Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 60 of 228
Found at i:17949338 original size:23 final size:23
Alignment explanation
Indices: 17949306--17949353 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
17949296 GGTTGGTTTG
17949306 ATTATATGAGTTAAATTATGTGA
1 ATTATATGAGTTAAATTATGTGA
*
17949329 ATTATGTGAGTTAAATTATGTGA
1 ATTATATGAGTTAAATTATGTGA
17949352 AT
1 AT
17949354 GGTGTTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (23 bp):
ATTATATGAGTTAAATTATGTGA
Found at i:17951414 original size:43 final size:43
Alignment explanation
Indices: 17951351--17951524 Score: 249
Period size: 43 Copynumber: 4.0 Consensus size: 43
17951341 AAGGTCATGC
**
17951351 TTGTGAGAAAAGCGTTGCTAAAGGTCATGGTCTTTAGCGGCGT
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGT
17951394 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGT
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGT
* * * * *
17951437 TTGTGGGAAAAGTGCTGCTAAAGGTCTTGATCTTTAGCGGCGT
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGT
* * * *
17951480 TTGTGGGAAAAGCGCCACTAAAGGTCTTGTTCTTTAGCGGCGT
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGT
17951523 TT
1 TT
17951525 ATTTCTAAAA
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (43 bp):
TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGT
Found at i:17953491 original size:27 final size:25
Alignment explanation
Indices: 17953453--17953521 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 25
17953443 CGTTCTGACC
*
17953453 CACAACTCGTGTGAGCAGGCCCATTTT
1 CACAGCTCGTGTGAGCAGGCCCA--TT
** *
17953480 CACAGCTCGTGTGAGCATTCTCATT
1 CACAGCTCGTGTGAGCAGGCCCATT
*
17953505 CACAGCTTGTGTGAGCA
1 CACAGCTCGTGTGAGCA
17953522 TACATGTGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 18 0.49
27 19 0.51
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCAGGCCCATT
Found at i:17955325 original size:13 final size:13
Alignment explanation
Indices: 17955307--17955338 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17955297 CGCACACGGG
17955307 CGTGTGGCTTGGC
1 CGTGTGGCTTGGC
17955320 CGTGTGGCTTGGC
1 CGTGTGGCTTGGC
*
17955333 TGTGTG
1 CGTGTG
17955339 ACCCCTACAG
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:0.00, C:0.19, G:0.47, T:0.34
Consensus pattern (13 bp):
CGTGTGGCTTGGC
Found at i:17958272 original size:2 final size:2
Alignment explanation
Indices: 17958265--17958294 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17958255 TCTCATAATT
17958265 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
17958295 AAACAGTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:17959454 original size:31 final size:30
Alignment explanation
Indices: 17959405--17959472 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 30
17959395 TTTTTAAATG
* *
17959405 TGTATA-ATTGAATCAAAATAAAAGTTTCT
1 TGTATATATTGAACCAAAATAAAAGTTTCA
**
17959434 TGTATATATATGAACCAAAATTCAAGTTTCA
1 TGTATATAT-TGAACCAAAATAAAAGTTTCA
*
17959465 TGTGTATA
1 TGTATATA
17959473 ATTAAAGTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 6 0.19
30 2 0.06
31 24 0.75
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (30 bp):
TGTATATATTGAACCAAAATAAAAGTTTCA
Found at i:17961698 original size:30 final size:30
Alignment explanation
Indices: 17961664--17961739 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
17961654 TGGTTAATAC
*
17961664 ATCCCTTTTCATAATTCGATAACTAAAGTT
1 ATCCCTTTTCATAATTCGATAACTAAAGCT
* *
17961694 ATCCCTTTTCATAGTTCGATAGCTAAAGCT
1 ATCCCTTTTCATAATTCGATAACTAAAGCT
17961724 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
17961740 TGATGGTCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAACTAAAGCT
Found at i:17961737 original size:60 final size:60
Alignment explanation
Indices: 17961663--17962005 Score: 233
Period size: 60 Copynumber: 5.7 Consensus size: 60
17961653 CTGGTTAATA
* * ** **
17961663 CATCCCTTTTCATAATTCGATAACTAAAGTTATCCCTTTTCATAGTTCGATAGCTAAAGC
1 CATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTTCATAGTTCGATAGCTAAAGC
* * * * * * *
17961723 TATCCCTTTTCATAATTTGATGGTCGTCA-CCATCCCTTTTCATTGTTCGATGGTCGT-CA-C
1 CATCCCTTTTCATAATTTGATAGCCG-AAGCCATCCCTTTTCATAGTTCGATAG-C-TAAAGC
* *
17961783 CATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAGATT-GATAGCCAAAGC
1 CATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTTCATAG-TTCGATAGCTAAAGC
* * *
17961843 CATCCCTTTTCATAGA-TTGATAGCCGAAGTCATCCCTTTTCATAAGTT-GATGGTCGT-CA-C
1 CATCCCTTTTCATA-ATTTGATAGCCGAAGCCATCCCTTTTCAT-AGTTCGATAG-C-TAAAGC
* * * * * * * *
17961903 CATCCCTTTTCATAATTTGATGGTCGTCA-CCATCCTTTTTCATAATTTGATGGTCGT-CA-C
1 CATCCCTTTTCATAATTTGATAGCCG-AAGCCATCCCTTTTCATAGTTCGATAG-C-TAAAGC
* * *
17961963 CATCCATTTTCATAATTTGATAGTC-AAACCTATCCCTTTTCAT
1 CATCCCTTTTCATAATTTGATAGCCGAAGCC-ATCCCTTTTCAT
17962006 TCGTCGATGA
Statistics
Matches: 230, Mismatches: 37, Indels: 32
0.77 0.12 0.11
Matches are distributed among these distances:
58 1 0.00
59 9 0.04
60 208 0.90
61 11 0.05
62 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (60 bp):
CATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTTCATAGTTCGATAGCTAAAGC
Found at i:17961758 original size:30 final size:30
Alignment explanation
Indices: 17961724--17962005 Score: 279
Period size: 30 Copynumber: 9.4 Consensus size: 30
17961714 AGCTAAAGCT
17961724 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
** *
17961754 ATCCCTTTTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * * *
17961784 ATCCCTTTTCATAATTTGATAGCCG-AAGCT
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
* ***
17961814 ATCCCTTTTCATAGA-TTGATAG-CCAAAGCC
1 ATCCCTTTTCATA-ATTTGATGGTCGTCA-CC
* * * *
17961844 ATCCCTTTTCATAGA-TTGATAGCCG-AAGTC
1 ATCCCTTTTCATA-ATTTGATGGTCGTCA-CC
*
17961874 ATCCCTTTTCATAAGTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
17961904 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
*
17961934 ATCCTTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * **
17961964 ATCCATTTTCATAATTTGATAGTC-AAACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
17961993 TATCCCTTTTCAT
1 -ATCCCTTTTCAT
17962006 TCGTCGATGA
Statistics
Matches: 220, Mismatches: 25, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
29 6 0.03
30 211 0.96
31 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:17961816 original size:90 final size:89
Alignment explanation
Indices: 17961694--17962005 Score: 317
Period size: 90 Copynumber: 3.5 Consensus size: 89
17961684 AACTAAAGTT
* * *
17961694 ATCCCTTTTCATAGTTCGATAGCTAAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATCCC
1 ATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATCCC
*
17961759 TTTTCATTGTTCGATGGTCGTCACC
66 TTTTCATAGTT-GATGGTCGTCACC
* * ***
17961784 ATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAGA-TTGATAG-CCAAAGCCATC
1 ATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATA-ATTTGATGGTCGTCA-CCATC
* * * *
17961847 CCTTTTCATAGATTGATAGCCG-AAGTC
64 CCTTTTCATAG-TTGATGGTCGTCA-CC
* * *** *
17961874 ATCCCTTTTCATAAGTTGATGGTCGTCA-CCATCCCTTTTCATAATTTGATGGTCGTCACCATCC
1 ATCCCTTTTCATAATTTGATAG-CCAAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATCC
* *
17961938 TTTTTCATAATTTGATGGTCGTCACC
65 CTTTTCAT-AGTTGATGGTCGTCACC
* * *
17961964 ATCCATTTTCATAATTTGATAGTCAAACCTATCCCTTTTCAT
1 ATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCAT
17962006 TCGTCGATGA
Statistics
Matches: 175, Mismatches: 37, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
89 5 0.03
90 161 0.92
91 9 0.05
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.38
Consensus pattern (89 bp):
ATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATCCC
TTTTCATAGTTGATGGTCGTCACC
Found at i:17961877 original size:120 final size:120
Alignment explanation
Indices: 17961663--17961923 Score: 350
Period size: 120 Copynumber: 2.2 Consensus size: 120
17961653 CTGGTTAATA
* * * * *
17961663 CATCCCTTTTCATAATTCGATAACTAAAGTTATCCCTTTTCATAGTTCGATAGCTAAAGCTATCC
1 CATCCCTTTTCATAATTTGATAACCAAAGCTATCCCTTTTCATAGTTCGATAGCCAAAGCCATCC
* * * *
17961728 CTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCAT-TGTTCGATGGTCGTCAC
66 CTTTTCATAATTTGATAGCCGTAACCATCCCTTTTCATAAGTT-GATGGTCGTCAC
* *
17961783 CATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAGATT-GATAGCCAAAGCCATC
1 CATCCCTTTTCATAATTTGATAACCAAAGCTATCCCTTTTCATAG-TTCGATAGCCAAAGCCATC
*
17961847 CCTTTTCATAGA-TTGATAGCCG-AAGTCATCCCTTTTCATAAGTTGATGGTCGTCAC
65 CCTTTTCATA-ATTTGATAGCCGTAA-CCATCCCTTTTCATAAGTTGATGGTCGTCAC
17961903 CATCCCTTTTCATAATTTGAT
1 CATCCCTTTTCATAATTTGAT
17961924 GGTCGTCACC
Statistics
Matches: 125, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
119 1 0.01
120 118 0.94
121 6 0.05
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (120 bp):
CATCCCTTTTCATAATTTGATAACCAAAGCTATCCCTTTTCATAGTTCGATAGCCAAAGCCATCC
CTTTTCATAATTTGATAGCCGTAACCATCCCTTTTCATAAGTTGATGGTCGTCAC
Found at i:17964648 original size:21 final size:21
Alignment explanation
Indices: 17964622--17964663 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
17964612 ACTTTTTCTT
17964622 TAATTAACTA-ACCAAAAATTA
1 TAATT-ACTAGACCAAAAATTA
17964643 TAATTACTAGACCAAAAATTA
1 TAATTACTAGACCAAAAATTA
17964664 ATTTGAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.29
Consensus pattern (21 bp):
TAATTACTAGACCAAAAATTA
Found at i:17968660 original size:48 final size:48
Alignment explanation
Indices: 17968484--17968720 Score: 296
Period size: 48 Copynumber: 4.8 Consensus size: 48
17968474 TTATTATCAT
* * * *
17968484 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTT
1 TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCTA
* * *
17968533 TCCGGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCT-
1 T-CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACC--A-TCTA
* * *
17968584 TCGGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATCTA
1 TC-GATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCTA
* *
17968633 TCGATACACGTAGTAACCTGCACATAGTACTACACATGTGACCATCTA
1 TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCTA
*
17968681 TCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTG
17968721 TTTATAGGCA
Statistics
Matches: 167, Mismatches: 15, Indels: 13
0.86 0.08 0.07
Matches are distributed among these distances:
48 82 0.49
49 5 0.03
50 38 0.23
51 40 0.24
