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 188 of 203
Found at i:59793395 original size:8 final size:8
Alignment explanation
Indices: 59793382--59793416 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
59793372 AGCTACTCTT
59793382 TTTTTTTC
1 TTTTTTTC
59793390 -TTTTTTC
1 TTTTTTTC
59793397 TTTTTTTC
1 TTTTTTTC
59793405 TTTTTTT-
1 TTTTTTTC
59793412 TTTTT
1 TTTTT
59793417 GGCTTTGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 12 0.46
8 14 0.54
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (8 bp):
TTTTTTTC
Found at i:59793402 original size:15 final size:14
Alignment explanation
Indices: 59793380--59793416 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
59793370 TTAGCTACTC
59793380 TTTTTTTTTCTTTT
1 TTTTTTTTTCTTTT
59793394 TTCTTTTTTTCTTTT
1 TT-TTTTTTTCTTTT
59793409 TTTTTTTT
1 TTTTTTTT
59793417 GGCTTTGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (14 bp):
TTTTTTTTTCTTTT
Found at i:59808081 original size:9 final size:9
Alignment explanation
Indices: 59808069--59808106 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
59808059 GGTATTCGGT
59808069 TTATTCGAA
1 TTATTCGAA
59808078 TTATTCGAA
1 TTATTCGAA
*
59808087 TTATTCGAG
1 TTATTCGAA
*
59808096 TTAATCGAA
1 TTATTCGAA
59808105 TT
1 TT
59808107 CAAAAACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (9 bp):
TTATTCGAA
Found at i:59809102 original size:18 final size:20
Alignment explanation
Indices: 59809073--59809123 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 20
59809063 TTTTTATAAA
*
59809073 AAAAATCATAAAAATTTGA-
1 AAAAATGATAAAAATTTGAT
*
59809092 AAAAATG-T-AAAATTTTAT
1 AAAAATGATAAAAATTTGAT
59809110 AAAAATGATAAAAA
1 AAAAATGATAAAAA
59809124 ATTAACTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 7 0.26
20 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAAATGATAAAAATTTGAT
Found at i:59809436 original size:18 final size:19
Alignment explanation
Indices: 59809376--59809421 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
59809366 TTTTTTGCGA
* *
59809376 TTTTATAAAAATTTACAAT
1 TTTTATATATATTTACAAT
59809395 TTTTATATATATTTACAAT
1 TTTTATATATATTTACAAT
59809414 TTTTATAT
1 TTTTATAT
59809422 TTTTTCTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTATATATATTTACAAT
Found at i:59809568 original size:83 final size:84
Alignment explanation
Indices: 59809445--59809613 Score: 218
Period size: 83 Copynumber: 2.0 Consensus size: 84
59809435 TAATAAAAGC
* *
59809445 AAGGACTTAATTGTTTTATTTGAAAATGTTTGAGAGTCTTTTTGATGCAGTTTGAAAA-TTCAAG
1 AAGGACTTAATTGTTTTATTTGAAAAGGTTTGAGAGTCTTTTTGATGCA-TTTGAAAAGTTCAAA
* *
59809509 TATCCAATTGAGTGAAAAAA
65 TACCCAAATGAGTGAAAAAA
* * * * *
59809529 AAGGGCTTAATTGTTTT-TTTTAAAAGGTTTGA-AGGTCTTTTTGATGTATTTTAAAAGTTTAAA
1 AAGGACTTAATTGTTTTATTTGAAAAGGTTTGAGA-GTCTTTTTGATGCATTTGAAAAGTTCAAA
59809592 TACCCAAATGAGTGAAAAAA
65 TACCCAAATGAGTGAAAAAA
59809612 AA
1 AA
59809614 ACAAGGAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
82 8 0.11
83 50 0.68
84 16 0.22
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (84 bp):
AAGGACTTAATTGTTTTATTTGAAAAGGTTTGAGAGTCTTTTTGATGCATTTGAAAAGTTCAAAT
ACCCAAATGAGTGAAAAAA
Found at i:59811905 original size:224 final size:224
Alignment explanation
Indices: 59811514--59811961 Score: 862
Period size: 224 Copynumber: 2.0 Consensus size: 224
59811504 TTACTCCGCA
59811514 GTTTTTCGGGTTTTCTGTTTTCAGCAATTTTTATTGATTCTTAGCTGTAGGTTTTCATTTGTTTA
1 GTTTTTCGGGTTTTCTGTTTTCAGCAATTTTTATTGATTCTTAGCTGTAGGTTTTCATTTGTTTA
59811579 CCTTTATTCTTCCTTTACGTTATCTAACACCTTCTTGTTTCTTGTGTTAGTAGGATTTAAACGTG
66 CCTTTATTCTTCCTTTACGTTATCTAACACCTTCTTGTTTCTTGTGTTAGTAGGATTTAAACGTG
* *
59811644 TGCACCAATTCTTCCTCGGTGCAACACGAATCAATTGGTGTCTCGTCAGTTTTTGGCATCCTAGT
131 TGCACCAATTCTTCCTCGGTGCAACACGAAACAATTGGTGTCGCGTCAGTTTTTGGCATCCTAGT
59811709 GCAAATTAGGATTCTTTGGTAGTTTGGTT
196 GCAAATTAGGATTCTTTGGTAGTTTGGTT
59811738 GTTTTTCGGGTTTTCTGTTTTCAGCAATTTTTATTGATTCTTAGCTGTAGGTTTTCATTTGTTTA
1 GTTTTTCGGGTTTTCTGTTTTCAGCAATTTTTATTGATTCTTAGCTGTAGGTTTTCATTTGTTTA
59811803 CCTTTATTCTTCCTTTACGTTATCTAACACCTTCTTGTTTCTTGTGTTAGTAGGATTTAAACGTG
66 CCTTTATTCTTCCTTTACGTTATCTAACACCTTCTTGTTTCTTGTGTTAGTAGGATTTAAACGTG
59811868 TGCA-CAACTTCTTCCTCGGTGCAACACGAAACAATTGGTGTCGCGTCAGTTTTTGGCATCCTAG
131 TGCACCAA-TTCTTCCTCGGTGCAACACGAAACAATTGGTGTCGCGTCAGTTTTTGGCATCCTAG
59811932 TGCAAATTAGGATTCTTTGGTAGTTTGGTT
195 TGCAAATTAGGATTCTTTGGTAGTTTGGTT
59811962 CATCCACTCT
Statistics
Matches: 221, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
223 3 0.01
224 218 0.99
ACGTcount: A:0.18, C:0.17, G:0.19, T:0.46
Consensus pattern (224 bp):
GTTTTTCGGGTTTTCTGTTTTCAGCAATTTTTATTGATTCTTAGCTGTAGGTTTTCATTTGTTTA
CCTTTATTCTTCCTTTACGTTATCTAACACCTTCTTGTTTCTTGTGTTAGTAGGATTTAAACGTG
TGCACCAATTCTTCCTCGGTGCAACACGAAACAATTGGTGTCGCGTCAGTTTTTGGCATCCTAGT
GCAAATTAGGATTCTTTGGTAGTTTGGTT
Found at i:59816004 original size:20 final size:20
Alignment explanation
Indices: 59815981--59816027 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
59815971 GGGTTAAGAT
*
59815981 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
59816001 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
59816021 TGAGCTG
1 TGAGCTG
59816028 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:59817753 original size:48 final size:48
Alignment explanation
Indices: 59817698--59817803 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
59817688 TTGTCTTTTC
*
59817698 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
59817746 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
59817794 TTTCTTTTTC
1 TTTCTTTTTC
59817804 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:59819969 original size:20 final size:20
Alignment explanation
Indices: 59819946--59819991 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
59819936 GGGTTAAGAT
*
59819946 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
59819966 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
59819986 TGAGCT
1 TGAGCT
59819992 AGAAACGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:59827866 original size:29 final size:26
Alignment explanation
Indices: 59827833--59827893 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 26
59827823 TCATATAAGA
*
59827833 ATATTTAATATTAAGAATATTATTAAATT
1 ATATTTAATAAT-A-AATATT-TTAAATT
*
59827862 ATATTTAATAATAATTATTTTAAATT
1 ATATTTAATAATAAATATTTTAAATT
59827888 ATATTT
1 ATATTT
59827894 TATAGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 13 0.43
27 5 0.17
28 1 0.03
29 11 0.37
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
ATATTTAATAATAAATATTTTAAATT
Found at i:59827890 original size:26 final size:26
Alignment explanation
Indices: 59827850--59827994 Score: 85
Period size: 26 Copynumber: 5.6 Consensus size: 26
59827840 ATATTAAGAA
59827850 TATTATTAAATTATATTTAATAATAAT
1 TATT-TTAAATTATATTTAATAATAAT
*
59827877 TATTTTAAATTATATTT--T-AT-AG
1 TATTTTAAATTATATTTAATAATAAT
* * *
59827899 TATTATATATTATGATTT--TAGTAAAT
1 TATTTTAAATTAT-ATTTAATAAT-AAT
* *
59827925 TCA-TATAAGA--ATATTTAATATTAAGAAT
1 T-ATTTTAA-ATTATATTT-A-A-TAATAAT
59827953 T-TTATTAAATTATATTTAATAATAAT
1 TATT-TTAAATTATATTTAATAATAAT
59827979 TATTTTAAATTATATT
1 TATTTTAAATTATATT
59827995 ATATATTATT
Statistics
Matches: 92, Mismatches: 10, Indels: 33
0.68 0.07 0.24
Matches are distributed among these distances:
22 12 0.13
23 7 0.08
24 6 0.07
25 2 0.02
26 38 0.41
27 11 0.12
28 8 0.09
29 8 0.09
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (26 bp):
TATTTTAAATTATATTTAATAATAAT
Found at i:59827890 original size:102 final size:102
Alignment explanation
Indices: 59827783--59828068 Score: 529
Period size: 102 Copynumber: 2.8 Consensus size: 102
59827773 TCTTAAAATN
59827783 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
59827848 AATATTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATTTAATAATAATTATTTTAA
59827885 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
59827950 AATTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATTTAATAATAATTATTTTAA
* * *
59827987 ATTATATTATATATTATTATATCTTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
59828052 AATTTTA-TAAATTATAT
66 AATTTTATTAAATTATAT
59828069 ATTTTTATTA
Statistics
Matches: 180, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
101 10 0.06
102 170 0.94
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (102 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:59828088 original size:119 final size:120
Alignment explanation
Indices: 59827952--59828226 Score: 498
Period size: 119 Copynumber: 2.3 Consensus size: 120
59827942 ATATTAAGAA
* *
59827952 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATATTATTATATCTTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTATGAT
59828017 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA-TAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* *
59828071 TTTTATTAAATTATATTTAATAATAATTATTCTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTATGAT
59828136 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
59828191 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAA
59828227 ATAGGATTAA
Statistics
Matches: 149, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
119 103 0.69
120 46 0.31
