATAACATTCTCTTTCTAA-AAAAC
48225605 TTACAAAGTA
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
98 7 0.08
99 26 0.31
100 13 0.16
101 2 0.02
103 30 0.36
104 5 0.06
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (98 bp):
AAAAGTATCGATACCTTTTTGGCAAAGTATCGATAATTTTTGAAATATCGATACCATTAAAAACG
ATACCAAAATAACATTCTCTTTCTAAAAAACCC
Found at i:48231752 original size:10 final size:10
Alignment explanation
Indices: 48231737--48231766 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
48231727 TTAAACTAAG
48231737 TAAAAATAAA
1 TAAAAATAAA
*
48231747 TAAAAAAAAA
1 TAAAAATAAA
48231757 TAAAAATAAA
1 TAAAAATAAA
48231767 AATAAAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:48232426 original size:45 final size:44
Alignment explanation
Indices: 48232376--48232480 Score: 112
Period size: 45 Copynumber: 2.4 Consensus size: 44
48232366 GAATGAACAG
* *
48232376 AAAATGAGAAATGAGAAACATTG-AGAAATGATTAT-GGTTTTCTCC
1 AAAATGAGAAATGAGAAACATTGCA-AAATGAATATAGG-TTTC-CA
*
48232421 AAAATGGAGAAATGA-AATCATTGCAAAATGAATATAGGTTTCCA
1 AAAAT-GAGAAATGAGAAACATTGCAAAATGAATATAGGTTTCCA
48232465 AAAATG-GAAATG-GAAA
1 AAAATGAGAAATGAGAAA
48232481 TAGAAATGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
42 8 0.15
43 1 0.02
44 6 0.12
45 25 0.48
46 12 0.23
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.25
Consensus pattern (44 bp):
AAAATGAGAAATGAGAAACATTGCAAAATGAATATAGGTTTCCA
Found at i:48232477 original size:6 final size:6
Alignment explanation
Indices: 48232466--48232529 Score: 119
Period size: 6 Copynumber: 10.7 Consensus size: 6
48232456 AGGTTTCCAA
*
48232466 AAATGG AAATGG AAATAG AAATGG AAATGG AAATGG AAATGG AAATGG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
48232514 AAATGG AAATGG AAAT
1 AAATGG AAATGG AAAT
48232530 AAAAAAGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:48232541 original size:18 final size:18
Alignment explanation
Indices: 48232465--48232546 Score: 76
Period size: 18 Copynumber: 4.6 Consensus size: 18
48232455 TAGGTTTCCA
*
48232465 AAAATGGAAATGGAAATAG
1 AAAATGGAAAT-GAAAAAG
* *
48232484 -AAATGGAAATGGAAATG
1 AAAATGGAAATGAAAAAG
* * *
48232501 GAAATGGAAATGGAAATG
1 AAAATGGAAATGAAAAAG
* *
48232519 GAAATGGAAATAAAAAAG
1 AAAATGGAAATGAAAAAG
48232537 AAAATGGAAA
1 AAAATGGAAA
48232547 CTTGCAATCT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
17 4 0.07
18 51 0.93
ACGTcount: A:0.59, C:0.00, G:0.27, T:0.15
Consensus pattern (18 bp):
AAAATGGAAATGAAAAAG
Found at i:48232720 original size:26 final size:26
Alignment explanation
Indices: 48232691--48232750 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
48232681 TTTTTTCAAA
*
48232691 ATTTTATTAAGGCTAGAATCGTAAAT
1 ATTTTATTAAGGCTAAAATCGTAAAT
* * * * *
48232717 ATTTTACTAGGGGTAAAATTGTCAAT
1 ATTTTATTAAGGCTAAAATCGTAAAT
48232743 ATTTTATT
1 ATTTTATT
48232751 GGGATAAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (26 bp):
ATTTTATTAAGGCTAAAATCGTAAAT
Found at i:48236519 original size:80 final size:80
Alignment explanation
Indices: 48236386--48236547 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
48236376 CATAAACGGA
*
48236386 TCTAGGATCTATTCTACTTAGTTCATGTTCGATGTAGTGTCAGTTTTGTCAGTCATATCTATGTC
1 TCTAGGATCTATTCTACTTAGTTCATGTTCGATGTAGCGTCAGTTTTGTCAGTCATATCTATGTC
48236451 TTTATCTTTTAGGAT
66 TTTATCTTTTAGGAT
48236466 TCTAGGATCTATTCTACTTAGTTCATGTTCGATGTAGCGTCAGTTTTGTCAGTCATATCTATGTC
1 TCTAGGATCTATTCTACTTAGTTCATGTTCGATGTAGCGTCAGTTTTGTCAGTCATATCTATGTC
48236531 TTTATCTTTTAGGAT
66 TTTATCTTTTAGGAT
48236546 TC
1 TC
48236548 ATTTGCTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.47
Consensus pattern (80 bp):