52 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (48 bp):
TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCTA
Found at i:17968674 original size:99 final size:98
Alignment explanation
Indices: 17968484--17968720 Score: 300
Period size: 99 Copynumber: 2.4 Consensus size: 98
17968474 TTATTATCAT
* * * *
17968484 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCCGGTTCACGTAGTA
1 TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAACTATCCGATACACGTAGTA
*
17968549 GCCTGCACATAGTACTACACACGTGACCAAAGCCT-
66 ACCTGCACATAGTACTACACACGTGACC--A-CCTA
* * * * *
17968584 TCGGGTACACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATCTAT-CGATACACGTAGT
1 TC-GATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAACTATCCGATACACGTAGT
* *
17968647 AACCTGCACATAGTACTACACATGTGACCATCTA
65 AACCTGCACATAGTACTACACACGTGACCACCTA
*
17968681 TCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTG
17968721 TTTATAGGCA
Statistics
Matches: 119, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
96 36 0.30
97 3 0.03
99 38 0.32
100 7 0.06
101 35 0.29
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (98 bp):
TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAACTATCCGATACACGTAGTA
ACCTGCACATAGTACTACACACGTGACCACCTA
Found at i:17974081 original size:41 final size:41
Alignment explanation
Indices: 17973990--17974083 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
17973980 ACACAGACTT
* * * *
17973990 TAAGCCTGCTAGACTTATAGTCTGAATTGTTTCACCAGCAT
1 TAAGCCTGCTAGACGTAAAGTCTGAATGGTTTCACCAGCAA
* *
17974031 TTAGCCTGCTAGACGTAAAGTCTGAATGGTTTCACCGGCAA
1 TAAGCCTGCTAGACGTAAAGTCTGAATGGTTTCACCAGCAA
*
17974072 TAAGTCTGCTAG
1 TAAGCCTGCTAG
17974084 GCACTGAGCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (41 bp):
TAAGCCTGCTAGACGTAAAGTCTGAATGGTTTCACCAGCAA
Found at i:17979893 original size:13 final size:13
Alignment explanation
Indices: 17979875--17979901 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17979865 TTTCTTGGAT
17979875 TATTATGTAATTG
1 TATTATGTAATTG
17979888 TATTATGTAATTG
1 TATTATGTAATTG
17979901 T
1 T
17979902 CACAACATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (13 bp):
TATTATGTAATTG
Found at i:17981546 original size:64 final size:64
Alignment explanation
Indices: 17981472--17981600 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
17981462 AGAGCATTGA
*
17981472 TTATCTTTCTAATTGGCACAGGAACAACCATCACATCATTTCTCTTCAGGTTAAAAAAATTTTC
1 TTATCTTTCTAATTGGCACAGGAACAACCATCAAATCATTTCTCTTCAGGTTAAAAAAATTTTC
17981536 TTATCTTTCTAATTGGCACAGGAACAACCATCAAATCATTTCTCTTCAGGTTAAAAAAATTTTC
1 TTATCTTTCTAATTGGCACAGGAACAACCATCAAATCATTTCTCTTCAGGTTAAAAAAATTTTC
17981600 T
1 T
17981601 GGCATCATAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (64 bp):
TTATCTTTCTAATTGGCACAGGAACAACCATCAAATCATTTCTCTTCAGGTTAAAAAAATTTTC
Found at i:18000414 original size:16 final size:16
Alignment explanation
Indices: 18000390--18000421 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18000380 TCATATAATT
*
18000390 TACATGTACCAATTCA
1 TACAAGTACCAATTCA
18000406 TACAAGTACCAATTCA
1 TACAAGTACCAATTCA
18000422 CAACAATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (16 bp):
TACAAGTACCAATTCA
Found at i:18001106 original size:60 final size:60
Alignment explanation
Indices: 18001038--18001258 Score: 234
Period size: 60 Copynumber: 3.7 Consensus size: 60
18001028 AATCGAAGTT
* * * *
18001038 ATCCCTTTTCATAATTCGACAGCCAAAGCTATCCCTTTTCATGATTTGGTGGTCGTCACC
1 ATCCCTTTTCATAATTCGATAGCCGAAGCCATCCCTTTTCATGATTTGATGGTCGTCACC
* ** * * * * *
18001098 ATCTCTTTTCATTGTTCGATGGTCGTCA-CCATCCCTTTTCATGATTTGATAGTCG-AAGCC
1 ATCCCTTTTCATAATTCGATAGCCG-AAGCCATCCCTTTTCATGATTTGATGGTCGTCA-CC
* * *
18001158 ATCCCTTTTCATAGA-TCAATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACA
1 ATCCCTTTTCATA-ATTCGATAGCCGAAGCCATCCCTTTTCATGATTTGATGGTCGTCACC
* *
18001218 ATCCCTTTTCATAATT-GATAGTCGAAGCTATCCCTTTTCAT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCCATCCCTTTTCAT
18001259 TCGCCGATGA
Statistics
Matches: 129, Mismatches: 26, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
59 25 0.19
60 102 0.79
61 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (60 bp):
ATCCCTTTTCATAATTCGATAGCCGAAGCCATCCCTTTTCATGATTTGATGGTCGTCACC
Found at i:18001168 original size:90 final size:89
Alignment explanation
Indices: 18001096--18001258 Score: 254
Period size: 90 Copynumber: 1.8 Consensus size: 89
18001086 GTGGTCGTCA
* ** * *
18001096 CCATCTCTTTTCATTGTTCGATGGTCGTCACCATCCCTTTTCATGATTTGATAGTCGAAGCCATC
1 CCATCCCTTTTCATAATTCGATGGTCGTCACAATCCCTTTTCAT-ATTTGATAGTCGAAGCTATC
18001161 CCTTTTCATAGATCAATAGCCGAAG
65 CCTTTTCATAGATCAATAGCCGAAG
* *
18001186 CCATCCCTTTTCATAATTTGATGGTCGTCACAATCCCTTTTCATAATTGATAGTCGAAGCTATCC
1 CCATCCCTTTTCATAATTCGATGGTCGTCACAATCCCTTTTCATATTTGATAGTCGAAGCTATCC
18001251 CTTTTCAT
66 CTTTTCAT
18001259 TCGCCGATGA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
89 27 0.41
90 39 0.59
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.37
Consensus pattern (89 bp):
CCATCCCTTTTCATAATTCGATGGTCGTCACAATCCCTTTTCATATTTGATAGTCGAAGCTATCC
CTTTTCATAGATCAATAGCCGAAG
Found at i:18001230 original size:30 final size:30
Alignment explanation
Indices: 18001007--18001258 Score: 181
Period size: 30 Copynumber: 8.4 Consensus size: 30
18000997 ATGGTTGACA
* * * *
18001007 CATCCCTTTTCGTAATTAGATAATCGAAGT
1 CATCCCTTTTCATAATTTGATAGTCGAAGC
* * * * *
18001037 TATCCCTTTTCATAATTCGACAGCCAAAGC
1 CATCCCTTTTCATAATTTGATAGTCGAAGC
* * * * *
18001067 TATCCCTTTTCATGATTTGGTGGTCGTCA-C
1 CATCCCTTTTCATAATTTGATAGTCG-AAGC
* ** * * *
18001097 CATCTCTTTTCATTGTTCGATGGTCGTCA-C
1 CATCCCTTTTCATAATTTGATAGTCG-AAGC
*
18001127 CATCCCTTTTCATGATTTGATAGTCGAAGC
1 CATCCCTTTTCATAATTTGATAGTCGAAGC
** *
18001157 CATCCCTTTTCATAGA-TCAATAGCCGAAGC
1 CATCCCTTTTCATA-ATTTGATAGTCGAAGC
* *
18001187 CATCCCTTTTCATAATTTGATGGTCGTCA-C
1 CATCCCTTTTCATAATTTGATAGTCG-AAGC
*
18001217 AATCCCTTTTCATAA-TTGATAGTCGAAGC
1 CATCCCTTTTCATAATTTGATAGTCGAAGC
*
18001246 TATCCCTTTTCAT
1 CATCCCTTTTCAT
18001259 TCGCCGATGA
Statistics
Matches: 175, Mismatches: 41, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
28 1 0.01
29 24 0.14
30 147 0.84
31 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (30 bp):
CATCCCTTTTCATAATTTGATAGTCGAAGC
Found at i:18001562 original size:23 final size:23
Alignment explanation
Indices: 18001528--18001578 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
18001518 ATTTTAGCAA
*
18001528 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
18001551 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
18001574 AGTAA
1 TGTAA
18001579 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:18001771 original size:30 final size:31
Alignment explanation
Indices: 18001737--18001794 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
18001727 GTAAATTCTC
* **
18001737 AAAATTTGAGGGATTAA-AGTGTAAATACAA
1 AAAATTTGAAGGACCAATAGTGTAAATACAA
18001767 AAAATTTGAAGGACCAATAGTGTAAATA
1 AAAATTTGAAGGACCAATAGTGTAAATA
18001795 GTTTAAGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (31 bp):
AAAATTTGAAGGACCAATAGTGTAAATACAA
Found at i:18018061 original size:33 final size:33
Alignment explanation
Indices: 18018024--18018087 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
18018014 CTTGTACTTA
18018024 AATAAATGTATTTAAAGTAGATGTATCTAGTTT
1 AATAAATGTATTTAAAGTAGATGTATCTAGTTT
*
18018057 AATAAATGTATTTAGAGTAGATGTATCTAGT
1 AATAAATGTATTTAAAGTAGATGTATCTAGT
18018088 AGTCATGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (33 bp):
AATAAATGTATTTAAAGTAGATGTATCTAGTTT
Found at i:18024039 original size:33 final size:33
Alignment explanation
Indices: 18023969--18024063 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 33
18023959 ACTTGAGCCG
* * *
18023969 GGAGGAGTGGAGTACTACGGTGGATAC-GAGTCG
1 GGAGGAGTGGAGTACTGCGGTGGATACTG-GCCA
*
18024002 GGAGGAGTGGAGTAATGCGGTGGATACTGGCCA
1 GGAGGAGTGGAGTACTGCGGTGGATACTGGCCA
**
18024035 GGAGGAGTGTTGTACTGCGGTGG-TACTGG
1 GGAGGAGTGGAGTACTGCGGTGGATACTGG
18024064 AATGAAGATA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 6 0.11
33 47 0.87
34 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.46, T:0.21
Consensus pattern (33 bp):
GGAGGAGTGGAGTACTGCGGTGGATACTGGCCA
Found at i:18025655 original size:16 final size:16
Alignment explanation
Indices: 18025586--18025708 Score: 60
Period size: 16 Copynumber: 7.4 Consensus size: 16
18025576 ATAACATGCC
18025586 AAATAAATTACATAAAA
1 AAATAAATTACAT-AAA
18025603 AAATAAATCTA-ATAAA
1 AAATAAAT-TACATAAA
* * *
18025619 CCTAAA-ACA-TACATGAC
1 ---AAATAAATTACATAAA
18025636 AAATAAATTACATAAA
1 AAATAAATTACATAAA
18025652 AAATAAATCTA-ATAAA
1 AAATAAAT-TACATAAA
* * *
18025668 TCTAAA-ACA-CACATGACA
1 ---AAATAAATTACAT-AAA
18025686 AAATAAATTACATAAA
1 AAATAAATTACATAAA
18025702 AAATAAA
1 AAATAAA
18025709 ACATTCTTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 31
0.65 0.10 0.25
Matches are distributed among these distances:
14 3 0.04
15 5 0.06
16 36 0.46
17 21 0.27
18 8 0.10
19 6 0.08
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.22
Consensus pattern (16 bp):
AAATAAATTACATAAA
Found at i:18025673 original size:49 final size:49
Alignment explanation
Indices: 18025579--18025708 Score: 215
Period size: 50 Copynumber: 2.6 Consensus size: 49
18025569 AATAATAATA
* *
18025579 ACATGCCAAATAAATTACATAAAAAAATAAATCTAATAAACCTAAAACAT
1 ACATGACAAATAAATTACAT-AAAAAATAAATCTAATAAACCTAAAACAC
*
18025629 ACATGACAAATAAATTACATAAAAAATAAATCTAATAAATCTAAAACAC
1 ACATGACAAATAAATTACATAAAAAATAAATCTAATAAACCTAAAACAC
18025678 ACATGACAAAATAAATTACATAAAAAATAAA
1 ACATGAC-AAATAAATTACATAAAAAATAAA
18025709 ACATTCTTTC
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
49 34 0.45
50 42 0.55
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.22
Consensus pattern (49 bp):
ACATGACAAATAAATTACATAAAAAATAAATCTAATAAACCTAAAACAC
Found at i:18026085 original size:20 final size:20
Alignment explanation
Indices: 18026060--18026097 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18026050 TCTCATTCCC
* *
18026060 TTTTTTCTTTCCTTTTCTAT
1 TTTTTTCCTTCCCTTTCTAT
18026080 TTTTTTCCTTCCCTTTCT
1 TTTTTTCCTTCCCTTTCT
18026098 CCTCTCTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTCCTTCCCTTTCTAT
Found at i:18037243 original size:21 final size:21
Alignment explanation
