Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 27 of 226
Found at i:9339821 original size:15 final size:17
Alignment explanation
Indices: 9339788--9339822 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
9339778 TTTAGTAAAT
9339788 TTATATAAGAATATTTA
1 TTATATAAGAATATTTA
9339805 TTAT-TAAGAAT-TTTA
1 TTATATAAGAATATTTA
9339820 TTA
1 TTA
9339823 AATTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 7 0.39
17 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
TTATATAAGAATATTTA
Found at i:9339842 original size:18 final size:17
Alignment explanation
Indices: 9339814--9339848 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9339804 ATTATTAAGA
*
9339814 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9339831 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9339849 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9339848 original size:16 final size:16
Alignment explanation
Indices: 9339814--9339867 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
9339804 ATTATTAAGA
9339814 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
9339831 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
9339847 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
9339861 ATTTTAA
1 ATTTTAA
9339868 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:9339960 original size:18 final size:17
Alignment explanation
Indices: 9339934--9339968 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9339924 AATATTAAGA
*
9339934 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9339951 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9339969 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9339968 original size:16 final size:16
Alignment explanation
Indices: 9339934--9339987 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
9339924 AATATTAAGA
9339934 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
9339951 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
9339967 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
9339981 ATTTTAA
1 ATTTTAA
9339988 ATATGATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.15
15 13 0.38
16 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:9339984 original size:61 final size:61
Alignment explanation
Indices: 9339679--9339984 Score: 317
Period size: 61 Copynumber: 5.1 Consensus size: 61
9339669 CATATAAGAA
9339679 TATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
1 TATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
* * * ** * * *
9339740 TATTTTAA-ATT-A-TATTTTA-TAGTATTATATATTATAATTTTAGTAAATTTATATAAGAA-
1 TA-TTTAATATTAAGAATTTTATTA-AATTATATATTTTAATTAAAATATATTTA-ATAATAAT
*
9339799 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
1 TATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
* * * * ** * * * *
9339860 TATTTTAA-ATT-A-TATTTTA-TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA-
1 TA-TTTAATATTAAGAATTTTATTA-AATTATATATTTTAATTAAAATATATTTA-ATAATAAT
9339919 TATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
1 TATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
9339980 TATTT
1 TATTT
9339985 TAAATATGAT
Statistics
Matches: 191, Mismatches: 38, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
58 13 0.07
59 66 0.35
60 28 0.15
61 71 0.37
62 13 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (61 bp):
TATTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
Found at i:9358929 original size:29 final size:30
Alignment explanation
Indices: 9358870--9358927 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9358860 TCCGAGCCTT
* *
9358870 GGGGCAAAAATGTAATTATGTAAAGGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
9358900 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
9358928 AGAGTCGAGG
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:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:9359157 original size:13 final size:13
Alignment explanation
Indices: 9359139--9359170 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9359129 TTTCCAGCAA
9359139 TTATGAATTTATT
1 TTATGAATTTATT
9359152 TTATGAATTTATT
1 TTATGAATTTATT
*
9359165 TGATGA
1 TTATGA
9359171 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:9359378 original size:50 final size:50
Alignment explanation
Indices: 9359265--9359462 Score: 243
Period size: 50 Copynumber: 3.8 Consensus size: 50
9359255 ATTTGGGTAA
* *
9359265 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* *
9359321 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
9359371 AGAGGTCCCATGTAAGACCATGTTTGGGACATGACGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * *
9359421 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
9359463 TGTTATTATC
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
50 82 0.65
52 1 0.01
53 3 0.02
55 2 0.02
56 39 0.31
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:9359464 original size:106 final size:103
Alignment explanation
Indices: 9359265--9359455 Score: 280
Period size: 106 Copynumber: 1.9 Consensus size: 103
9359255 ATTTGGGTAA
*
9359265 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCC---AGATCATGAGAGGTCCC
*
9359330 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
9359371 AGAGGTCCCATGTAAGACCATGTTTGGGACATGACGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCAGATCATGAGAGGTCCCCTA
9359433 TAAGACCATGTCTGGGACATGGC
66 TAAGACCATGTCTGGGACATGGC
9359456 TTTGGCATGT
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
100 37 0.47
101 2 0.03
105 2 0.03
106 38 0.48
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:9365079 original size:26 final size:26
Alignment explanation
Indices: 9365050--9365106 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
9365040 CGATATATGA
9365050 CTCTTTGTGAGCTTCCTAATTAAAGG
1 CTCTTTGTGAGCTTCCTAATTAAAGG
* * *
9365076 CTCTTTTTGAGCTTCCTGATTAATGG
1 CTCTTTGTGAGCTTCCTAATTAAAGG
9365102 CTCTT
1 CTCTT
9365107 CGGAGCTACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCCTAATTAAAGG
Found at i:9370679 original size:37 final size:37
Alignment explanation
Indices: 9370614--9370797 Score: 300
Period size: 37 Copynumber: 5.0 Consensus size: 37
9370604 TACGTATGAT
* *
9370614 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
9370649 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9370686 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9370723 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
9370760 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9370797 C
1 C
9370798 GAAGCTATCA
Statistics
Matches: 139, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
35 9 0.06
36 3 0.02
37 127 0.91
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:9370839 original size:52 final size:52
Alignment explanation
Indices: 9370760--9371074 Score: 420
Period size: 52 Copynumber: 6.2 Consensus size: 52
9370750 TAAGTGTAGC
* *
9370760 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
9370813 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
9370865 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
9370917 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
9370963 CAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * ** *
9371009 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
9371061 CACTTTATCACTTG
1 CACTTT-TCACTTG
9371075 ATCAGAAGTA
Statistics
Matches: 236, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 84 0.36
47 2 0.01
48 2 0.01
52 133 0.56
53 15 0.06
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:9370947 original size:98 final size:97
Alignment explanation
Indices: 9370760--9371080 Score: 394
Period size: 98 Copynumber: 3.3 Consensus size: 97
9370750 TAAGTGTAGC
*
9370760 CACTTATCAC--T-TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCA
1 CACTTATCACTTTATTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--TT--
9370822 CTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
62 CTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
9370858 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC-T-
1 CACTTATCACTTT--A-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTC
*
9370921 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
63 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9370956 CACTTATCACTTTA---TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCA
1 CACTTATCACTTTATTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC-TT---
** *
9371018 CTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
62 CTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
9371054 CACTTATCACTTTA---TCACTTGATCAGA
1 CACTTATCACTTTATTGTCACTTGATCAGA
9371081 AGTACTCAAA
Statistics
Matches: 200, Mismatches: 11, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
92 39 0.19
94 1 0.00
96 1 0.00
98 115 0.57
100 1 0.00
101 1 0.00
104 42 0.21
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (97 bp):
CACTTATCACTTTATTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTG
TCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:9370958 original size:39 final size:41
Alignment explanation
Indices: 9370878--9371013 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 41
9370868 TTTCCACTTG
* * *
9370878 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTG
1 TCACTTGATCAGATAAGTATAGCCGAAG-----ACTTATCACTTTA
9370924 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTA