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:59828437 original size:44 final size:44
Alignment explanation
Indices: 59828364--59828455 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
59828354 ATTACAACAT
*
59828364 CATTCCATTCAACCAAACACAAGAATACTATTACAG-TTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTAC-GCCTCTATTC
* *
59828408 CATTCCATTCAACCAAACA-ATTGATTACTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAATACTATTACGCCTCTATTC
59828452 CATT
1 CATT
59828456 ACACCTCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.05
44 41 0.95
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
Found at i:59828462 original size:16 final size:16
Alignment explanation
Indices: 59828437--59828472 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
59828427 ATTGATTACT
*
59828437 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
59828453 ATTACACCTCTATTTC
1 ATTACACCTCTATTCC
59828469 ATTA
1 ATTA
59828473 TAGCGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:59828833 original size:24 final size:24
Alignment explanation
Indices: 59828797--59828842 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
59828787 TAATCACTTT
59828797 AATATTAATTTAATATAATATTTA
1 AATATTAATTTAATATAATATTTA
*
59828821 AATATTAGA-TTAATTTAATATT
1 AATATTA-ATTTAATATAATATT
59828843 AGATCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AATATTAATTTAATATAATATTTA
Found at i:59828854 original size:16 final size:16
Alignment explanation
Indices: 59828800--59828846 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
59828790 TCACTTTAAT
59828800 ATTAATTTAATA-TA-
1 ATTAATTTAATATTAG
59828814 A-T-ATTTAAATATTAG
1 ATTAATTT-AATATTAG
59828829 ATTAATTTAATATTAG
1 ATTAATTTAATATTAG
59828845 AT
1 AT
59828847 CTTATTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 4 0.14
13 5 0.18
14 3 0.11
15 1 0.04
16 11 0.39
17 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (16 bp):
ATTAATTTAATATTAG
Found at i:59828932 original size:20 final size:18
Alignment explanation
Indices: 59828885--59828933 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
59828875 CAAGATAAAC
59828885 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
59828902 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
59828922 ATTAAATTAATA
1 ATTAAATTAATA
59828934 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:59828979 original size:37 final size:37
Alignment explanation
Indices: 59828917--59828987 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
59828907 GATAATCACT
*
59828917 TTAATATTAAATTAATAAAATACTATTAAGATAAGTG
1 TTAATATTAAATTAATAAAATACTATTAAAATAAGTG
*
59828954 TTAA-ATTAAACTTAATATTAA-ACTATTAAAATAA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAA
59828988 TATTATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 6 0.20
37 22 0.73
38 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAGTG
Found at i:59834031 original size:19 final size:19
Alignment explanation
Indices: 59834007--59834044 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
59833997 CTGAAGCCTT
59834007 AGTTGATTTCTTCTTTCCC
1 AGTTGATTTCTTCTTTCCC
59834026 AGTTGATTTCTTCTTTCCC
1 AGTTGATTTCTTCTTTCCC
59834045 TAAGCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.11, T:0.53
Consensus pattern (19 bp):
AGTTGATTTCTTCTTTCCC
Found at i:59836471 original size:53 final size:53
Alignment explanation
Indices: 59836363--59836462 Score: 139
Period size: 53 Copynumber: 1.9 Consensus size: 53
59836353 GCTGAGACAC
** * * *
59836363 GGGCGTGTGACCCAAGTTAGTGAGTTACATGGTCTGGCACATGGGTTGAACAT
1 GGGCGTGTGGTCCAAGTCAGTGAGTTACACGGTCTGGCACATCGGTTGAACAT
*
59836416 GGGTGTGTGGTCCAAGTCAGTGAGTTACACGGTCTGGCACA-CGGTTG
1 GGGCGTGTGGTCCAAGTCAGTGAGTTACACGGTCTGGCACATCGGTTG
59836463 GGTAATGGGC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
52 5 0.12
53 36 0.88
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.26
Consensus pattern (53 bp):
GGGCGTGTGGTCCAAGTCAGTGAGTTACACGGTCTGGCACATCGGTTGAACAT
Found at i:59836496 original size:21 final size:21
Alignment explanation
Indices: 59836470--59836539 Score: 122
Period size: 21 Copynumber: 3.3 Consensus size: 21
59836460 TTGGGTAATG
59836470 GGCGTGTAGAATGGCTACATT
1 GGCGTGTAGAATGGCTACATT
*
59836491 GGCGTGTAGAATGGCTACATG
1 GGCGTGTAGAATGGCTACATT
*
59836512 GGCGTGTAGAATGGCTACACT
1 GGCGTGTAGAATGGCTACATT
59836533 GGCGTGT
1 GGCGTGT
59836540 GGGGGAGACA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.21, C:0.16, G:0.37, T:0.26
Consensus pattern (21 bp):
GGCGTGTAGAATGGCTACATT
Found at i:59842308 original size:47 final size:47
Alignment explanation
Indices: 59842257--59842801 Score: 912
Period size: 47 Copynumber: 11.6 Consensus size: 47
59842247 GATAATTGTG
* *
59842257 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59842304 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59842351 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59842398 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
59842445 ATATGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59842492 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59842541 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59842588 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
**
59842635 ATGTGAAAGTGTATATATGTGATGTGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59842682 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
59842729 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
59842776 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
59842802 TCCCGAAGGG
Statistics
Matches: 470, Mismatches: 24, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
46 2 0.00
47 421 0.90
48 2 0.00
49 45 0.10
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:59845140 original size:29 final size:28
Alignment explanation
Indices: 59845108--59845192 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 28
59845098 AAAAGGATAT
*
59845108 CCTTTGTGGAAAAACTCTGGAAAGGTAAA
1 CCTTTGTGG-AAAACTCTGAAAAGGTAAA
**
59845137 CCTTTGTGGCGAAC-CTGTAAAAGG-ACAA
1 CCTTTGTGGAAAACTCTG-AAAAGGTA-AA
59845165 CCTTTGTGGCAAAACTCTGAAAAGGTAA
1 CCTTTGTGG-AAAACTCTGAAAAGGTAA
59845193 GTTTTTATGG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
27 4 0.09
28 19 0.41
29 19 0.41
30 4 0.09
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (28 bp):
CCTTTGTGGAAAACTCTGAAAAGGTAAA
Found at i:59845309 original size:28 final size:27
Alignment explanation
Indices: 59845241--59845311 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
59845231 GAGTACTTAA
59845241 TAAAAGG-ATGCCTTTGTGGCAATCTC
1 TAAAAGGAATGCCTTTGTGGCAATCTC
** *
59845267 TGGCTAAGGAA-GCCTTTGTGGCTATCTC
1 T--AAAAGGAATGCCTTTGTGGCAATCTC
59845295 TAAAAGGGAATGCCTTT
1 TAAAA-GGAATGCCTTT
59845312 ATGGTGCCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
26 3 0.09
27 4 0.11
28 27 0.77
29 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (27 bp):
TAAAAGGAATGCCTTTGTGGCAATCTC
Found at i:59846200 original size:31 final size:31
Alignment explanation
Indices: 59846162--59846224 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
59846152 CTCCACCTCC
* * *
59846162 CACCTACTTCCTCTATCGGCGGTGACTATTA
1 CACCTACTTCCTCGATCGCCGATGACTATTA
59846193 CACCTACTTCCTCGATCGCCGATGACTATTA
1 CACCTACTTCCTCGATCGCCGATGACTATTA
59846224 C
1 C
59846225 TCAGGTAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (31 bp):
CACCTACTTCCTCGATCGCCGATGACTATTA
Found at i:59846596 original size:7 final size:7
Alignment explanation
Indices: 59846578--59846609 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
59846568 ATTTTCCTTC
59846578 ATTTTC-
1 ATTTTCT
59846584 ATTTTCT
1 ATTTTCT
59846591 ATTTTCT
1 ATTTTCT
59846598 ATTTTCT
1 ATTTTCT
59846605 ATTTT
1 ATTTT
59846610 AAATATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTCT
Found at i:59849397 original size:11 final size:11
Alignment explanation
Indices: 59849381--59849405 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59849371 TTAATTTTGA
59849381 TAAATTAAAAT
1 TAAATTAAAAT
59849392 TAAATTAAAAT
1 TAAATTAAAAT
59849403 TAA
1 TAA
59849406 TATGATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAATTAAAAT
Found at i:59849881 original size:20 final size:21
Alignment explanation
Indices: 59849837--59849888 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
59849827 TTTTATTAGT
*
59849837 TTAATATTAAATTAAATTATA
1 TTAATATTAAAGTAAATTATA
* *
59849858 TTAATATTAAAGT-GATTATC
1 TTAATATTAAAGTAAATTATA
59849878 TTAATATTAAA
1 TTAATATTAAA
59849889 TTTAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (21 bp):
TTAATATTAAAGTAAATTATA
Found at i:59849944 original size:62 final size:58
Alignment explanation
Indices: 59849878--59849993 Score: 151
Period size: 58 Copynumber: 1.9 Consensus size: 58
59849868 AGTGATTATC
* * * *
59849878 TTAATATTAAATTTAATTTAATATTTACCTTATAGATAAATATTTTATTATTTTAATAAGAT
1 TTAATATTAAA-TTAATCTAAGATTTACC-T-TA-ATAAATATTATATTAATTTAATAAGAT
*
59849940 TTAATATTAAATTAATCTAAGATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAATCTAAGATTTACCTTAATAAATATTATATTAATTTAATA
59849994 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 21 0.43
59 2 0.04
60 1 0.02
61 14 0.29
62 11 0.22