Indices: 18037217--18037261 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
18037207 TGAAGTTTCA
18037217 TTAGCTAAGCCATCGGCTCTT
1 TTAGCTAAGCCATCGGCTCTT
18037238 TTAGCTAAGCCATCGGCTCTT
1 TTAGCTAAGCCATCGGCTCTT
18037259 TTA
1 TTA
18037262 ACTTTCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (21 bp):
TTAGCTAAGCCATCGGCTCTT
Found at i:18037930 original size:11 final size:11
Alignment explanation
Indices: 18037916--18037964 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
18037906 ATATTTAAAC
18037916 AATAATAACAA
1 AATAATAACAA
*
18037927 AATAATAGCAA
1 AATAATAACAA
*
18037938 TATAATAACAA
1 AATAATAACAA
* *
18037949 AATGACAACAA
1 AATAATAACAA
18037960 AATAA
1 AATAA
18037965 CAGTTTTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.67, C:0.10, G:0.04, T:0.18
Consensus pattern (11 bp):
AATAATAACAA
Found at i:18042981 original size:33 final size:33
Alignment explanation
Indices: 18042944--18043008 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
18042934 AATATAAGTC
18042944 TAGCCTACAATGGAATACAATCTAAACCATACA
1 TAGCCTACAATGGAATACAATCTAAACCATACA
*
18042977 TAGCCTACAATGGAATACAATCTGAACCATAC
1 TAGCCTACAATGGAATACAATCTAAACCATAC
18043009 CCCAATGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.22
Consensus pattern (33 bp):
TAGCCTACAATGGAATACAATCTAAACCATACA
Found at i:18047303 original size:21 final size:21
Alignment explanation
Indices: 18047277--18047318 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18047267 GTTTACTTAG
18047277 TTGCCACTTAGAAATTACTTT
1 TTGCCACTTAGAAATTACTTT
18047298 TTGCCACTTAGAAATTACTTT
1 TTGCCACTTAGAAATTACTTT
18047319 ATTGAAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
TTGCCACTTAGAAATTACTTT
Found at i:18053710 original size:56 final size:50
Alignment explanation
Indices: 18053634--18053823 Score: 186
Period size: 50 Copynumber: 3.7 Consensus size: 50
18053624 AATGAGATCC
* *
18053634 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCA
* *
18053690 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCA
** * **
18053740 CCCGTAAGACCATGTCTGGGACATGGCA-TGGACACCGATATGAGAACTC-
1 CATGTAAGACCATGTCTGGGACATGGCATTGG-CACCGAGATGAGAGGTCA
* * *
18053789 CAATGTAAGACCATATCTGGGATATGGAATTGGCA
1 C-ATGTAAGACCATGTCTGGGACATGGCATTGGCA
18053824 GTTCAGGAAA
Statistics
Matches: 116, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
49 4 0.03
50 73 0.63
51 3 0.03
53 3 0.03
55 1 0.01
56 32 0.28
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCA
Found at i:18075163 original size:41 final size:41
Alignment explanation
Indices: 18075103--18075351 Score: 275
Period size: 41 Copynumber: 6.1 Consensus size: 41
18075093 AGAAAAGTAT
* * *
18075103 ATTTAGGGGTATCGTAGTACTAACAGGGGCACGTATGTGCA
1 ATTTAGGGGTATCGAAGTACAAACAGGGGCACGTAAGTGCA
*
18075144 ATTTAGGGGTA-CTGAAGTACAAACAGGGGCACATAAGTGCA
1 ATTTAGGGGTATC-GAAGTACAAACAGGGGCACGTAAGTGCA
* ** * *
18075185 ATTAAAAGGTACCGAAGTACAAAAAGGGGCACGTAAGTGCA
1 ATTTAGGGGTATCGAAGTACAAACAGGGGCACGTAAGTGCA
* * * * *
18075226 ATTTAGGGGTACCAAAGTACAAATAGGGGCACATAAGTGTA
1 ATTTAGGGGTATCGAAGTACAAACAGGGGCACGTAAGTGCA
* * * * * * *
18075267 ATTCAAGGGTATCAAAGTACAAACCGGGGTATGTAAGTGTA
1 ATTTAGGGGTATCGAAGTACAAACAGGGGCACGTAAGTGCA
* *
18075308 ATTCAGGGGTATCGAAGTACAAACAAGGGCACGTAAGTGCA
1 ATTTAGGGGTATCGAAGTACAAACAGGGGCACGTAAGTGCA
18075349 ATT
1 ATT
18075352 GATCAATTTT
Statistics
Matches: 175, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 1 0.01
41 173 0.99
42 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (41 bp):
ATTTAGGGGTATCGAAGTACAAACAGGGGCACGTAAGTGCA
Found at i:18075263 original size:20 final size:20
Alignment explanation
Indices: 18075158--18075263 Score: 61
Period size: 20 Copynumber: 5.2 Consensus size: 20
18075148 AGGGGTACTG
*
18075158 AAGTACAAACAGGGGCACAT
1 AAGTACAAATAGGGGCACAT
* * ** * **
18075178 AAGTGCAATTAAAAGGTACCG
1 AAGTACAAAT-AGGGGCACAT
* *
18075199 AAGTACAAAAAGGGGCACGT
1 AAGTACAAATAGGGGCACAT
* * *
18075219 AAGTGCAATTTAGGGGTACCA-
1 AAGTACAA-ATAGGGGCA-CAT
18075240 AAGTACAAATAGGGGCACAT
1 AAGTACAAATAGGGGCACAT
18075260 AAGT
1 AAGT
18075264 GTAATTCAAG
Statistics
Matches: 58, Mismatches: 24, Indels: 8
0.64 0.27 0.09
Matches are distributed among these distances:
19 2 0.03
20 30 0.52
21 25 0.43
22 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.16
Consensus pattern (20 bp):
AAGTACAAATAGGGGCACAT
Found at i:18075325 original size:21 final size:21
Alignment explanation
Indices: 18075260--18075325 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
18075250 AGGGGCACAT
* *
18075260 AAGTGTAATTCAAGGGTATCA
1 AAGTGTAATTCAGGGGTATCG
** * *
18075281 AAGTACAA-ACCGGGGTAT-G
1 AAGTGTAATTCAGGGGTATCG
18075300 TAAGTGTAATTCAGGGGTATCG
1 -AAGTGTAATTCAGGGGTATCG
18075322 AAGT
1 AAGT
18075326 ACAAACAAGG
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
20 13 0.41
21 18 0.56
22 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.26
Consensus pattern (21 bp):
AAGTGTAATTCAGGGGTATCG
Found at i:18082471 original size:36 final size:37
Alignment explanation
Indices: 18082392--18082498 Score: 107
Period size: 36 Copynumber: 2.9 Consensus size: 37
18082382 CAATTCACAT
* *
18082392 ATCAATTCATATATA-ATATCATCATTTCATTTCATC
1 ATCAATTCATATATATATATCATCATTTCATATCAAC
18082428 ATCAATTCATATATATATAT-ATCCAATTTCATAT-AAC
1 ATCAATTCATATATATATATCAT-C-ATTTCATATCAAC
*
18082465 AT-AATTCATACTATATTCATATCA-CATATCATAT
1 ATCAATTCATA-TATA-T-ATATCATCATTTCATAT
18082499 ATCAATTATA
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
36 25 0.41
37 21 0.34
38 10 0.16
39 4 0.07
40 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (37 bp):
ATCAATTCATATATATATATCATCATTTCATATCAAC
Found at i:18082491 original size:25 final size:25
Alignment explanation
Indices: 18082455--18082532 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
18082445 TATATCCAAT
*
18082455 TTCATATAACATAATTCATACTATA
1 TTCATATCACATAATTCATACTATA
18082480 TTCATATCACAT-A-TCATA-TATCAA
1 TTCATATCACATAATTCATACTAT--A
* *
18082504 TT-ATATCACACTATTTTATACTATA
1 TTCATATCACA-TAATTCATACTATA
18082529 TTCA
1 TTCA
18082533 GTTCAGTCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
22 3 0.07
23 13 0.30
24 5 0.12
25 14 0.33
26 5 0.12
27 3 0.07
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (25 bp):
TTCATATCACATAATTCATACTATA
Found at i:18083496 original size:27 final size:27
Alignment explanation
Indices: 18083466--18083520 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
18083456 ACCCTTTGGA
18083466 TAATTGTTATCTAGATCTTCAAGCATT
1 TAATTGTTATCTAGATCTTCAAGCATT
18083493 TAATTGTTATCTAGATCTTCAAGCATT
1 TAATTGTTATCTAGATCTTCAAGCATT
18083520 T
1 T
18083521 TCTTAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (27 bp):
TAATTGTTATCTAGATCTTCAAGCATT
Found at i:18087463 original size:20 final size:20
Alignment explanation
Indices: 18087426--18087465 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18087416 TTTTTACTTT
* *
18087426 AAAAAGAAGTCCATAAAATA
1 AAAAAGAAGTCAAAAAAATA
*
18087446 AAAAAGAATTCAAAAAAATA
1 AAAAAGAAGTCAAAAAAATA
18087466 TGTGAGATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (20 bp):
AAAAAGAAGTCAAAAAAATA
Found at i:18090095 original size:3 final size:3
Alignment explanation
Indices: 18090089--18090195 Score: 198
Period size: 3 Copynumber: 36.0 Consensus size: 3
18090079 TGTCCAACAA
18090089 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
18090137 CTT -TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT TTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
18090184 CTT CTT CTT CTT
1 CTT CTT CTT CTT
18090196 TTATTACCCA
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 99 0.98
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:18094269 original size:35 final size:36
Alignment explanation
Indices: 18094217--18094289 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 36
18094207 CATCCAAATC
18094217 AAATTTTATTCATACTAAATTCACCAATATTAAACT
1 AAATTTTATTCATACTAAATTCACCAATATTAAACT
*
18094253 AAATTTTA-TCATACTAAATTCGCCAATATTAAACT
1 AAATTTTATTCATACTAAATTCACCAATATTAAACT
18094288 AA
1 AA
18094290 CATGTAGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 28 0.78
36 8 0.22
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (36 bp):
AAATTTTATTCATACTAAATTCACCAATATTAAACT
Found at i:18094395 original size:6 final size:6
Alignment explanation
Indices: 18094384--18094462 Score: 158
Period size: 6 Copynumber: 13.2 Consensus size: 6
18094374 TCAACCGCAA
18094384 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
18094432 ACATAT ACATAT ACATAT ACATAT ACATAT A
1 ACATAT ACATAT ACATAT ACATAT ACATAT A
18094463 TATAAATGAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:18095652 original size:17 final size:17
Alignment explanation
Indices: 18095630--18095714 Score: 102
Period size: 17 Copynumber: 4.9 Consensus size: 17
18095620 TAGTCATAAG
*
18095630 CTTTCTCTTTTTCTTTT
1 CTTTCTTTTTTTCTTTT
18095647 CTTTCTTTATTTTC-TTT
1 CTTTCTTT-TTTTCTTTT
*
18095664 CTTTTCTCTTTTTCTTTT
1 C-TTTCTTTTTTTCTTTT
18095682 CTTTCTTTATTTTC-TTT
1 CTTTCTTT-TTTTCTTTT
18095699 CTTTCTTTTCTTTCTT
1 CTTTCTTTT-TTTCTT
18095715 AATGTTTGCA
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.02
17 37 0.63
18 21 0.36
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTCTTTTTTTCTTTT
Found at i:18095659 original size:13 final size:13
Alignment explanation
Indices: 18095643--18095714 Score: 89
Period size: 13 Copynumber: 5.8 Consensus size: 13
18095633 TCTCTTTTTC
18095643 TTTTCTTTCTTTA
1 TTTTCTTTCTTTA
18095656 TTTTCTTTC-TT-
1 TTTTCTTTCTTTA
* *
18095667 TTCTC-TT-TTTC
1 TTTTCTTTCTTTA
18095678 TTTTCTTTCTTTA
1 TTTTCTTTCTTTA
*
18095691 TTTTCTTTCTTTC
1 TTTTCTTTCTTTA
18095704 TTTTCTTTCTT
1 TTTTCTTTCTT
18095715 AATGTTTGCA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
10 4 0.08
11 8 0.16
12 4 0.08
13 35 0.69
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTCTTTCTTTA
Found at i:18095677 original size:35 final size:35
Alignment explanation
Indices: 18095631--18095702 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
18095621 AGTCATAAGC
18095631 TTTCTCTTTTTCTTTTCTTTCTTTATTTTCTTTCT
1 TTTCTCTTTTTCTTTTCTTTCTTTATTTTCTTTCT
18095666 TTTCTCTTTTTCTTTTCTTTCTTTATTTTCTTTCT
1 TTTCTCTTTTTCTTTTCTTTCTTTATTTTCTTTCT
18095701 TT
1 TT
18095703 CTTTTCTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (35 bp):