TCTAGGATCTATTCTACTTAGTTCATGTTCGATGTAGCGTCAGTTTTGTCAGTCATATCTATGTC
TTTATCTTTTAGGAT
Found at i:48240846 original size:51 final size:53
Alignment explanation
Indices: 48240765--48240879 Score: 155
Period size: 51 Copynumber: 2.2 Consensus size: 53
48240755 ATTTCTGAGT
* *
48240765 CATTTTCA-TTTAGGAGAAAACCACATTCATTTCCAAATGATT-CCACTTCTC
1 CATTTTTATTTTAGGAGAAAACCACAATCATTTCCAAATGATTCCCACTTCTC
* * * *
48240816 CATTTTTATTTTA-GAGAAAACCATAATCATTTCCAAATGTTTCCCATTTCTT
1 CATTTTTATTTTAGGAGAAAACCACAATCATTTCCAAATGATTCCCACTTCTC
48240868 CATTTTTATTTT
1 CATTTTTATTTT
48240880 CATTTTCGAG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 33 0.59
52 23 0.41
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (53 bp):
CATTTTTATTTTAGGAGAAAACCACAATCATTTCCAAATGATTCCCACTTCTC
Found at i:48244428 original size:25 final size:25
Alignment explanation
Indices: 48244352--48244433 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
48244342 CAGCTCATGA
*
48244352 GAGCATATCGATTTATAGCTCGTGA-
1 GAGCATATCGATTCATAGCTCGT-AT
**
48244377 GAGCATATCGA-TCA-ACGACTCAAAT
1 GAGCATATCGATTCATA-G-CTCGTAT
48244402 GAGCATATCGATTCATAGCTCGTAT
1 GAGCATATCGATTCATAGCTCGTAT
48244427 GAGCATA
1 GAGCATA
48244434 CTCGTATATG
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.02
24 4 0.09
25 37 0.79
26 4 0.09
27 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (25 bp):
GAGCATATCGATTCATAGCTCGTAT
Found at i:48250347 original size:25 final size:26
Alignment explanation
Indices: 48250322--48250404 Score: 100
Period size: 25 Copynumber: 3.3 Consensus size: 26
48250312 CACCTCGTGA
* *
48250322 GAGCATACCAATTTATAGCTCATGA-
1 GAGCATACCGATTTACAGCTCATGAT
* *
48250347 GAGCATACCGATCTACAGCTCA-AAT
1 GAGCATACCGATTTACAGCTCATGAT
*
48250372 GAGCATACCGATTCACAGCTCAT-AT
1 GAGCATACCGATTTACAGCTCATGAT
48250397 GAGCATAC
1 GAGCATAC
48250405 TTGTACATGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.02
25 49 0.98
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (26 bp):
GAGCATACCGATTTACAGCTCATGAT
Found at i:48260973 original size:2 final size:2
Alignment explanation
Indices: 48260966--48260994 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48260956 CAATAATAAA
48260966 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
48260995 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:48264351 original size:2 final size:2
Alignment explanation
Indices: 48264344--48264378 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48264334 ATCAACATCA
48264344 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
48264379 TATATAATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:48268159 original size:19 final size:21
Alignment explanation
Indices: 48268132--48268170 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
48268122 ATTTAATTTA
48268132 ATTTAATTTAAT-TAAAAATT
1 ATTTAATTTAATCTAAAAATT
*
48268152 ATTT-ATTTTATCTAAAAAT
1 ATTTAATTTAATCTAAAAAT
48268171 ACAAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTAATTTAATCTAAAAATT
Found at i:48277354 original size:64 final size:64
Alignment explanation
Indices: 48277217--48277392 Score: 167
Period size: 64 Copynumber: 2.8 Consensus size: 64
48277207 GTGCAGGGTT
* * * * *
48277217 CACACGGGTAAGACACACGGGCATGTG-CCAGGCCGTGTAACTCTCTGTGTTAGGATTTGTAGC
1 CACACGGGCAAGACACACGGGCGTGTGTCCAGGCCGTGTAACTCTCTGAGTTAGGATTTGGAGA
* ** * * * *
48277280 CATATAGGCAAAACACACGGGCGTGTGTCCAGGCTGTGTAACTCAT-TGAGTTCGTATTTGGAGA
1 CACACGGGCAAGACACACGGGCGTGTGTCCAGGCCGTGTAACTC-TCTGAGTTAGGATTTGGAGA
* * * * * *
48277344 CACACGGGCAAGAGACAAGGGCGTGTGTTCAAGCCATGTAACTCACTGA
