Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 137 of 325
Found at i:44256335 original size:38 final size:38
Alignment explanation
Indices: 44256293--44256369 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
44256283 ACAAGAATTT
44256293 CTTAAAAAGATCAACAACCATAAAAATTTTTCTGAGAA
1 CTTAAAAAGATCAACAACCATAAAAATTTTTCTGAGAA
*
44256331 CTTAAAAAGATCAACAACCATAGAAATTTTTCTGAGAA
1 CTTAAAAAGATCAACAACCATAAAAATTTTTCTGAGAA
44256369 C
1 C
44256370 GGATAAATAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (38 bp):
CTTAAAAAGATCAACAACCATAAAAATTTTTCTGAGAA
Found at i:44258963 original size:49 final size:49
Alignment explanation
Indices: 44258907--44259145 Score: 271
Period size: 49 Copynumber: 4.8 Consensus size: 49
44258897 ATAGACAAGG
*
44258907 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
*
44258956 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
** * * * * *
44259006 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA
* ** * *
44259056 GTTATCGGGTACGGATAGTAGCATGCACTTAGTACTACACATACGACCAA
1 -TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
** ** * *
44259106 TTATCCAGTACATGTTGTAGCCTGCACTTAATACTACACA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
44259146 CGTGACCTCA
Statistics
Matches: 159, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 77 0.48
50 47 0.30
51 35 0.22
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:44258996 original size:26 final size:26
Alignment explanation
Indices: 44258964--44259045 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
44258954 AATTATCTGG
44258964 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
*
44258990 TACACAT-GT-GACCT-AACCATCT-G-A-
1 TACACATAGTAG-CCTGCA-C-T-TAGTAC
*
44259014 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
44259040 TACACA
1 TACACA
44259046 CGTGATCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 20
0.64 0.06 0.30
Matches are distributed among these distances:
23 1 0.02
24 10 0.24
25 14 0.33
26 16 0.38
27 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:44259091 original size:101 final size:98
Alignment explanation
Indices: 44258921--44259151 Score: 284
Period size: 101 Copynumber: 2.3 Consensus size: 98
44258911 CTGGTACGCA
* * * * *
44258921 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCGGGTACACATAGTAGCATGCACTTA
** *
44258986 GTACTACACATGTGACCTAACCAT-CTGATACACG
66 GTACTACACATACGACC-AACCATCCAG-TACACG
**
44259020 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGGATAGTAGCATGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCGGGTACACATAGTAGCATGCACT
** *
44259085 TAGTACTACACATACGACCAATTATCCAGTACATG
64 TAGTACTACACATACGACCAACCATCCAGTACACG
* *
44259120 TTGTAGCCTGCACTTAATACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
44259152 CTCACAATAG
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
99 30 0.26
100 41 0.36
101 43 0.38
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCGGGTACACATAGTAGCATGCACTTA
GTACTACACATACGACCAACCATCCAGTACACG
Found at i:44259439 original size:27 final size:27
Alignment explanation
Indices: 44259399--44259452 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
44259389 TCATACAACC
* *
44259399 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
44259426 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
44259453 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:44259743 original size:80 final size:80
Alignment explanation
Indices: 44259602--44259764 Score: 274
Period size: 80 Copynumber: 2.0 Consensus size: 80
44259592 CACGAACTTA
* *
44259602 CCTCGTATACGAAAATGGTCATTTTTACCATTTTGTCCACAACTTGGTATTTTTCTGATTTTAGC
1 CCTCGTATACGAAAATGGCCATTTTTACCATTTTGTCCACAACTTGGTATTTTTCTAATTTTAGC
*
44259667 CCGAATTTCAATTTT
66 CCAAATTTCAATTTT
44259682 CCTCGTATACGAAAATGGCCATTTTTACCATTTTGTCCACAACTTGGTATTTTGTC-AATTTTAG
1 CCTCGTATACGAAAATGGCCATTTTTACCATTTTGTCCACAACTTGGTATTTT-TCTAATTTTAG
*
44259746 CCCAAATTTTAATTTT
65 CCCAAATTTCAATTTT
44259762 CCT
1 CCT
44259765 TACTCTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 76 0.97
81 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.43
Consensus pattern (80 bp):
CCTCGTATACGAAAATGGCCATTTTTACCATTTTGTCCACAACTTGGTATTTTTCTAATTTTAGC
CCAAATTTCAATTTT
Found at i:44260887 original size:22 final size:23
Alignment explanation
Indices: 44260860--44260904 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
44260850 GGGTATCTAC
44260860 AAATCAAAT-TTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
44260882 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
44260905 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:44260897 original size:23 final size:22
Alignment explanation
Indices: 44260857--44260914 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
44260847 AAAGGGTATC
*
44260857 TACAAATCAAAT-TTCTAAGAT
1 TACAAATCATATCTTCTAAGAT
44260878 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
44260901 TACATATCATATCT
1 TACAAATCATATCT
44260915 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.55
23 12 0.36
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:44260917 original size:19 final size:20
Alignment explanation
Indices: 44260869--44260927 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
44260859 CAAATCAAAT
*
44260869 TTCTAAGATTACAAAATCATA
1 TTCTAAGATTAC-ATATCATA
44260890 TCTTCTAAGATTACATATCATA
1 --TTCTAAGATTACATATCATA
*
44260912 -TCTAAGATTGCATATC
1 TTCTAAGATTACATATC
44260928 TTTGAAGATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.44
22 7 0.21
23 12 0.35
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (20 bp):
TTCTAAGATTACATATCATA
Found at i:44266011 original size:22 final size:23
Alignment explanation
Indices: 44265984--44266028 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
44265974 GGGTATCTAC
44265984 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
44266006 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
44266029 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:44266032 original size:17 final size:17
Alignment explanation
Indices: 44266010--44266060 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
44266000 ATTACAAAAT
44266010 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
44266027 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
44266046 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
44266061 CATGTTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:44266033 original size:22 final size:22
Alignment explanation
Indices: 44265981--44266038 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
44265971 AAAGGGTATC
*
44265981 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
44266002 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
44266025 TACATATCATATCT
1 TACAAATCATATCT
44266039 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:44266041 original size:19 final size:20
Alignment explanation
Indices: 44265994--44266051 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
44265984 AAATCAAATC
*
44265994 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
44266017 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
44266036 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
44266052 TTCGAAGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:44268533 original size:15 final size:13
Alignment explanation
Indices: 44268505--44268538 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
44268495 TATAAAAATA
44268505 TAATATTTTAATT
1 TAATATTTTAATT
44268518 TAATATTTAATAATT
1 TAATATTT--TAATT
44268533 TAATAT
1 TAATAT
44268539 AATTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
15 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATATTTTAATT
Found at i:44274110 original size:10 final size:10
Alignment explanation
Indices: 44274095--44274127 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
44274085 CTTTTTCATA
44274095 AAAAAATTTT
1 AAAAAATTTT
44274105 AAAAAATTTT
1 AAAAAATTTT
*
44274115 AAAAACTTTT
1 AAAAAATTTT
44274125 AAA
1 AAA
44274128 TCATTTTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:44279126 original size:45 final size:45
Alignment explanation
Indices: 44279077--44279295 Score: 321
Period size: 45 Copynumber: 4.9 Consensus size: 45
44279067 TCGGCCATGG
* * * *
44279077 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* * *
44279122 TGCTTCCTTAAATTCTTCCATGAATTATGCATTATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
44279167 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
44279212 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* * * **
44279257 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
44279296 TCCACCTCTT
Statistics
Matches: 158, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 158 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
Found at i:44279230 original size:90 final size:90
Alignment explanation
Indices: 44279077--44279295 Score: 366
Period size: 90 Copynumber: 2.4 Consensus size: 90
44279067 TCGGCCATGG
* *
44279077 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCA
1 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
*
44279142 TGAATTATGCATTATGTTGGTCAAA
66 TGAATTATGCATGATGTTGGTCAAA
* * *
44279167 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
1 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
44279232 TGAATTATGCATGATGTTGGTCAAA
66 TGAATTATGCATGATGTTGGTCAAA
* *
44279257 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTG
44279296 TCCACCTCTT
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 118 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (90 bp):
TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
TGAATTATGCATGATGTTGGTCAAA
Found at i:44284861 original size:45 final size:45
Alignment explanation
Indices: 44284812--44285075 Score: 395
Period size: 45 Copynumber: 5.9 Consensus size: 45
44284802 TCGGCCATGG
* * * * *
44284812 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* *
44284857 TGCTTCCTTAAATTCTTCCATGAATTATGCATTATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* *
44284902 TGCTTCCTCAAATTTTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
44284947 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
44284992 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * **
44285037 TGCTTCCTTAATTTGC-TCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATT-CTTCCATGAATTATGCATGATGTTG
44285076 TCCACCTCTT
Statistics
Matches: 201, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 200 1.00
46 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:44286120 original size:41 final size:40
Alignment explanation
Indices: 44286064--44286151 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
44286054 GGCGCTAGTA
* * *
44286064 AGAAAACGCCGCTAAAGGTTAGAGCATTAGCGGCGCTTTTTG
1 AGAAAATGCCACTAAA-GATAGAGCATTAGCGGCG-TTTTTG
* *
44286106 A-AAAATGCCACTAAAGATCGAGCATTAGTGGCGTTTTTG
1 AGAAAATGCCACTAAAGATAGAGCATTAGCGGCGTTTTTG
44286145 AGAAAAT
1 AGAAAAT
44286152 ACCGCAAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 7 0.17
40 20 0.50
41 12 0.30
42 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (40 bp):
AGAAAATGCCACTAAAGATAGAGCATTAGCGGCGTTTTTG
Found at i:44286129 original size:40 final size:40
Alignment explanation
Indices: 44286085--44286275 Score: 134
Period size: 40 Copynumber: 4.5 Consensus size: 40
44286075 CTAAAGGTTA
* *
44286085 GAGCATTAGCGGCGCTTTTTGAAAAATGCCACTAAAGATC
1 GAGCATTAGCGGCGCTTTTTGAAAAATACCGCTAAAGATC
* *
44286125 GAGCATTAGTGGCG-TTTTTGAGAAAATACCGCAAAAGAGTTC
1 GAGCATTAGCGGCGCTTTTTGA-AAAATACCGCTAAAGA--TC
* * * *
44286167 AGCAAAACCATGGAATTAGTGGCACTTTTT-AAAAAAAGCCGCTAAAGATC
1 -G-------A--GCATTAGCGGCGCTTTTTGAAAAATA-CCGCTAAAGATC
* * * *
44286217 GAGCATTAGCGGTGCTTTTTGAAAAACACCGTTAAAGATT
1 GAGCATTAGCGGCGCTTTTTGAAAAATACCGCTAAAGATC
44286257 GAGCATTAGCGGCGCTTTT
1 GAGCATTAGCGGCGCTTTT
44286276 CAGAAAACGC
Statistics
Matches: 119, Mismatches: 16, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
39 7 0.06
40 68 0.57
41 6 0.05
42 3 0.03
43 1 0.01
49 1 0.01
50 3 0.03
51 5 0.04
52 20 0.17
53 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTTTGAAAAATACCGCTAAAGATC
Found at i:44286909 original size:21 final size:21
Alignment explanation
Indices: 44286885--44286964 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 21
44286875 TTAACACAAT
44286885 TATTGATATAACATTATTTTA
1 TATTGATATAACATTATTTTA
* * *
44286906 TATTTATATATTGCATTATTAACATAA
1 TATTGATATA--ACATTATT----TTA
44286933 TTATTGATATAACATTATTTTA
1 -TATTGATATAACATTATTTTA
*
44286955 TATTTATATA
1 TATTGATATA
44286965 TTGCATTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
21 18 0.40
22 2 0.04
23 7 0.16
26 7 0.16
27 2 0.04
28 9 0.20
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (21 bp):
TATTGATATAACATTATTTTA
Found at i:44286916 original size:23 final size:23
Alignment explanation
Indices: 44286890--44286974 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
44286880 ACAATTATTG
44286890 ATATAACATTATTTTATATTTAT
1 ATATAACATTATTTTATATTTAT
** ** *
44286913 ATATTGCATTATTAACATAATTATT
1 ATATAACATTATT-TTATATTTA-T
44286938 GATATAACATTATTTTATATTTAT
1 -ATATAACATTATTTTATATTTAT
**
44286962 ATATTGCATTATT
1 ATATAACATTATT
44286975 AACACAATTA
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
23 22 0.47
24 7 0.15
25 7 0.15
26 11 0.23
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATAACATTATTTTATATTTAT
Found at i:44286935 original size:49 final size:49
Alignment explanation
Indices: 44286871--44287019 Score: 271
Period size: 49 Copynumber: 3.0 Consensus size: 49
44286861 GTTCTTATAA
44286871 ATTATTAACACAATTATTGATATAACATTATTTTATATTTATATATTGC
1 ATTATTAACACAATTATTGATATAACATTATTTTATATTTATATATTGC
*
44286920 ATTATTAACATAATTATTGATATAACATTATTTTATATTTATATATTGC
1 ATTATTAACACAATTATTGATATAACATTATTTTATATTTATATATTGC
* *
44286969 ATTATTAACACAATTATTGATGTAACATCATTTTATATTTATATATTGC
1 ATTATTAACACAATTATTGATATAACATTATTTTATATTTATATATTGC
44287018 AT
1 AT
44287020 ACATAAATAT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 96 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (49 bp):
ATTATTAACACAATTATTGATATAACATTATTTTATATTTATATATTGC
Found at i:44287046 original size:25 final size:23
Alignment explanation
Indices: 44287003--44287054 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
44286993 ACATCATTTT
*
44287003 ATATTTATATATTGCATACATAA
1 ATATTTATATATTGCATACAAAA
44287026 ATATTTATATTTATT-CAATACAAAA
1 ATATTTATA--TATTGC-ATACAAAA
44287051 ATAT
1 ATAT
44287055 ATTGATGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 9 0.36
24 1 0.04
25 15 0.60
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (23 bp):
ATATTTATATATTGCATACAAAA
Found at i:44287119 original size:31 final size:31
Alignment explanation
Indices: 44287079--44287148 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
44287069 TTTAAATGTG
*
44287079 TATAATTAAATCAAAATTA-AAGTTTCAACTA
1 TATAATTAAACCAAAATTAGAA-TTTCAACTA
* * *
44287110 TATATTTAAACCATAATTAGAATTTCAAGTA
1 TATAATTAAACCAAAATTAGAATTTCAACTA
*
44287141 TACAATTA
1 TATAATTA
44287149 CATATTAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (31 bp):
TATAATTAAACCAAAATTAGAATTTCAACTA
Found at i:44287598 original size:10 final size:9
Alignment explanation
Indices: 44287574--44287632 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 9
44287564 ATATGTTAAT
44287574 TTAAAAATGA
1 TTAAAAAT-A
44287584 -TAAAAATA
1 TTAAAAATA
*
44287592 TTCAAAAAAA
1 TT-AAAAATA
44287602 TTAAAAA-A
1 TTAAAAATA
44287610 TT-AAAA-A
1 TTAAAAATA
44287617 TTAAAAA-A
1 TTAAAAATA
44287625 TTAAAAAT
1 TTAAAAAT
44287633 TAAAAATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
7 7 0.16
8 16 0.36
9 13 0.30
10 8 0.18
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (9 bp):
TTAAAAATA
Found at i:44287615 original size:7 final size:7
Alignment explanation
Indices: 44287597--44287681 Score: 134
Period size: 7 Copynumber: 11.6 Consensus size: 7
44287587 AAATATTCAA
44287597 AAAAATT
1 AAAAATT
44287604 AAAAAATT
1 -AAAAATT
44287612 AAAAATT
1 AAAAATT
44287619 AAAAAATT
1 -AAAAATT
44287627 AAAAATT
1 AAAAATT
44287634 AAAAATT
1 AAAAATT
44287641 AAAAATT
1 AAAAATT
44287648 AAAAATT
1 AAAAATT
44287655 AAAAATT
1 AAAAATT
44287662 AAAAACTT
1 AAAAA-TT
44287670 AAAAACTT
1 AAAAA-TT
44287678 AAAA
1 AAAA
44287682 TTTTAATATT
Statistics
Matches: 75, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
7 47 0.63
8 28 0.37
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:44287617 original size:15 final size:15
Alignment explanation
Indices: 44287597--44287681 Score: 138
Period size: 15 Copynumber: 5.7 Consensus size: 15
44287587 AAATATTCAA
44287597 AAAAATTAAAAAATT
1 AAAAATTAAAAAATT
44287612 AAAAATTAAAAAATT
1 AAAAATTAAAAAATT
44287627 AAAAATT-AAAAATT
1 AAAAATTAAAAAATT
44287641 AAAAATT-AAAAATT
1 AAAAATTAAAAAATT
*
44287655 AAAAATTAAAAACTT
1 AAAAATTAAAAAATT
44287670 AAAAACTTAAAA
1 AAAAA-TTAAAA
44287682 TTTTAATATT
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
14 28 0.42
15 33 0.49
16 6 0.09
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAATTAAAAAATT
Found at i:44287752 original size:16 final size:16
Alignment explanation
Indices: 44287733--44287763 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44287723 ATCAATATTC
44287733 AAAATTTCAAAAAATA
1 AAAATTTCAAAAAATA
44287749 AAAATTTCAAAAAAT
1 AAAATTTCAAAAAAT
44287764 GATAATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATTTCAAAAAATA
Found at i:44290448 original size:19 final size:19
Alignment explanation
Indices: 44290424--44290466 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
44290414 TGCATTATAG
*
44290424 ATTTTAGTA-TTAGTTTAAA
1 ATTTTAGTATTTA-ATTAAA
44290443 ATTTTAGTATTTAATTAAA
1 ATTTTAGTATTTAATTAAA
44290462 ATTTT
1 ATTTT
44290467 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
ATTTTAGTATTTAATTAAA
Found at i:44292195 original size:43 final size:43
Alignment explanation
Indices: 44292147--44292242 Score: 142
Period size: 43 Copynumber: 2.2 Consensus size: 43
44292137 GTAGGAAAAG
44292147 CGCCGCTAAAGGCCATGAGTTTTAGCGGTGC-TTTTCCC-ACAAA
1 CGCCGCTAAAGGCCATGAGTTTTAGC-G-GCATTTTCCCTACAAA
* *
44292190 TGCCGCTAAAGGCCATGATTTTTAGCGGCATTTTCCCTACAAA
1 CGCCGCTAAAGGCCATGAGTTTTAGCGGCATTTTCCCTACAAA
44292233 CGCCGCTAAA
1 CGCCGCTAAA
44292243 AGTCATTATC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
41 2 0.04
42 8 0.17
43 38 0.79
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAGGCCATGAGTTTTAGCGGCATTTTCCCTACAAA
Found at i:44297406 original size:17 final size:16
Alignment explanation
Indices: 44297384--44297415 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
44297374 CAGGCCGTGG
44297384 GCGTGTAGGCCACACAA
1 GCGTGTAGGCC-CACAA
44297401 GCGTGTAGGCCCACA
1 GCGTGTAGGCCCACA
44297416 CGGGTATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.25, C:0.31, G:0.31, T:0.12
Consensus pattern (16 bp):
GCGTGTAGGCCCACAA
Found at i:44301673 original size:15 final size:16
Alignment explanation
Indices: 44301653--44301682 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44301643 AAGATCTTAT
44301653 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
44301668 AATCATAACCTTACT
1 AATCATAACCTTACT