1 TCACTTGATCAGATAAGTATAGCCGAAG-----ACTTATCACTTTA
*
9370970 TCACTTGATCAGATAAGTATAGCCGAAG-C-TATTAC-TTA
1 TCACTTGATCAGATAAGTATAGCCGAAGACTTATCACTTTA
9371008 TCACTT
1 TCACTT
9371014 TCCACTTGTC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
38 9 0.10
39 5 0.06
40 1 0.01
46 71 0.83
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (41 bp):
TCACTTGATCAGATAAGTATAGCCGAAGACTTATCACTTTA
Found at i:9376468 original size:20 final size:20
Alignment explanation
Indices: 9376427--9376467 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
9376417 TTAAATTAAA
*
9376427 TTAATTTATTTTTTATAATT
1 TTAATTTATTTTATATAATT
9376447 TTAACTTTA-TTTATAT-ATT
1 TTAA-TTTATTTTATATAATT
9376466 TT
1 TT
9376468 TTAAAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTAATTTATTTTATATAATT
Found at i:9380302 original size:30 final size:28
Alignment explanation
Indices: 9380244--9380302 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
9380234 TGTACTCGTT
** *
9380244 ACAACTTAGTTGAGTTTTTTTTTTTTTG
1 ACAACTTAGTTGAGTTTTGATTTATTTG
9380272 ACAACCTTAGTTGAGGTTTTGATTTATTTG
1 ACAA-CTTAGTTGA-GTTTTGATTTATTTG
9380302 A
1 A
9380303 ATGTTCTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.15
29 9 0.35
30 13 0.50
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.53
Consensus pattern (28 bp):
ACAACTTAGTTGAGTTTTGATTTATTTG
Found at i:9381448 original size:30 final size:32
Alignment explanation
Indices: 9381407--9381466 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
9381397 TGTTTGATAG
** *
9381407 AAAAATATAAATTTAAAGATTAAAA-AATTAA
1 AAAAATATAAATAGAAAAATTAAAATAATTAA
9381438 AAAAAT-TAAATAGAAAAATTAAAATAATT
1 AAAAATATAAATAGAAAAATTAAAATAATT
9381467 TTTTTTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (32 bp):
AAAAATATAAATAGAAAAATTAAAATAATTAA
Found at i:9386557 original size:5 final size:5
Alignment explanation
Indices: 9386536--9386575 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
9386526 TATATTGCAA
* * *
9386536 TAGAT TAGAG TGGAG TAAAG TAGAG TAGAG TAGAG TAGAG
1 TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG TAGAG
9386576 ATAGCTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.23
Consensus pattern (5 bp):
TAGAG
Found at i:9387457 original size:20 final size:19
Alignment explanation
Indices: 9387419--9387458 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9387409 CTAAAAATTC
*
9387419 AAAATAAAAAATAACTTGA
1 AAAATAAAAAATAAATTGA
9387438 AAAATAAAAAATCAAATTGA
1 AAAATAAAAAAT-AAATTGA
9387458 A
1 A
9387459 CAGAATCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAATAAATTGA
Found at i:9389512 original size:46 final size:46
Alignment explanation
Indices: 9389459--9389549 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
9389449 TATATTTAAT
9389459 ATTTCTCATTTTCATTTCTATTTAGAGAATTCCTTATTCCTTATTC
1 ATTTCTCATTTTCATTTCTATTTAGAGAATTCCTTATTCCTTATTC
*
9389505 ATTTCTCATTTTCATTTCTATTTTGAGAATTCCTTATTCCTTATT
1 ATTTCTCATTTTCATTTCTATTTAGAGAATTCCTTATTCCTTATT
9389550 TAAAATTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.21, C:0.19, G:0.04, T:0.56
Consensus pattern (46 bp):
ATTTCTCATTTTCATTTCTATTTAGAGAATTCCTTATTCCTTATTC
Found at i:9391202 original size:21 final size:21
Alignment explanation
Indices: 9391164--9391231 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
9391154 AAATAAGTGC
*
9391164 TAAACGGAAACCCGTAAGGGT
1 TAAACGGAAACCCATAAGGGT
* * * *
9391185 TAAACGGAAGCTCATAAGAGC
1 TAAACGGAAACCCATAAGGGT
* *
9391206 TGAACGAAAACCCATAAGGGT
1 TAAACGGAAACCCATAAGGGT
9391227 TAAAC
1 TAAAC
9391232 TGAAGCTTAA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (21 bp):
TAAACGGAAACCCATAAGGGT
Found at i:9391218 original size:42 final size:41
Alignment explanation
Indices: 9391156--9391273 Score: 146
Period size: 42 Copynumber: 2.8 Consensus size: 41
9391146 ACAGAAGAAA
* * *
9391156 ATAAGTGCTAAACGGAAACCCGTAAGGGTTAAACGGAAGCTC
1 ATAAGAGCTGAAC-GAAACCCATAAGGGTTAAACGGAAGCTC
* *
9391198 ATAAGAGCTGAACGAAAACCCATAAGGGTTAAACTGAAGCTT
1 ATAAGAGCTGAACG-AAACCCATAAGGGTTAAACGGAAGCTC
* *
9391240 AAAAGAGCTGAACTGAAACCCATAAGGATTAAAC
1 ATAAGAGCTGAAC-GAAACCCATAAGGGTTAAAC
9391274 TAAAACTCAT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.97
43 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (41 bp):
ATAAGAGCTGAACGAAACCCATAAGGGTTAAACGGAAGCTC
Found at i:9391274 original size:42 final size:41
Alignment explanation
Indices: 9391170--9391274 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 41
9391160 GTGCTAAACG
* * *
9391170 GAAACCCGTAAGGGTTAAACGGAAGCTCATAAGAGCTGAAC
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
*
9391211 GAAAACCCATAAGGGTTAAACTGAAGCTTAAAAGAGCTGAAC
1 G-AAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
*
9391253 TGAAACCCATAAGGATTAAACT
1 -GAAACCCATAAGGGTTAAACT
9391275 AAAACTCATA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
41 1 0.02
42 55 0.96
43 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (41 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAAC
Found at i:9395043 original size:17 final size:17
Alignment explanation
Indices: 9395021--9395058 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
9395011 CGATTGCATG
9395021 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
*
9395038 TTTCTATTGCTGTTTTT
1 TTTCTATTGCTGTTTAT
9395055 TTTC
1 TTTC
9395059 CTTTGAGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.08, C:0.13, G:0.11, T:0.68
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:9395676 original size:28 final size:28
Alignment explanation
Indices: 9395644--9395701 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
9395634 ACTGGAGATT
9395644 GCTTGCTTCATATTTGAAGAATTTATAG
1 GCTTGCTTCATATTTGAAGAATTTATAG
9395672 GCTTGCTTCATATTTGAAGAATTTATAG
1 GCTTGCTTCATATTTGAAGAATTTATAG
9395700 GC
1 GC
9395702 GATTTCGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (28 bp):
GCTTGCTTCATATTTGAAGAATTTATAG
Found at i:9395857 original size:22 final size:21
Alignment explanation
Indices: 9395827--9395897 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 21
9395817 GTTTTGATAA
9395827 TGTTCTTGATTTGTTCTGGAAAT
1 TGTT-TTGA-TTGTTCTGGAAAT
9395850 TGTTTTGATTG-TCTGTTGTAAAT
1 TGTTTTGATTGTTCTG--G-AAAT
9395873 TGTTTTGATTGTCTGCTGGAAAT
1 TGTTTTGATTGT-T-CTGGAAAT
9395896 TG
1 TG
9395898 AATTTGTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
20 4 0.10
21 3 0.07
22 5 0.12
23 25 0.60
24 1 0.02
25 1 0.02
26 3 0.07
ACGTcount: A:0.17, C:0.07, G:0.24, T:0.52
Consensus pattern (21 bp):
TGTTTTGATTGTTCTGGAAAT
Found at i:9395872 original size:23 final size:23
Alignment explanation
Indices: 9395842--9395897 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
9395832 TTGATTTGTT
9395842 CTGGAAATTGTTTTGATTGTCTG
1 CTGGAAATTGTTTTGATTGTCTG
* *
9395865 TTGTAAATTGTTTTGATTGTCTG
1 CTGGAAATTGTTTTGATTGTCTG
9395888 CTGGAAATTG
1 CTGGAAATTG
9395898 AATTTGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.20, C:0.07, G:0.25, T:0.48
Consensus pattern (23 bp):
CTGGAAATTGTTTTGATTGTCTG
Found at i:9397125 original size:25 final size:25
Alignment explanation
Indices: 9397091--9397244 Score: 140
Period size: 25 Copynumber: 6.2 Consensus size: 25
9397081 TGCATCAATA
9397091 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
9397116 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
* *
9397139 ATTAAAATAAAGATTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* * *
9397164 ATTAAAATAAAGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
9397187 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
9397212 ATTAAAAATCAAGAAATTTAATATTTT
1 ATT-AAAAT-AAGGACTTTAATATTTT
*
9397239 AATAAA
1 ATTAAA
9397245 GAAATTTAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
23 35 0.34
24 4 0.04
25 40 0.38
26 8 0.08
27 17 0.16
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.38
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:9397140 original size:48 final size:48
Alignment explanation
Indices: 9397084--9397218 Score: 243
Period size: 48 Copynumber: 2.8 Consensus size: 48
9397074 AAAAAATTGC
*
9397084 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAAGACTA
* *
9397132 ATCAATAATTAAAATAAAGATTTTAATATTTTATTAAAATAAAGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAAGACTA
9397180 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
9397219 ATCAAGAAAT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAAGACTA
Found at i:9400968 original size:87 final size:90
Alignment explanation
Indices: 9400809--9401012 Score: 297
Period size: 87 Copynumber: 2.3 Consensus size: 90
9400799 TTGATTTTAG
*
9400809 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-A-TTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
9400874 ATTTAATATTAATTATTTTAAATTGTA
64 ATGTAATAATAATTATTTTAAATTATA
* *
9400901 TAAATTCATATAAGAAAATTATTATCAATAATTTTATGAAA-T-TATAT-ATTATTAAATTATAT
1 TAAATTCATATAAGAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
9400963 GTAATAATAATTATTTTAAATTATA
66 GTAATAATAATTATTTTAAATTATA
*
9400988 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGA-AATTTATTA
9401013 GTTATAATTA
Statistics
Matches: 103, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
87 51 0.50
88 13 0.13
89 1 0.01
90 21 0.20
91 1 0.01
92 16 0.16
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (90 bp):
TAAATTCATATAAGAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