1 CACACGGGCAAGACACACGGGCGTGTGTCCAGGCCGTGTAACTCTCTGA
48277393 CTTCAGATTT
Statistics
Matches: 87, Mismatches: 23, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
63 21 0.24
64 65 0.75
65 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (64 bp):
CACACGGGCAAGACACACGGGCGTGTGTCCAGGCCGTGTAACTCTCTGAGTTAGGATTTGGAGA
Found at i:48278012 original size:60 final size:60
Alignment explanation
Indices: 48277914--48278036 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
48277904 TCTGTATCTA
* * *
48277914 TACCGTATGACATATACATCTGATCGTATTTCTGTTATATGTGAATTTGTACTAATATGC
1 TACCATATGACATATACATCTGATCGTATTTCTGTTATACGTGAATCTGTACTAATATGC
* * * * * *
48277974 TACCATATGACATGTGCATCTGATCGTATTTGTGTTATACGTGCATCTGTATTAATCTGC
1 TACCATATGACATATACATCTGATCGTATTTCTGTTATACGTGAATCTGTACTAATATGC
48278034 TAC
1 TAC
48278037 GTATAAGCAC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (60 bp):
TACCATATGACATATACATCTGATCGTATTTCTGTTATACGTGAATCTGTACTAATATGC
Found at i:48282080 original size:2 final size:2
Alignment explanation
Indices: 48282073--48282099 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48282063 AACGAAATAA
48282073 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
48282100 TAAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48285663 original size:21 final size:21
Alignment explanation
Indices: 48285637--48285678 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
48285627 CAATGAATTA
*
48285637 ACTTTTCTTGTTTTGATTTTG
1 ACTTTTCTTGTTTCGATTTTG
48285658 ACTTTTCTTGTTTCGATTTTG
1 ACTTTTCTTGTTTCGATTTTG
48285679 TTGATCACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.12, G:0.14, T:0.64
Consensus pattern (21 bp):
ACTTTTCTTGTTTCGATTTTG
Found at i:48288515 original size:44 final size:44
Alignment explanation
Indices: 48288452--48288541 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
48288442 TAAAATCATA
*
48288452 AGATATGCTTGTTATATGTGATGAATTTCAGTATAATAGCAAAG
1 AGATATGCTTGTTATATGTGATGAATTTCAGTATAATAGAAAAG
*
48288496 AGATATGCTTGTTATATGTGATGAATTTCAGTGTAATAGAAAAG
1 AGATATGCTTGTTATATGTGATGAATTTCAGTATAATAGAAAAG
48288540 AG
1 AG
48288542 CATACTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.36
Consensus pattern (44 bp):
AGATATGCTTGTTATATGTGATGAATTTCAGTATAATAGAAAAG
Found at i:48294685 original size:21 final size:21
Alignment explanation
Indices: 48294659--48294710 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
48294649 TCATATAGTT
48294659 GAAGAAGCTACCTG-GAAACAA
1 GAAGAAGCTACCTGAG-AACAA
*
48294680 GAAGAAGCTACCTGAGAACCA
1 GAAGAAGCTACCTGAGAACAA
48294701 GAAGAAGCTA
1 GAAGAAGCTA
48294711 TGAAAGTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.10
Consensus pattern (21 bp):
GAAGAAGCTACCTGAGAACAA
Found at i:48295969 original size:41 final size:41
Alignment explanation
Indices: 48295921--48296070 Score: 191
Period size: 41 Copynumber: 3.7 Consensus size: 41
48295911 ATTGGGTGTT
48295921 ATTCAGGCTTTGTGCCTAGCAGGCTTAATGTCGGTGTATTG
1 ATTCAGGCTTTGTGCCTAGCAGGCTTAATGTCGGTGTATTG
* * *
48295962 ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGTATTG
1 ATTCAGGCTTTGTGCCTAGCAGGCTTAATGTCGGTGTATTG
* * * *
48296003 ATTCAGGCTTTGTGCCTAGGAGACTT-A-GT-GCTAGTGTT-
1 ATTCAGGCTTTGTGCCTAGCAGGCTTAATGTCGGT-GTATTG
*
48296041 ATTCAGGCTTAGTGCCTAGCAGGCTTAATG
1 ATTCAGGCTTTGTGCCTAGCAGGCTTAATG
48296071 CCAGCGTTAC
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
38 24 0.26
39 6 0.06
40 1 0.01
41 62 0.67
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.35
Consensus pattern (41 bp):
ATTCAGGCTTTGTGCCTAGCAGGCTTAATGTCGGTGTATTG
Found at i:48296056 original size:38 final size:38