44301683 GAGGGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:44303095 original size:46 final size:46
Alignment explanation
Indices: 44303045--44303217 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
44303035 TGGTTGAGCA
*
44303045 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
44303091 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
44303138 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
44303184 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44303218 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:44303201 original size:93 final size:93
Alignment explanation
Indices: 44303042--44303212 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
44303032 GGATGGTTGA
* *
44303042 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44303107 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
44303135 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44303200 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44303213 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44310443 original size:46 final size:45
Alignment explanation
Indices: 44310393--44310519 Score: 200
Period size: 45 Copynumber: 2.8 Consensus size: 45
44310383 TGGTTGAGCA
*
44310393 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCAAACG
* *
44310439 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTAGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCAAACG
* *
44310484 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
44310520 GGCGGGTTAC
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
45 42 0.56
46 33 0.44
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCAAACG
Found at i:44311405 original size:20 final size:20
Alignment explanation
Indices: 44311368--44311410 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
44311358 CTGTTCTGAC
* *
44311368 TTTAAAAATTCATAATAAAT
1 TTTAAAAAATAATAATAAAT
* *
44311388 TTTAAAAAATAATTATAAGT
1 TTTAAAAAATAATAATAAAT
44311408 TTT
1 TTT
44311411 TTATATTTAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAAAAAATAATAATAAAT
Found at i:44339053 original size:40 final size:40
Alignment explanation
Indices: 44338969--44339151 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
44338959 TTGAATGCTG
* * * *
44338969 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
44339008 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * **
44339049 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACCAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
44339089 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
44339128 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44339152 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 27 0.22
40 84 0.69
41 10 0.08
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:44340793 original size:12 final size:11
Alignment explanation
Indices: 44340731--44340796 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
44340721 TTTTTATAAA
44340731 TTTTTAAATTAT
1 TTTTTAAA-TAT
*
44340743 TTTTAAAATAT
1 TTTTTAAATAT
* *
44340754 ATATT--ATGAT
1 TTTTTAAAT-AT
44340764 TTTTT--ATAT
1 TTTTTAAATAT
44340773 TTTTTAAATAT
1 TTTTTAAATAT
44340784 TTTTTAAA-AT
1 TTTTTAAATAT
44340794 TTT
1 TTT
44340797 CAATGTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
9 9 0.20
10 12 0.27
11 17 0.38
12 7 0.16
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TTTTTAAATAT
Found at i:44353531 original size:29 final size:30
Alignment explanation
Indices: 44353475--44353532 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
44353465 CAAAGCCTAC
**
44353475 ACATATACATCAAACAAGTTAGCCATGGAA
1 ACATATACATCAAACAAGTTAAACATGGAA
44353505 ACATATACAT-AAACCAAG-TAAACATGGA
1 ACATATACATCAAA-CAAGTTAAACATGGA
44353533 TAAGCACAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (30 bp):
ACATATACATCAAACAAGTTAAACATGGAA
Found at i:44353846 original size:25 final size:25
Alignment explanation
Indices: 44353769--44353869 Score: 87
Period size: 25 Copynumber: 4.0 Consensus size: 25
44353759 TCCTGTACAT
* * * *
44353769 GTATGCTCATATGAGCTGTGAATCA
1 GTATGCTCACACGAGCTGTAAATCG
* * *
44353794 GTATGCTCACTCGAGTTGTAGAGT-G
1 GTATGCTCACACGAGCTGTA-AATCG
* **
44353819 GTATGTTTTCACGAGCTGTAAATCG
1 GTATGCTCACACGAGCTGTAAATCG
*
44353844 GTATGCTCACACGAGCTGTAGATCG
1 GTATGCTCACACGAGCTGTAAATCG
44353869 G
1 G
44353870 AACATAGCTA
Statistics
Matches: 57, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
24 2 0.04
25 53 0.93
26 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATCG
Found at i:44354851 original size:42 final size:42
Alignment explanation
Indices: 44354805--44354886 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
44354795 GCTATGTGGC
* * *
44354805 CAAGCTGTTTGCCTCACACGACTGAGACACACGCCTGTGTTT
1 CAAGCTGTGTGCCTCACACGACTAAGACACACGCCCGTGTTT
* * *
44354847 CAAGCTGTGTGTCTCACACGGCTAAGTCACACGCCCGTGT
1 CAAGCTGTGTGCCTCACACGACTAAGACACACGCCCGTGT
44354887 CTCAGGCCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (42 bp):
CAAGCTGTGTGCCTCACACGACTAAGACACACGCCCGTGTTT
Found at i:44355319 original size:5 final size:5
Alignment explanation
Indices: 44355309--44355333 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44355299 AAAATAGAAA
44355309 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
44355334 GGTTGGCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:44356885 original size:28 final size:27
Alignment explanation
Indices: 44356784--44356885 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
44356774 TCAGTGTTAA
* *
44356784 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
44356812 CTGGGCCATAGCCCCTTAT-AGTATCAGAGTAT
1 CTGGGCC-TAG-CCCATATCAGTATC--A--AT
*
44356844 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
44356872 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
44356886 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 6 0.10
28 22 0.37
29 6 0.10
30 2 0.03
31 6 0.10
32 11 0.19
33 6 0.10
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:44356905 original size:60 final size:59
Alignment explanation
Indices: 44356785--44356921 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
44356775 CAGTGTTAAC
* * *
44356785 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTATAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTAAAG-ATCAGAGTATAT
* *
44356846 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAG-TC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTA-AAGATCAGAG-TATAT
* * *
44356906 TAGGCCTTGGCCATAT
1 TGGGCCTAGCCCATAT
44356922 TAACACAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 3 0.05
60 51 0.78
61 9 0.14
62 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTAAAGATCAGAGTATAT
Found at i:44356968 original size:19 final size:20
Alignment explanation
Indices: 44356926--44356968 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
44356916 CCATATTAAC
** *
44356926 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
44356946 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
44356965 ACAG
1 ACAG
44356969 CCTCATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:44359378 original size:12 final size:12
Alignment explanation
Indices: 44359363--44359387 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44359353 ACAGCAAATA
44359363 ATAAAAATTTTC
1 ATAAAAATTTTC
44359375 ATAAAAATTTTC
1 ATAAAAATTTTC
44359387 A
1 A
44359388 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:44363343 original size:19 final size:19
Alignment explanation
Indices: 44363316--44363354 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
44363306 TAACTGTGTG
44363316 TCCCCTGCACCTAAAATTT
1 TCCCCTGCACCTAAAATTT
*
44363335 TCCCTTGCACCTAAAATTT
1 TCCCCTGCACCTAAAATTT
44363354 T
1 T
44363355 AAGTTAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.36
Consensus pattern (19 bp):
TCCCCTGCACCTAAAATTT
Found at i:44382395 original size:198 final size:198
Alignment explanation
Indices: 44382057--44382451 Score: 772
Period size: 198 Copynumber: 2.0 Consensus size: 198
44382047 GTTCCCTAAG
44382057 GGGTACCCTCGATAAGAATTGACAAATTAATGAATCGTACACCTCGAGTGTACTACTTGAGCCTT
1 GGGTACCCTCGATAAGAATTGACAAATTAATGAATCGTACACCTCGAGTGTACTACTTGAGCCTT
44382122 CATTAGAATTTCAATAATTCAATGGACATATAACTCTTGACTTGGCATGAAAATCTTGAGATAAA
66 CATTAGAATTTCAATAATTCAATGGACATATAACTCTTGACTTGGCATGAAAATCTTGAGATAAA
*
44382187 ATGATAATGACTTGAAAGAACATTGCTTGATGAGCACATCTATGTTACTTGATTTATATGAATAG
131 ATGATAATGACTTGAAAGAACATTGCTTGATGAGCACATCTATGTTACTTGATTTATATAAATAG
44382252 TTA
196 TTA
*
44382255 GGGTACCCTCGATAAGAATTGACAGATTAATGAATCGTACACCTCGAGTGTACTACTTGAGCCTT
1 GGGTACCCTCGATAAGAATTGACAAATTAATGAATCGTACACCTCGAGTGTACTACTTGAGCCTT
44382320 CATTAGAATTTCAATAATTCAATGGACATATAACTCTTGACTTGGCATGAAAATCTTGAGATAAA
66 CATTAGAATTTCAATAATTCAATGGACATATAACTCTTGACTTGGCATGAAAATCTTGAGATAAA
44382385 ATGATAATGACTTGAAAGAACATTGCTTGATGAGCACATCTATGTTACTTGATTTATATAAATAG
131 ATGATAATGACTTGAAAGAACATTGCTTGATGAGCACATCTATGTTACTTGATTTATATAAATAG
44382450 TT
196 TT
44382452 GGTGACTAAC
Statistics
Matches: 195, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
198 195 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (198 bp):
GGGTACCCTCGATAAGAATTGACAAATTAATGAATCGTACACCTCGAGTGTACTACTTGAGCCTT
CATTAGAATTTCAATAATTCAATGGACATATAACTCTTGACTTGGCATGAAAATCTTGAGATAAA
ATGATAATGACTTGAAAGAACATTGCTTGATGAGCACATCTATGTTACTTGATTTATATAAATAG
TTA
Found at i:44383558 original size:12 final size:12
Alignment explanation
Indices: 44383541--44383567 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44383531 GACTTGCATG
44383541 AATTAATTGAAA
1 AATTAATTGAAA