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (58 bp):
TTAATATTAAATTAATCTAAGATTTACCTTAATAAATATTATATTAATTTAATAAGAT
Found at i:59854510 original size:12 final size:12
Alignment explanation
Indices: 59854493--59854526 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
59854483 TACATGCCAA
59854493 ATGATAATGATT
1 ATGATAATGATT
59854505 ATGATAATGA-T
1 ATGATAATGATT
*
59854516 ATGCTAATGAT
1 ATGATAATGAT
59854527 GCAAATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (12 bp):
ATGATAATGATT
Found at i:59858281 original size:101 final size:102
Alignment explanation
Indices: 59858162--59858345 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
59858152 AAAGTGACGG
*
59858162 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCCG-A-A-TGATAGGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTA-CCGAATAGTGAT-GGTCACATGTGTAG
59858224 TACTATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
64 TACTATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
*
59858263 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGAATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGAATAGTGATGGTCACATGTGTAGTA
59858328 CTATGTGCAGGCTACTAT
66 CTATGTGCAGGCTACTAT
59858346 GTGAACCGGT
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
100 2 0.03
101 38 0.49
102 34 0.44
103 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGAATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
Found at i:59858292 original size:51 final size:49
Alignment explanation
Indices: 59858160--59858344 Score: 219
Period size: 51 Copynumber: 3.7 Consensus size: 49
59858150 TGAAAGTGAC
* * *
59858160 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCCGA-ATGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATA-G-TT
* * *
59858210 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATACGTACCGGATAGCTT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATAG-TT
* * * *
59858260 CGATCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGAATAGTGAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATAGT--T
59858312 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
59858345 TGTGAACCGG
Statistics
Matches: 115, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 42 0.37
51 72 0.63
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATAGTT
Found at i:59858347 original size:26 final size:26
Alignment explanation
Indices: 59858268--59858348 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
59858258 TTCGATCACG
59858268 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
** *
59858294 CATGTA-T-CGAATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
59858319 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
59858345 TGTG
1 TGTG
59858349 AACCGGTATC
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:59858555 original size:16 final size:16
Alignment explanation
Indices: 59858534--59858565 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59858524 TGATTGAAAG
*
59858534 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
59858550 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
59858566 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:59872514 original size:26 final size:26
Alignment explanation
Indices: 59872480--59872537 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
59872470 TTGCTTTGAA
* *
59872480 TTAATAAATTT-TCTTGTGTTTTTCTT
1 TTAAAAAATTTCTCTTGAG-TTTTCTT
59872506 TTAAAAAATTTCTCTTGAGTTTTCTT
1 TTAAAAAATTTCTCTTGAGTTTTCTT
59872532 TTAAAA
1 TTAAAA
59872538 GAGTTTTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.57
Consensus pattern (26 bp):
TTAAAAAATTTCTCTTGAGTTTTCTT
Found at i:59874889 original size:35 final size:35
Alignment explanation
Indices: 59874801--59874947 Score: 111
Period size: 35 Copynumber: 4.2 Consensus size: 35
59874791 TTTGGTTGGG
* * * **
59874801 AAATAGTCTACTAGCTCTATGGAA-CGACATCACAA
1 AAATGGTCTACTAGCTCTA-CGAAGCGACACCATGA
* * **
59874836 AAATGGTCTA-TTGACTCTACGAAGCGGCATTATGA
1 AAATGGTCTACTAG-CTCTACGAAGCGACACCATGA
* * *
59874871 AAATGGTCTACTAGCTCTATGGAGCGACACCATGG
1 AAATGGTCTACTAGCTCTACGAAGCGACACCATGA
* * *
59874906 AAATGGTCTACTGGCTCTA-TAGAGTGACACCATGA
1 AAATGGTCTACTAGCTCTACGA-AGCGACACCATGA
59874941 AAATGGT
1 AAATGGT
59874948 TTTCTGACTC
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
34 5 0.06
35 82 0.92
36 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (35 bp):
AAATGGTCTACTAGCTCTACGAAGCGACACCATGA
Found at i:59875781 original size:50 final size:50
Alignment explanation
Indices: 59875722--59875957 Score: 219
Period size: 50 Copynumber: 4.7 Consensus size: 50
59875712 GGTAAAGATA
* *
59875722 TCCCATGTAAGACCATGTCTGGGACATGTCGTTGGTACCGAA-ATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-AAGATGAGAGG
*
59875772 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
** * * * * **
59875822 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
* * * * * * **
59875872 TCTCATGTAAGACCATATTTGGGATATGGCATTGGCAGTACAAGA--A-ACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA--CCAAGATGAGAGG
* * *
59875921 TCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
59875958 TGTTATATTC
Statistics
Matches: 152, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
49 33 0.22
50 116 0.76
52 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
Found at i:59875901 original size:100 final size:100
Alignment explanation
Indices: 59875728--59875908 Score: 254
Period size: 100 Copynumber: 1.8 Consensus size: 100
59875718 GATATCCCAT
* * * * ** *
59875728 GTAAGACCATGTCTGGGACATGTCGTTGGTACCGAAATGAGAGGTCCCATGTAAGACCATGTTTG
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAACTCCCATGTAAGACCATATTTG
*
59875793 GGACATGGCGTTGGCACCAAGATGAGAGGTCCCCC
66 GGACATGGCATTGGCACCAAGATGAGAGGTCCCCC
* * *
59875828 GTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCTCATGTAAGACCATATTTG
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAACTCCCATGTAAGACCATATTTG
*
59875893 GGATATGGCATTGGCA
66 GGACATGGCATTGGCA
59875909 GTACAAGAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 69 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (100 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAACTCCCATGTAAGACCATATTTG
GGACATGGCATTGGCACCAAGATGAGAGGTCCCCC
Found at i:59881721 original size:50 final size:50
Alignment explanation
Indices: 59881611--59881742 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 50
59881601 GGTAAAGATA
* * **
59881611 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
** * *
59881661 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
** * * *
59881711 TCTTATGTAAGACCGTATCTGGGATATGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCAT
59881743 TGGAAGTACA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
Found at i:59892080 original size:11 final size:11
Alignment explanation
Indices: 59892064--59892090 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59892054 TGCAACCACT
59892064 TTATTTTATTA
1 TTATTTTATTA
59892075 TTATTTTATTA
1 TTATTTTATTA
59892086 TTATT
1 TTATT
59892091 ATATAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:59901068 original size:16 final size:16
Alignment explanation
Indices: 59901047--59901079 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
59901037 TTAATTGCAG
59901047 TTATGCATCTACCTCC
1 TTATGCATCTACCTCC
59901063 TTATGCATCTACCTCC
1 TTATGCATCTACCTCC
59901079 T
1 T
59901080 CGAGAAGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.36, G:0.06, T:0.39
Consensus pattern (16 bp):
TTATGCATCTACCTCC
Found at i:59918426 original size:12 final size:11
Alignment explanation
Indices: 59918406--59918448 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 11
59918396 CTTTCATAAA
59918406 AATTGTATATTT
1 AATT-TATATTT
59918418 AATTATATATTTT
1 AATT-TATA-TTT
59918431 AAATTTATATTT
1 -AATTTATATTT
59918443 AATTTA
1 AATTTA
59918449 GTTATATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.21
12 11 0.39
13 7 0.25
14 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (11 bp):
AATTTATATTT
Found at i:59924801 original size:49 final size:49
Alignment explanation
Indices: 59924748--59924846 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
59924738 TGGATTTTTC
59924748 CACTCTAATAATTTCACTCACTCACACCTTTTACCTCTCAAAAATTATT
1 CACTCTAATAATTTCACTCACTCACACCTTTTACCTCTCAAAAATTATT
*
59924797 CACTCTAATAATTTCACTCACTCATACCTTTTACCTCTCAAAAATTATT
1 CACTCTAATAATTTCACTCACTCACACCTTTTACCTCTCAAAAATTATT
59924846 C
1 C
59924847 CTTCGGTTCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.37
Consensus pattern (49 bp):
CACTCTAATAATTTCACTCACTCACACCTTTTACCTCTCAAAAATTATT
Found at i:59925881 original size:43 final size:43
Alignment explanation
Indices: 59925819--59925941 Score: 185
Period size: 43 Copynumber: 2.9 Consensus size: 43
59925809 AACCAATATT
* * *
59925819 AGCTTCACAAATCCGTCCATGCATGCTTAAAGATTAAGCAA-A
1 AGCTTCATAAATTCATCCATGCATGCTTAAAGATTAAGCAATA
*
59925861 AGGCTTCATAAATTCATCCATGCATGCTTAAAGATTAAGCAATT
1 A-GCTTCATAAATTCATCCATGCATGCTTAAAGATTAAGCAATA
*
59925905 AGCTTCATAAATTCATCCATGCATGCTTAAGGATTAA
1 AGCTTCATAAATTCATCCATGCATGCTTAAAGATTAA
59925942 ACAAGCTCCA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
42 1 0.01
43 72 0.97
44 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (43 bp):
