Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 214 of 325
Found at i:66238167 original size:30 final size:28
Alignment explanation
Indices: 66238109--66238167 Score: 66
Period size: 30 Copynumber: 2.0 Consensus size: 28
66238099 TAATTTAATG
*
66238109 ATAATAAATACATTAATTTTACTTAAATA
1 ATAATAAATACATCAATTTTAC-TAAATA
66238138 ATAAGTAAATACATACATATTTTAC-AAATA
1 ATAA-TAAATACAT-CA-ATTTTACTAAATA
66238168 TATGTACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
29 4 0.15
30 14 0.54
31 1 0.04
32 7 0.27
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (28 bp):
ATAATAAATACATCAATTTTACTAAATA
Found at i:66241518 original size:32 final size:32
Alignment explanation
Indices: 66241475--66241544 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
66241465 AACCTTACTA
*
66241475 GGAAAATCCAATGGGACAAAACCTCGGTTAAG
1 GGAAAACCCAATGGGACAAAACCTCGGTTAAG
66241507 GGAAAACCCAATGGGACAAAACCTCGGTTAAG
1 GGAAAACCCAATGGGACAAAACCTCGGTTAAG
66241539 GGAAAA
1 GGAAAA
66241545 AGAGTACAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.13
Consensus pattern (32 bp):
GGAAAACCCAATGGGACAAAACCTCGGTTAAG
Found at i:66245389 original size:33 final size:33
Alignment explanation
Indices: 66245350--66245415 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
66245340 TAGTTTTAGG
** *
66245350 TTAATTTTTTTATCTGATTTTTCAAAATCGTGA
1 TTAATTTTTTTATCCAATTATTCAAAATCGTGA
66245383 TTAATTTTTTTATCCAATTATTCAAAATCGTGA
1 TTAATTTTTTTATCCAATTATTCAAAATCGTGA
66245416 AACTAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.52
Consensus pattern (33 bp):
TTAATTTTTTTATCCAATTATTCAAAATCGTGA
Found at i:66245983 original size:27 final size:27
Alignment explanation
Indices: 66245952--66246006 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
66245942 ATTCAATTTA
*
66245952 ATTTTGATTCTAACT-TTTTTACTTTT
1 ATTTTTATTCTAACTATTTTTACTTTT
* *
66245978 ATTTTTATTTTAATTATTTTTACTTTT
1 ATTTTTATTCTAACTATTTTTACTTTT
66246005 AT
1 AT
66246007 CAAAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (27 bp):
ATTTTTATTCTAACTATTTTTACTTTT
Found at i:66245996 original size:15 final size:16
Alignment explanation
Indices: 66245976--66246005 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
66245966 TTTTTTACTT
66245976 TTATTTTTA-TTTTAA
1 TTATTTTTACTTTTAA
66245991 TTATTTTTACTTTTA
1 TTATTTTTACTTTTA
66246006 TCAAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTTTTACTTTTAA
Found at i:66246459 original size:24 final size:24
Alignment explanation
Indices: 66246421--66246467 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
66246411 ACAAAAATTG
* *
66246421 TTTTAAAAATTAAAAGTTTTTTTTA
1 TTTTAAAAA-TAAAAATATTTTTTA
66246446 TTTT-AAAATAAAAATATTTTTT
1 TTTTAAAAATAAAAATATTTTTT
66246468 GAACAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 4 0.20
25 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTAAAAATAAAAATATTTTTTA
Found at i:66250336 original size:42 final size:41
Alignment explanation
Indices: 66250227--66250391 Score: 168
Period size: 43 Copynumber: 3.9 Consensus size: 41
66250217 ATCTCGTGCA
* * * * *
66250227 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATGTTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAA--TCG
* *
66250270 TTGCCATTGTCCCAGACATGGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAAT-CG
* * *
66250312 ATGCCGATGTCCCAAACATGGTCTTATACGTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAA--TCAAATCG
**
66250356 ATGCCAACATCCCAGACATGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
66250392 CATATCAAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 4 0.04
42 26 0.26
43 38 0.38
44 27 0.27
45 6 0.06
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATCG
Found at i:66250369 original size:44 final size:44
Alignment explanation
Indices: 66250279--66250390 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
66250269 GTTGCCATTG
* **
66250279 TCCCAGACATGGTCTTACACGAAA--TCAAATACGATGCCGATG
1 TCCCAGACATGGTCTTACACGAAATCTCAAATACGATGCCAACA
* *
66250321 TCCCAAACATGGTCTTATACGTAAATCTCAAAT-CGATGCCAACA
1 TCCCAGACATGGTCTTACACG-AAATCTCAAATACGATGCCAACA
66250365 TCCCAGACATGGTCTTACACGAAATC
1 TCCCAGACATGGTCTTACACGAAATC
66250391 ACATATCAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 19 0.32
43 8 0.13
44 27 0.45
45 6 0.10
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGAAATCTCAAATACGATGCCAACA
Found at i:66252501 original size:19 final size:20
Alignment explanation
Indices: 66252466--66252506 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 20
66252456 GGTTAATTTC
66252466 ATCTAAAATCGATTAAAAATA
1 ATCTAAAATC-ATTAAAAATA
66252487 ATCTAAAAT-ATTAAAAATA
1 ATCTAAAATCATTAAAAATA
66252506 A
1 A
66252507 ATAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.55
21 9 0.45
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (20 bp):
ATCTAAAATCATTAAAAATA
Found at i:66252514 original size:17 final size:19
Alignment explanation