TTTCTCTTTTTCTTTTCTTTCTTTATTTTCTTTCT
Found at i:18095713 original size:35 final size:34
Alignment explanation
Indices: 18095630--18095714 Score: 143
Period size: 35 Copynumber: 2.4 Consensus size: 34
18095620 TAGTCATAAG
18095630 CTTTCTCTTTTTCTTTTCTTTCTTTATTTTCTTT
1 CTTTCTCTTTTTCTTTTCTTTCTTTATTTTCTTT
18095664 CTTTTCTCTTTTTCTTTTCTTTCTTTATTTTCTTT
1 C-TTTCTCTTTTTCTTTTCTTTCTTTATTTTCTTT
*
18095699 CTTTCTTTTCTTTCTT
1 CTTTCTCTT-TTTCTT
18095715 AATGTTTGCA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
34 8 0.17
35 40 0.83
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (34 bp):
CTTTCTCTTTTTCTTTTCTTTCTTTATTTTCTTT
Found at i:18097184 original size:43 final size:43
Alignment explanation
Indices: 18097137--18097246 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
18097127 CTGGCAACGC
* **
18097137 AGTGCATCATCAGATAAATCC-AAGTGAATATACTA-GCACACAT
1 AGTGCATCATCAGACAAA-CCAAAGCAAATATAC-AGGCACACAT
* * *
18097180 AGTGCATCATCGGACGAACCAAAGCAAATATACAGGCACATAT
1 AGTGCATCATCAGACAAACCAAAGCAAATATACAGGCACACAT
18097223 AGTGCATCATCTA-ACAAACCAAAG
1 AGTGCATCATC-AGACAAACCAAAG
18097247 TATAAACTCG
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
42 3 0.05
43 53 0.95
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (43 bp):
AGTGCATCATCAGACAAACCAAAGCAAATATACAGGCACACAT
Found at i:18103536 original size:21 final size:22
Alignment explanation
Indices: 18103505--18103559 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
18103495 TTTCCCCCCA
*
18103505 TTGCATGTGGCTATACAA-TTGT
1 TTGCA-GTGGCTATACAATTTAT
*
18103527 TTGCAGTGGCTATATAATTTAT
1 TTGCAGTGGCTATACAATTTAT
18103549 TTGCAGTGGCT
1 TTGCAGTGGCT
18103560 CCATCTGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.42
Consensus pattern (22 bp):
TTGCAGTGGCTATACAATTTAT
Found at i:18103794 original size:52 final size:52
Alignment explanation
Indices: 18103738--18103838 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
18103728 CTTGGTGCTG
**
18103738 TTAATTTGGTACTGTTATTTTTGAATGCTTTGAAATGTTTGAAATGGTGTTA
1 TTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGTGTTA
18103790 TTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGTG
1 TTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGTG
18103839 CTGTTACTAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.26, C:0.05, G:0.22, T:0.48
Consensus pattern (52 bp):
TTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGTGTTA
Found at i:18103920 original size:116 final size:116
Alignment explanation
Indices: 18103770--18104067 Score: 560
Period size: 116 Copynumber: 2.6 Consensus size: 116
18103760 GAATGCTTTG
* *
18103770 AAATGTTTGAAATGGTGTTATTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
*
18103835 GGTGCTGTTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
66 GGTGCTATTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
*
18103886 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATACTTTGAAATGTTTGAAAT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
18103951 GGTGCTATTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
66 GGTGCTATTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
18104002 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
18104067 G
66 G
18104068 AGTTAACACC
Statistics
Matches: 177, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 177 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.43
Consensus pattern (116 bp):
AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
GGTGCTATTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
Found at i:18108828 original size:89 final size:93
Alignment explanation
Indices: 18108704--18108895 Score: 268
Period size: 92 Copynumber: 2.1 Consensus size: 93
18108694 TTGATTTTAG
* * *
18108704 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATG-AATAT-ATA-TCACTATTAAATTA
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATATAATATTAACTATTAAATTA
* *
18108766 TATTTAAT-ATTAATTATTTTAAATTGTA
66 TATGTAATAATT-ATTATTTTAAATTATA
* *
18108794 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTTAATATTAATTATTAAATTA
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATATAATATTAACTATTAAATTA
18108858 TATGTAATAATTATTATTTTAAATTATA
66 TATGTAATAATTATTATTTTAAATTATA
*
18108886 CAAATTCATA
1 TAAATTCATA
18108896 AAATATAATT
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
89 21 0.23
90 20 0.22
91 3 0.03
92 43 0.48
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (93 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATATAATATTAACTATTAAATTA
TATGTAATAATTATTATTTTAAATTATA
Found at i:18108873 original size:24 final size:25
Alignment explanation
Indices: 18108838--18108885 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
18108828 TTATGAAATT
18108838 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
18108862 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
18108886 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:18109088 original size:15 final size:16
Alignment explanation
Indices: 18109062--18109103 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18109052 TTATTAAATT
*
18109062 ATATATTTTAATTAAA
1 ATATATTTTAATAAAA
18109078 ATATA-TTTAATAAAA
1 ATATATTTTAATAAAA
18109093 AT-TATGTTTAA
1 ATATAT-TTTAA
18109104 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATTTTAATAAAA
Found at i:18109328 original size:45 final size:44
Alignment explanation
Indices: 18109249--18109339 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
18109239 ACCTCTATTC
* * *
18109249 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
***
18109293 CATTCAACCAAACAGTTGATTTACTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCAATA
18109338 CA
1 CA
18109340 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
Found at i:18109341 original size:16 final size:16
Alignment explanation
Indices: 18109320--18109355 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
18109310 GATTTACTAT
18109320 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18109336 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18109352 TACA
1 TACA
18109356 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18109973 original size:9 final size:9
Alignment explanation
Indices: 18109959--18110016 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
18109949 GTAGGGATTC
*
18109959 AATTCGATT
1 AATTCGGTT
*
18109968 AATTCGGGT
1 AATTCGGTT
*
18109977 AATTCGGGT
1 AATTCGGTT
*
18109986 AATCCGGTT
1 AATTCGGTT
18109995 AATTCGGTT
1 AATTCGGTT
*
18110004 AATTCGATT
1 AATTCGGTT
18110013 AATT
1 AATT
18110017 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:18120097 original size:24 final size:24
Alignment explanation
Indices: 18120019--18120083 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
18120009 CTCTCCGAAG
*
18120019 CTTCTCGATATTGGCTCACTTAAA
1 CTTCCCGATATTGGCTCACTTAAA
18120043 CTTCCCGATATTGGCTCACTTAAA
1 CTTCCCGATATTGGCTCACTTAAA
18120067 CTTCCCGATATTGGCTC
1 CTTCCCGATATTGGCTC
18120084 GTATGAGCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (24 bp):
CTTCCCGATATTGGCTCACTTAAA
Found at i:18146689 original size:27 final size:27
Alignment explanation
Indices: 18146653--18146737 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
18146643 TTTGGTTAAA
*
18146653 AATTAACCGAATTCAC-CAAATTAACCG
1 AATTAACCGAATT-ACTCGAATTAACCG
* *
18146680 AATTACCCGAATTACTCGAATTACCCG
1 AATTAACCGAATTACTCGAATTAACCG
* *
18146707 AATTAATCGAATTACTCGAATTAACCT
1 AATTAACCGAATTACTCGAATTAACCG
18146734 AATT
1 AATT
18146738 GAATCATACA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.04
27 48 0.96
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTAACCGAATTACTCGAATTAACCG
Found at i:18146692 original size:18 final size:18
Alignment explanation
Indices: 18146653--18146737 Score: 102
Period size: 18 Copynumber: 4.7 Consensus size: 18
18146643 TTTGGTTAAA
*
18146653 AATTAACCGAATT-CACCA
1 AATTAACCGAATTAC-CCG
18146671 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
18146689 AATT-ACTCGAATTACCCG
1 AATTAAC-CGAATTACCCG
* *
18146707 AATTAATCGAATTACTCG
1 AATTAACCGAATTACCCG
*
18146725 AATTAACCTAATT
1 AATTAACCGAATT
18146738 GAATCATACA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
17 2 0.03
18 55 0.93
19 2 0.03
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:18146737 original size:9 final size:9
Alignment explanation
Indices: 18146653--18146737 Score: 84
Period size: 9 Copynumber: 9.4 Consensus size: 9
18146643 TTTGGTTAAA
18146653 AATTAACCG
1 AATTAACCG
* *
18146662 AATTCACCA
1 AATTAACCG
18146671 AATTAACCG
1 AATTAACCG
*
18146680 AATTACCCG
1 AATTAACCG
18146689 AATT-ACTCG
1 AATTAAC-CG
*
18146698 AATTACCCG
1 AATTAACCG
*
18146707 AATTAATCG
1 AATTAACCG
18146716 AATT-ACTCG
1 AATTAAC-CG
*
18146725 AATTAACCT
1 AATTAACCG
18146734 AATT
1 AATT
18146738 GAATCATACA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
8 2 0.03
9 56 0.92
10 3 0.05
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:18147947 original size:22 final size:21
Alignment explanation
Indices: 18147917--18147975 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
18147907 ATACAATCGT
*
18147917 AGATTTGATATGTAATCTTAGG
1 AGATTTGATTTGTAATCTTA-G
*
18147939 AGATATGATTTTGTAAATCTTAG
1 AGATTTGA-TTTGT-AATCTTAG
18147962 AGATTTGATTTGTA
1 AGATTTGATTTGTA
18147976 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.03
22 12 0.38
23 12 0.38
24 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.44
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:18153091 original size:22 final size:21
Alignment explanation
Indices: 18153061--18153119 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
18153051 ATACAATCGT
*
18153061 AGATTTGATATGTAATCTTAGG
1 AGATTTGATTTGTAATCTTA-G
*
18153083 AGATATGATTTTGTAAATCTTAG
1 AGATTTGA-TTTGT-AATCTTAG
18153106 AGATTTGATTTGTA
1 AGATTTGATTTGTA
18153120 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.03
22 12 0.38
23 12 0.38
24 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.44
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:18158244 original size:22 final size:22
Alignment explanation
Indices: 18158204--18158249 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
18158194 AAACATGACA
* *
18158204 AAAAAAATCAAGTATCAAATTG
1 AAAAAAATCAAGTACCAAAGTG
* *
18158226 AAAAAACTCATGTACCAAAGTG
1 AAAAAAATCAAGTACCAAAGTG