44383553 AATTAATTGAAA
1 AATTAATTGAAA
44383565 AAT
1 AAT
44383568 GTTCTAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
AATTAATTGAAA
Found at i:44389907 original size:27 final size:26
Alignment explanation
Indices: 44389863--44389914 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
44389853 CTCGCTGCAA
*
44389863 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
44389890 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
44389915 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:44397313 original size:26 final size:27
Alignment explanation
Indices: 44397284--44397343 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
44397274 CCACATATAT
*
44397284 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* *
44397310 ATATCTGTATCTGGTGACTTTGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
44397337 ATATCTG
1 ATATCTG
44397344 GCAGCCTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:44407213 original size:37 final size:37
Alignment explanation
Indices: 44407158--44407238 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
44407148 TTCCAACTGA
* *
44407158 AACAGACTAGATGCTCATAAGAGCTAATCCACCTAAT
1 AACACACTAGATGCTCATAAGAGCCAATCCACCTAAT
*
44407195 AACACACTAGATGCTCATAAGAGCCAATCCACCTGAT
1 AACACACTAGATGCTCATAAGAGCCAATCCACCTAAT
44407232 AACACAC
1 AACACAC
44407239 CAATAGCTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.19
Consensus pattern (37 bp):
AACACACTAGATGCTCATAAGAGCCAATCCACCTAAT
Found at i:44407254 original size:37 final size:37
Alignment explanation
Indices: 44407149--44407277 Score: 120
Period size: 37 Copynumber: 3.5 Consensus size: 37
44407139 ACATTGATAT
* * * *
44407149 TCCAACTGA-AACAGACTAGATGCTCATAAGAGCTAA
1 TCCACCTGATAACACACCAGATGCTCAGAAGAGCTAA
* * * *
44407185 TCCACCTAATAACACACTAGATGCTCATAAGAGCCAA
1 TCCACCTGATAACACACCAGATGCTCAGAAGAGCTAA
44407222 TCCACCTGATAACACACCA-ATAGCT-ACGAAGAGCTAA
1 TCCACCTGATAACACACCAGAT-GCTCA-GAAGAGCTAA
* * *
44407259 TCCAACTGAAAAGACACCA
1 TCCACCTGATAACACACCA
44407278 TAACAGGGAG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
36 10 0.13
37 69 0.87
ACGTcount: A:0.42, C:0.28, G:0.13, T:0.17
Consensus pattern (37 bp):
TCCACCTGATAACACACCAGATGCTCAGAAGAGCTAA
Found at i:44415978 original size:19 final size:20
Alignment explanation
Indices: 44415935--44415990 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
44415925 ATTGGGTGTT
44415935 GCCCATATTAACACAGTTAG
1 GCCCATATTAACACAGTTAG
* *
44415955 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTAG
* *
44415974 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
44415991 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTAG
Found at i:44418302 original size:3 final size:3
Alignment explanation
Indices: 44418294--44418318 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44418284 ATTTAATTAC
44418294 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
44418319 TTCATAAACA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:44418377 original size:12 final size:12
Alignment explanation
Indices: 44418362--44418386 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44418352 ACAACAAATA
44418362 ATAAAAATTTTC
1 ATAAAAATTTTC
44418374 ATAAAAATTTTC
1 ATAAAAATTTTC
44418386 A
1 A
44418387 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:44426018 original size:43 final size:43
Alignment explanation
Indices: 44425970--44426122 Score: 209
Period size: 43 Copynumber: 3.6 Consensus size: 43
44425960 CGGGCTACGG
** *
44425970 GCCTAGCAGGCTATAATATCGGTGAGATAATATCAGGCTTCGG
1 GCCTAGCAGGCTATAATGCCGGTGAGATAATATCAGGCTTCGA
* *
44426013 GCCTAGAAGGCTATAATGCCGGTGAGATAATATCGGGCTTCGA
1 GCCTAGCAGGCTATAATGCCGGTGAGATAATATCAGGCTTCGA
* * *
44426056 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGCTTCAA
1 GCCTAGCAGGCTATAATGCCGGTGAGATAATATCAGGCTTCGA
* *
44426099 GCCTAGCAGGCGA-AATGTCGGTGA
1 GCCTAGCAGGCTATAATGCCGGTGA
44426123 ATGAGTTTAG
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 10 0.10
43 88 0.90
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAGATAATATCAGGCTTCGA
Found at i:44434206 original size:17 final size:19
Alignment explanation
Indices: 44434177--44434213 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
44434167 TTAGCATTCT
44434177 TACCAAGAGTTCAT-CTCA
1 TACCAAGAGTTCATACTCA
44434195 TACCAA-AGTTCATACTCA
1 TACCAAGAGTTCATACTCA
44434213 T
1 T
44434214 GGGTTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (19 bp):
TACCAAGAGTTCATACTCA
Found at i:44436602 original size:30 final size:30
Alignment explanation
Indices: 44436585--44436666 Score: 164
Period size: 30 Copynumber: 2.7 Consensus size: 30
44436575 TCACACATGG
44436585 TCTAGACACACGCCCGTGTGTCACAAACAA
1 TCTAGACACACGCCCGTGTGTCACAAACAA
44436615 TCTAGACACACGCCCGTGTGTCACAAACAA
1 TCTAGACACACGCCCGTGTGTCACAAACAA
44436645 TCTAGACACACGCCCGTGTGTC
1 TCTAGACACACGCCCGTGTGTC
44436667 TACTCGTGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (30 bp):
TCTAGACACACGCCCGTGTGTCACAAACAA
Found at i:44440754 original size:48 final size:47
Alignment explanation
Indices: 44440646--44440913 Score: 256
Period size: 48 Copynumber: 5.7 Consensus size: 47
44440636 CGATATGTGT
* * ** *
44440646 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCC-ACA-ATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATTA-A
** * *
44440692 GCCGGTGTAAGACATGTCTTGGACATGCATCGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATA-TTAA
*
44440740 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATA-TTAA
* * * * *
44440788 GCCAGTGTAAGACATGTCAGGGACATGCATCGGCATTGAGACGA--GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGA-TATTAA
* * * **
44440834 GCTAGTGTAAGACATGTCTGGGACATGAATCAGCCTTGCGATAGACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATA-TTAA
* *
44440882 GCTAGTGTAAGACCTGTCTAGGACATGGCATC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATC
44440914 ATCTTGTTGT
Statistics
Matches: 184, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.01
46 66 0.36
47 1 0.01
48 109 0.59
49 7 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATTAA
Found at i:44440870 original size:94 final size:94
Alignment explanation
Indices: 44440646--44440913 Score: 271
Period size: 94 Copynumber: 2.8 Consensus size: 94
44440636 CGATATGTGT
* *
44440646 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCC--ACAATATGAGAGCCGGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTACAATATGAGAGCCAGTGTAAGACATGT
** * *
44440709 CTTGGACATGCATCGGCCTCGAGATATTTAA
66 CAGGGACATGCATCGGCATCGAGAGA--TAA
* *
44440740 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTA-AGATATTTA-AGCCAGTGTAAGACAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTACA-ATA-TGAGAGCCAGTGTAAGACAT
* *
44440803 GTCAGGGACATGCATCGGCATTGAGACGA-GA
64 GTCAGGGACATGCATCGGCATCGAGA-GATAA
* * * * * *
44440834 GCTAGTGTAAGACATGTCTGGGACATGAATCAGCCTTGCGATA-GACAAGCTAGTGTAAGACCTG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTACAATATGA-GAGCCAGTGTAAGACATG
44440898 TCTA-GGACATGGCATC
65 TC-AGGGACAT-GCATC
44440914 ATCTTGTTGT
Statistics
Matches: 147, Mismatches: 17, Indels: 19
0.80 0.09 0.10
Matches are distributed among these distances:
92 1 0.01
94 95 0.65
95 7 0.05
96 41 0.28
97 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTACAATATGAGAGCCAGTGTAAGACATGT
CAGGGACATGCATCGGCATCGAGAGATAA
Found at i:44447796 original size:17 final size:19
Alignment explanation
Indices: 44447767--44447803 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
44447757 TTAGCATTCT
44447767 TACCAAGAGTTCAT-CTCA
1 TACCAAGAGTTCATACTCA
44447785 TACCAA-AGTTCATACTCA
1 TACCAAGAGTTCATACTCA
44447803 T
1 T
44447804 GGGTTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (19 bp):
TACCAAGAGTTCATACTCA
Found at i:44450611 original size:47 final size:47
Alignment explanation
Indices: 44450557--44450749 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
44450547 TTAGAATTTT
** * *
44450557 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
44450604 ATGTGATGAATGTGAACATGCATATAGGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
44450651 ATGTGATGAATGTGAGC-TGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
44450697 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44450744 ATGTGA
1 ATGTGA
44450750 AATATGTATG
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 41 0.32
47 88 0.68
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:44450698 original size:93 final size:94
Alignment explanation
Indices: 44450557--44450749 Score: 282
Period size: 93 Copynumber: 2.1 Consensus size: 94
44450547 TTAGAATTTT
* *
44450557 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
*
44450622 TGCATATAGGTGATAAGGCCGAATGGCCA
66 TGCATATAGGTGATAAAGCCGAATGGCCA
* * *
44450651 ATGTGATGAATGTG-A-GCTGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 ATGTGATGAATGTGAATG-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAAC
* * *
44450714 ATGCATATATGTGGTAAAGCCGAATGGCTA
65 ATGCATATAGGTGATAAAGCCGAATGGCCA
44450744 ATGTGA
1 ATGTGA
44450750 AATATGTATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.83
94 14 0.16
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
TGCATATAGGTGATAAAGCCGAATGGCCA
Found at i:44450802 original size:93 final size:95
Alignment explanation
Indices: 44450575--44450901 Score: 269
Period size: 93 Copynumber: 3.4 Consensus size: 95
44450565 AATGTGAATG
* * * * *
44450575 TGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATAGGTGATAAGG
1 TGTATATATGAGATAAAGCCGAATGGCCAATGTGA--AATATGAACATGCATATATGTGGTAAAG
* * *
44450640 CCGAATGGCCAATGTGATGA-ATG--TGAG--C