Indices: 66252477--66252515 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
66252467 TCTAAAATCG
*
66252477 ATTAAAAATAATCTAAAAT
1 ATTAAAAATAATATAAAAT
66252496 ATTAAAAATAA-AT-AAAT
1 ATTAAAAATAATATAAAAT
66252513 ATT
1 ATT
66252516 TTCAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAATAATATAAAAT
Found at i:66256819 original size:26 final size:26
Alignment explanation
Indices: 66256790--66256897 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
66256780 TGGTACAAAT
*
66256790 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
66256816 TGATAATGGATTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
66256842 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
66256868 TGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
66256894 TGAT
1 TGAT
66256898 GGTCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:66256852 original size:52 final size:52
Alignment explanation
Indices: 66256790--66256897 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
66256780 TGGTACAAAT
66256790 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGATAAATATTCCA
* *
66256842 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGATAAATATTCCA
66256894 TGAT
1 TGAT
66256898 GGTCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGATAAATATTCCA
Found at i:66258582 original size:27 final size:26
Alignment explanation
Indices: 66258530--66258589 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
66258520 ATCTGATCAT
*
66258530 ATATCTGTTCTGGTGGCTCTGCCACA
1 ATATCTGTTCTGGTGACTCTGCCACA
*
66258556 ATATCTGTATCTGGTGACT-TCGTCACA
1 ATATCTGT-TCTGGTGACTCT-GCCACA
66258583 ATATCTG
1 ATATCTG
66258590 GCAGCCTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 9 0.30
27 21 0.70
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACTCTGCCACA
Found at i:66262576 original size:40 final size:39
Alignment explanation
Indices: 66262416--66262578 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
66262406 TGTGTATGAA
*
66262416 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
66262455 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
66262494 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
66262533 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
66262573 TGTGCG
1 TGTGCG
66262579 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:66262594 original size:40 final size:39
Alignment explanation
Indices: 66262416--66262609 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
66262406 TGTGTATGAA
* *
66262416 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
66262455 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
66262494 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
66262533 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
66262573 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
66262610 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:66270920 original size:40 final size:39
Alignment explanation
Indices: 66270874--66271003 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
66270864 CGGAATACAA
*
66270874 CCGGATATAACCACGTGCACGAATGTCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
66270914 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
66270954 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
66270994 CCGGATATAA
1 CCGGATATAA
66271004 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:66273646 original size:40 final size:39
Alignment explanation
Indices: 66273486--66273648 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
66273476 TGTGTATGAA
*
66273486 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
66273525 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
66273564 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
66273603 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
66273643 TGTGCG
1 TGTGCG
66273649 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:66273664 original size:40 final size:39
Alignment explanation
Indices: 66273486--66273679 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
66273476 TGTGTATGAA
* *
66273486 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
66273525 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
66273564 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
66273603 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
66273643 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
66273680 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:66281985 original size:40 final size:39
Alignment explanation
Indices: 66281941--66282070 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
66281931 CAGAATACAA
*
66281941 CCGGATATAACCACGTGCACGAATGTCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
66281981 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
66282021 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
66282061 CCGGATATAA
1 CCGGATATAA