AGCTTCATAAATTCATCCATGCATGCTTAAAGATTAAGCAATA
Found at i:59934913 original size:50 final size:50
Alignment explanation
Indices: 59934785--59935025 Score: 261
Period size: 50 Copynumber: 4.8 Consensus size: 50
59934775 GATAATAACA
* * * ** * *
59934785 TGCCAAAGCCATGTCTCATACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
** * * ** * *
59934834 TGCCAATTCCATATCCCAGATATGGTCTTACATGGGAGTTCTCCTATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
59934884 TGCCCACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
59934934 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
59934984 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
59935026 TTACCCAAAT
Statistics
Matches: 160, Mismatches: 30, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 36 0.22
50 123 0.77
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:59939401 original size:79 final size:81
Alignment explanation
Indices: 59939292--59939474 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
59939282 TACTCGTTCA
* * * *
59939292 AATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* *
59939355 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
59939372 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCACACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
* *
59939435 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
59939451 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
59939475 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 28 0.32
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:59939474 original size:40 final size:40
Alignment explanation
Indices: 59939290--59939474 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
59939280 TCTACTCGTT
* * * *
59939290 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
59939330 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
59939370 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT-AGCA
* * *
59939409 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
59939450 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59939475 CATCATTCGA
Statistics
Matches: 121, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 79 0.65
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:59947300 original size:39 final size:40
Alignment explanation
Indices: 59947190--59947374 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
59947180 GCTACTCGTT
* *
59947190 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
59947230 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
59947270 CAAATGCCTTCGGG-CTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
59947309 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
59947350 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
59947375 CATCATTCAA
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 78 0.61
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59947307 original size:79 final size:82
Alignment explanation
Indices: 59947190--59947374 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
59947180 GCTACTCGTT
* *
59947190 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
59947253 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
59947270 CAAATGCCTTCGGG-CTTAACCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
59947333 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
59947350 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59947375 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:59950893 original size:99 final size:99
Alignment explanation
Indices: 59950722--59951018 Score: 513
Period size: 99 Copynumber: 3.0 Consensus size: 99
59950712 TGAAGTGATA
*
59950722 CAGATACTCATAAACAAGTACAATGCCAACGTCCCAAATGTGGTCTTACATGTAATTCAATATCG
1 CAGATACTCATAAACAAGTACAATGCCAACGTCCCAGATGTGGTCTTACATGTAATTCAATATCG
* *
59950787 ATGCCTCTCTCCTAGACAGGGTCTTACACAAAAT
66 ATGCCTCTATCCCAGACAGGGTCTTACACAAAAT
*
59950821 CAGATACTCATAAACAAGTACAATGCCAACGTCCCAGATGTGATCTTACATGTAATTCAATATCG
1 CAGATACTCATAAACAAGTACAATGCCAACGTCCCAGATGTGGTCTTACATGTAATTCAATATCG
* **
59950886 ATGCCTCTGTCCCAGACAGGGTCTTACATGAAAT
66 ATGCCTCTATCCCAGACAGGGTCTTACACAAAAT
**
59950920 CAGATACTCATAAACAAGTACAATGCCAACGTCCCAGACATGGTCTTACATGTAATTCAATATCG
1 CAGATACTCATAAACAAGTACAATGCCAACGTCCCAGATGTGGTCTTACATGTAATTCAATATCG
59950985 ATGCCTCTATCCCAGACAGGGTCTTACACAAAAT
66 ATGCCTCTATCCCAGACAGGGTCTTACACAAAAT
59951019 TTCAAATCGA
Statistics
Matches: 186, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 186 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (99 bp):
CAGATACTCATAAACAAGTACAATGCCAACGTCCCAGATGTGGTCTTACATGTAATTCAATATCG
ATGCCTCTATCCCAGACAGGGTCTTACACAAAAT
Found at i:59955876 original size:43 final size:42
Alignment explanation
Indices: 59955805--59955969 Score: 129
Period size: 43 Copynumber: 3.9 Consensus size: 42
59955795 CGGAAAGATC
* *
59955805 ATACAATGCCAATGTCCCAGATGTGGTCTTACATGAAATCAA
1 ATACGATGCCAATGTCCCAGATGTGGTCTTACACGAAATCAA
* *
59955847 ATATCGATGCCACTGTCCCAGATAG-GGTCTTACACGAAATCAG
1 ATA-CGATGCCAATGTCCCAGAT-GTGGTCTTACACGAAATCAA
* * * * * * *
59955890 ATACGATACCAACGTCCCATACGCT-GTCTTATAGGTAAGTCATA
1 ATACGATGCCAATGTCCCAGATG-TGGTCTTACACG-AAATCA-A
* **
59955934 AGT-CGATGCCAACGTCCCAGACATGGTCTTACACGA
1 A-TACGATGCCAATGTCCCAGATGTGGTCTTACACGA
59955970 TAACACATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 15
0.75 0.14 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 43 0.44
44 27 0.28
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGATGTGGTCTTACACGAAATCAA
Found at i:59960833 original size:12 final size:13
Alignment explanation
Indices: 59960797--59960834 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
59960787 AAATATTTGA
59960797 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
59960810 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
59960824 CTTG-TCTTAAT
1 CTTGTTCTTAAT
59960835 CTTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:59974266 original size:46 final size:46
Alignment explanation
Indices: 59974213--59974303 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
59974203 TATATATACA
* *
59974213 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* * *
59974259 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
59974304 ATACACTTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:59974346 original size:22 final size:22
Alignment explanation
Indices: 59974320--59974441 Score: 70
Period size: 22 Copynumber: 5.3 Consensus size: 22
59974310 TTCCACGTTC
59974320 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
59974342 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
59974366 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
59974389 ATCACATATATGCATATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
*
59974413 CATCACATTGGTCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
59974436 ATCACA
1 ATCACA
59974442 CATATGCATG
Statistics
Matches: 73, Mismatches: 15, Indels: 24
0.65 0.13 0.21
Matches are distributed among these distances:
22 27 0.37
23 12 0.16
24 13 0.18
25 21 0.29
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:59974348 original size:47 final size:47
Alignment explanation
Indices: 59974277--59974626 Score: 369
Period size: 47 Copynumber: 7.1 Consensus size: 47
59974267 ACACGTTTCG
* * * * * *
59974277 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
59974324 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
59974371 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
59974418 CATTGGTCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCAT--CA
* *
59974467 TTGGCCATTCGGGCCATTCGGCCTTACCACAAATATGCATGTTCACATTCATCA
1 -----CATT--GGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
59974521 CATTGGCCATTCGGCCTTATCTCATATATGCATCATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA--TC----A--CAT-ATATGCATGTTCACATTCATCA
* * * * **
59974577 CATTTGCCATTCGGCCTTACCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
59974624 CAT
1 CAT
59974627 AAAATCCTAA
Statistics
Matches: 263, Mismatches: 21, Indels: 38
0.82 0.07 0.12
Matches are distributed among these distances:
46 1 0.00
47 164 0.62
48 3 0.01
49 7 0.03
53 1 0.00
54 7 0.03
55 2 0.01
56 78 0.30
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:59974417 original size:25 final size:25
Alignment explanation
Indices: 59974342--59974420 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
59974332 ATTCGGCCTT
*
59974342 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATATTCACATTC
* * * *
59974367 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCATATTC-ACATTC
59974389 ATCACATATATGCATATTCACATTC
1 ATCACATATATGCATATTCACATTC
59974414 ATCACAT
1 ATCACAT
59974421 TGGTCATTCG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 10 0.25
23 6 0.15
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCATATTCACATTC
Found at i:59974591 original size:103 final size:102
Alignment explanation
Indices: 59974346--59974626 Score: 354
Period size: 103 Copynumber: 2.7 Consensus size: 102
59974336 GGCCTTATCA
*
59974346 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACA
1 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACA
*