64 CCGAATGGCTAATGTGA-AATATGTATGAGATA
* * * * *
44450668 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAG
1 TGTATATATGAGATAAAGCCGAATGGCCAATGT-G-AAATATGAACATGCATATATGTGGTAAAG
44450733 CCGAATGGCTAATGTGAAATATGTATGAGATA
64 CCGAATGGCTAATGTGAAATATGTATGAGATA
* * * ***
44450765 TGTATATATG-G-TAAAGCTGAATGGCTAATGTGAAATATGTATGAGATGTGCATATGTGGTAAA
1 TGTATATATGAGATAAAGCCGAATGGCCAATGTGAAATATG-A--ACATGCATATATGTGGTAAA
* *
44450828 GCTGAATGG-TCAATGTGAAATATATATATGAGATA
63 GCCGAATGGCT-AATGTG-AA-ATATGTATGAGATA
* * *
44450863 TGTATATGTG-G-TAAAGCCGAATGGCTAGTGTGAAATATG
1 TGTATATATGAGATAAAGCCGAATGGCCAATGTGAAATATG
44450902 TAGGCGATGT
Statistics
Matches: 195, Mismatches: 26, Indels: 21
0.81 0.11 0.09
Matches are distributed among these distances:
92 1 0.01
93 79 0.41
94 3 0.02
95 22 0.11
96 31 0.16
97 10 0.05
98 49 0.25
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (95 bp):
TGTATATATGAGATAAAGCCGAATGGCCAATGTGAAATATGAACATGCATATATGTGGTAAAGCC
GAATGGCTAATGTGAAATATGTATGAGATA
Found at i:44450886 original size:98 final size:96
Alignment explanation
Indices: 44450720--44450913 Score: 291
Period size: 98 Copynumber: 2.0 Consensus size: 96
44450710 GAACATGCAT
* *
44450720 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATATGGTAAAGCTGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATATGGTAAAGCCGA
*
44450785 ATGGCTAATGTGAAATATGTATGAGATGTGC
66 ATGGCTAATGTGAAATATGTAGGAGATGTGC
* *
44450816 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATATGGTAAAGC
* *
44450880 CGAATGGCTAGTGTGAAATATGTAGGCGATGTGC
63 CGAATGGCTAATGTGAAATATGTAGGAGATGTGC
44450914 GTATATTGTG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.30
97 2 0.02
98 59 0.67
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATATGGTAAAGCCGA
ATGGCTAATGTGAAATATGTAGGAGATGTGC
Found at i:44450919 original size:50 final size:48
Alignment explanation
Indices: 44450719--44450903 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
44450709 TGAACATGCA
44450719 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
44450767 TATATATGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
44450815 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
44450865 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
44450904 GGCGATGTGC
Statistics
Matches: 122, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
47 1 0.01
48 77 0.63
49 4 0.03
50 39 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:44451164 original size:36 final size:37
Alignment explanation
Indices: 44451049--44451191 Score: 216
Period size: 37 Copynumber: 3.9 Consensus size: 37
44451039 GAAATATATT
*
44451049 CGGGTAAGACCCGATAACTACGTGTGGGGATTTTGTC
1 CGGGTAAGACCCGATAACTACGTGTGGAGATTTTGTC
** * *
44451086 CGGGTAAGACTTGATGATTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATAACTACGTGTGGAGATTTTGTC
*
44451123 CGGGTAAGACCCGATGACTACGTGTGGAGA-TTTGTC
1 CGGGTAAGACCCGATAACTACGTGTGGAGATTTTGTC
*
44451159 CGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATAACTACGTGTGGAGATTT
44451192 CGTCTGAGCT
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 34 0.36
37 61 0.64
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (37 bp):
CGGGTAAGACCCGATAACTACGTGTGGAGATTTTGTC
Found at i:44452522 original size:40 final size:40
Alignment explanation
Indices: 44452463--44452851 Score: 535
Period size: 40 Copynumber: 9.7 Consensus size: 40
44452453 GAGAATTGAG
* *
44452463 AGTGATATATCCGGGCTAAGTCCCGAAGGGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
44452503 AGTGATATATCCGGCCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
44452543 AGTGATATATCCGGTCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
44452583 AGTGATGTATCCGGACTAAGTTCCGAAGGGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
44452623 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
44452663 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
44452703 AGTGATATATCTGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
44452743 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
44452783 AGTGATATATCCGTGTTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
44452823 GGTGTTATATCCGGGCTAGGTCTCGAAGA
1 AGTGATATATCCGGGCTAAGTCCCGAAGA
44452852 ACAATCATGC
Statistics
Matches: 303, Mismatches: 46, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 303 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:44456140 original size:46 final size:46
Alignment explanation
Indices: 44456090--44456262 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
44456080 TGGTTGAGCA
*
44456090 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
44456136 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
44456183 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
44456229 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44456263 GGGGTGGGTT
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:44456246 original size:93 final size:93
Alignment explanation
Indices: 44456087--44456257 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
44456077 GGATGGTTGA
* *
44456087 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44456152 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
44456180 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44456245 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44456258 ACTTAGGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44459645 original size:47 final size:47
Alignment explanation
Indices: 44459591--44459781 Score: 265
Period size: 47 Copynumber: 4.1 Consensus size: 47
44459581 TTAGGATTTT
** * *
44459591 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
44459638 ATGTGATGAATGTGAACATGCATATAGGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
44459685 ATGTGATGAATGTGAGCCTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
44459732 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44459779 ATG
1 ATG
44459782 CGAAATATGT
Statistics
Matches: 127, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 127 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:44459908 original size:98 final size:96
Alignment explanation
Indices: 44459755--44459948 Score: 300
Period size: 98 Copynumber: 2.0 Consensus size: 96
44459745 GAACATGCAT
*
44459755 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
*
44459820 ATGGCTAATGTGAAATATGTATGAGATGTGC
66 ATGGCTAATGTGAAATATGTAGGAGATGTGC
* *
44459851 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGCG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
* *
44459915 CGAATGGCTAGTGTGAAATATGTAGGCGATGTGC
63 CGAATGGCTAATGTGAAATATGTAGGAGATGTGC
44459949 GTATATTGTG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 25 0.28
97 2 0.02
98 61 0.69
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTAGGAGATGTGC
Found at i:44459954 original size:50 final size:48
Alignment explanation
Indices: 44459754--44459938 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
44459744 TGAACATGCA
*
44459754 TATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
44459802 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
44459850 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
44459900 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
44459939 GGCGATGTGC
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
47 1 0.01
48 78 0.63
49 4 0.03
50 39 0.32
51 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:44460201 original size:36 final size:37
Alignment explanation
Indices: 44460084--44460228 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
44460074 GGAAATATAT
44460084 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
44460121 TCCGGGTAAGACCCGATGATTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
44460158 TCCGGGTAAGACCCGATGACTACGTGTGGAGA-TTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
44460194 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
44460229 CGTCTGAGCT
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
36 34 0.34
37 67 0.66
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:44481517 original size:19 final size:20
Alignment explanation
Indices: 44481495--44481539 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
44481485 CTGTTTTATT
44481495 ATGGGCC-AACTGTATTAAA
1 ATGGGCCTAACTGTATTAAA
* *
44481514 ATGGGCCTAACTGTGTTAAT
1 ATGGGCCTAACTGTATTAAA
44481534 ATGGGC
1 ATGGGC
44481540 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (20 bp):
ATGGGCCTAACTGTATTAAA
Found at i:44481669 original size:28 final size:28
Alignment explanation
Indices: 44481568--44481672 Score: 88
Period size: 28 Copynumber: 3.6 Consensus size: 28
44481558 ACTTGTAATA
* *
44481568 GGGCTACGGCCCAGACTGATACTGATAT
1 GGGCTAAGGCCCAGATTGATACTGATAT
*
44481596 GGGCT-AGGCCCAGTATGCTCTGATATTG-TAAT
1 GGGCTAAGGCCCAG-A---T-TGATACTGAT-AT
* *
44481628 AGGGCTATGGCCCAGATTAATACTGATAT
1 -GGGCTAAGGCCCAGATTGATACTGATAT
44481657 GGGCTAAGGCCCAGAT
1 GGGCTAAGGCCCAGAT
44481673 AACTCTGATT
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
27 7 0.11
28 21 0.34
29 8 0.13
30 2 0.03
31 1 0.02
32 9 0.15
33 6 0.10
34 7 0.11
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTGATACTGATAT
Found at i:44481695 original size:62 final size:61
Alignment explanation
Indices: 44481560--44481704 Score: 188
Period size: 61 Copynumber: 2.4 Consensus size: 61
44481550 ATATCTCGAC
* * *
44481560 TTGTAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATA
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACTCTGATA
*
44481621 TTGTAATAGGGCTATGGCCCAGATTAATACTGATATGGGCTAAGGCCCAG-ATAACTCTGAT-