66282071 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:66284609 original size:39 final size:39
Alignment explanation
Indices: 66284555--66284795 Score: 383
Period size: 39 Copynumber: 6.2 Consensus size: 39
66284545 TGTGTATGAA
*
66284555 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
66284594 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
66284633 AGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
66284672 TGTGCGAGTTGTGATATCCGAGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
66284711 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
66284750 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
66284790 TGTGCG
1 TGTGCG
66284796 GGTTACCATA
Statistics
Matches: 184, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 167 0.91
40 17 0.09
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:66290094 original size:15 final size:15
Alignment explanation
Indices: 66290074--66290113 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
66290064 CTTGAGATTA
66290074 TGCTCTATGAATATG
1 TGCTCTATGAATATG
66290089 TGCTCTATGAATATG
1 TGCTCTATGAATATG
*
66290104 TGCTCAATGA
1 TGCTCTATGA
66290114 GCACTCTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (15 bp):
TGCTCTATGAATATG
Found at i:66300208 original size:14 final size:14
Alignment explanation
Indices: 66300189--66300215 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66300179 ACAAATGTGA
66300189 AATTTAAATTTTTG
1 AATTTAAATTTTTG
66300203 AATTTAAATTTTT
1 AATTTAAATTTTT
66300216 AAAAAGCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
AATTTAAATTTTTG
Found at i:66307101 original size:22 final size:18
Alignment explanation
Indices: 66307059--66307094 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
66307049 CACAAATCAA
66307059 AATTGGATTGAGTCTCTC
1 AATTGGATTGAGTCTCTC
66307077 AATTGGATTGAGTCTCTC
1 AATTGGATTGAGTCTCTC
66307095 TTTCAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (18 bp):
AATTGGATTGAGTCTCTC
Found at i:66311184 original size:25 final size:25
Alignment explanation
Indices: 66311150--66311200 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
66311140 TTCCTTATAA
**
66311150 ACTTTAAATTAAGAATTCTATTAGG
1 ACTTTAAATTAAGAATTAGATTAGG
*
66311175 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAAGAATTAGATTAGG
66311200 A
1 A
66311201 TTTTCCTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAAGAATTAGATTAGG
Found at i:66314081 original size:40 final size:40
Alignment explanation
Indices: 66314026--66314167 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
66314016 TATTCGGATG
* * *
66314026 ATATCTGGGCTAAGTCCCGAAGGCCTTTTTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
66314066 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
** *
66314106 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
66314146 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
66314168 TACTTGGGTT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 14 0.15
40 75 0.82
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:66319976 original size:40 final size:40
Alignment explanation
Indices: 66319849--66319978 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
66319839 ATGCTGGAAA
* *
66319849 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
66319889 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
66319929 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
66319969 TTATATCCGG
1 TTATATCCGG
66319979 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:66326091 original size:29 final size:29
Alignment explanation
Indices: 66326059--66326170 Score: 206
Period size: 29 Copynumber: 3.9 Consensus size: 29
66326049 GTACCGTATT
* *
66326059 TTTCCAGTATGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
66326088 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
66326117 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
66326146 TTTCCAGCACGCACACTTAGTGCCA
1 TTTCCAGCACGCACACTTAGTGCCA
66326171 ATCTCGTCAC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 81 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:66326101 original size:58 final size:58
Alignment explanation
Indices: 66326010--66326161 Score: 187
Period size: 58 Copynumber: 2.6 Consensus size: 58
66326000 AATTTAAGCC
* *** * * * * *
66326010 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTACCGTATTTTTCCAGTA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACCCAGTACCATATATTTCCAGCA
* ** *
66326068 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACCCAGTACCATATATTTCCAGCA
66326126 CGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACAC
66326162 TTAGTGCCAA
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 80 1.00
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATATATTTCCAGCACGCACACCCAGTACCATATATTTCCAGCA
Found at i:66326101 original size:87 final size:87
Alignment explanation
Indices: 66326010--66326170 Score: 205