GTAATAATAATTATTTTAAATTATA
Found at i:9401054 original size:47 final size:49
Alignment explanation
Indices: 9400930--9401055 Score: 123
Period size: 47 Copynumber: 2.6 Consensus size: 49
9400920 TATTATCAAT
* *
9400930 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATAATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* *** * *
9400981 AATTATA-CAAATTCATATAAGATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
9401028 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
9401056 AAATATATTT
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
47 33 0.56
48 6 0.10
49 4 0.07
50 4 0.07
51 12 0.20
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:9401194 original size:25 final size:26
Alignment explanation
Indices: 9401162--9401216 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
9401152 TTATTAAATT
*
9401162 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
9401187 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
9401212 A-ATAT
1 ATATAT
9401217 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:9401452 original size:16 final size:16
Alignment explanation
Indices: 9401432--9401479 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
9401422 TGCTATTATG
9401432 CCTCTATTCCATTACA
1 CCTCTATTCCATTACA
*
9401448 TCTCTATTCCATTACA
1 CCTCTATTCCATTACA
* *
9401464 CCTCTAATCCAATACA
1 CCTCTATTCCATTACA
9401480 GCGAACCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (16 bp):
CCTCTATTCCATTACA
Found at i:9402508 original size:123 final size:124
Alignment explanation
Indices: 9402347--9402571 Score: 389
Period size: 123 Copynumber: 1.8 Consensus size: 124
9402337 GTTGACCCAA
*
9402347 ATATTTAATATTATAACTCTTTGCCAGTGATAAAGATTCCATACATGTTTTTTTTATTAAAACAT
1 ATATTTAATATTATAACTCTTTGCCAGTGATAAAGATTCCATACATGTTTATTTTATTAAAACAT
*
9402412 AAATTTAATAAATAAATATGTAAAATGTTAAAATCATATGTTTGTTTTAATCTATAAAT
66 AAATTTAATAAATAAATATATAAAATGTTAAAATCATATGTTTGTTTTAATCTATAAAT
** *
9402471 ATATTTAATATTATAACTCTTTG-TTGTGATAAAGATTCCATGCATGTTTATTTTATTAAAACAT
1 ATATTTAATATTATAACTCTTTGCCAGTGATAAAGATTCCATACATGTTTATTTTATTAAAACAT
*
9402535 AATTTTAATAAATAAATATATAAAATGTTAAAATCAT
66 AAATTTAATAAATAAATATATAAAATGTTAAAATCAT
9402572 TTTATTACCT
Statistics
Matches: 95, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
123 72 0.76
124 23 0.24
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.44
Consensus pattern (124 bp):
ATATTTAATATTATAACTCTTTGCCAGTGATAAAGATTCCATACATGTTTATTTTATTAAAACAT
AAATTTAATAAATAAATATATAAAATGTTAAAATCATATGTTTGTTTTAATCTATAAAT
Found at i:9404602 original size:13 final size:14
Alignment explanation
Indices: 9404577--9404605 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9404567 AGTGAAAGTT
9404577 AAAAAGAAGGGAAA
1 AAAAAGAAGGGAAA
9404591 AAAAAGAA-GGAAA
1 AAAAAGAAGGGAAA
9404604 AA
1 AA
9404606 CAGAGATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAAAGAAGGGAAA
Found at i:9410397 original size:19 final size:20
Alignment explanation
Indices: 9410367--9410406 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
9410357 AGATCCATAG
9410367 TGGCTATCTTTCATTCTTGA
1 TGGCTATCTTTCATTCTTGA
9410387 TGGCT-TCTTTCATTCTTGA
1 TGGCTATCTTTCATTCTTGA
9410406 T
1 T
9410407 TTCACTGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.12, C:0.20, G:0.15, T:0.53
Consensus pattern (20 bp):
TGGCTATCTTTCATTCTTGA
Found at i:9428686 original size:24 final size:24
Alignment explanation
Indices: 9428659--9428705 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
9428649 AATATGGACC
* *
9428659 GATTCTATGTTGATATAATGAATT
1 GATTCGATGCTGATATAATGAATT
*
9428683 GATTCGATGCTGATATAGTGAAT
1 GATTCGATGCTGATATAATGAAT
9428706 AGTTGATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (24 bp):
GATTCGATGCTGATATAATGAATT
Found at i:9451154 original size:17 final size:17
Alignment explanation
Indices: 9451109--9451160 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
9451099 GGTATTTTTA
*
9451109 ACACAAATATGAAATT-
1 ACACAAATATTAAATTC
* *
9451125 AAAAAAATGATTAAATTC
1 ACACAAAT-ATTAAATTC
9451143 ACACAAATATTATAATTC
1 ACACAAATATTA-AATTC
9451161 TTGAAACTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 6 0.21
17 11 0.39
18 11 0.39
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.29
Consensus pattern (17 bp):
ACACAAATATTAAATTC
Found at i:9452504 original size:42 final size:43
Alignment explanation
Indices: 9452457--9452542 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 43
9452447 TTCCGAGGTG
* *
9452457 TGATTTCGTGTAAGACAATGTCTGGGACATTGGCATCG-TATA
1 TGATTTCGTGTAAGACAATGTCTAGGACAGTGGCATCGATATA
**
9452499 TGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATA
1 TGATTTCGTGTAAGACAATGTCTAGGACAGTGGCATCGATATA
9452542 T
1 T
9452543 TATAACATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 34 0.87
43 5 0.13
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TGATTTCGTGTAAGACAATGTCTAGGACAGTGGCATCGATATA
Found at i:9452556 original size:43 final size:42
Alignment explanation
Indices: 9452465--9452560 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
9452455 TGTGATTTCG
* * * ** *
9452465 TGTAAGACAATGTCTGGGACATTGGCATCGTATATGATTTCG
1 TGTAAGACCATGTCTAGGACAGTGGCATCGTATATGATAACA
* *
9452507 TGTAAGACCCTGTCTAGGACAGTGGCATCGATATATTATAACA
1 TGTAAGACCATGTCTAGGACAGTGGCATCG-TATATGATAACA
9452550 TGTAAGACCAT
1 TGTAAGACCAT
9452561 ATCTGGGATA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 26 0.59
43 18 0.41
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGTATATGATAACA
Found at i:9453194 original size:48 final size:48
Alignment explanation
Indices: 9453118--9453368 Score: 362
Period size: 48 Copynumber: 5.2 Consensus size: 48
9453108 TGATGATAAG
* * *
9453118 ATGCTGTCTAAATTGGTGTTTAATTGCTGTCCATTTTTTAGCATATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
*
9453166 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
* *
9453214 ATGTTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTTTAGCATATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCA--TTTTTTAGCATATTA
* *
9453264 ATGCTGTCCAAA-TGGATGCTTAATTGCTGTCCATTTTTTAGTATATTA
1 ATGCTGTCCAAATTGG-TGCTTAAATGCTGTCCATTTTTTAGCATATTA
* *
9453312 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTA-CAAATCA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTT-TAGCATATTA
9453360 ATGCTGTCC
1 ATGCTGTCC
9453369 GAATGTTTTT
Statistics
Matches: 185, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
48 136 0.74
49 7 0.04
50 42 0.23
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (48 bp):
ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTAGCATATTA
Found at i:9453294 original size:98 final size:98
Alignment explanation
Indices: 9453118--9453349 Score: 362
Period size: 98 Copynumber: 2.4 Consensus size: 98
9453108 TGATGATAAG
* * * *
9453118 ATGCTGTCTAAATTGGTGTTTAATTGCTGTCCA--TTTTTTAGCATATTAATGCTGTCCAAATTA
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTTTAGCATATTAATGCTGTCCAAATGA
9453181 GTGCTTAAATGCTGTCCATTTTTTAGCATATTA
66 GTGCTTAAATGCTGTCCATTTTTTAGCATATTA
* *
9453214 ATGTTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTTTAGCATATTAATGCTGTCCAAATG-
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTTTAGCATATTAATGCTGTCCAAATGA
* *
9453278 GATGCTTAATTGCTGTCCATTTTTTAGTATATTA
66 G-TGCTTAAATGCTGTCCATTTTTTAGCATATTA
9453312 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTT
1 ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTT
9453350 GTACAAATCA
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
96 28 0.23
97 1 0.01
98 94 0.76
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (98 bp):
ATGCTGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTTTTAGCATATTAATGCTGTCCAAATGA
GTGCTTAAATGCTGTCCATTTTTTAGCATATTA
Found at i:9454091 original size:13 final size:13
Alignment explanation
Indices: 9454073--9454097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9454063 TTTAAATTAG
9454073 TTATGTGTTTTAA
1 TTATGTGTTTTAA
9454086 TTATGTGTTTTA
1 TTATGTGTTTTA
9454098 TTGATATGGT
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:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
TTATGTGTTTTAA
Found at i:9458538 original size:33 final size:33
Alignment explanation
Indices: 9458492--9458556 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
9458482 GAAATATATA
*
9458492 TCATCTAAAGCTAACCCATGCACCAACTAAACT
1 TCATCTAAAGCTAACCCAAGCACCAACTAAACT
9458525 TCATC-AAACGCTAACCCAAGCACCAACTAAAC
1 TCATCTAAA-GCTAACCCAAGCACCAACTAAAC
9458557 ATAATAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 3 0.10
33 27 0.90
ACGTcount: A:0.42, C:0.35, G:0.06, T:0.17
Consensus pattern (33 bp):
TCATCTAAAGCTAACCCAAGCACCAACTAAACT
Found at i:9466307 original size:9 final size:9
Alignment explanation
Indices: 9466293--9466326 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9466283 TGCACTCCAT
9466293 GCCAGCCAA
1 GCCAGCCAA
9466302 GCCAGCCAA
1 GCCAGCCAA
*
9466311 GCCATGCCAT
1 GCCA-GCCAA
9466321 GCCAGC
1 GCCAGC
9466327 ATTAGCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.26, C:0.44, G:0.24, T:0.06
Consensus pattern (9 bp):
GCCAGCCAA
Found at i:9482388 original size:14 final size:13
Alignment explanation
Indices: 9482351--9482406 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 13
9482341 ACCTTTTTCA
9482351 TATCTATATACTTT
1 TATCTATATA-TTT
9482365 ATATCT-TATATATT
1 -TATCTATATAT-TT
9482379 TATCTATATATCTT