18158248 AA
1 AA
18158250 CATTGAGACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.13, G:0.11, T:0.20
Consensus pattern (22 bp):
AAAAAAATCAAGTACCAAAGTG
Found at i:18158356 original size:82 final size:82
Alignment explanation
Indices: 18158269--18158424 Score: 249
Period size: 82 Copynumber: 1.9 Consensus size: 82
18158259 CAAACTTAGG
* *
18158269 TACCAAATTGGGAGAAAAAAAATGTAGGTACCAAATGACATCAACAATATACATAGTTGCTCAAG
1 TACCAAATTGGGACAAAAAAAACGTAGGTACCAAATGACATCAACAATATACATAGTTGCTCAAG
18158334 CATGATGCATTTCGAAA
66 CATGATGCATTTCGAAA
* * * * *
18158351 TACCAAATTGGGACAAAAATAGCGTAGGTACCAAATGACGTCAATAATATACATAGTTGTTCAAG
1 TACCAAATTGGGACAAAAAAAACGTAGGTACCAAATGACATCAACAATATACATAGTTGCTCAAG
18158416 CATGATGCA
66 CATGATGCA
18158425 GTCCAAAATA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (82 bp):
TACCAAATTGGGACAAAAAAAACGTAGGTACCAAATGACATCAACAATATACATAGTTGCTCAAG
CATGATGCATTTCGAAA
Found at i:18160998 original size:50 final size:50
Alignment explanation
Indices: 18160923--18161023 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
18160913 CAGACCAAGC
* * *
18160923 TGCACAAGTAGAATCCGTATAGAACTACTCTTCTTTTATTTGACATTGAT
1 TGCACAAGTAGAATCCGTATAGAACTACACTCCTTCTATTTGACATTGAT
18160973 TGCACAAGTAGAATCCGTATAGAACTACACTCCTTCTATTTGACATTGAT
1 TGCACAAGTAGAATCCGTATAGAACTACACTCCTTCTATTTGACATTGAT
18161023 T
1 T
18161024 AGAATAATGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (50 bp):
TGCACAAGTAGAATCCGTATAGAACTACACTCCTTCTATTTGACATTGAT
Found at i:18162330 original size:20 final size:21
Alignment explanation
Indices: 18162305--18162354 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
18162295 CCAACTTTGG
**
18162305 TATCGATACCCAT-ATACGAA
1 TATCGATACCCATGATAAAAA
*
18162325 TATCGATACTCATGATAAAAA
1 TATCGATACCCATGATAAAAA
18162346 TATCGATAC
1 TATCGATAC
18162355 ATGCTCATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (21 bp):
TATCGATACCCATGATAAAAA
Found at i:18168870 original size:18 final size:18
Alignment explanation
Indices: 18168843--18168895 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
18168833 CCTGCCATTC
*
18168843 TTTTCTTTTCTTTTTCTT
1 TTTTCCTTTCTTTTTCTT
*
18168861 TTTTCCTTTCTTTTACCTT
1 TTTTCCTTTCTTTT-TCTT
*
18168880 TATT-CTTTCTTTTTCT
1 TTTTCCTTTCTTTTTCT
18168896 GTTATCTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 2 0.07
18 22 0.73
19 6 0.20
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTCCTTTCTTTTTCTT
Found at i:18168900 original size:18 final size:17
Alignment explanation
Indices: 18168849--18168905 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
18168839 ATTCTTTTCT
*
18168849 TTTCTTTTTCTTTTTTCC
1 TTTCTTTTTCTTTATT-C
*
18168867 TTTCTTTTACCTTTATTC
1 TTTCTTTT-TCTTTATTC
18168885 TTTCTTTTTCTGTTA-TC
1 TTTCTTTTTCT-TTATTC
18168902 TTTC
1 TTTC
18168906 AAATCACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 8 0.24
18 20 0.59
19 6 0.18
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTCTTTTTCTTTATTC
Found at i:18174887 original size:57 final size:57
Alignment explanation
Indices: 18174826--18174933 Score: 189
Period size: 57 Copynumber: 1.9 Consensus size: 57
18174816 AAATTAATTG
*
18174826 TTCAAGTTATTGTTACACATTGAGTTTCGAAAACTCATATTCTATTTGACTGGTATT
1 TTCAAGTTATTGTTACACACTGAGTTTCGAAAACTCATATTCTATTTGACTGGTATT
* *
18174883 TTCAAGTTATTGTTACATACTGAGTTTCGTAAACTCATATTCTATTTGACT
1 TTCAAGTTATTGTTACACACTGAGTTTCGAAAACTCATATTCTATTTGACT
18174934 CAGTTACAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (57 bp):
TTCAAGTTATTGTTACACACTGAGTTTCGAAAACTCATATTCTATTTGACTGGTATT
Found at i:18175576 original size:189 final size:189
Alignment explanation
Indices: 18175255--18175824 Score: 1027
Period size: 189 Copynumber: 3.0 Consensus size: 189
18175245 ATGACATTTT
* * * *
18175255 TGAAAGGTTTTGAAAATTGAATTTACAACTGCTTTACGTAACATCTCCAGATTTGGACATAACGT
1 TGAAAGGTTTTGAAAACTGGATTTACAACTGCTTTACGTAACAACTCCAGATTTGGCCATAACGT
18175320 CTAGGTTGAGTTTGGGGTGTTACATATTGACTTGAAATGCTATGGTTGAAA-TGTAATA-TCGAG
66 CTAGGTTGAGTTTGGGGTGTTACATATTGACTTGAAATGCTATGGTTGAAATTG-AATATTC-AG
18175383 ATAGGGACAAAATTGAATAGAAATTTGTATGTCTTAGCTGATATAAGGAATTAGTATAAAA
129 ATAGGGACAAAATTGAATAGAAATTTGTATGTCTTAGCTGATATAAGGAATTAGTATAAAA
*
18175444 TGAAAGGTTTTGAAAACTGGATTTACAACTGCTTTACGAAACAACTCCAGATTTGGCCATAACGT
1 TGAAAGGTTTTGAAAACTGGATTTACAACTGCTTTACGTAACAACTCCAGATTTGGCCATAACGT
18175509 CTAGGTTGAGTTTGGGGTGTTACATATTGACTTGAAATGCTATGGTTGAAATTGAATATTCAGAT
66 CTAGGTTGAGTTTGGGGTGTTACATATTGACTTGAAATGCTATGGTTGAAATTGAATATTCAGAT
18175574 AGGGACAAAATTGAATAGAAATTTGTATGTCTTAGCTGATATAAGGAATTAGTATAAAA
131 AGGGACAAAATTGAATAGAAATTTGTATGTCTTAGCTGATATAAGGAATTAGTATAAAA
*
18175633 TGAAAGGTTTTGAAAACTGGATTTACAACTGCTTTACGTAACAACTCTAGATTTGGCCATAACGT
1 TGAAAGGTTTTGAAAACTGGATTTACAACTGCTTTACGTAACAACTCCAGATTTGGCCATAACGT
18175698 CTAGGTTGAGTTTGGGGTGTTACATATTGACTTGAAATGCTATGGTTGAAATTGAATATTCAGAT
66 CTAGGTTGAGTTTGGGGTGTTACATATTGACTTGAAATGCTATGGTTGAAATTGAATATTCAGAT
* * *
18175763 AGGGACTAAATTGAATAGAAATTTGTATGTCTTAGCTAATATAAGAAATTAGTATAAAA
131 AGGGACAAAATTGAATAGAAATTTGTATGTCTTAGCTGATATAAGGAATTAGTATAAAA
18175822 TGA
1 TGA
18175825 GCTTATGTTA
Statistics
Matches: 369, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
189 365 0.99
190 4 0.01
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (189 bp):
TGAAAGGTTTTGAAAACTGGATTTACAACTGCTTTACGTAACAACTCCAGATTTGGCCATAACGT
CTAGGTTGAGTTTGGGGTGTTACATATTGACTTGAAATGCTATGGTTGAAATTGAATATTCAGAT
AGGGACAAAATTGAATAGAAATTTGTATGTCTTAGCTGATATAAGGAATTAGTATAAAA
Found at i:18176005 original size:42 final size:42
Alignment explanation
Indices: 18175958--18176060 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 42
18175948 CATTTAGCCG
* * *
18175958 ATGATGCACTTATGTGCCAGTATAATTGCTTTAGTATATCCA
1 ATGATGCACTTATGTGCCAGTATAATTACTTCAGTACATCCA
* ** * *
18176000 ATGATGGACTTATGTGCCAGTATCTTTACTTCGGTACATCTA
1 ATGATGCACTTATGTGCCAGTATAATTACTTCAGTACATCCA
*
18176042 ATGATGCACTTACGTGCCA
1 ATGATGCACTTATGTGCCA
18176061 CCATGATTGC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (42 bp):
ATGATGCACTTATGTGCCAGTATAATTACTTCAGTACATCCA
Found at i:18185518 original size:50 final size:50
Alignment explanation
Indices: 18185419--18185519 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
18185409 GGTCATACAC
* * **
18185419 CTTATAATCCCCGTGTTTACTGTTTTGAATAACTCTATTAGTTTTCATAG
1 CTTATAATCCCCGTGTTTACTGTCTCGAATAACTCTATTAGTTGCCATAG
*
18185469 CTTATAATCCCTGTGTTTACTGTCTCG-ATAAACTCTATTAGTTGCCATAG
1 CTTATAATCCCCGTGTTTACTGTCTCGAAT-AACTCTATTAGTTGCCATAG
18185519 C
1 C
18185520 GGAGCTATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
49 2 0.04
50 43 0.96
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.43
Consensus pattern (50 bp):
CTTATAATCCCCGTGTTTACTGTCTCGAATAACTCTATTAGTTGCCATAG
Found at i:18185580 original size:69 final size:69
Alignment explanation
Indices: 18185469--18185612 Score: 191
Period size: 69 Copynumber: 2.1 Consensus size: 69
18185459 GTTTTCATAG
* **
18185469 CTTATAATCCCTGTGTTTACTGTCTCGATAAACTCTATTAGTTGCCATAGCGGAGCTATGATCTT
1 CTTATAATCCCCGTGTTTACAATCTCGATAAACTCTATTAGTTGCCATAGCGGAGCTATGATCTT
18185534 ACAC
66 ACAC
* * * * *
18185538 CTTATAATCCCCGTGTTTACAATC-CTGATGAACTTTATTAGTTTCCATAGCTGAGCTATGGTCT
1 CTTATAATCCCCGTGTTTACAATCTC-GATAAACTCTATTAGTTGCCATAGCGGAGCTATGATCT
*
18185602 TATAC
65 TACAC
18185607 CTTATA
1 CTTATA
18185613 CCTCACTGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
68 1 0.02
69 64 0.98
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (69 bp):
CTTATAATCCCCGTGTTTACAATCTCGATAAACTCTATTAGTTGCCATAGCGGAGCTATGATCTT
ACAC
Found at i:18187565 original size:23 final size:22
Alignment explanation
Indices: 18187521--18187580 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
18187511 AGGAAGTAAA
*
18187521 ATAAAA-ATA-AAAACATATGT
1 ATAAAATATATAAAACATACGT
18187541 ATAAAATATATATAAACATACGT
1 ATAAAATATATA-AAACATACGT
**
18187564 ATACTATATATAAAACA
1 ATAAAATATATAAAACA
18187581 ATATATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.18
21 3 0.09
22 6 0.18
23 19 0.56
ACGTcount: A:0.60, C:0.08, G:0.03, T:0.28
Consensus pattern (22 bp):
ATAAAATATATAAAACATACGT
Found at i:18187589 original size:23 final size:23
Alignment explanation
Indices: 18187546--18187589 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
18187536 TATGTATAAA
*
18187546 ATATATATAAACATACGTATACT
1 ATATATATAAACATACATATACT
*
18187569 ATATATA-AAACAATATATATA
1 ATATATATAAAC-ATACATATA
18187590 TTACATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (23 bp):
ATATATATAAACATACATATACT
Found at i:18187891 original size:23 final size:23
Alignment explanation
Indices: 18187865--18187909 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
18187855 AAGAGATTTG
* *
18187865 AAATCAACAATATACAAATCAAT
1 AAATAAACAATACACAAATCAAT
**
18187888 AAATAAATTATACACAAATCAA
1 AAATAAACAATACACAAATCAA
18187910 CAAAATAAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (23 bp):
AAATAAACAATACACAAATCAAT
Found at i:18188144 original size:21 final size:20
Alignment explanation
Indices: 18188118--18188187 Score: 97
Period size: 21 Copynumber: 3.5 Consensus size: 20
18188108 AATCATATCT
18188118 TCTAAGATTGTATATATCATA
1 TCTAAGATTG-ATATATCATA
18188139 TCTAAGATTGCATATATCATA
1 TCTAAGATTG-ATATATCATA
*
18188160 TCTAAGATTG-CATATCATA
1 TCTAAGATTGATATATCATA
*
18188179 GCTAAGATT
1 TCTAAGATT
18188188 ACATATCCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 16 0.35
21 30 0.65
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
TCTAAGATTGATATATCATA
Found at i:18188153 original size:19 final size:19
Alignment explanation
Indices: 18188131--18188194 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
18188121 AAGATTGTAT
18188131 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
18188150 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
* *
18188171 ATATCATAGCTAAGATTAC
1 ATATCATATCTAAGATTGC
18188190 ATATC
1 ATATC
18188195 CTTGAAGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 22 0.54
21 19 0.46
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:18188436 original size:36 final size:36
Alignment explanation
Indices: 18188396--18188466 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
18188386 TTTGTTTCTT
* *
18188396 CTCATATTCAACCATTCTTAAACATAAGCTCAAGAC
1 CTCATATTCAACCATCCATAAACATAAGCTCAAGAC