Period size: 87 Copynumber: 1.9 Consensus size: 87
66326000 AATTTAAGCC
* * * * * * *
66326010 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTACCGTATTTTTCCAGTATGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTACCATATATTTCCAGCACGCACAC
66326075 TTAGTGCCATATATTTCCAGCA
66 TTAGTGCCATATATTTCCAGCA
* * * ** *
66326097 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTACCATATATTTCCAGCACGCACAC
66326162 TTAGTGCCA
66 TTAGTGCCA
66326171 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
87 61 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (87 bp):
CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTACCATATATTTCCAGCACGCACAC
TTAGTGCCATATATTTCCAGCA
Found at i:66327937 original size:40 final size:40
Alignment explanation
Indices: 66327893--66328075 Score: 280
Period size: 40 Copynumber: 4.6 Consensus size: 40
66327883 GCATGATTAT
* *
66327893 TATATCCGGGCTAAGTCCCGAAAGCCTTTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
*
66327933 TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
*
66327973 TATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
* *
66328013 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-C
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGAC
*
66328053 TATATCC-GGCTAATTCCCGAAGG
1 TATATCCGGGCTAAGTCCCGAAGG
66328076 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.88
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
Found at i:66332827 original size:25 final size:25
Alignment explanation
Indices: 66332793--66332843 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
66332783 TTCCTTATAA
* **
66332793 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGAAATTAGATTAGG
66332818 ACTTTAAATTAGAAATTAGATTAGG
1 ACTTTAAATTAGAAATTAGATTAGG
66332843 A
1 A
66332844 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGAAATTAGATTAGG
Found at i:66335174 original size:26 final size:26
Alignment explanation
Indices: 66335122--66335174 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
66335112 AAATAATTTT
* *
66335122 TTTTAAAATATATAAAAATACATAAA
1 TTTTAAAAAATATAAAAATACAAAAA
66335148 TTTTAAAAAATATGAAAAATA-AAAAA
1 TTTTAAAAAATAT-AAAAATACAAAAA
66335174 T
1 T
66335175 AAGTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
TTTTAAAAAATATAAAAATACAAAAA
Found at i:66335182 original size:16 final size:16
Alignment explanation
Indices: 66335151--66335184 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66335141 ACATAAATTT
*
66335151 TAAAAAATATGAAAAA
1 TAAAAAATAAGAAAAA
*
66335167 TAAAAAATAAGTAAAA
1 TAAAAAATAAGAAAAA
66335183 TA
1 TA
66335185 TTTCAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
TAAAAAATAAGAAAAA
Found at i:66339945 original size:30 final size:30
Alignment explanation
Indices: 66339910--66339967 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
66339900 CAAGAAAACC
*
66339910 GAATAAAGAAATCCA-AGATAGAGAAACCTA
1 GAATAAAGAAATCCAGA-ATAAAGAAACCTA
66339940 GAATAAAGAAATCCAGAATAAAGAAACC
1 GAATAAAGAAATCCAGAATAAAGAAACC
66339968 CAAGATACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAGAATAAAGAAACCTA
Found at i:66339949 original size:15 final size:15
Alignment explanation
Indices: 66339901--66339965 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
66339891 TAAAGATAAC
*
66339901 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
66339915 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
66339930 GAGAAA-CCTAGAATA
1 AAGAAATCC-AGAATA
66339945 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
66339960 AAGAAA
1 AAGAAA
66339966 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.62, C:0.12, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:66346815 original size:49 final size:49
Alignment explanation
Indices: 66346743--66346879 Score: 229
Period size: 49 Copynumber: 2.8 Consensus size: 49
66346733 TGAGGTCACG
*
66346743 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
66346792 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
66346841 TGTGTATTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
66346880 GCCTTGTCTA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 84 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:66353709 original size:12 final size:13
Alignment explanation
Indices: 66353692--66353720 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
66353682 AAGTATATTA
66353692 TAAAATTTTA-GT
1 TAAAATTTTATGT
66353704 TAAAATTTTATGT
1 TAAAATTTTATGT
66353717 TAAA
1 TAAA
66353721 TAATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TAAAATTTTATGT
Found at i:66354887 original size:13 final size:12
Alignment explanation
Indices: 66354865--66354895 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
66354855 GTTAACTGGG
66354865 GAAAATGAAATT
1 GAAAATGAAATT
66354877 GAAAGATGAAATT
1 GAAA-ATGAAATT
66354890 GAAAAT
1 GAAAAT
66354896 CATAATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (12 bp):
GAAAATGAAATT