1 TATCTATATAT-TT
* *
9482393 TATATACATATTT
1 TATCTATATATTT
9482406 T
1 T
9482407 TAATTTTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
13 9 0.25
14 22 0.61
15 5 0.14
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (13 bp):
TATCTATATATTT
Found at i:9482408 original size:28 final size:27
Alignment explanation
Indices: 9482334--9482408 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
9482324 TATTTACGTA
*
9482334 TTTATATACCT-TTTTCATATCTATATAC
1 TTTATATACATATTTT--TATCTATATAC
*
9482362 TTTATAT-CTTATATATTTATCTATATATC
1 TTTATATAC--ATATTTTTATCTATATA-C
9482391 TTTATATACATATTTTTA
1 TTTATATACATATTTTTA
9482409 ATTTTCATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
27 1 0.03
28 25 0.64
29 9 0.23
30 4 0.10
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTATATACATATTTTTATCTATATAC
Found at i:9489534 original size:42 final size:42
Alignment explanation
Indices: 9489481--9489605 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 42
9489471 AGGTTGCGCA
* * *
9489481 GAAGCACATAAGTGCTAAACAGAAACCCATAAAGGTTGAACG
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAAGGTTGAACG
* * * * * *
9489523 GAAGCTTATAAGAGTTGAACGGAAACCCGTAAAGGTTAAACT
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAAGGTTGAACG
* * * *
9489565 GAAGCTCAAAAGAGCTAAACGGAAACCTATTAGGGTTGAAC
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAAGGTTGAAC
9489606 AAAAACTCAT
Statistics
Matches: 65, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACGGAAACCCATAAAGGTTGAACG
Found at i:9498547 original size:18 final size:19
Alignment explanation
Indices: 9498503--9498551 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
9498493 AAATTATTCA
9498503 ATTTATTTTATTATATATAT
1 ATTTA-TTTATTATATATAT
** *
9498523 AAATATTT-TTATATTTAT
1 ATTTATTTATTATATATAT
9498541 ATTTATTTATT
1 ATTTATTTATT
9498552 TTTGTTCGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
18 15 0.65
19 5 0.22
20 3 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTATTTATTATATATAT
Found at i:9501112 original size:12 final size:11
Alignment explanation
Indices: 9501065--9501116 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
9501055 TTTTTTTGAT
*
9501065 ATTTTTTAAAT
1 ATTTTTTAAAA
*
9501076 ATTTTCTTAATA
1 ATTTT-TTAAAA
*
9501088 ATTATTCTAAAA
1 ATT-TTTTAAAA
9501100 AGTTTTTTAAAA
1 A-TTTTTTAAAA
9501112 ATTTT
1 ATTTT
9501117 AAAATTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
11 9 0.27
12 20 0.61
13 4 0.12
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (11 bp):
ATTTTTTAAAA
Found at i:9501309 original size:29 final size:27
Alignment explanation
Indices: 9501244--9501312 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
9501234 CCCACCCTTG
9501244 TCCCTCACCTCTCCCCCACCATCTCCCC
1 TCCCTC-CCTCTCCCCCACCATCTCCCC
* *
9501272 TCCTACTCCCTCTTCCCCACCGTCTCCCCC
1 TCC--CTCCCTCTCCCCCACCATCT-CCCC
9501302 TCACCTCCCTC
1 TC-CCTCCCTC
9501313 CCTCTCCATC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 3 0.09
29 22 0.63
30 9 0.26
31 1 0.03
ACGTcount: A:0.09, C:0.65, G:0.01, T:0.25
Consensus pattern (27 bp):
TCCCTCCCTCTCCCCCACCATCTCCCC
Found at i:9501467 original size:6 final size:6
Alignment explanation
Indices: 9501452--9501491 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
9501442 GGAAAAGATG
* *
9501452 GAGGGA GAGGGC GAGGGC GAGGGA GAGGGA GAGGG- GAGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
9501492 TTTTATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.25, C:0.05, G:0.70, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:9501475 original size:18 final size:17
Alignment explanation
Indices: 9501451--9501491 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
9501441 GGGAAAAGAT
*
9501451 GGAGGGAGAGGGCGAGG
1 GGAGGGAGAGGGAGAGG
9501468 GCGAGGGAGAGGGAGAGG
1 G-GAGGGAGAGGGAGAGG
9501486 GGAGGG
1 GGAGGG
9501492 TTTTATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.24, C:0.05, G:0.71, T:0.00
Consensus pattern (17 bp):
GGAGGGAGAGGGAGAGG
Found at i:9501559 original size:21 final size:21
Alignment explanation
Indices: 9501528--9501596 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
9501518 ATAAATTTTT
9501528 ATTTA-AATTTTACAATAATA
1 ATTTATAATTTTACAATAATA
9501548 ATTTATAATTTT-C-ATAATA
1 ATTTATAATTTTACAATAATA
* **
9501567 CATTTTATATTTTTAACAATTTTA
1 -A-TTTATAATTTT-ACAATAATA
9501591 ATTTAT
1 ATTTAT
9501597 TTTTAAGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 6 0.15
20 7 0.17
21 16 0.40
22 5 0.12
23 2 0.05
24 4 0.10
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTATAATTTTACAATAATA
Found at i:9501571 original size:20 final size:20
Alignment explanation
Indices: 9501528--9501571 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9501518 ATAAATTTTT
9501528 ATTTAAATTTTACAATAATA
1 ATTTAAATTTTACAATAATA
9501548 ATTTATAATTTT-C-ATAATA
1 ATTTA-AATTTTACAATAATA
9501567 CATTT
1 -ATTT
9501572 TATATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTAAATTTTACAATAATA
Found at i:9507641 original size:19 final size:19
Alignment explanation
Indices: 9507599--9507645 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
9507589 ATTTCTATAT
9507599 ATTTTATAATTTTTTACGA
1 ATTTTATAATTTTTTACGA
* *
9507618 TTTTTATAATCTTTTT-CTA
1 ATTTTATAAT-TTTTTACGA
9507637 ATTTT-TAAT
1 ATTTTATAAT
9507646 AAAATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 15 0.62
20 5 0.21
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTATAATTTTTTACGA
Found at i:9507685 original size:29 final size:30
Alignment explanation
Indices: 9507638--9507704 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
9507628 CTTTTTCTAA
* *
9507638 TTTTTAATAAAATTAAAT-ATTTCTTATA-T
1 TTTTTATTAAAATTAAATAATTT-TTATAGC
9507667 TTTTTATTAAAAATT-AATAATTTTTATAGC
1 TTTTTATT-AAAATTAAATAATTTTTATAGC
9507697 TTTTTATT
1 TTTTTATT
9507705 TGTATCAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTTTATTAAAATTAAATAATTTTTATAGC
Found at i:9519116 original size:35 final size:35
Alignment explanation
Indices: 9519020--9519119 Score: 191
Period size: 35 Copynumber: 2.9 Consensus size: 35
9519010 GTATGAAAAT
*
9519020 TGTAAATCATCCTAATTGGATGAGATACTGGATTA
1 TGTAAATCATCCTAATTGGATGAGATTCTGGATTA
9519055 TGTAAATCATCCTAATTGGATGAGATTCTGGATTA
1 TGTAAATCATCCTAATTGGATGAGATTCTGGATTA
9519090 TGTAAATCATCCTAATTGGATGAGATTCTG
1 TGTAAATCATCCTAATTGGATGAGATTCTG
9519120 AATATAATCC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 64 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (35 bp):
TGTAAATCATCCTAATTGGATGAGATTCTGGATTA
Found at i:9521112 original size:17 final size:17
Alignment explanation
Indices: 9521090--9521145 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
9521080 TTTAAATCCG
9521090 AATTGACTTGAACCTAA
1 AATTGACTTGAACCTAA
9521107 AATTGA-TCT-AACCTAA
1 AATTGACT-TGAACCTAA
* * *
9521123 AATTTACTTGATCCCAA
1 AATTGACTTGAACCTAA
9521140 AATTGA
1 AATTGA
9521146 GAGAAAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 14 0.44
17 18 0.56
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (17 bp):
AATTGACTTGAACCTAA
Found at i:9523501 original size:30 final size:29
Alignment explanation
Indices: 9523458--9523541 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 29
9523448 AAATTTTAAA
* *
9523458 TTAATAATAATAAAATTATACTTTAACTTCT
1 TTAA-AATTATAAAATTATACTTTAA-TTAT
*
9523489 TTAAAATTATAAAAATT-TAATTTAATTAT
1 TTAAAATTAT-AAAATTATACTTTAATTAT
9523518 TTAAAAATTATAAAGATATATACT
1 TT-AAAATTATAAA-AT-TATACT
9523542 ATATAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
29 8 0.18
30 22 0.50
31 11 0.25
32 3 0.07
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (29 bp):
TTAAAATTATAAAATTATACTTTAATTAT
Found at i:9524123 original size:21 final size:22
Alignment explanation
Indices: 9524073--9524124 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
9524063 CAGTTTACTT
9524073 TTTTTC-TTTTATGTTCTTTTA
1 TTTTTCATTTTATGTTCTTTTA
* * *
9524094 ATTTT-ATTTTTTTTTC-TTTA
1 TTTTTCATTTTATGTTCTTTTA
9524114 TTTTTCATTTT
1 TTTTTCATTTT
9524125 CTTCTGCTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTCATTTTATGTTCTTTTA
Found at i:9525067 original size:3 final size:3
Alignment explanation
Indices: 9525059--9525083 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9525049 TTGAAATTCT
9525059 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
9525084 ACATAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9543664 original size:18 final size:18
Alignment explanation
Indices: 9543629--9543739 Score: 64
Period size: 18 Copynumber: 5.8 Consensus size: 18
9543619 TTTTTGTAAC
* *
9543629 TTTTTAATAATATTTAATG
1 TTTTT-ATAATTTTTAATA
9543648 TGTTTTA-AATTTTTAATA
1 T-TTTTATAATTTTTAATA
*
9543666 TTTTTATAATTTTTTATTA
1 TTTTTATAA-TTTTTAATA
* ** *
9543685 TGTCAATAAATTTTATATAA
1 TTTTTATAATTTTTA-AT-A
9543705 TTTTCTATAACTTTTT-ATAA
1 TTTT-TATAA-TTTTTAAT-A
*
9543725 TTTTTGTAATTTTTA
1 TTTTTATAATTTTTA
9543740 TAATCATTCA
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
17 5 0.07
18 22 0.31
19 21 0.30
20 15 0.21
21 4 0.06
22 4 0.06
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTTTATAATTTTTAATA
Found at i:9543784 original size:10 final size:9
Alignment explanation
Indices: 9543610--9543782 Score: 84
Period size: 10 Copynumber: 18.0 Consensus size: 9
9543600 AATAACAAAA
9543610 TTTTATATAT
1 TTTTATA-AT
*
9543620 TTTTGTAACT
1 TTTTATAA-T
9543630 TTTTAATAAT
1 TTTT-ATAAT
* *