59974411 TTCATCACATTGGTCATTCGGCCTTATCACACATATG
66 TTCATCACATTGGCCATTCGGCCTTATCACACATATG
* * ** * *
59974448 CATGT-TCACAT-TCATCACATT-GGC-CATTCGGGCCATTCGGCCTTACCACAAATATGCATGT
1 CATATAT-GCATGT--TCACATTCATCACATT--GGCCATTCGGCCTTACCACATATATGCATAT
* *
59974509 TCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
61 TCACATTCATCACATTGGCCATTCGGCCTTATCACACATATG
* * * *
59974551 CATCATATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTACCTCATATATACACATTCAC
1 CAT-ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTACCACATATATGCATATTCAC
59974616 ATTCATCACAT
65 ATTCATCACAT
59974627 AAAATCCTAA
Statistics
Matches: 149, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
101 6 0.04
102 8 0.05
103 124 0.83
104 5 0.03
105 6 0.04
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.33
Consensus pattern (102 bp):
CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACA
TTCATCACATTGGCCATTCGGCCTTATCACACATATG
Found at i:59974593 original size:56 final size:55
Alignment explanation
Indices: 59974435--59974611 Score: 216
Period size: 56 Copynumber: 3.2 Consensus size: 55
59974425 CATTCGGCCT
* * *
59974435 TATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGGCCAT-TCGGCCT-
1 TATC-CACATATGCATGTTCACATTCATCACATTGGCCATTC-GGCCTTATC-TCATA
59974491 TA-CCACAAATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATA
1 TATCCAC--ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATA
* * *
59974547 TATGCATCATATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTACCTCATA
1 TATCCA-CATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATA
*
59974603 TATACACAT
1 TATCCACAT
59974612 TCACATTCAT
Statistics
Matches: 108, Mismatches: 7, Indels: 13
0.84 0.05 0.10
Matches are distributed among these distances:
54 3 0.03
55 11 0.10
56 91 0.84
57 2 0.02
58 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (55 bp):
TATCCACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATA
Found at i:59978465 original size:28 final size:28
Alignment explanation
Indices: 59978434--59978590 Score: 136
Period size: 28 Copynumber: 5.5 Consensus size: 28
59978424 CTGACTGATT
*
59978434 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
59978462 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
*
59978491 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
59978519 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * **
59978548 TGGCACACATAGTGCTCGGTTGGAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
59978576 TTGCACACACAGTGC
1 TCGCACACATAGTGC
59978591 CTCATAATTC
Statistics
Matches: 101, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
27 1 0.01
28 55 0.54
29 44 0.44
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:59978494 original size:29 final size:29
Alignment explanation
Indices: 59978461--59978562 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
59978451 GATTAAAGAA
59978461 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* **
59978490 CTCGCACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
59978518 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
59978547 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
59978563 TCGGTTGGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
28 23 0.38
29 38 0.62
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:59978501 original size:57 final size:57
Alignment explanation
Indices: 59978434--59978594 Score: 232
Period size: 57 Copynumber: 2.8 Consensus size: 57
59978424 CTGACTGATT
* * *
59978434 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
**
59978491 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * * *
59978548 TGGCACACATAGTGCTCGGTTGGAGAACTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
59978595 TAATTCCAGC
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 94 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:59978667 original size:40 final size:40
Alignment explanation
Indices: 59978622--59978796 Score: 289
Period size: 40 Copynumber: 4.4 Consensus size: 40
59978612 CCTTCGAGGT
*
59978622 TTAGCCCAGATATATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGAAC
*
59978662 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGAAC
*
59978702 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGAAC
* *
59978742 TTAGCCCAGATATATCACTAGCACGAATGCT-TTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTT-GGAAC
59978782 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
59978797 ATAACTCTCA
Statistics
Matches: 128, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
39 3 0.02
40 125 0.98
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGAAC
Found at i:59980351 original size:46 final size:46
Alignment explanation
Indices: 59980278--59980414 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
59980268 TATATATACA
* * * * *
59980278 CATCTCATACATATCTCACACTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
59980324 CATCTCATACACGTTTCGGATTGGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
59980370 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
59980415 ATACACTTCC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:59980459 original size:47 final size:47
Alignment explanation
Indices: 59980431--59980822 Score: 570
Period size: 47 Copynumber: 8.1 Consensus size: 47
59980421 TTCCACGTTT
*
59980431 ATCACATTGGCCATTCTGG-CTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTC-GGCCTTATCACACATATGCATGTTCACATTC
* *
59980478 ATCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
59980525 ATCACATTGGCCATTCGGACTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
59980572 ATCACATTGGCCATTCGGCGTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
59980619 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
59980666 ATCACATTGGCCATTCAGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATT-G-------G-CCATTCGGCCTTATCACACATATGCATGTTCACATTC
* *
59980722 ATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * **
59980769 ATCACATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
59980816 ATCACAT
1 ATCACAT
59980823 AAATTCCTAA
Statistics
Matches: 322, Mismatches: 13, Indels: 20
0.91 0.04 0.06
Matches are distributed among these distances:
46 2 0.01
47 271 0.84
48 2 0.01
55 2 0.01
56 45 0.14
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:59980506 original size:22 final size:22
Alignment explanation
Indices: 59980478--59980552 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
59980468 GTTCACATTC
59980478 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
59980500 ATCACATATATGCATATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
*
59980524 CATCACATTGGCCATTCGGACTT
1 -ATCACATTGGCCATTCGGCCTT
59980547 ATCACA
1 ATCACA
59980553 CATATGCATG
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 17 0.44
23 5 0.13
24 6 0.15
25 11 0.28
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:59980699 original size:103 final size:103
Alignment explanation
Indices: 59980582--59980784 Score: 370
Period size: 103 Copynumber: 2.0 Consensus size: 103
59980572 ATCACATTGG
*
59980582 CCATTCGGCGTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
59980647 CATATGCATGTTCACATTCATCACATTGGCCATTCAGA
66 CATATGCATGTTCACATTCATCACATTGGCCATTCAGA
*
59980685 CCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCA
1 CCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* *
59980750 TATATGCATGTTCACATTCATCACATTTGCCATTC
66 CATATGCATGTTCACATTCATCACATTGGCCATTC
59980785 GGCCTTATCT
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:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (103 bp):
CCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
CATATGCATGTTCACATTCATCACATTGGCCATTCAGA
Found at i:59980707 original size:150 final size:150
Alignment explanation
Indices: 59980535--59980822 Score: 486
Period size: 150 Copynumber: 1.9 Consensus size: 150
59980525 ATCACATTGG
*
59980535 CCATTCGGACTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCGTTATCACA
1 CCATTCGGACTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* **
59980600 CATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATT
66 CATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATT
59980665 CATCACATTGGCCATTCAGA
131 CATCACATTGGCCATTCAGA
* *
59980685 CCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCA
1 CCATTCGGACTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* * * *
59980750 TATATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTATCTCATATATACACATTCACATT
66 CATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATT
59980815 CATCACAT
131 CATCACAT
59980823 AAATTCCTAA
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
150 128 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (150 bp):
CCATTCGGACTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
CATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATT
CATCACATTGGCCATTCAGA
Found at i:59983465 original size:15 final size:15
Alignment explanation
Indices: 59983445--59983509 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
59983435 GTATCTTGGG
59983445 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
59983460 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