Found at i:66363244 original size:40 final size:41
Alignment explanation
Indices: 66363200--66363424 Score: 288
Period size: 40 Copynumber: 5.7 Consensus size: 41
66363190 GCTACTCGTT
* * *
66363200 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATT-TAGTAACTCGCA
*
66363240 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
66363280 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
66363320 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
* * *
66363360 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAAC-TCGCA
66363401 CAAA-GCCTTC-GGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCTTAGCCCGGA
66363425 CATCATTCGA
Statistics
Matches: 172, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 13 0.08
40 150 0.87
41 9 0.05
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:66371435 original size:40 final size:41
Alignment explanation
Indices: 66371391--66371653 Score: 343
Period size: 40 Copynumber: 6.7 Consensus size: 41
66371381 GCTACTCGTT
* * *
66371391 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATT-TAGTAACTCGCA
*
66371431 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
66371471 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
66371511 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
66371551 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACT--CA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
* *
66371589 C-AATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAAC-TCGCA
66371629 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCTTAGCCCGGA
66371654 CATCATTCGA
Statistics
Matches: 209, Mismatches: 7, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
37 33 0.16
38 4 0.02
39 3 0.01
40 162 0.78
41 7 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:66379666 original size:40 final size:40
Alignment explanation
Indices: 66379622--66379846 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
66379612 GCTACTCGTT
* * *
66379622 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
66379662 CAAATG-CTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
66379701 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
66379741 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
66379781 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
66379822 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66379847 CATCATTCGA
Statistics
Matches: 168, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
39 36 0.21
40 123 0.73
41 9 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:66382224 original size:27 final size:26
Alignment explanation
Indices: 66382144--66382232 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 26
66382134 CAAAACAGTC
*
66382144 ATTTTACCCTACAAGGGTATGTTAG-T
1 ATTTTACACTACAAGGGTAT-TTAGAT
* * *
66382170 CATTTTACACGACAACGGTATTTTGAT
1 -ATTTTACACTACAAGGGTATTTAGAT
*
66382197 AGTTTTACACTACAAGGGTATTTCGAT
1 A-TTTTACACTACAAGGGTATTTAGAT
66382224 AATTTTACA
1 -ATTTTACA
66382233 AATTGGGGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.08
27 47 0.90
28 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (26 bp):
ATTTTACACTACAAGGGTATTTAGAT
Found at i:66382242 original size:27 final size:27
Alignment explanation
Indices: 66382211--66382736 Score: 447
Period size: 27 Copynumber: 19.7 Consensus size: 27
66382201 TTACACTACA
*
66382211 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
66382238 GGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
66382265 ATGATATTTTTG-TTATTTTACAAATCG
1 AGGGTA-TTTCGATAATTTTACAAATCG
* **
66382292 AGGGTATTTC-AGTAATTTTATAAATTA
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
66382319 AAGGTGTTTCGATAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
66382346 -GGGATATTTC-AGTAATTTTACAAATCG
1 AGGG-TATTTCGA-TAATTTTACAAATCG
* * *
66382373 AGGGTATTTCGGTAATTTTA-GACTCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
66382399 AGTGTATTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
** ** *
66382426 ATTGTATTTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
66382453 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
66382480 AGGGTATTTC-AGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
66382506 AGGGTATTT-TAGTAATTTTAAAAATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
66382533 AGGGTACTTCGGTAA-TTT-CATAATCG
1 AGGGTATTTCGATAATTTTACA-AATCG
* * *
66382559 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
66382586 AGGGTATTT-TAGTAATTTTAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
66382612 AGGATATTTCGACAATTTTAGAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
66382639 AGGGTATTTC-AGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
66382665 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
66382692 AGGGTATTTCGATAATTTTACAATTCG
1 AGGGTATTTCGATAATTTTACAAATCG
66382719 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
66382737 CTCTTTATTA
Statistics