Alignment explanation
Indices: 48295916--48296126 Score: 244
Period size: 38 Copynumber: 5.4 Consensus size: 38
48295906 TTCAAATTGG
*
48295916 GTGTTATTCAGGCTTTGTGCCTAGCAGGCTTAATGTCGGT-
1 GTGTTATTCAGGCTTTGTGCCTAGCAGGCTT-A-GT-GCTA
* *
48295956 GTATTGATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCA
1 GTGTT-ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCTA
* *
48295995 GTGTATTGATTCAGGCTTTGTGCCTAGGAGACTTAGTGCTA
1 GTG--TT-ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCTA
* * *
48296036 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAATGCCA
1 GTGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCTA
* * * *
48296074 GCGTTACTCAGGCTTTGTGCCTAGGAGACTTAGTGCTA
1 GTGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCTA
48296112 GTGTTATTCAGGCTT
1 GTGTTATTCAGGCTT
48296127 AATGCTAGCG
Statistics
Matches: 146, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
38 73 0.50
39 6 0.04
40 5 0.03
41 62 0.42
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.35
Consensus pattern (38 bp):
GTGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCTA
Found at i:48296112 original size:76 final size:76
Alignment explanation
Indices: 48295918--48296135 Score: 278
Period size: 76 Copynumber: 2.8 Consensus size: 76
48295908 CAAATTGGGT
* * * * *
48295918 GTTATTCAGGCTTTGTGCCTAGCAGGCTTAATGTCGGT-GTATTGATTCAGGCTTTGTGCCTAGC
1 GTTATTCAGGCTTTGTGCCTAGGAGACTT-A-GT-GCTAGTGTT-ATTCAGGCTTAGTGCCTAGC
* *
48295982 AGGCTTAGTGCCAGT
62 AGGCTTAATGCCAGC
48295997 GTATTGATTCAGGCTTTGTGCCTAGGAGACTTAGTGCTAGTGTTATTCAGGCTTAGTGCCTAGCA
1 G--TT-ATTCAGGCTTTGTGCCTAGGAGACTTAGTGCTAGTGTTATTCAGGCTTAGTGCCTAGCA
48296062 GGCTTAATGCCAGC
63 GGCTTAATGCCAGC
* *
48296076 GTTACTCAGGCTTTGTGCCTAGGAGACTTAGTGCTAGTGTTATTCAGGCTTAATG-CTAGC
1 GTTATTCAGGCTTTGTGCCTAGGAGACTTAGTGCTAGTGTTATTCAGGCTTAGTGCCTAGC
48296136 GTTACTCAGG
Statistics
Matches: 126, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
75 5 0.04
76 50 0.40
77 2 0.02
79 36 0.29
80 6 0.05
81 3 0.02
82 24 0.19
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (76 bp):
GTTATTCAGGCTTTGTGCCTAGGAGACTTAGTGCTAGTGTTATTCAGGCTTAGTGCCTAGCAGGC
TTAATGCCAGC
Found at i:48296132 original size:22 final size:22
Alignment explanation
Indices: 48296102--48296150 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
48296092 GCCTAGGAGA
* * *
48296102 CTTAGTGCTAGTGTTATTCAGG
1 CTTAATGCTAGCGTTACTCAGG
48296124 CTTAATGCTAGCGTTACTCAGG
1 CTTAATGCTAGCGTTACTCAGG
48296146 CTTAA
1 CTTAA
48296151 AGCCTAGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (22 bp):
CTTAATGCTAGCGTTACTCAGG
Found at i:48301936 original size:114 final size:113
Alignment explanation
Indices: 48301486--48301926 Score: 458
Period size: 114 Copynumber: 3.8 Consensus size: 113
48301476 AAAATAAGCA
* * * *
48301486 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGT-CGTTTCCCGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGAC-TCCATTTTCTGAGCT
* * * * *
48301549 TTCAGGGATTTAGCGGCGTTTCTAAGAAAGCACCGCTAATGCTCAGGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAAG-AAGCGCTGCTAATGCTCAGGGAT
* *
48301599 TTAGCGGCGTTTTCAGGAAGTGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCC
1 TTAGC-G-G----C-------GTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACTCC
* * * *
48301664 GTTTTCTAATCTTTCGGGGGTTTAGCGGCGTTTTTAAGGAAGCG-TCGCTAATGCTCAGGGAT
53 ATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAA-GAAGCGCT-GCTAATGCTCAGGGAT
* * *
48301726 TTAGCGGCGTTTTTGATAAAGCGCTGCAAAAAAACCTAAGCCCAACGA-TGCCATTTTCTGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACT-CCATTTTCTGAGCT