18188432 CTCATATTCAACCATCCATAAACATAAGCTCAAGA
1 CTCATATTCAACCATCCATAAACATAAGCTCAAGA
18188467 ACAAAACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.41, C:0.28, G:0.06, T:0.25
Consensus pattern (36 bp):
CTCATATTCAACCATCCATAAACATAAGCTCAAGAC
Found at i:18188856 original size:24 final size:24
Alignment explanation
Indices: 18188824--18188874 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
18188814 AAAGAACTTG
18188824 GATGGTAATTAGACAAAATGAGGT
1 GATGGTAATTAGACAAAATGAGGT
18188848 GATGGTAATTAGACAAAATGAGGT
1 GATGGTAATTAGACAAAATGAGGT
18188872 GAT
1 GAT
18188875 AGTGGATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.04, G:0.29, T:0.25
Consensus pattern (24 bp):
GATGGTAATTAGACAAAATGAGGT
Found at i:18191260 original size:51 final size:51
Alignment explanation
Indices: 18191200--18191361 Score: 234
Period size: 51 Copynumber: 3.1 Consensus size: 51
18191190 GTAGCTTTAA
18191200 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTCACTGATC
1 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTCACTGATC
*
18191251 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTGTCACTTGTACTGATC
1 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGT--C----ACTGATC
* * *
18191308 AGATAAGTGTAGCTAAAGCTACTACTTGTCACTTGTCACTTGTCACTAATC
1 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTCACTGATC
18191359 AGA
1 AGA
18191362 AGTACTCAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
51 51 0.51
53 1 0.01
55 1 0.01
57 47 0.47
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (51 bp):
AGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTCACTGATC
Found at i:18191313 original size:57 final size:58
Alignment explanation
Indices: 18191222--18191354 Score: 232
Period size: 57 Copynumber: 2.3 Consensus size: 58
18191212 CTAAAGCTAC
18191222 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* *
18191280 CACTTATCACTTGTCACTTGT-ACTGATCAGATAAGTGTAGCTAAAGCTACTACTTGT
1 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
*
18191337 CACTTGTCACTTGTCACT
1 CACTTATCACTTGTCACT
18191355 AATCAGAAGT
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
57 51 0.71
58 21 0.29
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (58 bp):
CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:18197700 original size:203 final size:203
Alignment explanation
Indices: 18197346--18197722 Score: 666
Period size: 203 Copynumber: 1.9 Consensus size: 203
18197336 TTGTCTTGAT
*
18197346 AGCTAAGCATGACAACCATTTATCGGTTAAACTAAAGGTGTTCAACCCTTAAAAACCTAGAATCC
1 AGCTAAGCATGACAACCATTTATCGGTTAAACTAAAGGTGTTCAACCCTTAAAAACCCAGAATCC
*
18197411 ATAATTATATAGAAGCTTTTAAGAGTTTTTACTCTACTTCTCTCTTCAATCCACAAGTACAGAGA
66 ATAATTATATAGAAGCTTTTAAGAGTTCTTACTCTACTTCTCTCTTCAATCCACAAGTACAGAGA
18197476 GGTAAGGAAGTTTACCAGTTCCTCAACTTATCTAATACCAGACTTCAGTTTTCATGATGGTTGCG
131 GGTAAGGAAGTTTACCAGTTCCTCAACTTATCTAATACCAGACTTCAGTTTTCATGATGGTTGCG
18197541 ACATGCAA
196 ACATGCAA
* *
18197549 AGCTAAGCATGACAACCATTTATTGGTTAAACTAAAGGTGTTCAACCCTTAAAAACCCATAATCC
1 AGCTAAGCATGACAACCATTTATCGGTTAAACTAAAGGTGTTCAACCCTTAAAAACCCAGAATCC
*
18197614 ATAATTATATAGAAGCTTTTAAGTA-TTCTTACTCTACTTCTCTCTTCAATCTACAAGTACAGAG
66 ATAATTATATAGAAGCTTTTAAG-AGTTCTTACTCTACTTCTCTCTTCAATCCACAAGTACAGAG
* * *
18197678 AGGTAAGGAAGTTTATCAGTTCCTCAACTTTTCTACTACCAGACT
130 AGGTAAGGAAGTTTACCAGTTCCTCAACTTATCTAATACCAGACT
18197723 ACAATTCTCA
Statistics
Matches: 165, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
203 164 0.99
204 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (203 bp):
AGCTAAGCATGACAACCATTTATCGGTTAAACTAAAGGTGTTCAACCCTTAAAAACCCAGAATCC
ATAATTATATAGAAGCTTTTAAGAGTTCTTACTCTACTTCTCTCTTCAATCCACAAGTACAGAGA
GGTAAGGAAGTTTACCAGTTCCTCAACTTATCTAATACCAGACTTCAGTTTTCATGATGGTTGCG
ACATGCAA
Found at i:18221549 original size:16 final size:14
Alignment explanation
Indices: 18221518--18221548 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
18221508 ATAAAAATAT
18221518 AATAAAATATTTAA
1 AATAAAATATTTAA
18221532 AATATAAATATTTAA
1 AATA-AAATATTTAA
18221547 AA
1 AA
18221549 AAAGAGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAAAATATTTAA
Found at i:18223734 original size:18 final size:18
Alignment explanation
Indices: 18223700--18223735 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18223690 TCACAAATTT
**
18223700 TAAATATAAACCGTAAAA
1 TAAATATAAACAATAAAA
18223718 TAAATATAAACAATAAAA
1 TAAATATAAACAATAAAA
18223736 AAACTAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.22
Consensus pattern (18 bp):
TAAATATAAACAATAAAA
Found at i:18224288 original size:23 final size:25
Alignment explanation
Indices: 18224257--18224321 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 25
18224247 AGAGAGAATC
18224257 TTATATTAA-ATAACAATTTAAT-TT
1 TTATATTAATATAA-AATTTAATGTT
*
18224281 TTAT-TTAATATTAAATTTAATGTTT
1 TTATATTAATATAAAATTTAATG-TT
*
18224306 TTATATTACTA-AAAAT
1 TTATATTAATATAAAAT
18224322 GTGATGTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 12 0.35
24 7 0.21
25 10 0.29
26 5 0.15
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (25 bp):
TTATATTAATATAAAATTTAATGTT
Found at i:18225465 original size:29 final size:31
Alignment explanation
Indices: 18225432--18225491 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
18225422 AAAAAATATA
* *
18225432 TTTAATA-AA-AAATATTTATTATATTTATT
1 TTTAATATAATAAACATTTATTACATTTATT
18225461 TTTAATATAATTAAACATTTATTACATTTAT
1 TTTAATATAA-TAAACATTTATTACATTTAT
18225492 GGTAGTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.27
30 2 0.08
32 17 0.65
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (31 bp):
TTTAATATAATAAACATTTATTACATTTATT
Found at i:18227075 original size:235 final size:226
Alignment explanation
Indices: 18226644--18227079 Score: 527
Period size: 235 Copynumber: 1.9 Consensus size: 226
18226634 ATTTTAATCA
* * * *
18226644 TACATTGACTATAAAATACTCTCATGGTTCACTTTTTCACTATTTCATTAAAAATTAATTTTAGT
1 TACATTGACTAGAAAATACTCTCATAGCTCACTTCTTCACTATTTCATTAAAAATTAATTTTAGT
* * *
18226709 CCCTTAAAAAGATAATTTTAATTGTTTAGAGAATACTCACATGCTCACATATACCTTATAAATAA
66 CCCTTAAAAAGATAATTTTAATTATTTAAAGAACACTCACATGCTCACATATACCTTATAAATAA
** *
18226774 ATATAATTTTTTTTCTTTATTTTCATTAAAAATTTAATTTCAATCCCACATTGACTAAAGAACAC
131 ATATAATTTTTTTTCACTATTTTCATTAAAAAGTTAATTTCAATCCCACATTGACTAAAGAACAC
18226839 TCTCATATCTCACATTTACCTTATAAATAAG
196 TCTCATATCTCACATTTACCTTATAAATAAG
*
18226870 TACATTGACTAGATAATACTCTCATAGCTCACTTCTTCACTATTTTCATTCAAAAA-TAATTTT-
1 TACATTGACTAGAAAATACTCTCATAGCTCACTTCTTCACTA-TTTCATT-AAAAATTAATTTTA
* * * * * *
18226933 GCTCCCTTAAAAAGTTAATTTTAATCCTACATTGGCTAAAGAACACTCCCATGCTCGCATTTGCT
64 G-TCCCTTAAAAAGATAATTTTAAT--T--ATT---TAAAGAACACTCACATGCTCACATATACC
* * * * ** *
18226998 TTATAAATAAGTGTTAGTTTTTTTTCACTATTTTCATTAAAAAGTTAATTTTAATCTTACATTGG
121 TTATAAATAAAT-ATAATTTTTTTTCACTATTTTCATTAAAAAGTTAATTTCAATCCCACATTGA
18227063 CTAGAA-AACACTCTCAT
185 CTA-AAGAACACTCTCAT
18227080 GCTCGTACTT
Statistics
Matches: 174, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
226 38 0.22
227 36 0.21
228 5 0.03
229 1 0.01
231 2 0.01
234 33 0.19
235 57 0.33
236 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (226 bp):
TACATTGACTAGAAAATACTCTCATAGCTCACTTCTTCACTATTTCATTAAAAATTAATTTTAGT
CCCTTAAAAAGATAATTTTAATTATTTAAAGAACACTCACATGCTCACATATACCTTATAAATAA
ATATAATTTTTTTTCACTATTTTCATTAAAAAGTTAATTTCAATCCCACATTGACTAAAGAACAC
TCTCATATCTCACATTTACCTTATAAATAAG
Found at i:18227170 original size:92 final size:94
Alignment explanation
Indices: 18226939--18227171 Score: 326
Period size: 95 Copynumber: 2.5 Consensus size: 94
18226929 TTTTGCTCCC
* * * **
18226939 TTAAAAAGTTAATTTTAATCCTACATTGGCTAAAGAACACTCCCATGCTCGCATTTGCTTTATAA
1 TTAAAAAGTTAATTTTAATCCTACATTGGCTAGAGAACACTCTCATGCTCGCACTTGCTCAATAA
* *
18227004 ATAAGTGTTAGTTTTTTTTCACTATTTTCA
66 ATAAGTGTTAG-CTTTCTTCACTATTTTCA
* * *
18227034 TTAAAAAGTTAATTTTAATCTTACATTGGCTAGAAAACACTCTCATGCTCGTACTTGCTCAATAA
1 TTAAAAAGTTAATTTTAATCCTACATTGGCTAGAGAACACTCTCATGCTCGCACTTGCTCAATAA
18227099 ATAAGTGTTA-CTTTCTTCACTATTTTCA
66 ATAAGTGTTAGCTTTCTTCACTATTTTCA
* * *
18227127 TT-AAAAGTTAATTTTAATCCAATATTGACTAGAGAACACTCTCAT
1 TTAAAAAGTTAATTTTAATCCTACATTGGCTAGAGAACACTCTCAT
18227172 ATCTCACACT
Statistics
Matches: 123, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
92 38 0.31
93 18 0.15
95 67 0.54
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (94 bp):
TTAAAAAGTTAATTTTAATCCTACATTGGCTAGAGAACACTCTCATGCTCGCACTTGCTCAATAA
ATAAGTGTTAGCTTTCTTCACTATTTTCA
Found at i:18242140 original size:36 final size:36
Alignment explanation
Indices: 18242089--18242159 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
18242079 GATTATGTAA
18242089 TCTTAGAGTTCTAATTATATACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTATATACAGCTTCTAATTGTG
* * *
18242125 TCTTAGAGTTTTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTATATACAGCTTCTAATTGT
18242160 AGCCCTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTATATACAGCTTCTAATTGTG
Found at i:18243605 original size:14 final size:14
Alignment explanation
Indices: 18243586--18243615 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18243576 AGTGAGAGAG
*
18243586 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
18243600 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
18243614 GA
1 GA
18243616 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:18244190 original size:20 final size:22
Alignment explanation
Indices: 18244165--18244212 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
18244155 CGAATCTGTA
18244165 AAAAATAA-T-CAAAATTCACT
1 AAAAATAATTGCAAAATTCACT
* *
18244185 AAAAATAATTGTAAAATTGACT
1 AAAAATAATTGCAAAATTCACT
18244207 AAAAAT
1 AAAAAT
18244213 TAACATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATAATTGCAAAATTCACT
Found at i:18252009 original size:20 final size:19
Alignment explanation
Indices: 18251980--18252028 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
18251970 ATCAAATTGA
* *
18251980 ATTATCATTGAATGGATTT
1 ATTATAATTGAATGCATTT
*
18251999 GATTATAATTGGATGCATTT
1 -ATTATAATTGAATGCATTT
18252019 A-TATAATTGA
1 ATTATAATTGA
18252029 TGATAAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 8 0.32
19 1 0.04
20 16 0.64
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (19 bp):
ATTATAATTGAATGCATTT
Found at i:18254263 original size:17 final size:17