Matches: 403, Mismatches: 70, Indels: 52
0.77 0.13 0.10
Matches are distributed among these distances:
25 1 0.00
26 123 0.31
27 258 0.64
28 21 0.05
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:66382419 original size:53 final size:53
Alignment explanation
Indices: 66382249--66382736 Score: 543
Period size: 53 Copynumber: 9.1 Consensus size: 53
66382239 GGGTGTTTTG
* * ** * *
66382249 GTAATTTTACAAATCGATGATATTTTTGTTATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTCA
* ** * *
66382303 GTAATTTTATAAATTAAAGGTGTTTC-GATAATTTCACAAATCG-GGGATATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCAG-TAATTTCAC-AATCGAGGG-TATTTCA
* * * * *
66382357 GTAATTTTACAAATCGAGGGTATTTCGGTAATTTTAGACTCGAGTGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCA
** * *
66382410 GTAATTTTACAAATCGATTGTATTTTTAGTAATTTCACAATCGAGGGTATTTCG
1 GTAATTTTACAAATCGAGGGTA-TTTCAGTAATTTCACAATCGAGGGTATTTCA
*
66382464 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCA
* * * * * **
66382517 GTAATTTTAAAAATTGAGGGTACTTCGGTAATTTCATAATCGAGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCA
* * * * *
66382570 GTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAATTGAGGATATTTC-
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCA
* * *
66382622 GACAATTTTAGAAATCGAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCG
1 G-TAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCA
*
66382676 GTAATTTTACAAATCGAGGGTATTTC-GATAATTTTACAATTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCAG-TAATTTCACAA-TCGAGGGTATTTCA
66382730 GTAATTT
1 GTAATTT
66382737 CTCTTTATTA
Statistics
Matches: 367, Mismatches: 58, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
52 2 0.01
53 230 0.63
54 134 0.37
55 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (53 bp):
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCGAGGGTATTTCA
Found at i:66382463 original size:80 final size:80
Alignment explanation
Indices: 66382211--66382737 Score: 571
Period size: 80 Copynumber: 6.6 Consensus size: 80
66382201 TTACACTACA
* * * * ** * * * *
66382211 AGGGTATTTCGATAATTTTACAAATTGGGGGTGTTTTGGTAATTTTACAAATCGATGATATTTTT
1 AGGGTATTTCGGTAATTTTA-AAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTA
*
66382276 GTTATTTTACAAATCG
65 GTAATTTTACAAATCG
* ** * *
66382292 AGGGTATTTCAGTAATTTTATAAATTAAAGGTGTTTC-GATAATTTCACAAATCG-GGGATATTT
1 AGGGTATTTCGGTAATTTTA-AAATCGAGGGTATTTCAG-TAATTTCACAAATCGAGGG-TATTT
*
66382355 CAGTAATTTTACAAATCG
63 TAGTAATTTTACAAATCG
* * * * **
66382373 AGGGTATTTCGGTAATTTTAGACTCGAGTGTATTTCAGTAATTTTACAAATCGATTGTATTTTTA
1 AGGGTATTTCGGTAATTTTAAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTA-TTTTA
*
66382438 GTAATTTCAC-AATCG
65 GTAATTTTACAAATCG
66382453 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTTA
1 AGGGTATTTCGGTAATTTTA-AAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTA
* *
66382517 GTAATTTTAAAAATTG
65 GTAATTTTACAAATCG
* * * ** * *
66382533 AGGGTACTTCGGTAATTTCATAATCGAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAG
1 AGGGTATTTCGGTAATTTTAAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTAG
*
66382598 TAATTTTAC-AATTG
66 TAATTTTACAAATCG
* ** **
66382612 AGGATATTTCGACAATTTTAGAAATCGAGGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTCG
1 AGGGTATTTCGGTAATTTTA-AAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTA
66382676 GTAATTTTACAAATCG
65 GTAATTTTACAAATCG
* *
66382692 AGGGTATTTCGATAATTTTACAATTCGAGGGTATTTCAGTAATTTC
1 AGGGTATTTCGGTAATTTTA-AAATCGAGGGTATTTCAGTAATTTC
66382738 TCTTTATTAT
Statistics
Matches: 376, Mismatches: 60, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
79 79 0.21
80 176 0.47
81 121 0.32
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTTAAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTAG
TAATTTTACAAATCG
Found at i:66383090 original size:28 final size:28
Alignment explanation
Indices: 66383053--66383144 Score: 148
Period size: 28 Copynumber: 3.3 Consensus size: 28
66383043 TGGCCCCTTT
* * *
66383053 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
66383081 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
66383109 AAGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
66383137 AGGCCCAA
1 AGGCCCAA
66383145 CTACTTCCCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.28, C:0.37, G:0.15, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:66385585 original size:32 final size:33
Alignment explanation
Indices: 66385523--66385585 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
66385513 TATCTACTTT
**
66385523 CATCATTAAACTGACACCCATCTATTTTTAAGC
1 CATCATTAAACTGACACCCATCTACATTTAAGC
66385556 CATCATTAAACTGACA-CCATC-ACCATTTAA
1 CATCATTAAACTGACACCCATCTA-CATTTAA
66385586 TTTTATCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 1 0.04
32 10 0.37
33 16 0.59
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.30
Consensus pattern (33 bp):