9543640 ATTTA-ATGT
1 TTTTATA-AT
9543649 GTTTTA-AAT
1 -TTTTATAAT
9543658 TTTTA-ATAT
1 TTTTATA-AT
9543667 TTTTATAATT
1 TTTTATAA-T
*
9543677 TTTTATTAT
1 TTTTATAAT
* **
9543686 GTCAATAAAT
1 TTTTAT-AAT
9543696 TTTATATAAT
1 TTT-TATAAT
9543706 TTTCTATAACT
1 TTT-TATAA-T
9543717 TTTTATAAT
1 TTTTATAAT
*
9543726 TTTTGTAAT
1 TTTTATAAT
9543735 TTTTATAAT
1 TTTTATAAT
* *
9543744 CATTCAT-AT
1 -TTTTATAAT
9543753 TTTTATAAT
1 TTTTATAAT
*
9543762 ATATTGATAAT
1 -T-TTTATAAT
9543773 ATTTTATAAT
1 -TTTTATAAT
9543783 ATCTAATACA
Statistics
Matches: 126, Mismatches: 23, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
8 11 0.09
9 37 0.29
10 60 0.48
11 18 0.14
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:9543784 original size:21 final size:19
Alignment explanation
Indices: 9543693--9543782 Score: 78
Period size: 18 Copynumber: 4.6 Consensus size: 19
9543683 TATGTCAATA
*
9543693 AATTTTATATAATT-TTCTAT
1 AATTTT-TATAATTATT-GAT
*
9543713 AACTTTTTATAATTTTTG-T
1 AA-TTTTTATAATTATTGAT
* *
9543732 AATTTTTATAATCATTCAT
1 AATTTTTATAATTATTGAT
9543751 -ATTTTTATAATATATTGAT
1 AATTTTTATAAT-TATTGAT
9543770 AATATTTTATAAT
1 AAT-TTTTATAAT
9543783 ATCTAATACA
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
18 23 0.40
19 9 0.16
20 11 0.19
21 15 0.26
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTTTTATAATTATTGAT
Found at i:9557974 original size:37 final size:35
Alignment explanation
Indices: 9557933--9558026 Score: 100
Period size: 36 Copynumber: 2.5 Consensus size: 35
9557923 TATATGTGTA
*
9557933 GAATTGAATTGAATAT-TGACTTGAAAAATGGAAAAGT
1 GAATTGAATTGAAT-TGTGA-TTG-AAAATGAAAAAGT
*
9557970 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATGAAAAAGT
*
9558007 GAAATTGAATTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
9558027 ATTTGGAGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
36 15 0.30
37 15 0.30
38 6 0.12
39 14 0.28
ACGTcount: A:0.44, C:0.01, G:0.23, T:0.32
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:9562942 original size:37 final size:37
Alignment explanation
Indices: 9562901--9562971 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
9562891 TTTAAATAAC
9562901 AAGTATATGGTTACTTGATAAGTGAACGAAAATGAAT
1 AAGTATATGGTTACTTGATAAGTGAACGAAAATGAAT
** * *
9562938 AAGTATATGGTTTTTTGATATGTGTACGAAAATG
1 AAGTATATGGTTACTTGATAAGTGAACGAAAATG
9562972 TTAAAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (37 bp):
AAGTATATGGTTACTTGATAAGTGAACGAAAATGAAT
Found at i:9564023 original size:26 final size:23
Alignment explanation
Indices: 9563969--9564013 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9563959 AGTTATTTTG
9563969 GATGTTGATGATCTTGGTATAAC
1 GATGTTGATGATCTTGGTATAAC
9563992 GATGTTGATGATC-TGGATATAA
1 GATGTTGATGATCTTGG-TATAA
9564014 GTGTAATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.38
Consensus pattern (23 bp):
GATGTTGATGATCTTGGTATAAC
Found at i:9566130 original size:20 final size:21
Alignment explanation
Indices: 9566090--9566130 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9566080 AAAATTAATA
*
9566090 ATTAAAATGACATGTTTATAT
1 ATTAAAATGACATGATTATAT
*
9566111 ATTAAAATTACA-GATTATAT
1 ATTAAAATGACATGATTATAT
9566131 CTATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
ATTAAAATGACATGATTATAT
Found at i:9573955 original size:22 final size:23
Alignment explanation
Indices: 9573929--9573977 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
9573919 TAGAAATAAG
* *
9573929 AATAAAATATCCTTAT-TTGGAA
1 AATAAAATATCATAATATTGGAA
*
9573951 AATAAAATTTCATAATATTGGAA
1 AATAAAATATCATAATATTGGAA
9573974 AATA
1 AATA
9573978 CTCGGAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (23 bp):
AATAAAATATCATAATATTGGAA
Found at i:9590927 original size:26 final size:25
Alignment explanation
Indices: 9590898--9590968 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
9590888 TATATTTATC
*
9590898 AAATATATATTATCTTTTATAAAATT
1 AAATAAATATTAT-TTTTATAAAATT
* *
9590924 AAATAAATTTTATTTTTTTAAAATT
1 AAATAAATATTATTTTTATAAAATT
*
9590949 -AATGAA-ATTA-TTTTATAAAA
1 AAATAAATATTATTTTTATAAAA
9590969 CATTTCATCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 9 0.23
23 3 0.08
24 5 0.13
25 11 0.28
26 11 0.28
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
AAATAAATATTATTTTTATAAAATT
Found at i:9598204 original size:18 final size:17
Alignment explanation
Indices: 9598171--9598209 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9598161 TTGTATAAAT
9598171 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
9598189 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
9598206 TGTG
1 TGTG
9598210 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:9598341 original size:8 final size:8
Alignment explanation
Indices: 9598328--9598356 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9598318 CACTAGAGAC
9598328 CAGTGTTA
1 CAGTGTTA
9598336 CAGTGTTA
1 CAGTGTTA
9598344 CAGTGTTA
1 CAGTGTTA
9598352 CAGTG
1 CAGTG
9598357 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:9598470 original size:23 final size:23
Alignment explanation
Indices: 9598443--9598518 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
9598433 AGTGTTATTG
9598443 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
9598466 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9598489 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9598512 ATCAGTG
1 ATCAGTG
9598519 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9605551 original size:18 final size:17
Alignment explanation
Indices: 9605518--9605556 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9605508 TTGTATAAAT
9605518 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
9605536 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
9605553 TGTG
1 TGTG
9605557 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:9605688 original size:8 final size:8
Alignment explanation
Indices: 9605675--9605703 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9605665 CACTAGAGAC
9605675 CAGTGTTA
1 CAGTGTTA
9605683 CAGTGTTA
1 CAGTGTTA
9605691 CAGTGTTA
1 CAGTGTTA
9605699 CAGTG
1 CAGTG
9605704 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:9605817 original size:23 final size:23
Alignment explanation
Indices: 9605790--9605886 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
9605780 AGTGTTATTG
9605790 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
9605813 TTCAGTGGTAGCTT-GGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9605835 -TCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9605857 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9605880 ATCAGTG
1 ATCAGTG
9605887 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
21 13 0.18
22 16 0.23
23 42 0.59
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9605854 original size:44 final size:46
Alignment explanation
Indices: 9605790--9605886 Score: 171
Period size: 44 Copynumber: 2.2 Consensus size: 46
9605780 AGTGTTATTG
*
9605790 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTT-GGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
9605835 -TCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
9605880 ATCAGTG
1 ATCAGTG
9605887 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
44 35 0.71
45 8 0.16
46 6 0.12
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
Found at i:9609295 original size:181 final size:175
Alignment explanation
Indices: 9608998--9609344 Score: 543
Period size: 181 Copynumber: 1.9 Consensus size: 175
9608988 AGTACAATTT
* * * * **
9608998 AAAAAAAAATTTGTGTCAGAGTCAGATATCAGTATACGAAAAAAAATAAAAAAAATTTTGGGTGT
1 AAAAAAAAATTTCTGTCAGAATCAGATATCAATATACGAAAAAAAAAAAAAAAAATTTTGGGTAC
9609063 TGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCTTTTTTTTTTCGTGTCAGAAT
66 TGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCTTTTTTTTTTCGTGTCAGAAT
* *
9609128 CAAATATCAGTATACGAAAAAAATTAAAAAAAATTTAGGTGCTTA
131 CAAATATCAGTATACAAAAAAAATGAAAAAAAATTTAGGTGCTTA
9609173 AAAAAAAAATTTCCTGTCAGAATCAGATATCAATATACGAAAAAAATAAAAAAATAAAAATTTTT
1 AAAAAAAAATTT-CTGTCAGAATCAGATATCAATATACG--AAAAA-AAAAAAA-AAAAA-TTTT
9609238 GGGTACTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATT-TCTTTTTTTTTCGTG
60 GGGTACTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCT-TTTTTTTTTCGTG
*
9609302 TCAGAATCAGATATCAGTATACAAAAAAAATGAAAAAAAATTT
124 TCAGAATCAAATATCAGTATACAAAAAAAATGAAAAAAAATTT
9609345 TGGGTGCTGG
Statistics
Matches: 156, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
175 12 0.08
176 23 0.15
178 5 0.03
179 6 0.04
180 6 0.04
181 104 0.67
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (175 bp):
AAAAAAAAATTTCTGTCAGAATCAGATATCAATATACGAAAAAAAAAAAAAAAAATTTTGGGTAC
TGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTCTTTTTTTTTTCGTGTCAGAAT
CAAATATCAGTATACAAAAAAAATGAAAAAAAATTTAGGTGCTTA
Found at i:9609376 original size:108 final size:107
Alignment explanation
Indices: 9609220--9609545 Score: 445
Period size: 108 Copynumber: 3.1 Consensus size: 107
9609210 CGAAAAAAAT
* *
9609220 AAAAAAAT--AAAAATTTTTGGGTACTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAA
1 AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAA
9609283 AATTTCTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACA
66 AATTTCTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACA
*
9609325 AAAAAAATGAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTTTAAA
1 AAAAAAAT-AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-AA-TTTAAA
******
9609390 AAAAA----AAAAAATTTCGTGTCAGAATCAGATATCAGTATAC-
63 AAAAATTTCTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACA
* **
9609430 GAAAAAATAAAAAAAAAATT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-ATTTAAAAAA
1 AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAA
*
9609493 AATTTCTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACG
66 AATTTCTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACA
9609535 AAAAAAATAAA
1 AAAAAAATAAA
9609546 TATAATTATA
Statistics
Matches: 191, Mismatches: 20, Indels: 20
0.83 0.09 0.09
Matches are distributed among these distances:
100 11 0.06
101 1 0.01
103 32 0.17
104 39 0.20
105 25 0.13
106 29 0.15
108 41 0.21
109 2 0.01
110 11 0.06
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (107 bp):
AAAAAAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAA
AATTTCTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACA
Found at i:9610004 original size:29 final size:29
Alignment explanation
Indices: 9609972--9610038 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
9609962 CCTATATATT
*
9609972 TTTTGTAAATTT-AGAATTTAGT-TTGTATA
1 TTTT-TAAATTTAAGAATTTAGTCCT-TATA
**
9610001 TTTTTATTTTTAAGAATTTAGTCCTTATA
1 TTTTTAAATTTAAGAATTTAGTCCTTATA
9610030 TTTTTAAAT
1 TTTTTAAAT
9610039 ATTACGAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 5 0.16
29 25 0.81
30 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (29 bp):
TTTTTAAATTTAAGAATTTAGTCCTTATA
Found at i:9610958 original size:110 final size:108
Alignment explanation
Indices: 9610741--9611284 Score: 481
Period size: 112 Copynumber: 5.2 Consensus size: 108
9610731 CTGGGTGCCG
9610741 GCACCCAAAATTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAAAA
1 GCACCCAAAATTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACG--AAAAAA-AAAA
*
9610806 AAAAATTATTTTTAAATTGTACTGGGTACTGGCCATTGACAGGCCA
63 AAAAATTATTTTTAAATTGTACTGGGTACCGGCCATTGACAGGCCA
* * * *
9610852 GTACCTAAAATTTTTTTTATTTTTTTCGTATACTGATATTTGATTCTGACACGAAAAAAAAAAAG
1 GCACCCAAAA-TTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAAA
* *
9610917 AAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCA
65 AAATTATTTTT-AAATTGTACTGGGTACCGGCCATTGACAGGCCA
*
9610962 GCACCCAAAA----TTT-TTTTTTTCGTATACTAATATCTGATTCTGACACG--------AAAAA
1 GCACCCAAAATTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAAAA
* *
9611014 AA--A-TTTTAATTTGTACTGGGTGCCGG-C------A--CC-
66 AATTATTTTTAAATTGTACTGGGTACCGGCCATTGACAGGCCA
** * *
9611044 -CA---AATTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGAAACG---AAAAAAAAGA
1 GCACCCAAAATTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAAAA
* * *
9611102 AATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGTCA
66 AATTATTTTTAAATTGTACTGGGTACCGGCCATTGACAGGCCA
* * * * *
9611145 ACACCCAAATTTTTTTTTATTGTTTTCGTATACTGATATCTGACTCTGACACAAAAAAACACAAA
1 GCACCCAAA-ATTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACAC-GAAAAA-A-AAA
* * * * *
9611210 AAAAGAATTTCTTTTTAAATTGTACTGGGTGCCAGCCATTGACAGACTA
62 AAAA-AA-TTATTTTTAAATTGTACTGGGTACCGGCCATTGACAGGCCA
* *
9611259 GCA-CCTAAATTTTTTTTTTGTTTTTC
1 GCACCCAAAATTTTTTTATT-TTTTTC
9611285 TTTTTTTTCT
Statistics
Matches: 356, Mismatches: 38, Indels: 76
0.76 0.08 0.16
Matches are distributed among these distances:
78 2 0.01
81 2 0.01
82 3 0.01
83 34 0.10
85 1 0.00
88 6 0.02
91 23 0.06
92 19 0.05
93 4 0.01
96 6 0.02
98 1 0.00
100 1 0.00
102 2 0.01
104 32 0.09
105 5 0.01
106 39 0.11
109 15 0.04
110 47 0.13
111 9 0.03
112 56 0.16
113 11 0.03
114 38 0.11
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (108 bp):
GCACCCAAAATTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAAAA
AATTATTTTTAAATTGTACTGGGTACCGGCCATTGACAGGCCA
Found at i:9611064 original size:299 final size:297
Alignment explanation
Indices: 9610633--9611277 Score: 917
Period size: 299 Copynumber: 2.1 Consensus size: 297
9610623 TCCTTGGTAT
* * *
9610633 TGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTATTTTTTCGTATATTGATATCT
1 TGGGTGCCGGCCATTGACAGGCCAGCACCCAAA-----ATTTT-TTTTTTCGTATACTAATATCT
9610698 GATTCTGACACGAAAAAAAATTTTTAATTTGTACTGGGTGCCGGCACCCAAAATTTTTTTATTTT
60 GATTCTGACACGAAAAAAAATTTTTAATTTGTACTGGGTGCCGGCACCCAAAATTTTTTTATTTT
*
9610763 TTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAAAAAAAAATTATTTTTAAATTGTAC
125 TTTCGTATACTGATATCTGATTCTGAAACGAAAAAAAAG------AAATTATTTTTAAATTGTAC
* ** * * *
9610828 TGGGTACTGGCCATTGACAGGCCAGTACCTAAAATTTTTTTTATTTTTTTCGTATACTGATATTT
184 TGGGTACCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTATTGTTTTCGTATACTGATATCT
* * *
9610893 GATTCTGACAC-GAAAAA-A-AAAAAGA-AATTT-TTTTTAAAATTGTAC
249 GACTCTGACACAAAAAAACACAAAAAAAGAATTTCTTTTT-AAATTGTAC
9610938 TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCGTATACTAATATCTGATTCT
1 TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCGTATACTAATATCTGATTCT
*
9611003 GACACGAAAAAAAA-TTTTAATTTGTACTGGGTGCCGGCACCCAAATTTTTTTTTATTTTTTTCG
66 GACACGAAAAAAAATTTTTAATTTGTACTGGGTGCCGGCACCCAAA-ATTTTTTTATTTTTTTCG
* *
9611067 TATACTGATATCTGATTCTGAAACGAAAAAAAAGAAATTTTTTTTAAATTGTACTGGGTGCCGGC
130 TATACTGATATCTGATTCTGAAACGAAAAAAAAGAAATTATTTTTAAATTGTACTGGGTACCGGC
* *
9611132 CATTGACAGGTCAACACCCAAATTTTTTTTTATTGTTTTCGTATACTGATATCTGACTCTGACAC
195 CATTGACAGGCCAACACCCAAAATTTTTTTTATTGTTTTCGTATACTGATATCTGACTCTGACAC
9611197 AAAAAAACACAAAAAAAGAATTTCTTTTTAAATTGTAC
260 AAAAAAACACAAAAAAAGAATTTCTTTTTAAATTGTAC
* * * *
9611235 TGGGTGCCAGCCATTGACAGACTAGCA-CCTAAATTTTTTTTTT
1 TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTT
9611278 GTTTTTCTTT
Statistics
Matches: 312, Mismatches: 22, Indels: 21
0.88 0.06 0.06
Matches are distributed among these distances:
293 85 0.27
294 5 0.02
295 1 0.00
296 21 0.07
297 38 0.12
298 36 0.12
299 89 0.29
300 4 0.01
305 33 0.11
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (297 bp):
TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCGTATACTAATATCTGATTCT
GACACGAAAAAAAATTTTTAATTTGTACTGGGTGCCGGCACCCAAAATTTTTTTATTTTTTTCGT
ATACTGATATCTGATTCTGAAACGAAAAAAAAGAAATTATTTTTAAATTGTACTGGGTACCGGCC
ATTGACAGGCCAACACCCAAAATTTTTTTTATTGTTTTCGTATACTGATATCTGACTCTGACACA
AAAAAACACAAAAAAAGAATTTCTTTTTAAATTGTAC
Found at i:9611085 original size:187 final size:185
Alignment explanation
Indices: 9610862--9611203 Score: 528
Period size: 187 Copynumber: 1.8 Consensus size: 185
9610852 GTACCTAAAA
* *
9610862 TTTTTTTTATTTTTTTCGTATACTGATATTTGATTCTGACACGAAAAAAAAAAAGAAATTTTTTT
1 TTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGAAACG---AAAAAAAAGAAATTTTTTT
*
9610927 TAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA-ATTTT-TT-TTTTCGTATAC
63 T-AAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAATATTTTATTGTTTTCGTATAC
*
9610989 TAATATCTGATTCTGACACGAAAAAAAATTTTAATTTGTACTGGGTGCCGGCACCCAAAT
127 TAATATCTGACTCTGACAC-AAAAAAAATTTTAATTTGTACTGGGTGCCGGCACCCAAAT
9611049 TTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGAAACGAAAAAAAAGAAATTTTTTTTAA
1 TTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGAAACGAAAAAAAAGAAATTTTTTTTAA
* *
9611114 ATTGTACTGGGTGCCGGCCATTGACAGGTCAACACCCAAATTTTTTTTTATTGTTTTCGTATACT
66 ATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAA---TATTTTATTGTTTTCGTATACT
*
9611179 GATATCTGACTCTGACACAAAAAAA
128 AATATCTGACTCTGACACAAAAAAA
9611204 CACAAAAAAA
Statistics
Matches: 142, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
183 40 0.28
184 20 0.14
187 45 0.32
188 9 0.06
189 28 0.20
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (185 bp):
TTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGAAACGAAAAAAAAGAAATTTTTTTTAA
ATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAAATATTTTATTGTTTTCGTATACTAAT
ATCTGACTCTGACACAAAAAAAATTTTAATTTGTACTGGGTGCCGGCACCCAAAT
Found at i:9611299 original size:17 final size:17
Alignment explanation
Indices: 9611268--9611301 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9611258 AGCACCTAAA
* *
9611268 TTTTTTTTTTGTTTTTC
1 TTTTTTTTCTCTTTTTC
9611285 TTTTTTTTCTCTTTTTC
1 TTTTTTTTCTCTTTTTC
9611302 GTATATCAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTTTTTCTCTTTTTC
Found at i:9618866 original size:14 final size:14
Alignment explanation
Indices: 9618847--9618873 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9618837 GAACAATCTT
9618847 GCTTAAATTAATTA
1 GCTTAAATTAATTA
9618861 GCTTAAATTAATT
1 GCTTAAATTAATT
9618874 GATTTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (14 bp):
GCTTAAATTAATTA
Found at i:9628419 original size:44 final size:45
Alignment explanation
Indices: 9628366--9628453 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
9628356 TTAAAGAGTT
*
9628366 TAATGTTGGTTTAGACTC-ACGACTTTGTAGTATACTGATATATA
1 TAATATTGGTTTAGACTCGACGACTTTGTAGTATACTGATATATA
*
9628410 TAATATTGGTTTAGACTCGACGACTTTGTAGTCTACTGATATAT
1 TAATATTGGTTTAGACTCGACGACTTTGTAGTATACTGATATAT
9628454 TCATGCTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 17 0.41
45 24 0.59
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (45 bp):
TAATATTGGTTTAGACTCGACGACTTTGTAGTATACTGATATATA
Found at i:9629515 original size:18 final size:18
Alignment explanation
Indices: 9629492--9629526 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9629482 CAAAATACCT
9629492 TATCATTCTTCTTGTTTG
1 TATCATTCTTCTTGTTTG
9629510 TATCATTCTTCTTGTTT