59983475 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
59983490 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
59983504 TTTCTT
1 TTTCTT
59983510 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59983477 original size:30 final size:31
Alignment explanation
Indices: 59983441--59983509 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
59983431 TATCGTATCT
59983441 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
59983471 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
59983501 -GGTTTTCTT
1 TGGGTTTCTT
59983510 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:59986713 original size:27 final size:27
Alignment explanation
Indices: 59986683--59986860 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59986673 ATATTGAGTC
* * * *
59986683 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
59986710 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59986737 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
59986765 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
59986792 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
59986819 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59986846 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59986861 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:59986822 original size:82 final size:81
Alignment explanation
Indices: 59986704--59986859 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59986694 TGCTATATAA
* *
59986704 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59986769 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59986786 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59986850 CACTTAGTGC
65 CACTTAGTGC
59986860 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59994899 original size:27 final size:27
Alignment explanation
Indices: 59994869--59995046 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59994859 ATATTGAGTC
* * * *
59994869 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
59994896 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59994923 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
59994951 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
59994978 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
59995005 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59995032 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59995047 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:59995008 original size:82 final size:81
Alignment explanation
Indices: 59994890--59995045 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59994880 TGCTATATAA
* *
59994890 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59994955 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59994972 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59995036 CACTTAGTGC
65 CACTTAGTGC
59995046 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59998334 original size:25 final size:25
Alignment explanation
Indices: 59998305--59998352 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
59998295 GGAGGTAATA
59998305 TTAGTTGATAAACAACTGAACCATT
1 TTAGTTGATAAACAACTGAACCATT
*
59998330 TTAGTTTATAAACAACTGAACCA
1 TTAGTTGATAAACAACTGAACCA
59998353 ACTCTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (25 bp):
TTAGTTGATAAACAACTGAACCATT
Found at i:60000325 original size:20 final size:20
Alignment explanation
Indices: 60000302--60000344 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
60000292 TTTTACATTA
60000302 TTTCTCTCT-TTTTTCTTTAT
1 TTTC-CTCTATTTTTCTTTAT
*
60000322 TTTCCTTTATTTTTCTTTAT
1 TTTCCTCTATTTTTCTTTAT
60000342 TTT
1 TTT
60000345 TCTTTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCCTCTATTTTTCTTTAT
Found at i:60000352 original size:21 final size:20
Alignment explanation
Indices: 60000311--60000349 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
60000301 ATTTCTCTCT
60000311 TTTTTCTTTATTTTCCTTTA
1 TTTTTCTTTATTTTCCTTTA
*
60000331 TTTTTCTTTATTTTTCTTT
1 TTTTTCTTTATTTTCCTTT
60000350 TATAATGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCTTTATTTTCCTTTA
Found at i:60001253 original size:19 final size:19
Alignment explanation
Indices: 60001229--60001265 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
60001219 TTACAAAACA
60001229 CATTAAATGAGATGAGTAT
1 CATTAAATGAGATGAGTAT
60001248 CATTAAATGAGATGAGTA
1 CATTAAATGAGATGAGTA
60001266 GTTTAGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (19 bp):
CATTAAATGAGATGAGTAT
Found at i:60005498 original size:18 final size:18
Alignment explanation
Indices: 60005477--60005513 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
60005467 ATAATTTAAA
60005477 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
60005495 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
60005513 A
1 A
60005514 ATGTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:60005622 original size:19 final size:20
Alignment explanation
Indices: 60005598--60005641 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
60005588 TCCAAACACT
*
60005598 AGAAAAGTAAATTA-TTTCC
1 AGAAAAGTAAATCATTTTCC
60005617 AGAAAAGTAAATCATTTTCC
1 AGAAAAGTAAATCATTTTCC
60005637 AGAAA
1 AGAAA
60005642 TCATTTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.27
Consensus pattern (20 bp):
AGAAAAGTAAATCATTTTCC
Found at i:60010789 original size:33 final size:34
Alignment explanation
Indices: 60010723--60010789 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
60010713 ATTGTATACA
* *
60010723 AAATAATTATATTTATTTAATGTGAAAAAGAATT
1 AAATAATTATATTTACTTAATATGAAAAAGAATT
*
60010757 AAATAATTATATTTACTTGATAT-AAAAAGAATT
1 AAATAATTATATTTACTTAATATGAAAAAGAATT
60010790 GAATTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 10 0.33
34 20 0.67
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (34 bp):
AAATAATTATATTTACTTAATATGAAAAAGAATT
Found at i:60014085 original size:15 final size:15
Alignment explanation
Indices: 60014067--60014099 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
60014057 GTATGCAATA
*
60014067 TGATTTATATTTATG
1 TGATTTACATTTATG
60014082 TGATTTACATTTATG
1 TGATTTACATTTATG
60014097 TGA
1 TGA
60014100 ATATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (15 bp):
TGATTTACATTTATG
Found at i:60014339 original size:58 final size:57
Alignment explanation
Indices: 60014276--60014415 Score: 158
Period size: 57 Copynumber: 2.4 Consensus size: 57
60014266 TTATAGAAAT
* * * * *
60014276 GATTTAGCCCGGACGGGTAATCCTGATATAATCCC-TCTTGAGCATATGTTACA-ATTAG
1 GATTTAGCCTGGACTGGTAATCCTGAT-TAAGCCCTTC-TGAGCATACGTTACATA-AAG
* * * *
60014334 GATTTAGCCTAGACTGGTAATCCTAATTGAGCTCTTCTGAGCATACGTTACATAAAG
1 GATTTAGCCTGGACTGGTAATCCTGATTAAGCCCTTCTGAGCATACGTTACATAAAG
60014391 GATTTAGCCTGGACTGGTAATCCTG
1 GATTTAGCCTGGACTGGTAATCCTG
60014416 TAATACGATA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
57 43 0.62
58 26 0.38
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (57 bp):
GATTTAGCCTGGACTGGTAATCCTGATTAAGCCCTTCTGAGCATACGTTACATAAAG
Found at i:60020662 original size:9 final size:9
Alignment explanation
Indices: 60020606--60020678 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
60020596 TCAAGAATTC
*
60020606 AAATAAAAG
1 AAATAAAAT
* *
60020615 AATTAAACT
1 AAATAAAAT
*
60020624 ACAATAAAGT
1 A-AATAAAAT
60020634 AAAATAAAAT
1 -AAATAAAAT
*
60020644 AAA-AGGAAT
1 AAATA-AAAT
*
60020653 AAAGAAAAT
1 AAATAAAAT
60020662 AAATAAAAT
1 AAATAAAAT
60020671 AAATAAAA
1 AAATAAAA
60020679 GAGGAACCAA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
8 1 0.02
9 35 0.69
10 14 0.27
11 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.18
Consensus pattern (9 bp):
AAATAAAAT
Found at i:60025612 original size:22 final size:23
Alignment explanation
Indices: 60025564--60025614 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
60025554 TAGAATTTTA
* *
60025564 TAATAACATACATACTACATGTT
1 TAATAACATAAATACTACATGCT
60025587 TAATACACATAAATA-TA-ATGCT
1 TAATA-ACATAAATACTACATGCT
60025609 TAATAA
1 TAATAA
60025615 TAATTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (23 bp):
TAATAACATAAATACTACATGCT
Found at i:60025674 original size:19 final size:19
Alignment explanation
Indices: 60025643--60025697 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 19
60025633 ATAGTGTAAT
60025643 AATATAT-TA-ATAATATA
1 AATATATATATATAATATA
60025660 AATATATATATATAATA-A
1 AATATATATATATAATATA
* * *
60025678 AGTA-ACATATAAAATATA
1 AATATATATATATAATATA
60025696 AA
1 AA
60025698 AGAATAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 17 0.55
18 8 0.26
19 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AATATATATATATAATATA
Found at i:60025851 original size:5 final size:5
Alignment explanation
Indices: 60025818--60025932 Score: 66
Period size: 5 Copynumber: 24.0 Consensus size: 5
60025808 ATGTAATAAG
* * * *
60025818 ATATA A-AT- ATATG ATAAA ATATA AAATA ATATA ATAT- ATA-A TGTATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA -ATATA
* * * * *
60025865 TTAAA ACATA AGATA ATATA ATATA TATAATA ATATA A-A-A ATATA AAATA
1 ATATA ATATA ATATA ATATA ATATA -AT-ATA ATATA ATATA ATATA ATATA
60025915 ATATA ATAT- ATA-A ATATA
1 ATATA ATATA ATATA ATATA
60025933 CTTGAAAATA
Statistics