CATCATTAAACTGACACCCATCTACATTTAAGC
Found at i:66393438 original size:40 final size:40
Alignment explanation
Indices: 66393349--66393475 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
66393339 CTGGAAATTA
* * *
66393349 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-CG-GC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCGTTC
*
66393387 TACATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
* * * *
66393429 TATCCGGGCTAAGACCTGAAGGCATTCGTGCACGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
66393469 TATCCGG
1 TATCCGG
66393476 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 67 0.89
41 2 0.03
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
Found at i:66402361 original size:16 final size:16
Alignment explanation
Indices: 66402329--66402359 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
66402319 CAATTCAATC
66402329 CAAAATTCATACTTTT
1 CAAAATTCATACTTTT
66402345 CAAAATT-ATACTTTT
1 CAAAATTCATACTTTT
66402360 TCCCCTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (16 bp):
CAAAATTCATACTTTT
Found at i:66412650 original size:22 final size:21
Alignment explanation
Indices: 66412611--66412651 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
66412601 CTTTTAACAC
**
66412611 AGGGGCACACGCTTGTGTGGG
1 AGGGGCACACGCCCGTGTGGG
66412632 AGGGGCAACACGCCCGTGTG
1 AGGGGC-ACACGCCCGTGTG
66412652 ACATTTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.17, C:0.24, G:0.44, T:0.15
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGGG
Found at i:66415357 original size:27 final size:26
Alignment explanation
Indices: 66415284--66415389 Score: 79
Period size: 27 Copynumber: 4.0 Consensus size: 26
66415274 GACTACCCTA
** *
66415284 TGTTTAACATCCCGTCGGACTATACCG
1 TGTTTAATGTCCCTTCGGACTAT-CCG
* *
66415311 TGTTTAACGTTCCTTCGGACTATCCGG
1 TGTTTAATGTCCCTTCGGACTATCC-G
*
66415338 TGTTTAATGTCCCATT-GGACTATCTTG
1 TGTTTAATGTCCC-TTCGGACTATC-CG
* * * *
66415365 TGATTAATGTCTCGTCAGACTATCC
1 TGTTTAATGTCCCTTCGGACTATCC
66415390 CATGGTTATC
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.05
27 59 0.92
28 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.37
Consensus pattern (26 bp):
TGTTTAATGTCCCTTCGGACTATCCG
Found at i:66415421 original size:20 final size:20
Alignment explanation
Indices: 66415396--66415438 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
66415386 ATCCCATGGT
* *
66415396 TATCTTCTCGTCGAATTATC
1 TATCTTCTAGTCGAACTATC
66415416 TATCTTCTAGTCGAACTATC
1 TATCTTCTAGTCGAACTATC
66415436 TAT
1 TAT
66415439 GATGTCATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.44
Consensus pattern (20 bp):
TATCTTCTAGTCGAACTATC
Found at i:66416152 original size:40 final size:40
Alignment explanation
Indices: 66416108--66416206 Score: 153
Period size: 40 Copynumber: 2.5 Consensus size: 40
66416098 AATCACAGGC
* *
66416108 CTGCTCACACAAGCTGTTAGTCAAGACGTAGCTACATGGG
1 CTGCTCACACAAGCTGTCAGTCAAAACGTAGCTACATGGG
* *
66416148 CTGCTCACACAAGTTGTCAGTCAAAATGTAGCTACATGGG
1 CTGCTCACACAAGCTGTCAGTCAAAACGTAGCTACATGGG
*
66416188 CTGCTCACACAACCTGTCA
1 CTGCTCACACAAGCTGTCA
66416207 AGTATCCGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CTGCTCACACAAGCTGTCAGTCAAAACGTAGCTACATGGG
Found at i:66419209 original size:6 final size:6
Alignment explanation
Indices: 66419189--66419232 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
66419179 ACGCTTTTTC
* *
66419189 TCCCCTT TCCCCT TCCTCT TCCTCT TCCCCT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
66419233 AGGTTGCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (6 bp):
TCCCCT
Found at i:66422155 original size:41 final size:41
Alignment explanation
Indices: 66421981--66422155 Score: 160
Period size: 41 Copynumber: 4.3 Consensus size: 41
66421971 TCGGGGTCTA
*
66421981 AATCTGAGCTTGGTCTCGAAAGGCTTTTGAGCCAGTGCTAAT
1 AATC-GAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAT
* * * * *
66422023 AATCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCAT
1 AATCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAT
* * * * * *
66422063 AACCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGT-CT
1 AATCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGTGCTAAT
*
66422103 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAG
1 AAT-CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAT
*
66422145 AATCGGGCTTG
1 AATCGAGCTTG
66422156 ATTCCGAAGG
Statistics
Matches: 107, Mismatches: 19, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
39 1 0.01
40 35 0.33
41 62 0.58
42 9 0.08
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (41 bp):
AATCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAT
Found at i:66429531 original size:41 final size:41
Alignment explanation
Indices: 66429473--66429620 Score: 176
Period size: 41 Copynumber: 3.6 Consensus size: 41
66429463 GAGCTTGGTC
*
66429473 TCGAAGGGCTTTTGAGCCAATGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* * *