Alignment explanation
Indices: 18254241--18254290 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
18254231 ATAGAAAGTC
18254241 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
18254258 AAAGATATTGGTATCAG
1 AAAGATATGGGTATCAG
18254275 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
18254291 AAATCTGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:18256147 original size:200 final size:200
Alignment explanation
Indices: 18255804--18256201 Score: 778
Period size: 200 Copynumber: 2.0 Consensus size: 200
18255794 GACAATGGGA
18255804 GTAGGTACAATCCAATTGAAGAATCAGGACGGCTCAATTCAAGTCTTCACAGATGTTCGCTACAT
1 GTAGGTACAATCCAATTGAAGAATCAGGACGGCTCAATTCAAGTCTTCACAGATGTTCGCTACAT
*
18255869 ACCTAGCTTGAAGAAAAATCTCATCTCGTTAGGGGTCCTAGAATCTAAAGGGCTCACAATCACTT
66 ACCTAGCTTGAAGAAAAATCTCATCTCATTAGGGGTCCTAGAATCTAAAGGGCTCACAATCACTT
18255934 TGAGAGATGGATTACTAAAGGTAGTAGCTGGGGTATTGACAGTAATGAAAGACACAAGAAGGAAT
131 TGAGAGATGGATTACTAAAGGTAGTAGCTGGGGTATTGACAGTAATGAAAGACACAAGAAGGAAT
18255999 AACTT
196 AACTT
18256004 GTAGGTACAATCCAATTGAAGAATCAGGACGGCTCAATTCAAGTCTTCACAGATGTTCGCTACAT
1 GTAGGTACAATCCAATTGAAGAATCAGGACGGCTCAATTCAAGTCTTCACAGATGTTCGCTACAT
*
18256069 ACCTAGCTTGAAGAAAAATCTCATCTCATTAGGGGTCCTAGAATCTAAGGGGCTCACAATCACTT
66 ACCTAGCTTGAAGAAAAATCTCATCTCATTAGGGGTCCTAGAATCTAAAGGGCTCACAATCACTT
18256134 TGAGAGATGGATTACTAAAGGTAGTAGCTGGGGTATTGACAGTAATGAAAGACACAAGAAGGAAT
131 TGAGAGATGGATTACTAAAGGTAGTAGCTGGGGTATTGACAGTAATGAAAGACACAAGAAGGAAT
18256199 AAC
196 AAC
18256202 CTATACTATT
Statistics
Matches: 196, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 196 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (200 bp):
GTAGGTACAATCCAATTGAAGAATCAGGACGGCTCAATTCAAGTCTTCACAGATGTTCGCTACAT
ACCTAGCTTGAAGAAAAATCTCATCTCATTAGGGGTCCTAGAATCTAAAGGGCTCACAATCACTT
TGAGAGATGGATTACTAAAGGTAGTAGCTGGGGTATTGACAGTAATGAAAGACACAAGAAGGAAT
AACTT
Found at i:18257999 original size:17 final size:17
Alignment explanation
Indices: 18257977--18258009 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18257967 ATAGAAATTC
18257977 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
18257994 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
18258010 AAATTTGATA
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:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:18267854 original size:30 final size:30
Alignment explanation
Indices: 18267818--18267876 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
18267808 ATATAATTTA
18267818 TTTTTTGTTTAATTTATAAAAACCCAAAAT
1 TTTTTTGTTTAATTTATAAAAACCCAAAAT
18267848 TTTTTTGTTTAATTTATAAAAACCCAAAA
1 TTTTTTGTTTAATTTATAAAAACCCAAAA
18267877 ACCCAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (30 bp):
TTTTTTGTTTAATTTATAAAAACCCAAAAT
Found at i:18275523 original size:25 final size:24
Alignment explanation
Indices: 18275495--18275584 Score: 67
Period size: 24 Copynumber: 3.7 Consensus size: 24
18275485 TCGTTATTTA
*
18275495 GCTCTAATGAGCTTCCCAGTATATG
1 GCTCT-ATGAGCTTCCCAATATATG
** * *
18275520 GCTCTCCGGACCTTCTCAATAT-TG
1 GCTCT-ATGAGCTTCCCAATATATG
* *
18275544 GCTCGTATGAGCTTTCCAAT-TACG
1 GCTC-TATGAGCTTCCCAATATATG
18275568 GCTCTTATGAGCTTCCC
1 GCTC-TATGAGCTTCCC
18275585 GATTAATGCC
Statistics
Matches: 49, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
23 1 0.02
24 31 0.63
25 17 0.35
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (24 bp):
GCTCTATGAGCTTCCCAATATATG
Found at i:18275589 original size:24 final size:24
Alignment explanation
Indices: 18275542--18275660 Score: 80
Period size: 24 Copynumber: 4.9 Consensus size: 24
18275532 TTCTCAATAT
* * *
18275542 TGGCTCGTATGAGCTTTCCAATTA
1 TGGCTCTTATGAGCTTCCCGATTA
*
18275566 CGGCTCTTATGAGCTTCCCGATTAA
1 TGGCTCTTATGAGCTTCCCGATT-A
* * * * *
18275591 T-GCCCTCATGAGCTTTCTGATATT
1 TGGCTCTTATGAGCTTCCCGAT-TA
* *
18275615 TGGCTCTCT-TAAGCTTCCCGTTTA
1 TGGCTCT-TATGAGCTTCCCGATTA
* *
18275639 TGGCTCGTATGAGCTTCTCGAT
1 TGGCTCTTATGAGCTTCCCGAT
18275661 AATTGGCTTG
Statistics
Matches: 69, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
23 1 0.01
24 53 0.77
25 15 0.22
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (24 bp):
TGGCTCTTATGAGCTTCCCGATTA
Found at i:18277659 original size:14 final size:14
Alignment explanation
Indices: 18277640--18277682 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
18277630 CATATAACAC
18277640 TTCATATAATTATT
1 TTCATATAATTATT
* *
18277654 TTCATATAATCA-A
1 TTCATATAATTATT
18277667 TTCATATAATTATT
1 TTCATATAATTATT
18277681 TT
1 TT
18277683 GTTCATCTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (14 bp):
TTCATATAATTATT
Found at i:18277676 original size:13 final size:13
Alignment explanation
Indices: 18277617--18277781 Score: 84
Period size: 13 Copynumber: 12.5 Consensus size: 13
18277607 CATATCTATC
*
18277617 CATATAAACATTT
1 CATATAATCATTT
*
18277630 CATATAA-CACTT
1 CATATAATCATTT
*
18277642 CATATAATTATTTT
1 CATATAATCA-TTT
*
18277656 CATATAATCAATT
1 CATATAATCATTT
*
18277669 CATATAATTATTT
1 CATATAATCATTT
** * *
18277682 TGT-TCATCTGTTT
1 CATATAATC-ATTT
*
18277695 CCATATAATTGA-TT
1 -CATATAA-TCATTT
*
18277709 CATATAAGCATTT
1 CATATAATCATTT
* * *
18277722 CGTATATTTATTT
1 CATATAATCATTT
* *
18277735 CTATATAACCAATT
1 C-ATATAATCATTT
*
18277749 CTTATAATCATTT
1 CATATAATCATTT
* * *
18277762 TACATAACCATTT
1 CATATAATCATTT
18277775 CATATAA
1 CATATAA
18277782 AAAATTCATA
Statistics
Matches: 107, Mismatches: 37, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
12 15 0.14
13 67 0.63
14 22 0.21
15 2 0.02
16 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.03, T:0.45
Consensus pattern (13 bp):
CATATAATCATTT
Found at i:18277676 original size:27 final size:26
Alignment explanation
Indices: 18277627--18277682 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
18277617 CATATAAACA
*
18277627 TTTCATATAACACTTCATATAATTAT
1 TTTCATATAACAATTCATATAATTAT
18277653 TTTCATATAATCAATTCATATAATTAT
1 TTTCATATAA-CAATTCATATAATTAT
18277680 TTT
1 TTT
18277683 GTTCATCTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTCATATAACAATTCATATAATTAT
Found at i:18277806 original size:13 final size:13
Alignment explanation
Indices: 18277790--18277814 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18277780 AAAAAATTCA
18277790 TATAGCCATTTCG
1 TATAGCCATTTCG
18277803 TATAGCCATTTC
1 TATAGCCATTTC
18277815 AAAGTGTTAA
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:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (13 bp):
TATAGCCATTTCG
Found at i:18280851 original size:26 final size:26
Alignment explanation
Indices: 18280786--18280852 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
18280776 AACACACTAA
18280786 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* * **
18280812 TATTGTAGTGAAGCTGCCAGT-ATCAG
1 TATCGCAGCAAAGCTGCCAGTAAT-AG
18280838 TATCGCAGCAAAGCT
1 TATCGCAGCAAAGCT
18280853 ACCAATAACA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
25 2 0.06
26 30 0.94
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAATAG
Found at i:18285267 original size:31 final size:31
Alignment explanation
Indices: 18285182--18285276 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 31
18285172 ATAAAAGAAA
** * *
18285182 TATTTAAACTTTTATTTTTAAAATTTAAAAG
1 TATTTAAAAATTTATTTCTAAAATTTAAAAT
*
18285213 TA-TTAGATATATATTATTTCTAAAATTTAAAAT
1 TATTTA-A-AAAT-TTATTTCTAAAATTTAAAAT
* *
18285246 TATTTAAAAATTTATTCCTAAAATTAAAAAT
1 TATTTAAAAATTTATTTCTAAAATTTAAAAT
18285277 AAAAATTAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
30 3 0.06
31 21 0.40
32 5 0.09
33 21 0.40
34 3 0.06
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.47
Consensus pattern (31 bp):
TATTTAAAAATTTATTTCTAAAATTTAAAAT
Found at i:18288781 original size:6 final size:6
Alignment explanation
Indices: 18288770--18288807 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
18288760 ATCCTTTGGT
18288770 TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TG
1 TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TG
18288808 CGGCATTGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.16, G:0.34, T:0.50
Consensus pattern (6 bp):
TGTTGC
Found at i:18290129 original size:20 final size:20
Alignment explanation
Indices: 18290104--18290146 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
18290094 GATTCGACTG
*
18290104 AAGGAGAAGATAA-AAAAGGA
1 AAGGAGAAGA-AAGAAAAAGA
18290124 AAGGAGAAGAAAGAAAAAGA
1 AAGGAGAAGAAAGAAAAAGA
18290144 AAG
1 AAG
18290147 AAAAGAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (20 bp):
AAGGAGAAGAAAGAAAAAGA
Found at i:18290136 original size:15 final size:15
Alignment explanation
Indices: 18290118--18290177 Score: 70
Period size: 15 Copynumber: 4.0 Consensus size: 15
18290108 AGAAGATAAA
*
18290118 AAAGGAAAGGAGAAG
1 AAAGAAAAGGAGAAG
*
18290133 AAAGAAAAAGA-AAG
1 AAAGAAAAGGAGAAG
18290147 AAAAGAAAAGGAGAAG
1 -AAAGAAAAGGAGAAG
18290163 -AAGAAAAAGGAGAAG
1 AAAG-AAAAGGAGAAG
18290178 GAGGCGTAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
14 6 0.15
15 30 0.77
16 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGGAGAAG
Found at i:18290209 original size:21 final size:22
Alignment explanation
Indices: 18290165--18290209 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
18290155 AGGAGAAGAA
* * *
18290165 GAAAAAGGAGAAGGAGGCGTAG
1 GAAAAAGGAGAAAGAGGAGGAG
18290187 GAAAAA-GAGAAAGAGGAGGAG
1 GAAAAAGGAGAAAGAGGAGGAG
18290208 GA
1 GA
18290210 GAAGAAGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.51, C:0.02, G:0.44, T:0.02
Consensus pattern (22 bp):
GAAAAAGGAGAAAGAGGAGGAG
Found at i:18290290 original size:20 final size:20
Alignment explanation
Indices: 18290261--18290298 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18290251 AAGGAAAGGT
18290261 ATTTTCTTTGTATTATTTTA
1 ATTTTCTTTGTATTATTTTA
*
18290281 ATTTTTTTTGTATTATTT
1 ATTTTCTTTGTATTATTT
18290299 GTGTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (20 bp):
ATTTTCTTTGTATTATTTTA
Found at i:18290499 original size:16 final size:16
Alignment explanation
Indices: 18290478--18290527 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
18290468 AAATAGGATT
18290478 AAAAATAAAATACTGA
1 AAAAATAAAATACTGA
***
18290494 AAAAATATGTTTA-TGA
1 AAAAATA-AAATACTGA
18290510 AAAAATAAAATAC-GA
1 AAAAATAAAATACTGA
18290525 AAA
1 AAA