1 TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACTCTGATA
*
44481682 TTCTGAATAGGGCT-TAGGCCCAG
1 TTGT-AATAGGGCTAT-GGCCCAG
44481705 TAAAGCTTGA
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
61 44 0.59
62 31 0.41
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (61 bp):
TTGTAATAGGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACTCTGATA
Found at i:44485841 original size:17 final size:17
Alignment explanation
Indices: 44485819--44485851 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44485809 GTAGGTTTTC
44485819 AAAATGGAAATGGAAAT
1 AAAATGGAAATGGAAAT
44485836 AAAATGGAAATGGAAA
1 AAAATGGAAATGGAAA
44485852 CTAGCAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (17 bp):
AAAATGGAAATGGAAAT
Found at i:44486025 original size:25 final size:26
Alignment explanation
Indices: 44485991--44486051 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
44485981 ACATATTTTC
44485991 TCAAAATTTTA-AAG-GAGTAAAATCG
1 TCAAAATTTTACAAGAG-GTAAAATCG
*
44486016 TCAAAATTTTACAATAGGTAAAATCG
1 TCAAAATTTTACAAGAGGTAAAATCG
*
44486042 TCAAATTTTT
1 TCAAAATTTT
44486052 GTTGGGGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 11 0.34
26 20 0.62
27 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACAAGAGGTAAAATCG
Found at i:44489373 original size:19 final size:19
Alignment explanation
Indices: 44489349--44489388 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44489339 TATGTCATCA
*
44489349 TAAATTCATAGGCATAACT
1 TAAATTCATAAGCATAACT
* *
44489368 TAAATTTATAAGCATGACT
1 TAAATTCATAAGCATAACT
44489387 TA
1 TA
44489389 TACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAAGCATAACT
Found at i:44491969 original size:48 final size:48
Alignment explanation
Indices: 44491898--44492227 Score: 304
Period size: 48 Copynumber: 6.9 Consensus size: 48
44491888 TAAATTGCCA
* * * * * *
44491898 ATGCCATGTCCGAGACATGGTCTTACACTGGCT-TACATGTCGAGGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCT-CATATCAAGGCCG
* * * *
44491946 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCG
* * * * *
44491994 ATGCTATGTTCCAAACATGGTCTTACACTAACTCTCATATTATGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCG
* * * **
44492042 ACGCCATGTCCCAAACATGGTCTTACACTAGCGCGCATATCAACACCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCG
* * * **
44492090 ATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAACGTTG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCG
* * * * * **
44492138 ATGTCATGTTCCAGACATAGTCTTACACTGGCTCTCATAAT-GTGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-ATCAAGGCCG
* * * *
44492186 ATGCCATGTTCCAAATATGGTCTTACACTAGCACACATATCA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
44492228 CTCAAATGTC
Statistics
Matches: 228, Mismatches: 51, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
47 2 0.01
48 223 0.98
49 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAGGCCG
Found at i:44492161 original size:144 final size:144
Alignment explanation
Indices: 44491944--44492227 Score: 381
Period size: 144 Copynumber: 2.0 Consensus size: 144
44491934 ATGTCGAGGT
* * * * * *
44491944 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCTATGTTCCAAA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAACGCCGATGCTATGTTCCAAA
* *
44492009 CATGGTCTTACACTAACTCTCATATTATGGCCGACGCCATGTCCCAAACATGGTCTTACACTAGC
66 CATAGTCTTACACTAACTCTCATAATATGGCCGACGCCATGTCCCAAACATGGTCTTACACTAGC
* *
44492074 GCGCATATCAACAC
131 ACACATATCAACAC
** *
44492088 CGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAACGTTGATG-TCATGTTCCAG
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAACGCCGATGCT-ATGTTCCAA
** * * * *
44492152 ACATAGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTTCCAAATATGGTCTTACACTAG
65 ACATAGTCTTACACTAACTCTCATAATATGGCCGACGCCATGTCCCAAACATGGTCTTACACTAG
44492217 CACACATATCA
130 CACACATATCA
44492228 CTCAAATGTC
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
143 1 0.01
144 119 0.99
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (144 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAACGCCGATGCTATGTTCCAAA
CATAGTCTTACACTAACTCTCATAATATGGCCGACGCCATGTCCCAAACATGGTCTTACACTAGC
ACACATATCAACAC
Found at i:44494654 original size:21 final size:22
Alignment explanation
Indices: 44494624--44494665 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
44494614 TAGTAAAAGT
44494624 CATTTCTCTAACCA-TAAACATG
1 CATTTCTCT-ACCATTAAACATG
44494646 CATTT-TCTACCATTAAACAT
1 CATTTCTCTACCATTAAACAT
44494666 CAGAATACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (22 bp):
CATTTCTCTACCATTAAACATG
Found at i:44498502 original size:3 final size:3
Alignment explanation
Indices: 44498490--44498522 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
44498480 ATATAACCAT
*
44498490 TTC TTC -TC TTC TTC TTC TTC TTC TTT TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
44498523 ATTGCCTAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:44515557 original size:12 final size:12
Alignment explanation
Indices: 44515540--44515595 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
44515530 CTCTCTCAAA
44515540 CTCTTTTTCATT
1 CTCTTTTTCATT
44515552 CTCTTTTTCAATT
1 CTCTTTTTC-ATT
*
44515565 -TCTTTTTCAAT
1 CTCTTTTTCATT
* *
44515576 CTCATTTTCACT
1 CTCTTTTTCATT
44515588 CTCTTTTT
1 CTCTTTTT
44515596 GTTCTTTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 2 0.05
12 33 0.87
13 3 0.08
ACGTcount: A:0.12, C:0.25, G:0.00, T:0.62
Consensus pattern (12 bp):
CTCTTTTTCATT
Found at i:44515567 original size:36 final size:36
Alignment explanation
Indices: 44515527--44515595 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
44515517 TCAACTTCTT
* *
44515527 TTTCTCTCTCAAACTCTTTTTCATTCTCTTTTTCAA
1 TTTCTCTCTCAAACTCATTTTCACTCTCTTTTTCAA
* * *
44515563 TTTCTTTTTCAATCTCATTTTCACTCTCTTTTT
1 TTTCTCTCTCAAACTCATTTTCACTCTCTTTTT
44515596 GTTCTTTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.59
Consensus pattern (36 bp):
TTTCTCTCTCAAACTCATTTTCACTCTCTTTTTCAA
Found at i:44515568 original size:24 final size:24
Alignment explanation
Indices: 44515535--44515595 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
44515525 TTTTTCTCTC
* * *
44515535 TCAAACTCTTTTTCATTCTCTTTT
1 TCAATCTCTTTTTCAATCTCATTT
*
44515559 TCAATTTCTTTTTCAATCTCATTT
1 TCAATCTCTTTTTCAATCTCATTT
*
44515583 TCACTCTCTTTTT
1 TCAATCTCTTTTT
44515596 GTTCTTTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (24 bp):
TCAATCTCTTTTTCAATCTCATTT
Found at i:44516636 original size:10 final size:10
Alignment explanation
Indices: 44516623--44516648 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
44516613 TTTAACACAA
44516623 TTTTTTGAAT
1 TTTTTTGAAT
44516633 TTTTTTGAAT
1 TTTTTTGAAT
44516643 TTTTTT
1 TTTTTT
44516649 ACTTATGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (10 bp):
TTTTTTGAAT
Found at i:44519283 original size:28 final size:28
Alignment explanation
Indices: 44519229--44519283 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
44519219 GCAGGGGTTT
*
44519229 TCACACGGCCTGACACATGCCCGTGTCCC
1 TCACACGGCCTGA-ACATGCCCATGTCCC
44519258 TCACACGGCCATG-ACATGCCCATGTC
1 TCACACGGCC-TGAACATGCCCATGTC
44519284 TAAAAACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 12 0.50
29 10 0.42
30 2 0.08
ACGTcount: A:0.20, C:0.42, G:0.20, T:0.18
Consensus pattern (28 bp):
TCACACGGCCTGAACATGCCCATGTCCC
Found at i:44528194 original size:14 final size:14
Alignment explanation
Indices: 44528175--44528212 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
44528165 TACAGAACAT
44528175 GCATTCTATCCTCA
1 GCATTCTATCCTCA
*
44528189 GCATTCTATCCTTA
1 GCATTCTATCCTCA
44528203 GCATTC-ATCC
1 GCATTCTATCC
44528213 ATACATTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (14 bp):
GCATTCTATCCTCA
Found at i:44536993 original size:27 final size:27
Alignment explanation
Indices: 44536975--44537219 Score: 355
Period size: 27 Copynumber: 9.1 Consensus size: 27
44536965 TTGTAAAATG
*
44536975 ACCATTTTACCCTCGATTTACAGAATT
1 ACCATTTTACCCTCGATTTATAGAATT
*** *
44537002 ATTGTTTTATCCTCGATTTATAGAATT
1 ACCATTTTACCCTCGATTTATAGAATT
*
44537029 ACCATTTTGCCCTCGATTTATAGAATT
1 ACCATTTTACCCTCGATTTATAGAATT
* *
44537056 ACCGTTTTACCCTCGATTTACAGAATT
1 ACCATTTTACCCTCGATTTATAGAATT
44537083 ACCATTTTACCCTCGATTTATAGAATT
1 ACCATTTTACCCTCGATTTATAGAATT
* *
44537110 ACCGTTTTACCCTCGATTTACAGAATT
1 ACCATTTTACCCTCGATTTATAGAATT
* *
44537137 ACTATTTTACCCTTGATTTATAGAATT
1 ACCATTTTACCCTCGATTTATAGAATT
*
44537164 ACCATTTTACCCTCGATTTATAAAATT
1 ACCATTTTACCCTCGATTTATAGAATT
* *
44537191 ACCATTTTACCCTCTATTTACAGAATT
1 ACCATTTTACCCTCGATTTATAGAATT
44537218 AC
1 AC
44537220 TGTTTTATGC
Statistics
Matches: 191, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 191 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
ACCATTTTACCCTCGATTTATAGAATT
Found at i:44537079 original size:81 final size:81
Alignment explanation
Indices: 44536979--44537246 Score: 383
Period size: 81 Copynumber: 3.3 Consensus size: 81
44536969 AAAATGACCA
*** * *
44536979 TTTTACCCTCGATTTACAGAATTATTGTTTTATCCTCGATTTATAGAATTACCATTTTGCCCTCG
1 TTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
* *
44537044 ATTTATAGAATTACCG
66 ATTTACAGAATTACTG
*
44537060 TTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCG
1 TTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
*
44537125 ATTTACAGAATTACTA
66 ATTTACAGAATTACTG
* * * *
44537141 TTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCT
1 TTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
44537206 ATTTACAGAATTACTG
66 ATTTACAGAATTACTG
** * *
44537222 TTTTATGCTCAATTTACAAAATTAC
1 TTTTACCCTCGATTTACAGAATTAC