Matches: 84, Mismatches: 15, Indels: 22
0.69 0.12 0.18
Matches are distributed among these distances:
3 3 0.04
4 15 0.18
5 58 0.69
6 5 0.06
7 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:60029426 original size:39 final size:40
Alignment explanation
Indices: 60029381--60029552 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
60029371 GCTCCTCGTT
* * *
60029381 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
60029421 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
60029460 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
60029500 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
60029540 CAAATGCCTTCGG
1 CAAATGCCTTCGG
60029553 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:60029481 original size:40 final size:39
Alignment explanation
Indices: 60029383--60029605 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
60029373 TCCTCGTTCA
* * * *
60029383 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
60029422 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
60029461 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
60029501 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
60029541 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
60029582 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60029606 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:60029565 original size:80 final size:79
Alignment explanation
Indices: 60029381--60029605 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
60029371 GCTCCTCGTT
* * * * *
60029381 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
60029445 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
60029460 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
60029525 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
60029540 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
60029604 GA
63 GA
60029606 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:60029614 original size:41 final size:41
Alignment explanation
Indices: 60029537--60029614 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60029527 TTTGTATCTC
* * *
60029537 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60029578 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60029615 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60036041 original size:40 final size:40
Alignment explanation
Indices: 60035941--60036112 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
60035931 GCTCCTCGTT
* * *
60035941 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* *
60035981 C-AATGCTTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
60036020 CGAATGCCTTTGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
60036060 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
60036100 CAAATGCCTTCGG
1 CAAATGCCTTCGG
60036113 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 34 0.30
40 77 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:60036125 original size:80 final size:78
Alignment explanation
Indices: 60035941--60036165 Score: 211
Period size: 80 Copynumber: 2.8 Consensus size: 78
60035931 GCTCCTCGTT
* * * * * *
60035941 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCTTTCGGGACATAACCCGG-
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
60036005 ATTTAATAACTCGCA
64 ATTTAATAACTCGCA
* * * *
60036020 CGAATGCCTTTGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCC-TTCGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
60036085 AATTT-GTATCTCGCA
63 AATTTAATAACTCGCA
* * * * *
60036100 CAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCGG
60036165 A
63 A
60036166 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 67 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAAT
TTAATAACTCGCA
Found at i:60036174 original size:41 final size:41
Alignment explanation
Indices: 60036097--60036174 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60036087 TTTGTATCTC
* * *
60036097 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60036138 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60036175 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60037569 original size:10 final size:10
Alignment explanation
Indices: 60037553--60037610 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
60037543 CAACTCCGAC
60037553 CAGCTCAATT
1 CAGCTCAATT
* *
60037563 GAGCTCATTT
1 CAGCTCAATT
60037573 CAGCTCAA-T
1 CAGCTCAATT
60037582 CGAGCTCAATT
1 C-AGCTCAATT
*
60037593 TAGCTACAATT
1 CAGCT-CAATT
60037604 CAGCTCA
1 CAGCTCA
60037611 TTTATTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:60037576 original size:20 final size:20
Alignment explanation
Indices: 60037553--60037613 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
60037543 CAACTCCGAC
60037553 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
60037573 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
60037594 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
60037614 ATTTTTTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:60044177 original size:12 final size:12
Alignment explanation
Indices: 60044125--60044193 Score: 52
Period size: 12 Copynumber: 5.5 Consensus size: 12
60044115 GTATTGGAGT
60044125 AAAAAAA-TC-A
1 AAAAAAATTCAA
60044135 AAAAAAATTCGAA
1 AAAAAAATTC-AA
*
60044148 AAAAAATTGATTGAAA
1 AAAAAA---ATT-CAA
60044164 AAAAAAATTCAA
1 AAAAAAATTCAA
* *
60044176 AAAAAAAGTGAA
1 AAAAAAATTCAA
60044188 AAAAAA
1 AAAAAA
60044194 TCGAGCAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
10 7 0.15
11 2 0.04
12 18 0.38
13 10 0.21
16 11 0.23
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:60044193 original size:29 final size:29
Alignment explanation
Indices: 60044134--60044193 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
60044124 TAAAAAAATC
* * ***
60044134 AAAAAAAATTCGAAAAAAAATTGATTGAA
1 AAAAAAAATTCAAAAAAAAAGTGAAAAAA
60044163 AAAAAAAATTCAAAAAAAAAGTGAAAAAA
1 AAAAAAAATTCAAAAAAAAAGTGAAAAAA
60044192 AA
1 AA
60044194 TCGAGCAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.15
Consensus pattern (29 bp):
AAAAAAAATTCAAAAAAAAAGTGAAAAAA
Found at i:60045287 original size:15 final size:15
Alignment explanation
Indices: 60045262--60045308 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
60045252 AGAAAAGAAT
60045262 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
60045278 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
*
60045293 AAA-AATGTGAAAATG
1 AAAGAA-ATGAAAATG
60045308 A
1 A
60045309 GATTTCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 2 0.07
15 21 0.78
16 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:60045297 original size:28 final size:29
Alignment explanation
Indices: 60045252--60045308 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
60045242 ATTTTGAGCG
60045252 AGAAAAGAATAAAGAAAA-TGAAAATGAA
1 AGAAAAGAATAAAGAAAAGTGAAAATGAA
*
60045280 AGAAATGAA-AAAGAAAAATGTGAAAATGA
1 AGAAAAGAATAAAG-AAAA-GTGAAAATGA
60045309 GATTTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 4 0.16
28 12 0.48
30 9 0.36
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.12
Consensus pattern (29 bp):
AGAAAAGAATAAAGAAAAGTGAAAATGAA
Found at i:60045355 original size:12 final size:12
Alignment explanation
Indices: 60045338--60045413 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 12
60045328 AGTGAAAAGC
60045338 AAAAAGAGATTG
1 AAAAAGAGATTG
*
60045350 AAAAAGAAATTG
1 AAAAAGAGATTG
*
60045362 --AAAGAGA-AG
1 AAAAAGAGATTG
*
60045371 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
60045386 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
60045398 AAAGAGAGCTTG
1 AAAAAGAGATTG
60045410 AAAA
1 AAAA
60045414 GAAATCAAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 1 0.02
10 6 0.12
11 4 0.08
12 25 0.52
13 5 0.10
15 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.25, T:0.12
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:60045379 original size:15 final size:15
Alignment explanation
Indices: 60045361--60045394 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
60045351 AAAAGAAATT
60045361 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
60045376 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
60045391 GAAA
1 GAAA
60045395 TTGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:60051479 original size:15 final size:15
Alignment explanation
Indices: 60051440--60051519 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
60051430 ATATCTTGGG
*
60051440 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
60051455 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
60051470 TTTCTTTATTTTGGG
1 TTTCTTTATTCTGGA
*
60051485 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
60051500 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
60051514 TTTCTT
1 TTTCTT
60051520 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 42 0.79
16 2 0.04
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:60051500 original size:30 final size:30
Alignment explanation
Indices: 60051431--60051510 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
60051421 CATAGTATCA
* * *
60051431 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* * *