1 TATCATTCTTCTTGTTT
9629527 TCCTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.09, T:0.63
Consensus pattern (18 bp):
TATCATTCTTCTTGTTTG
Found at i:9629821 original size:50 final size:50
Alignment explanation
Indices: 9629766--9629874 Score: 164
Period size: 50 Copynumber: 2.2 Consensus size: 50
9629756 TTATTAAAAG
* * *
9629766 AAAAAAATTTAATATATAATATTCATTGGCGCCTATCAGATAGGCACCATT
1 AAAAAAA-TTAATATAAAATAATCATTGGCGCCTATCAAATAGGCACCATT
* *
9629817 AAAAAAATTAATATAAAATAATCATTGGCGCCTCTCAAATAGGCGCCATT
1 AAAAAAATTAATATAAAATAATCATTGGCGCCTATCAAATAGGCACCATT
9629867 AAAAAAAT
1 AAAAAAAT
9629875 AACTCATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 46 0.87
51 7 0.13
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.28
Consensus pattern (50 bp):
AAAAAAATTAATATAAAATAATCATTGGCGCCTATCAAATAGGCACCATT
Found at i:9630291 original size:18 final size:18
Alignment explanation
Indices: 9630268--9630302 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9630258 CGCCATGTTT
9630268 GTCTCTATTGATATGAAG
1 GTCTCTATTGATATGAAG
*
9630286 GTCTCTATTGGTATGAA
1 GTCTCTATTGATATGAA
9630303 TGAGCTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (18 bp):
GTCTCTATTGATATGAAG
Found at i:9647840 original size:21 final size:21
Alignment explanation
Indices: 9647814--9647854 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9647804 ATCTGCTCAA
* *
9647814 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
9647835 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
9647855 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:9650677 original size:26 final size:25
Alignment explanation
Indices: 9650648--9650702 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
9650638 GGTGCCACTT
9650648 ACACCTCCCATTTT-TTTGACTTTTCA
1 ACACC-CCC-TTTTATTTGACTTTTCA
*
9650674 ACA-CCCCTTTTAATTTGTCTTTTCA
1 ACACCCCCTTTT-ATTTGACTTTTCA
9650699 ACAC
1 ACAC
9650703 TCCGCACATC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.16
24 3 0.12
25 15 0.60
26 3 0.12
ACGTcount: A:0.22, C:0.31, G:0.04, T:0.44
Consensus pattern (25 bp):
ACACCCCCTTTTATTTGACTTTTCA
Found at i:9668114 original size:44 final size:44
Alignment explanation
Indices: 9668047--9668676 Score: 425
Period size: 44 Copynumber: 13.8 Consensus size: 44
9668037 GAAAAATTTC
* *
9668047 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
* * * *
9668091 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
* * * ***
9668135 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAATAAAG
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
9668179 -GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCCAG
* * ** ** *
9668232 AGATCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAA-AAATTTC
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTGAAGCCA---G
* *
9668278 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
* * * *
9668322 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
* * *** *
9668366 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
9668409 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCCAG
* * ** ** *
9668464 AGATCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAA-AAATTTC
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTGAAGCCA---G
* *
9668510 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
* * * *
9668554 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
* * *** *
9668598 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
* *
9668641 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 A-GATCTTATCTCTCTGAAGTTACAGTGGAGCAGAT
9668677 CACATCAGAT
Statistics
Matches: 457, Mismatches: 87, Indels: 84
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.00
43 33 0.07
44 272 0.60
45 5 0.01
46 69 0.15
47 6 0.01
51 2 0.00
52 2 0.00
53 15 0.03
54 47 0.10
55 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
Found at i:9668544 original size:232 final size:232
Alignment explanation
Indices: 9668004--9668736 Score: 1407
Period size: 232 Copynumber: 3.2 Consensus size: 232
9667994 ATTATACAGG
**
9668004 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
9668069 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
9668134 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
9668198 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
9668235 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
9668300 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
9668365 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
9668430 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
9668467 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
9668532 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
9668597 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
9668662 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
* *
9668699 TCTTATCTCCCTGATG-TTGCAGTGGAACAGACTGAAAA
1 TCTTATCTCCCTGA-GATTACAGTGGAACAGACCGAAAA
9668737 CATAAATTTC
Statistics
Matches: 496, Mismatches: 4, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
231 165 0.33
232 330 0.67
233 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (232 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
Found at i:9670399 original size:3 final size:3
Alignment explanation
Indices: 9670391--9670425 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9670381 GATTTAGTCC
9670391 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9670426 CCTATTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9674072 original size:22 final size:22
Alignment explanation
Indices: 9674047--9674095 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
9674037 TATTTAACGT
*
9674047 ATTTGATAAAAAT-ATATATTTA
1 ATTTAATAAAAATAATAT-TTTA
*
9674069 ATTTTAATTAAAATAATATTTTA
1 A-TTTAATAAAAATAATATTTTA
9674092 ATTT
1 ATTT
9674096 TTTTTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTAATAAAAATAATATTTTA
Found at i:9675385 original size:16 final size:15
Alignment explanation
Indices: 9675360--9675389 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9675350 TTAATATACT
9675360 AAATATAATTTATTA
1 AAATATAATTTATTA
9675375 AAATAATAATTTATT
1 AAAT-ATAATTTATT
9675390 TAATATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATATAATTTATTA
Found at i:9675450 original size:16 final size:16
Alignment explanation
Indices: 9675409--9675450 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9675399 AATTTTATTT
*
9675409 TAATAATAAATTTAAA
1 TAATAATAATTTTAAA
*
9675425 AAATAATAATTTTAAA
1 TAATAATAATTTTAAA
*
9675441 TAATATTAAT
1 TAATAATAAT
9675451 CACATATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:9675498 original size:15 final size:15
Alignment explanation
Indices: 9675478--9675534 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
9675468 ATTCAATATT
9675478 AATATTTTAATAATA
1 AATATTTTAATAATA
*
9675493 AATATTTCTTACAATTATA
1 AATA-TT-TT--AATAATA
*
9675512 AATATATTAATAATA
1 AATATTTTAATAATA
9675527 AATATTTT
1 AATATTTT
9675535 TTAGTGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:9676004 original size:14 final size:14
Alignment explanation
Indices: 9675985--9676020 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9675975 GAAAAATAAG
9675985 TCATTTTCCAAAAA
1 TCATTTTCCAAAAA
* *
9675999 TCATTTTCCGAAAG
1 TCATTTTCCAAAAA
9676013 TCATTTTC
1 TCATTTTC
9676021 AGTAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (14 bp):
TCATTTTCCAAAAA
Found at i:9683650 original size:26 final size:23
Alignment explanation
Indices: 9683621--9683681 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
9683611 TCTTATTTTG
*
9683621 AAATATATATAAAAATTATAATTTAT
1 AAATATATA-AAAAATTA-AATAT-T
*
9683647 AAATTTATAAAAAATTAAATATT
1 AAATATATAAAAAATTAAATATT
9683670 AAATAT-TAAAAA
1 AAATATATAAAAA
9683682 TATTTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 6 0.19
23 6 0.19
24 4 0.12
25 8 0.25
26 8 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATATATAAAAAATTAAATATT
Found at i:9683933 original size:27 final size:28
Alignment explanation
Indices: 9683894--9683946 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
9683884 AATAAACACC
*
9683894 AAAAATTTATTTTAAAAATAAAAAAATA
1 AAAAATATATTTTAAAAATAAAAAAATA
*
9683922 AAAAATAT-TTTTAAAATTAAAAAAA
1 AAAAATATATTTTAAAAATAAAAAAA
9683947 AATTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (28 bp):
AAAAATATATTTTAAAAATAAAAAAATA
Found at i:9683944 original size:20 final size:20
Alignment explanation
Indices: 9683934--9683973 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9683924 AAATATTTTT
9683934 AAAATTAAAAAAAAATTAAA
1 AAAATTAAAAAAAAATTAAA
9683954 AAAATTAAAAAAAAA-TAAA
1 AAAATTAAAAAAAAATTAAA
9683973 A
1 A
9683974 TATATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAATTAAAAAAAAATTAAA
Found at i:9683945 original size:8 final size:9
Alignment explanation
Indices: 9683907--9683966 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
9683897 AATTTATTTT
9683907 AAAAA-TAA
1 AAAAATTAA
9683915 AAAAA-TAA
1 AAAAATTAA
**
9683923 AAAATATTTT
1 AAAA-ATTAA
*
9683933 TAAAATTAAAA
1 AAAAATT--AA
9683944 AAAAATTAA
1 AAAAATTAA
9683953 AAAAATTAA
1 AAAAATTAA
9683962 AAAAA
1 AAAAA
9683967 AATAAAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
8 12 0.29
9 20 0.48
10 4 0.10
11 6 0.14
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAATTAA
Found at i:9683948 original size:11 final size:11
Alignment explanation