44537247 TAAAATACCC
Statistics
Matches: 166, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 166 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (81 bp):
TTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
ATTTACAGAATTACTG
Found at i:44537264 original size:27 final size:27
Alignment explanation
Indices: 44537234--44537413 Score: 170
Period size: 27 Copynumber: 6.7 Consensus size: 27
44537224 TTATGCTCAA
* * * *
44537234 TTTACAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTAG
* *
44537261 TTTACAAAATTACCAAAATA-CCCTCG
1 TTTATAAAATTACCAAAATACCCCTAG
* *
44537287 ATCAGTAAAATTACCAAAATACCCCTAG
1 TTTA-TAAAATTACCAAAATACCCCTAG
* * *
44537315 TTTATAAAATTA-C-TAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTAG
44537340 TTTATAAAATTACCAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCCTAG
* *
44537367 CTTGTAAAATTACCAAAATACCCCT-G
1 TTTATAAAATTACCAAAATACCCCTAG
* * *
44537393 ATTTGTGAAATTATCAAAATA
1 -TTTATAAAATTACCAAAATA
44537414 TTCTCGATTT
Statistics
Matches: 128, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
25 21 0.16
26 9 0.07
27 91 0.71
28 7 0.05
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTAG
Found at i:44537283 original size:81 final size:81
Alignment explanation
Indices: 44537038--44537288 Score: 214
Period size: 81 Copynumber: 3.1 Consensus size: 81
44537028 TACCATTTTG
* ** * * ***
44537038 CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTA
* * ****
44537103 TAGAATTACCGTTTTA
66 CAAAATTACCAAAATA
** * * ***
44537119 CCCTCGATTTACAGAATTACTATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTA
1 CCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTA
* ***
44537184 TAAAATTACCATTTTA
66 CAAAATTACCAAAATA
* * ** * * *
44537200 CCCTCTATTTACAGAATTACTGTTTTATGCTCAATTTACAAAATTACTAAAATACCCTTGGTTTA
1 CCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTA
44537265 CAAAATTACCAAAATA
66 CAAAATTACCAAAATA
44537281 CCCTCGAT
1 CCCTCGAT
44537289 CAGTAAAATT
Statistics
Matches: 144, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 144 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTA
CAAAATTACCAAAATA
Found at i:44537355 original size:52 final size:52
Alignment explanation
Indices: 44537234--44537389 Score: 170
Period size: 52 Copynumber: 2.9 Consensus size: 52
44537224 TTATGCTCAA
* * * * *
44537234 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCG
1 TTTATAAAATTACCAAAATACCCCTAGTTTATAAAATTA-CAAAATACCCTCG
* * * *
44537287 ATCAGTAAAATTACCAAAATACCCCTAGTTTATAAAATTAC-TAATACCCTTGG
1 TTTA-TAAAATTACCAAAATACCCCTAGTTTATAAAATTACAAAATACCC-TCG
* *
44537340 TTTATAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAATACCC
1 TTTATAAAATTACCAAAATACCCCTAGTTTATAAAATTA-CAAAATACCC
44537390 CTGATTTGTG
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
52 40 0.47
53 8 0.09
54 37 0.44
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.29
Consensus pattern (52 bp):
TTTATAAAATTACCAAAATACCCCTAGTTTATAAAATTACAAAATACCCTCG
Found at i:44537405 original size:79 final size:80
Alignment explanation
Indices: 44537234--44537391 Score: 239
Period size: 79 Copynumber: 2.0 Consensus size: 80
44537224 TTATGCTCAA
* *
44537234 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATT
1 TTTATAAAATTACT-AAATACCCTTGGTTTACAAAATTACCAAAATACCCTAGATCAGTAAAATT
44537299 ACCAAAATACCCCTAG
65 ACCAAAATACCCCTAG
* * *
44537315 TTTATAAAATTACT-AATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGCT-TGTAAAATT
1 TTTATAAAATTACTAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTAGATCAGTAAAATT
44537378 ACCAAAATACCCCT
65 ACCAAAATACCCCT
44537392 GATTTGTGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
79 52 0.73
80 6 0.08
81 13 0.18
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.30
Consensus pattern (80 bp):
TTTATAAAATTACTAAATACCCTTGGTTTACAAAATTACCAAAATACCCTAGATCAGTAAAATTA
CCAAAATACCCCTAG
Found at i:44537473 original size:27 final size:27
Alignment explanation
Indices: 44537433--44537676 Score: 344
Period size: 27 Copynumber: 9.0 Consensus size: 27
44537423 TGTAAAATAT
44537433 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
44537460 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
44537487 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
44537514 CGAAATAACCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
44537541 CGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
44537568 TGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
44537595 CGAAATACCCTTATAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
44537622 CGAAATACCCCTATAAGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
44537649 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
44537676 C
1 C
44537677 ATTTTGCCCC
Statistics
Matches: 195, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 195 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:44537956 original size:24 final size:25
Alignment explanation
Indices: 44537880--44537949 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
44537870 AGGAAGTGCT
* * * * *
44537880 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCTAGTTTATCA
44537905 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTATCA
44537930 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCTAGTT
44537950 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTATCA
Found at i:44537962 original size:24 final size:25
Alignment explanation
Indices: 44537905--44537962 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
44537895 CAATTTACCG
44537905 AAAAG-GGCTTTGCCCTAGTTTATC
1 AAAAGAGGCTTTGCCCTAGTTTATC
*
44537929 AAAA-AGGGCTTTGCCCTAG-TTATT
1 AAAAGA-GGCTTTGCCCTAGTTTATC
44537953 AAAAGAGGCT
1 AAAAGAGGCT
44537963 AGGCCTCCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCTAGTTTATC
Found at i:44540181 original size:26 final size:25
Alignment explanation
Indices: 44540152--44540208 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
44540142 CTATCTTAAC
* *
44540152 AAAGAAGAA-GAGAACATTTAGACTAG
1 AAAGAAGAACCAGAACATTGAG-C-AG
*
44540178 AAAGACGAACCAGAACATTGAGCAG
1 AAAGAAGAACCAGAACATTGAGCAG
44540203 AAAGAA
1 AAAGAA
44540209 AAATGATCCG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 7 0.27
26 9 0.35
27 10 0.38
ACGTcount: A:0.54, C:0.12, G:0.23, T:0.11
Consensus pattern (25 bp):
AAAGAAGAACCAGAACATTGAGCAG
Found at i:44542164 original size:28 final size:28
Alignment explanation
Indices: 44542128--44542206 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
44542118 TGGTATCCAC
* *
44542128 CACCAGTACATAGTACCTGGAAATATAT
1 CACCGGTACATAGTACCTGGAAATATAA
* * * * *
44542156 CACCGGTACAGAGTGCTTGGAATTGTAA
1 CACCGGTACATAGTACCTGGAAATATAA
* *
44542184 CATCGGTACATAATACCTGGAAA
1 CACCGGTACATAGTACCTGGAAA
44542207 CTGTAATAAT
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (28 bp):
CACCGGTACATAGTACCTGGAAATATAA
Found at i:44545372 original size:48 final size:48
Alignment explanation
Indices: 44545301--44545393 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
44545291 GTTATGTGTG
*
44545301 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATATTTC
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGACATCGATATTTC
* * *
44545349 ATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATTGATAT
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGACATCGATAT
44545394 GAGACATCGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (48 bp):
ATCCCATGTAAGACCATATCTGGGACATGGCATTGACATCGATATTTC
Found at i:44545407 original size:48 final size:47
Alignment explanation
Indices: 44545304--44545419 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 47
44545294 ATGTGTGATC
* **
44545304 CCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATATTTCAT
1 CCATGTAAGACCATATCTGGGACATGGCATTGACATCGATATGACAT
* * *
44545351 CCCATGTAAGACCATATCTGGGATATGGCATTGGCATTGATATGAGACAT
1 -CCATGTAAGACCATATCTGGGACATGGCATTGACATCGATAT--GACAT
* *
44545401 -CGTGTAAGACCATAGCTGG
1 CCATGTAAGACCATATCTGG
44545420 TCTATCAGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 55 0.95
50 3 0.05
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (47 bp):
CCATGTAAGACCATATCTGGGACATGGCATTGACATCGATATGACAT
Found at i:44549380 original size:40 final size:40
Alignment explanation
Indices: 44549321--44549546 Score: 272
Period size: 40 Copynumber: 5.8 Consensus size: 40
44549311 CGGATATAAC
* * *
44549321 CACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* *
44549360 CACTAGCATAAATGCCTTCGGGACTTAGCCCGG-ATATAG-
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
44549399 CAACTCGCACAAATGCCTTCGGGACTTAG-CCGGAATTAGT
1 C-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
*
44549439 AACTCGCACAAATGCCTTCGGGACTTAG-CCGGAATTAGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
*
44549478 -A-TCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAAT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* * *
44549516 CACTAGCACAAATGTCTTC-GGACTTAACCCG
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCG
44549547 TTAGTATCGA
Statistics
Matches: 168, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
37 25 0.15
38 11 0.07
39 65 0.39
40 67 0.40
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
Found at i:44549432 original size:79 final size:79
Alignment explanation
Indices: 44549297--44549541 Score: 306
Period size: 79 Copynumber: 3.2 Consensus size: 79
44549287 ACCCAAGTAT
* * * * * *
44549297 CTTCGGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGT
1 CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
*
44549360 CACTAGCATAAATGC
65 CACTAGCACAAATGC