18290528 GAAACGAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 7 0.27
16 17 0.65
17 2 0.08
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAATAAAATACTGA
Found at i:18290849 original size:161 final size:159
Alignment explanation
Indices: 18290531--18291402 Score: 1189
Period size: 161 Copynumber: 5.6 Consensus size: 159
18290521 ACGAAAAGAA
** * *
18290531 ACGAAAATAGTATATTTACTGAAAGTAATAAAATC-CGAAAATAAGAAAAATACGAACAAATGGC
1 ACGAAAATAGTATATTTTTTGAAAGTAATAAAATCGGGAAAA-AAGAAAAATACGAACAAAGGGC
* * * * * *
18290595 CAAAATAAGGGTTTTTTATTAAATTTAT-TTAAAAAATATACTAAAATAATACATTTCAAACATA
65 CAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACATT
*
18290659 ATGCACTAAAATAATATAAAATAATAAAAT
130 ATGTACTAAAATAATATAAAATAATAAAAT
*
18290689 ACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATACGAATAAAGGGC
1 ACGAAAATAGTATATTTTTTGAAAGTAATAAAA-TCGGGAAAAAAGAAAAATACGAACAAAGGGC
**
18290754 CAAAATAAGATTTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACAT
65 CAAAATAAG-GGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACAT
18290819 TATGTACTAAAATAATATAAAATAATAAAAT
129 TATGTACTAAAATAATATAAAATAATAAAAT
* * * *
18290850 ACAAAAATAATATATTTTTTGAAAGTAATAAAATCTGAGAAAAAAGAAAAATACGAATAAAGGGC
1 ACGAAAATAGTATATTTTTTGAAAGTAATAAAATC-GGGAAAAAAGAAAAATACGAACAAAGGGC
* *
18290915 CAAAATAAGTGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACACTT----CA--
65 CAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACATT
*
18290974 A---AC----AT-A-AT---GTAATAAAAT
130 ATGTACTAAAATAATATAAAATAATAAAAT
*
18290992 ACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGAAAAAAAAAAGAAAAATAC-AAGCAAA
1 ACGAAAATAGTATATTTTTTGAAAGTAATAAAAT-CGG---GAAAAAAGAAAAATACGAA-CAAA
*
18291056 TGGCCAAAATAAGGGTTTTTTACTAAATTTATAT--AAAAACACACTAAATTAATACATTTCAAA
61 GGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAA
18291119 CATTATGTACTAAAATAATATAAAATAATAAAAT
126 CATTATGTACTAAAATAATATAAAATAATAAAAT
* * ** * *
18291153 ACGAAAATAGCATATTTTTTTAAAGTAATAAAATCCAGAAAAAAGAAAAATACAAACAAATGGCC
1 ACGAAAATAGTATATTTTTTGAAAGTAATAAAATCGGGAAAAAAGAAAAATACGAACAAAGGGCC
*
18291218 AAAATAAGGG-TTTTTACTGAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACATTA
66 AAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACATTA
18291282 TGTACTAAAATAATATAAAATAATAAAAT
131 TGTACTAAAATAATATAAAATAATAAAAT
*
18291311 ATGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAACAAAGGGC
1 ACGAAAATAGTATATTTTTTGAAAGTAATAAAATC-GGGAAAAAAGAAAAATACGAACAAAGGGC
*
18291376 CAAAATAAGAGTTTTTTTACTAAATTT
65 CAAAATAAG-GGTTTTTTACTAAATTT
18291403 GTTTTGAAGT
Statistics
Matches: 636, Mismatches: 44, Indels: 65
0.85 0.06 0.09
Matches are distributed among these distances:
142 42 0.07
143 25 0.04
144 2 0.00
145 52 0.08
146 1 0.00
147 4 0.01
149 1 0.00
151 2 0.00
152 2 0.00
154 1 0.00
156 21 0.03
157 35 0.06
158 130 0.20
159 65 0.10
160 71 0.11
161 182 0.29
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (159 bp):
ACGAAAATAGTATATTTTTTGAAAGTAATAAAATCGGGAAAAAAGAAAAATACGAACAAAGGGCC
AAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACATTA
TGTACTAAAATAATATAAAATAATAAAAT
Found at i:18291000 original size:142 final size:142
Alignment explanation
Indices: 18290841--18291293 Score: 472
Period size: 145 Copynumber: 3.1 Consensus size: 142
18290831 TAATATAAAA
* *
18290841 TAATAAAATACAAAAATAATATATTTTTTGAAAGTAATAAAAT-CTG-AGAAAAAAGAAAAATAC
1 TAATAAAATACAAAAATAATATATTTTTTGAAAGTAATAAAATCCGGAAAAAAAAAGAAAAATAC
* *
18290904 GAA-TAAAGGGCCAAAATAAGTGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATAC
66 -AAGCAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATAT--AAAAACACACTAAATTAATAC
18290968 ACTTCAAACATAATG
128 ACTTCAAACATAATG
* *
18290983 TAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGAAAAAAAAAAGAAAAATA
1 TAATAAAATACAAAAATAATATATTTTTTGAAAGTAATAAAATCCGG-AAAAAAAAAGAAAAATA
* *
18291048 CAAGCAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAACACACTAAATTAATACAT
65 CAAGCAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAACACACTAAATTAATACAC
*
18291113 TTCAAACATTATGTACTAAAA
130 TTCAAACA-TA---A-T---G
* *
18291134 TAATATAAAATA-ATAAAATACGAAAATAGCATATTTTTTTAAAGTAATAAAATCC---AGAAAA
1 T-A-ATAAAATACA-AAAAT-----AAT---ATATTTTTTGAAAGTAATAAAATCCGGAAAAAAA
* * *
18291195 AAGAAAAATACAAACAAATGGCCAAAATAAGGG-TTTTTACTGAATTTATATAAAAAAACACACT
55 AAGAAAAATACAAGCAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATAT--AAAAACACACT
* *
18291259 AAATTAATACATTTCAAACATTATG
118 AAATTAATACACTTCAAACATAATG
*
18291284 TACTAAAATA
1 TAATAAAATA
18291294 ATATAAAATA
Statistics
Matches: 268, Mismatches: 18, Indels: 44
0.81 0.05 0.13
Matches are distributed among these distances:
142 41 0.15
143 32 0.12
144 4 0.01
145 51 0.19
147 1 0.00
148 8 0.03
149 1 0.00
150 1 0.00
151 1 0.00
152 1 0.00
153 14 0.05
154 1 0.00
156 17 0.06
157 38 0.14
158 33 0.12
161 24 0.09
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (142 bp):
TAATAAAATACAAAAATAATATATTTTTTGAAAGTAATAAAATCCGGAAAAAAAAAGAAAAATAC
AAGCAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAACACACTAAATTAATACACT
TCAAACATAATG
Found at i:18291144 original size:145 final size:142
Alignment explanation
Indices: 18290853--18291402 Score: 534
Period size: 158 Copynumber: 3.6 Consensus size: 142
18290843 ATAAAATACA
* * * *
18290853 AAAATAATATATTTTTTGAAAGTAATAAAATCTGAGAAAAAAGAAAAATACGAATAAAGGGCCAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAGAAAAAAGAAAAATAC-AACAAATGGCCAA
* * *
18290918 AATAAGTGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACACTTCAAACATAATG
65 AATAAGGGTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACATTTCAAACATTATG
* **
18290983 TAATAAAAT-A-CG
129 TACTAAAATAATAT
*
18290995 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGGAAAAAAAAAAGAAAAATACAAGCAAATGGC
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCC-G--AGAAAAAAGAAAAATACAA-CAAATGGC
18291060 CAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAACACACTAAATTAATACATTTCAAACATTA
62 CAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACATTA
18291124 TGTACTAAAATAATATAAAATAAT
127 TGTACT---A-AA-AT--AAT-AT
*
18291148 AAAATACGAAAATAGCATATTTTTTTAAAGTAATAAAATCC-AGAAAAAAGAAAAATACAAACAA
1 AAAATA-G----T---ATATTTTTTGAAAGTAATAAAATCCGAGAAAAAAGAAAAATAC-AACAA
*
18291212 ATGGCCAAAATAAGGG-TTTTTACTGAATTTATATAAAAAAACACACTAAATTAATACATTTCAA
57 ATGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACATTTCAA
18291276 ACATTATGTACTAAAATAATATAAAATAATAAAATAT
121 ACATTATGTAC----------T--AA-AAT--AATAT
* * *
18291313 GAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAACAAAGGGCCA
1 -AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAGAAAAAAGAAAAATAC-AACAAATGGCCA
*
18291378 AAATAAGAGTTTTTTTACTAAATTT
64 AAATAAG-GGTTTTTTACTAAATTT
18291403 GTTTTGAAGT
Statistics
Matches: 347, Mismatches: 21, Indels: 61
0.81 0.05 0.14
Matches are distributed among these distances:
142 31 0.09
143 38 0.11
144 2 0.01
145 51 0.15
146 1 0.00
147 2 0.01
148 2 0.01
151 1 0.00
153 6 0.02
154 1 0.00
156 17 0.05
157 35 0.10
158 65 0.19
159 34 0.10
160 1 0.00
161 38 0.11
165 3 0.01
166 14 0.04
167 4 0.01
168 1 0.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (142 bp):
AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAGAAAAAAGAAAAATACAACAAATGGCCAAA
ATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACATTATGTA
CTAAAATAATAT
Found at i:18293730 original size:8 final size:8
Alignment explanation
Indices: 18293717--18293762 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
18293707 GGGTGTTACA
18293717 ACAACATT
1 ACAACATT
18293725 ACAACATT
1 ACAACATT
18293733 ACAACATT
1 ACAACATT
*
18293741 AC-ACATA
1 ACAACATT
*
18293748 ACAACTTT
1 ACAACATT
18293756 ACAACAT
1 ACAACAT
18293763 AAGCTCAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (8 bp):
ACAACATT
Found at i:18296666 original size:20 final size:20
Alignment explanation
Indices: 18296641--18296707 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
18296631 CTAACACAAT
*
18296641 AATAATAGTTTTTTACTAAA
1 AATAATAGTATTTTACTAAA
* ** *
18296661 AATAATACTAACTAAC-AAA
1 AATAATAGTATTTTACTAAA
**
18296680 AATAATTAGGGTTTTACTAAA
1 AATAA-TAGTATTTTACTAAA
18296701 AATAATA
1 AATAATA
18296708 ACTAACAATA
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
19 8 0.24
20 18 0.53
21 8 0.24
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.34
Consensus pattern (20 bp):
AATAATAGTATTTTACTAAA
Found at i:18296701 original size:40 final size:42
Alignment explanation
Indices: 18296628--18296713 Score: 124
Period size: 40 Copynumber: 2.1 Consensus size: 42
18296618 TTAATTCTAA
**
18296628 TAACTAACACAATAATAATAGTTTTTTACTAAAAATAAT-AC
1 TAACTAACACAATAATAATAGGGTTTTACTAAAAATAATAAC
18296669 TAACTAACA-AA-AATAATTAGGGTTTTACTAAAAATAATAAC
1 TAACTAACACAATAATAA-TAGGGTTTTACTAAAAATAATAAC
18296710 TAAC
1 TAAC
18296714 AATAATATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 5 0.12
40 21 0.51
41 15 0.37
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (42 bp):
TAACTAACACAATAATAATAGGGTTTTACTAAAAATAATAAC
Found at i:18296771 original size:76 final size:77
Alignment explanation
Indices: 18296655--18296803 Score: 212
Period size: 76 Copynumber: 1.9 Consensus size: 77
18296645 ATAGTTTTTT
18296655 ACTAAAAATAATACTAACTAACAAAAATAATTAGGGTTTTACTAAAAATAATAACTAACAATAAT
1 ACTAAAAATAATACTAACTAACAAAAATAATTAGGGTTTTACTAAAAATAATAACTAACAATAAT
18296720 -ATAATATAAAA
66 AATAATATAAAA
* * * *** *
18296731 ACTAACAATCATACTAACTAA-AATAATAATTAGGGTTTTTACTAATCCTAATAACTAACCATAA
1 ACTAAAAATAATACTAACTAACAAAAATAATTAGGG-TTTTACTAAAAATAATAACTAACAATAA
18296795 TAATAATAT
65 TAATAATAT
18296804 TAGTTTTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
75 13 0.20
76 44 0.69
77 7 0.11
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (77 bp):
ACTAAAAATAATACTAACTAACAAAAATAATTAGGGTTTTACTAAAAATAATAACTAACAATAAT
AATAATATAAAA
Found at i:18297040 original size:24 final size:23
Alignment explanation
Indices: 18297013--18297077 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
18297003 ATACCTTATT
18297013 TTTCTATTTTTTTTCTTCTCTTTC
1 TTTCT-TTTTTTTTCTTCTCTTTC
* * * *
18297037 TTTCTCCTTTCTCTATTCTCTTTC
1 TTTCT-TTTTTTTTCTTCTCTTTC
*
18297061 TCTCTTTTTCTTTTCTT
1 TTTCTTTTT-TTTTCTT
18297078 TTCCTGGCAC
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTCTTTTTTTTTCTTCTCTTTC
Done.