Indices: 9683934--9683973 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
9683924 AAATATTTTT
9683934 AAAATTAAAAA
1 AAAATTAAAAA
9683945 AAAATT--AAA
1 AAAATTAAAAA
9683954 AAAATTAAAAA
1 AAAATTAAAAA
9683965 AAAA-TAAAA
1 AAAATTAAAA
9683974 TATATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.33
10 5 0.19
11 13 0.48
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATTAAAAA
Found at i:9696619 original size:3 final size:3
Alignment explanation
Indices: 9696613--9696671 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
9696603 TAATACTTAC
* * *
9696613 AAT AAT AAT AAT CAT AAT AAT AAT AAT -CT AATT AGTT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T A-AT AAT AAT AAT
9696659 AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AA
9696672 CAATGAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 3 0.07
3 39 0.85
4 4 0.09
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:9696619 original size:15 final size:15
Alignment explanation
Indices: 9696595--9696639 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
9696585 TATAAATTAA
* *
9696595 TACAACAATAATACT
1 TACAATAATAATAAT
9696610 TACAATAATAATAAT
1 TACAATAATAATAAT
* *
9696625 CATAATAATAATAAT
1 TACAATAATAATAAT
9696640 CTAATTAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (15 bp):
TACAATAATAATAAT
Found at i:9701681 original size:24 final size:26
Alignment explanation
Indices: 9701645--9701696 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
9701635 TGATAGGTGA
*
9701645 TTTTCTTCGTCTTTTATTTCTTTCTC
1 TTTTCTTCGTCTTTGATTTCTTTCTC
* *
9701671 TTTT-TTC-TCTTTGATTTTTTTTTC
1 TTTTCTTCGTCTTTGATTTCTTTCTC
9701695 TT
1 TT
9701697 GGTGCACCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 16 0.70
25 3 0.13
26 4 0.17
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTTCTTCGTCTTTGATTTCTTTCTC
Found at i:9716237 original size:14 final size:14
Alignment explanation
Indices: 9716218--9716244 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9716208 TTCTGCTTGT
9716218 TTATTTTATTTTAC
1 TTATTTTATTTTAC
9716232 TTATTTTATTTTA
1 TTATTTTATTTTA
9716245 TCTTTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTATTTTAC
Found at i:9717044 original size:3 final size:3
Alignment explanation
Indices: 9717001--9717081 Score: 67
Period size: 3 Copynumber: 26.0 Consensus size: 3
9716991 TTTAGCAATC
* *
9717001 TTA TTA TT- TTG TTAA TTA TT- TTAA TGTA TTA TCA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TT-A T-TA TTA TTA -TTA TTA TTA TTA
* *
9717048 TTA TTA CTA TTA TTA TCA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
9717082 GTTTTATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
2 4 0.06
3 49 0.77
4 10 0.16
5 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:9719153 original size:46 final size:46
Alignment explanation
Indices: 9719053--9719378 Score: 401
Period size: 46 Copynumber: 7.6 Consensus size: 46
9719043 TACATATGAT
*
9719053 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
9719096 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
9719142 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
9719188 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
9719224 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
9719270 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
9719306 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
9719352 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
9719379 AGTACTCAAA
Statistics
Matches: 248, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
36 57 0.23
38 5 0.02
39 1 0.00
40 4 0.02
41 4 0.02
42 4 0.02
43 11 0.04
44 10 0.04
45 19 0.08
46 133 0.54
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:9719229 original size:36 final size:36
Alignment explanation
Indices: 9719188--9719342 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
9719178 CTAAGGCTAA
9719188 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
9719224 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
9719266 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
9719306 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
9719342 C
1 C
9719343 TAATGCTACC
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 64 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:9719279 original size:82 final size:82
Alignment explanation
Indices: 9719142--9719378 Score: 411
Period size: 82 Copynumber: 2.9 Consensus size: 82
9719132 CTAAGGCTAC
* * *
9719142 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
9719207 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
*
9719224 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
9719289 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* *
9719306 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
9719371 TGATCAGA
66 TGATCAGA
9719379 AGTACTCAAA
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 147 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTATAG
Found at i:9719356 original size:128 final size:132
Alignment explanation
Indices: 9719053--9719378 Score: 405
Period size: 128 Copynumber: 2.5 Consensus size: 132
9719043 TACATATGAT
* *
9719053 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA-GCTACCACTTATCACTTTATCACTT
*
9719116 GATCAGATAAGAGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTA
65 GATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAG-GTAGCTA
9719181 AGGCTAA
129 AGG---A
*
9719188 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TAG----CACTTATCACTTTTTCACTTG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTACCACTTATCACTTTATCACTTG
* * *
9719245 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAA-GT-G-T-A-
66 ATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAG
9719305 G-
131 GA
*
9719306 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A-GCTACCACTTATCACTTTATCACT
9719371 TGATCAGA
64 TGATCAGA
9719379 AGTACTCAAA
Statistics
Matches: 171, Mismatches: 8, Indels: 31
0.81 0.04 0.15
Matches are distributed among these distances:
118 29 0.17
120 3 0.02
122 2 0.01
123 2 0.01
124 2 0.01
125 1 0.01
126 2 0.01
128 97 0.57
132 1 0.01
133 2 0.01
135 13 0.08
136 5 0.03
137 12 0.07
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (132 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTACCACTTATCACTTTATCACTTG
ATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAG
GA
Found at i:9721105 original size:10 final size:10
Alignment explanation
Indices: 9721086--9721117 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
9721076 TTAACACTCC
9721086 ATAAATATTT
1 ATAAATATTT
*
9721096 ATAAAAATTT
1 ATAAATATTT
9721106 ATAAATATTT
1 ATAAATATTT
9721116 AT
1 AT
9721118 GGCTTGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAAATATTT
Found at i:9721485 original size:17 final size:17
Alignment explanation
Indices: 9721448--9721484 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
9721438 GGAGGAAAAC
9721448 AAAATGAGAAACAGAAG
1 AAAATGAGAAACAGAAG
9721465 AAAATG-GAAA-ATGAAG
1 AAAATGAGAAACA-GAAG
9721481 AAAA
1 AAAA
9721485 AATAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.05
16 12 0.63
17 6 0.32
ACGTcount: A:0.68, C:0.03, G:0.22, T:0.08
Consensus pattern (17 bp):
AAAATGAGAAACAGAAG
Found at i:9723165 original size:14 final size:14
Alignment explanation
Indices: 9723146--9723177 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9723136 TCCAATCACC
9723146 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
9723160 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
9723174 GGGC
1 GGGC
9723178 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:9728281 original size:14 final size:14
Alignment explanation
Indices: 9728262--9728293 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9728252 TCCAATCACC
9728262 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
9728276 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
9728290 GGGC
1 GGGC
9728294 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:9732848 original size:162 final size:162
Alignment explanation
Indices: 9732581--9732901 Score: 538
Period size: 162 Copynumber: 2.0 Consensus size: 162
9732571 GAAGGAAGAT
*
9732581 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGGAAAAGGAAAACTGCAAAG
1 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGAAAAAGGAAAACTGCAAAG
**
9732646 AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACGCTGCAGATGAGATTAA
66 AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTAA
9732711 GCAAACAACATATAGGACTGAAACTCCACCGC
131 GCAAACAACATATAGGACTGAAACTCCACCGC
* *
9732743 CTGCAAAGCTAGCTGGTACTGTCAATGGTGGTTCATTGTTGCCCCAGAAAAAGG-GAACTG-AGA
1 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCC-GAAAAAGGAAAACTGCA-A
* *
9732806 AGAAAAGTTCTAAAATTGATCCACATCAGTTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATT
64 AGAAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATT
*
9732871 AAGCAAACAACATATAGGATTGAAACTCCAC
129 AAGCAAACAACATATAGGACTGAAACTCCAC
9732902 TTCCTGCAGA
Statistics
Matches: 149, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
161 1 0.01
162 141 0.95
163 7 0.05
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (162 bp):
CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGAAAAAGGAAAACTGCAAAG
AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTAA
GCAAACAACATATAGGACTGAAACTCCACCGC
Done.