* * *
48301790 TTCAGGGATTTAGCGGCATTTTTAAGGAAGCGCTGCTAATGCTCAGGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAA-GAAGCGCTGCTAATGCTCAGGGAT
* * *
48301840 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACTTAAGCCTAACGACTCCATTTTTTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACTCCATTTTCTGAGCTT
*
48301905 TCGGGGATTTAGCGGTGTTTTT
66 TCGGGGATTTAGCGGCGTTTTT
48301927 GGAAAAGCGC
Statistics
Matches: 275, Mismatches: 33, Indels: 39
0.79 0.10 0.11
Matches are distributed among these distances:
113 5 0.02
114 169 0.61
115 3 0.01
119 1 0.00
121 1 0.00
125 1 0.00
126 19 0.07
127 75 0.27
128 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACTCCATTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAGCGCTGCTAATGCTCAGGGAT
Found at i:48302208 original size:15 final size:15
Alignment explanation
Indices: 48302190--48302220 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48302180 TACACTTTAA
48302190 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
48302205 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
48302220 G
1 G
48302221 ATTAGGGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:48302478 original size:15 final size:15
Alignment explanation
Indices: 48302458--48302504 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
48302448 TATTTTCAGG
*
48302458 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
48302473 TTTAGGGATTAT-GA
1 TTTAGGGATTATGGA
*
48302487 ATTAGGGATTATGG-
1 TTTAGGGATTATGGA
48302501 TTTA
1 TTTA
48302505 AGGGTTGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:48302525 original size:21 final size:22
Alignment explanation
Indices: 48302488--48302540 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
48302478 GGATTATGAA
*
48302488 TTAGGGA-TTATGGTTTAAGGG
1 TTAGGGATTTAAGGTTTAAGGG
*
48302509 TT-GGGATTTAAGGTTTAGGGG
1 TTAGGGATTTAAGGTTTAAGGG
*
48302530 TTAGGGGTTTA
1 TTAGGGATTTA
48302541 GGGGTTAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 16 0.59
22 7 0.26
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (22 bp):
TTAGGGATTTAAGGTTTAAGGG
Found at i:48302533 original size:7 final size:7
Alignment explanation
Indices: 48302523--48302561 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
48302513 GATTTAAGGT
48302523 TTAGGGG
1 TTAGGGG
48302530 TTAGGGG
1 TTAGGGG
48302537 TTTAGGGG
1 -TTAGGGG
**
48302545 TTAGATG
1 TTAGGGG
48302552 TTAGGGG
1 TTAGGGG
48302559 TTA
1 TTA
48302562 AGATTAGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.36
Consensus pattern (7 bp):
TTAGGGG
Found at i:48302540 original size:15 final size:15
Alignment explanation
Indices: 48302519--48302561 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
48302509 TTGGGATTTA
48302519 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
48302534 GGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
48302549 ATG-TTAGGGGTTA
1 AGGTTTAGGGGTTA
48302562 AGATTAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.35
Consensus pattern (15 bp):
AGGTTTAGGGGTTAG
Found at i:48302548 original size:22 final size:22
Alignment explanation
Indices: 48302506--48302560 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
48302496 TATGGTTTAA
* *
48302506 GGGTT-GGGATTTAAGGTTTAG
1 GGGTTAGGGGTTTAAGGGTTAG
*
48302527 GGGTTAGGGGTTTAGGGGTTAG
1 GGGTTAGGGGTTTAAGGGTTAG
**
48302549 ATGTTAGGGGTT
1 GGGTTAGGGGTT
48302561 AAGATTAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.36
Consensus pattern (22 bp):
GGGTTAGGGGTTTAAGGGTTAG
Found at i:48308255 original size:20 final size:19
Alignment explanation