44549375 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAG-CCGGAATTAGT
1 CTTCGGGACTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
44549439 AACTCGCACAAATGC
65 CACTAGCACAAATGC
* *
44549454 CTTCGGGACTTAGCCGGA-ATTAG-TA-TCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAAT
1 CTTCGGGACTTAGCCGGATA-TAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
*
44549516 CACTAGCACAAATGT
65 CACTAGCACAAATGC
44549531 CTTC-GGACTTA
1 CTTCGGGACTTA
44549542 ACCCGTTAGT
Statistics
Matches: 148, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
76 32 0.22
77 28 0.19
78 20 0.14
79 50 0.34
80 18 0.12
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
ACTAGCACAAATGC
Found at i:44556510 original size:40 final size:40
Alignment explanation
Indices: 44556452--44556716 Score: 338
Period size: 40 Copynumber: 6.7 Consensus size: 40
44556442 GGATATAACC
* * * *
44556452 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * *
44556491 ACTAGCATAAATGCCTTCGGGTCTTAGCCCGG-ATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
44556531 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * * *
44556571 ACTCGCACCAATACCTTTGGGACTTAGCCCGAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
44556611 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
44556651 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* **
44556691 ACTAGCACAAATATCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
44556717 ACCCCGTTAG
Statistics
Matches: 201, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
39 6 0.03
40 193 0.96
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:44558855 original size:53 final size:54
Alignment explanation
Indices: 44558798--44559005 Score: 217
Period size: 53 Copynumber: 3.9 Consensus size: 54
44558788 TTTCCTTTTT
* * * *
44558798 GAACTTACCATTGCCATGTCTTTACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * * *
44558851 GAACTCACCAATGCAATGCCTTGGCATGGTCTTACATGGGA-CTTTTGCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC-CTTGCCTTATA
* * * *
44558905 GTGACTTATCAATGCCATGCCTTGACATTGTCTTACATGAGT-TCCTTACCTTATA
1 G-AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTATCCTTGCCTTATA
* *
44558960 GAACTTATCAATGCCATGCCTT-AGCATGGTCTTACATGATATCCTT
1 GAACTTACCAATGCCATGCCTTGA-CATGGTCTTACATGGTATCCTT
44559006 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
52 1 0.01
53 44 0.35
54 39 0.31
55 41 0.32
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:44558992 original size:54 final size:55
Alignment explanation
Indices: 44558798--44559011 Score: 201
Period size: 54 Copynumber: 4.0 Consensus size: 55
44558788 TTTCCTTTTT
* * * *
44558798 GAACTTACCATTGCCATGTCTTTA-CATGGTCTTACGTG-GTATCCTTGCCTTAT-
1 GAACTTACCAATGCCATG-CCTTAGCATGGTCTTACATGAGTATCCTTACCTTATA
* * * * * *
44558851 GAACTCACCAATGCAATGCCTTGGCATGGTCTTACATG-GGA-CTTTTGCCTTATA
1 GAACTTACCAATGCCATGCCTTAGCATGGTCTTACATGAGTATC-CTTACCTTATA
* * *
44558905 GTGACTTATCAATGCCATGCCTT-GACATTGTCTTACATGAGT-TCCTTACCTTATA
1 G-AACTTACCAATGCCATGCCTTAG-CATGGTCTTACATGAGTATCCTTACCTTATA
* *
44558960 GAACTTATCAATGCCATGCCTTAGCATGGTCTTACATGA-TATCCTTATCTTA
1 GAACTTACCAATGCCATGCCTTAGCATGGTCTTACATGAGTATCCTTACCTTA
44559012 CCAAATGCCA
Statistics
Matches: 133, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
52 4 0.03
53 40 0.30
54 46 0.35
55 41 0.31
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (55 bp):
GAACTTACCAATGCCATGCCTTAGCATGGTCTTACATGAGTATCCTTACCTTATA
Found at i:44558994 original size:109 final size:108
Alignment explanation
Indices: 44558800--44558997 Score: 272
Period size: 108 Copynumber: 1.8 Consensus size: 108
44558790 TCCTTTTTGA
* * * * *
44558800 ACTTACCATTGCCATGTCTTTACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGC
1 ACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATGAACTCACCAATGC
*
44558865 AATGCCTTGGCATGGTCTTACATGGGACTTTTGCCTTATAGTG
66 AATGCCTTAGCATGGTCTTACATGGGACTTTTGCCTTATAGTG
* * * *
44558908 ACTTATCAATGCCATGCCTTGACATTGTCTTACATGAGT-TCCTTACCTTATAGAACTTATCAAT
1 ACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTATCCTTACCTTAT-GAACTCACCAAT
*
44558972 GCCATGCCTTAGCATGGTCTTACATG
64 GCAATGCCTTAGCATGGTCTTACATG
44558998 ATATCCTTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
108 41 0.53
109 36 0.47
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (108 bp):
ACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATGAACTCACCAATGC
AATGCCTTAGCATGGTCTTACATGGGACTTTTGCCTTATAGTG
Found at i:44559264 original size:44 final size:44
Alignment explanation
Indices: 44559198--44559281 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
44559188 TCCTTAACCG
* * *
44559198 TCAATTCCTCCTTAAATGCCATGTTATGAAC-ATGGAATTTTCCA
1 TCAATTCCTCCTTAAATACCATGGTA-CAACTATGGAATTTTCCA
* *
44559242 TCAATTCTTCCTTAATTACCATGGTACAACTATGGAATTT
1 TCAATTCCTCCTTAAATACCATGGTACAACTATGGAATTT
44559282 GAGATATCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATACCATGGTACAACTATGGAATTTTCCA
Found at i:44559866 original size:30 final size:31
Alignment explanation
Indices: 44559821--44559878 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
44559811 CTAACTCAAA
44559821 CTTTAGCAAAATTACAATTTTGCCCCTAAAC
1 CTTTAGCAAAATTACAATTTTGCCCCTAAAC
*
44559852 CTTT-GCAGAATTACAATTTTGCCCCTA
1 CTTTAGCAAAATTACAATTTTGCCCCTA
44559879 GGCTTGGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (31 bp):
CTTTAGCAAAATTACAATTTTGCCCCTAAAC
Found at i:44565075 original size:43 final size:42
Alignment explanation
Indices: 44565027--44565133 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
44565017 ATATCCCTGA
44565027 TATGGTCTTACAAGTGATCTCATATCGATGCCAATAGCCCAGT
1 TATGGTCTTACAAGTGATCTCATATCGATG-CAATAGCCCAGT
* * *
44565070 TATGGTCTTATACAA-AG-TCTCATATCGATGCGATATCCCAGT
1 TATGGTC-T-TACAAGTGATCTCATATCGATGCAATAGCCCAGT
* *
44565112 TATGGTCTTACATGTAATCTCA
1 TATGGTCTTACAAGTGATCTCA
44565134 GTAACCCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
40 4 0.07
41 1 0.02
42 22 0.41
43 20 0.37
44 2 0.04
45 5 0.09
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (42 bp):
TATGGTCTTACAAGTGATCTCATATCGATGCAATAGCCCAGT
Found at i:44565133 original size:42 final size:41
Alignment explanation
Indices: 44565012--44565133 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 41
44565002 TACCATACCA
* * * *
44565012 ATGCCATATCCCTGATATGGTCTTACAAGTGATCTCATATCG
1 ATGCAATATCCCAGTTATGGTCTTAC-AGTAATCTCATATCG
* * **
44565054 ATGCCAATAGCCCAGTTATGGTCTTATACAAAGTCTCATATCG
1 ATG-CAATATCCCAGTTATGGTCTTACAGTAA-TCTCATATCG
*
44565097 ATGCGATATCCCAGTTATGGTCTTACATGTAATCTCA
1 ATGCAATATCCCAGTTATGGTCTTACA-GTAATCTCA
44565134 GTAACCCTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (41 bp):
ATGCAATATCCCAGTTATGGTCTTACAGTAATCTCATATCG
Found at i:44567726 original size:25 final size:25
Alignment explanation
Indices: 44567694--44567744 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
44567684 AAAGGTATAG
44567694 TATGCCTGGTTTGTATGGAATACTA
1 TATGCCTGGTTTGTATGGAATACTA
44567719 TATGCCTGGTTTGTATGGAATACTA
1 TATGCCTGGTTTGTATGGAATACTA
44567744 T
1 T
44567745 CTTAGATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (25 bp):
TATGCCTGGTTTGTATGGAATACTA
Found at i:44579757 original size:19 final size:19
Alignment explanation
Indices: 44579733--44579773 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
44579723 TTGCATATCC
44579733 ACAAAATACAAC-ATCATAA
1 ACAAAATACAACAAT-ATAA
44579752 ACAAAATACAACAATATAA
1 ACAAAATACAACAATATAA
44579771 ACA
1 ACA
44579774 TATAACTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.66, C:0.20, G:0.00, T:0.15
Consensus pattern (19 bp):
ACAAAATACAACAATATAA
Found at i:44580981 original size:51 final size:51
Alignment explanation
Indices: 44580904--44581043 Score: 158
Period size: 51 Copynumber: 2.7 Consensus size: 51
44580894 CGGATGCCTG
* * * *
44580904 GTGGCCTGCGCATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAT
1 GTGGCCTGCACATAGTACCACACTTGTGA-TCAAAGCTACATT-TTACACAAA
* *
44580955 GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATATTTTACACAAA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACATTTTACACAAA
* * * *
44581006 GTGGCCTGCACTTAGTACCACACGTGTGACCGAAGCTA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTA
44581044 TCGGGTATGC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.03
51 73 0.96
52 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACATTTTACACAAA
Found at i:44581140 original size:50 final size:51
Alignment explanation
Indices: 44581053--44581174 Score: 147
Period size: 50 Copynumber: 2.4 Consensus size: 51
44581043 ATCGGGTATG
* *
44581053 CATAGTAGCCTGCACTTAGTACTACACATACGACCT-AACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAAACCATCTGAAACA
* ** * * *
44581103 CGTAGTAGCCTGCACTTAGTACTACACACGTGGCCTAAAACCATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCT-AAACCATCTGAAACA
*
44581155 CATAGTAGCCTGCACATAGT
1 CATAGTAGCCTGCACTTAGT
44581175 TCTATACATG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 31 0.52
52 29 0.48
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACACGACCTAAACCATCTGAAACA
Found at i:44584824 original size:44 final size:44
Alignment explanation
Indices: 44584775--44584860 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
44584765 CCAAAACATG
44584775 TGTCACATATATCATGAACTCAGACCACAACTCATGAGTTCAAA
1 TGTCACATATATCATGAACTCAGACCACAACTCATGAGTTCAAA
*
44584819 TGTCACATATATCATGAACTCAGACCACGACTCATGAGTTCA
1 TGTCACATATATCATGAACTCAGACCACAACTCATGAGTTCA
44584861 GATCACATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (44 bp):
TGTCACATATATCATGAACTCAGACCACAACTCATGAGTTCAAA
Done.