60051461 TAT-TCTGGATTTCTTTATTTTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
60051491 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
60051511 GGTTTTCTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.02
30 39 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:60051500 original size:45 final size:44
Alignment explanation
Indices: 60051435--60051519 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 44
60051425 GTATCATATC
*
60051435 TTGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTTTATT
1 TTGGGTTTCTCTATCCTGGATCTCTTTATTC-GGATTTCTTTATT
* * *
60051480 TTGGGTTTCTCTATCTTGGATTTCTTTATTCGGTTTTCTT
1 TTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTT
60051520 GTTATCTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 8 0.22
45 28 0.78
ACGTcount: A:0.09, C:0.15, G:0.16, T:0.59
Consensus pattern (44 bp):
TTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTTTATT
Found at i:60053494 original size:46 final size:43
Alignment explanation
Indices: 60053443--60053616 Score: 152
Period size: 46 Copynumber: 3.8 Consensus size: 43
60053433 TTTGGGCATC
* *
60053443 CGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGT
1 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA--T
*** * *
60053488 CTGAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTAG-GCAT
1 C-GAACTCGTTGAGTTGAGTCCAAGTTC-ACTTATG-GA-T-GCGAAT
* *
60053535 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACAT
1 -CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCG-A-AT
*
60053581 CCAAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 CGAA-CTCGTTGAGTTGAGTCCAAGTTCACTTATGG
60053617 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 4 0.04
46 60 0.59
47 29 0.28
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (43 bp):
CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAT
Found at i:60053549 original size:93 final size:93
Alignment explanation
Indices: 60053437--60053608 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
60053427 AGGATGTTTG
** *
60053437 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGTCTGAA-CTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACATC-CAAGCTCGTTGA
60053501 GTTGAGTCCAAGTTCGAGAGATGTAACTA
65 GTTGAGTCCAAGTTCGAGAGATGTAACTA
* *
60053530 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCAAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACATCCAAGCTCGTTGAG
60053595 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
60053609 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACATCCAAGCTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:60063165 original size:10 final size:10
Alignment explanation
Indices: 60063135--60063168 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
60063125 TAAGCTCGGT
60063135 TGAGCTCAAA
1 TGAGCTCAAA
*
60063145 CGAGCTCAAA
1 TGAGCTCAAA
60063155 TGAGCTCAAA
1 TGAGCTCAAA
60063165 TGAG
1 TGAG
60063169 TTGAATTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:60063178 original size:20 final size:20
Alignment explanation
Indices: 60063134--60063180 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
60063124 GTAAGCTCGG
60063134 TTGAGCTCAAACGAGCTCAA
1 TTGAGCTCAAACGAGCTCAA
* * * *
60063154 ATGAGCTCAAATGAGTTGAA
1 TTGAGCTCAAACGAGCTCAA
60063174 TTGAGCT
1 TTGAGCT
60063181 GGATGGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (20 bp):
TTGAGCTCAAACGAGCTCAA
Found at i:60071252 original size:39 final size:39
Alignment explanation
Indices: 60071204--60071292 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
60071194 TGGGACTTTA
60071204 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
*
60071243 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
60071282 AGCCCGGATAT
1 AGCCCGGATAT
60071293 TTTCCAGCAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
Found at i:60071375 original size:39 final size:39
Alignment explanation
Indices: 60071285--60071376 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 39
60071275 GGGACTTAGC
* * *
60071285 CCGGATA-TTTTCCAGCACTTAGCCTGCGGCCTTTAAGT
1 CCGGATATTTTTCCAGCACTAAGCCTGCGGACTTCAAGT
*
60071323 CCGGATATATTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
1 CCGGATATTTTTCCAGCACT-AAGCCTGCGGACTTCAAGT
60071362 CCGGATATTTTTCCA
1 CCGGATATTTTTCCA
60071377 ATACCATGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
38 8 0.17
39 39 0.83
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCACTAAGCCTGCGGACTTCAAGT
Found at i:60077076 original size:39 final size:39
Alignment explanation
Indices: 60077028--60077116 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
60077018 TGGGACTTTA
60077028 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
*
60077067 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
60077106 AGCCCGGATAT
1 AGCCCGGATAT
60077117 TTTTCCAGCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
Found at i:60077153 original size:39 final size:39
Alignment explanation
Indices: 60077110--60077201 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 39
60077100 GGACTTAGCC
* * *
60077110 CGGATATTTTTCCAGCACT-TAGCCTGTGGACTTTAAGTA
1 CGGATATTTTTCCAGCA-TAAAGCCTGCGGACTTCAAGTA
* *
60077149 CGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGTC
1 CGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGTA
60077188 CGGATATTTTTCCA
1 CGGATATTTTTCCA
60077202 ATACCATGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 1 0.02
39 45 0.98
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (39 bp):
CGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGTA
Found at i:60089976 original size:15 final size:14
Alignment explanation
Indices: 60089945--60089988 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
60089935 CGAGTGTTGA
*
60089945 TGAAAAAGAAATGAG
1 TGAAAAAGAAA-AAG
60089960 TGAAAAAGAAGAAAG
1 TGAAAAAGAA-AAAG
*
60089975 TGAACAAGAAAAAG
1 TGAAAAAGAAAAAG
60089989 CGAGGAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 4 0.15
15 21 0.81
16 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.25, T:0.09
Consensus pattern (14 bp):
TGAAAAAGAAAAAG
Found at i:60091671 original size:50 final size:52
Alignment explanation
Indices: 60091614--60091731 Score: 168
Period size: 50 Copynumber: 2.3 Consensus size: 52
60091604 TAATAAAGTT
* *
60091614 ATGCATTATGTAACTCTCATGTAAGTT-AAGTTTGCATCA-TAAATTATGAC
1 ATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGAC
* * *
60091664 ATGCATTATGAAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGTC
1 ATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGAC
*
60091716 ATGCATTAAGTAACTC
1 ATGCATTATGTAACTC
60091732 ATTTGTTCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 24 0.41
51 12 0.20
52 23 0.39
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (52 bp):
ATGCATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGAC
Found at i:60091731 original size:52 final size:51
Alignment explanation
Indices: 60091600--60091731 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
60091590 ATGTGTTCTG
* * * *
60091600 CATTTAATAAAGTTATGCATTATGTAACTCTCATGTAAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTAAGTTAAGTTTGCAT
* * * *
60091651 CA-TAAATTATGACATGCATTATGAAACTCCCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTAAGTT-AAGTTTGCAT
*
60091702 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
60091732 ATTTGTTCAT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
50 30 0.45
51 14 0.21
52 23 0.34
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTAAGTTAAGTTTGCAT
Found at i:60093672 original size:17 final size:16
Alignment explanation
Indices: 60093630--60093678 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
60093620 AGAAATTAAG
*
60093630 AGAAGTAAAAAAGAAA
1 AGAAATAAAAAAGAAA
* * *
60093646 TGATAGAAAAAAGTAAA
1 AGAAATAAAAAAG-AAA
60093663 AGAAATAAAAAAGAAA
1 AGAAATAAAAAAGAAA
60093679 GTGTATGAGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.10
Consensus pattern (16 bp):
AGAAATAAAAAAGAAA
Found at i:60095427 original size:50 final size:52
Alignment explanation
Indices: 60095363--60095461 Score: 157
Period size: 50 Copynumber: 1.9 Consensus size: 52
60095353 TTAATAAAGT
* *
60095363 CATGTATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGA
*
60095413 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATTATTAAATTA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTA
60095462 AGTCATACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 26 0.59
51 11 0.25
52 7 0.16
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGA
Found at i:60095481 original size:52 final size:50
Alignment explanation
Indices: 60095375--60095481 Score: 133
Period size: 52 Copynumber: 2.1 Consensus size: 50
60095365 TGTATTATGT
* * * * *
60095375 AACTCTCATGTTAGTTAAGTTTGCATCATAAATTATGACATGCATTATGT
1 AACTCCCATGTTAGTTAAGTTTGCATCATAAATTAAGACATACATTAAGG
* *
60095425 AACTCCCATGTTAGTTAAAGTTTGCATTATTAAATTAAGTCATACATTAAGG
1 AACTCCCATGTTAGTT-AAGTTTGCATCA-TAAATTAAGACATACATTAAGG
60095477 AACTC
1 AACTC
60095482 ATTTTTTCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 15 0.31
51 11 0.23
52 22 0.46
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (50 bp):
AACTCCCATGTTAGTTAAGTTTGCATCATAAATTAAGACATACATTAAGG
Done.