Indices: 48308211--48308257 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
48308201 AAAAATAAAA
48308211 TAAAATAAAATATTTATCAT
1 TAAAATAAAATATTTA-CAT
*
48308231 AAAAATAAATATTATTTA-AT
1 TAAAATAAA-A-TATTTACAT
48308251 TAAAATA
1 TAAAATA
48308258 TATTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 16 0.70
21 1 0.04
22 6 0.26
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAATAAAATATTTACAT
Found at i:48308387 original size:43 final size:42
Alignment explanation
Indices: 48308319--48308634 Score: 353
Period size: 43 Copynumber: 7.4 Consensus size: 42
48308309 AAAGGTTTAT
* * * * *
48308319 TCTTTAGTGGCATTTGTGATAAAAGCGCCGCTAAAGTTCATGT
1 TCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGG
* * *
48308362 TTTTTAGCGGCGTTTATAGAAAAAGCGCCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGG
48308405 TCTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGG
*
48308448 TCTTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCAGGG
1 TCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGG
** * * *
48308491 TCTACAGCGGCGTTTGTGGGAGAAGCGCCGCTAAATGTCAGGG
1 TCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGG
* * * * * *
48308534 TCTATAGCGACGTTTTTTGGATAAGCGCCACTAAAGGTCATGA
1 TCTTTAGCGGCG-TTTGTGGAAAAGCGCCGCTAAAGGTCATGG
* * * *
48308577 TCTTTAGCGGCGTTTCTTGAAATGCGCCGCTAAAGGTCATGA
1 TCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGG
48308619 TCTTTTAGCGGCGTTT
1 TC-TTTAGCGGCGTTT
48308635 ATTTCTGAAA
Statistics
Matches: 238, Mismatches: 30, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
42 28 0.12
43 204 0.86
44 6 0.03
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
TCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGG
Found at i:48310478 original size:55 final size:58
Alignment explanation
Indices: 48310372--48310502 Score: 178
Period size: 55 Copynumber: 2.3 Consensus size: 58
48310362 TTAATATGAA
* * * *
48310372 AATAATTATATTGAGAATGTTATTAAATTATATATTATTTTTATTAAATTATATTTAAT
1 AATAATTATATT-AAAATATGATTAAATTATATATTATTATTATTAAATTATATTTAAT
48310431 AATAATTATATTAAAATATGATTAAA-T-TAT-TTATTATTATTAAATTATATTTAAT
1 AATAATTATATTAAAATATGATTAAATTATATATTATTATTATTAAATTATATTTAAT
**
48310486 AATAATCCTATTAAAAT
1 AATAATTATATTAAAAT
48310503 TTAATAACAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
55 39 0.59
56 3 0.05
57 1 0.02
58 11 0.17
59 12 0.18
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.50
Consensus pattern (58 bp):
AATAATTATATTAAAATATGATTAAATTATATATTATTATTATTAAATTATATTTAAT
Found at i:48312252 original size:40 final size:40
Alignment explanation
Indices: 48312208--48312291 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
48312198 GCCCGGCCCG
48312208 AATATATAAT-AAATA-TTTTTTTTTATTTTTTTAATTTTAA
1 AATAT-TAATAAAATACTTTTTTTTTA-TTTTTTAATTTTAA
** *
48312248 AATATTTTTAAAATACTTTTTTTTTATTTTTTATTTTTAA
1 AATATTAATAAAATACTTTTTTTTTATTTTTTAATTTTAA
48312288 AATA
1 AATA
48312292 AATTTTTGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
39 2 0.05
40 27 0.69
41 10 0.26
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (40 bp):
AATATTAATAAAATACTTTTTTTTTATTTTTTAATTTTAA
Found at i:48313126 original size:20 final size:21
Alignment explanation
Indices: 48313101--48313142 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
48313091 TTGTAAATTA
48313101 ATTTAATT-TTT-TGATTTATT
1 ATTTAATTGTTTATGA-TTATT
48313121 ATTTAATTGTTTATGATTATT
1 ATTTAATTGTTTATGATTATT
48313142 A
1 A
48313143 ATTGAGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 9 0.45
22 3 0.15
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
ATTTAATTGTTTATGATTATT
Done.