66429514 TCGAAGGGCTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* * * * *
66429554 CCGAAGGGCCTTCGAGCCAGTGGTCTAAT--CCGAGCTTGGTT
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
66429595 TCGAAGGGCTTTTGAGCCAGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
66429621 GAATCGGGCT
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
39 4 0.04
40 35 0.39
41 48 0.53
43 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:66432195 original size:18 final size:18
Alignment explanation
Indices: 66432172--66432207 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
66432162 CGATTAAACC
66432172 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
*
66432190 ATTTGATTTATATATTTA
1 ATTTGATTGATATATTTA
66432208 TAAATAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:66432267 original size:18 final size:18
Alignment explanation
Indices: 66432246--66432288 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
66432236 ACAATTTAAA
66432246 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
66432264 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
66432282 ATGTAAA
1 ATATAAA
66432289 AACAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:66432411 original size:14 final size:14
Alignment explanation
Indices: 66432375--66432404 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
66432365 CAGAAAAGTG
66432375 AATCATTTTCCAGA
1 AATCATTTTCCAGA
*
66432389 AATCATTTTCCGGA
1 AATCATTTTCCAGA
66432403 AA
1 AA
66432405 ATATTTTACT
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:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (14 bp):
AATCATTTTCCAGA
Found at i:66433434 original size:26 final size:26
Alignment explanation
Indices: 66433398--66433507 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
66433388 TGATACAAAT
66433398 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
66433424 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
66433450 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
66433476 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
66433502 TGATAA
1 TGATAA
66433508 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:66435167 original size:27 final size:27
Alignment explanation
Indices: 66435126--66435265 Score: 192
Period size: 27 Copynumber: 5.2 Consensus size: 27
66435116 GAGGAAGCGT
*
66435126 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
66435153 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
66435180 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
66435207 TCTGGTGGCTCTGCCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
66435235 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
66435261 TCTGG
1 TCTGG
66435266 CAGCCATGCT
Statistics
Matches: 103, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
26 5 0.05
27 83 0.81
28 15 0.15
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:66435211 original size:54 final size:55
Alignment explanation
Indices: 66435126--66435265 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 55
66435116 GAGGAAGCGT
* * *
66435126 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
*
66435180 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
66435235 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
66435266 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 61 0.77
55 18 0.23
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:66436665 original size:18 final size:18
Alignment explanation
Indices: 66436644--66436709 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 18
66436634 TTGATTGACA
66436644 TATTTAATTTGATTTATT
1 TATTTAATTTGATTTATT
*
66436662 TATTTATAATTGAGTATTATTAT
1 TATTTA-ATTTGA-T-TTA-T-T
*
66436685 ATATTTAATTTGAATTATT
1 -TATTTAATTTGATTTATT
66436704 TATTTA
1 TATTTA
66436710 TAAATAAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
18 12 0.31
19 6 0.15
20 2 0.05
21 6 0.15
22 1 0.03
23 6 0.15
24 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
TATTTAATTTGATTTATT
Found at i:66440077 original size:49 final size:49
Alignment explanation
Indices: 66440008--66440355 Score: 608
Period size: 49 Copynumber: 7.1 Consensus size: 49
66439998 GTACATAATA
66440008 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
66440057 ATTTATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
66440106 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
66440155 ATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
66440204 ATATATGTGATGA-GCCTAATGGCCGATGTGATGAATGTGAAGATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
66440252 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* * * *
66440301 ACATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
66440350 ATATAT
1 ATATAT
66440356 ATATGTGGTA
Statistics
Matches: 285, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
48 45 0.16
49 240 0.84
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (49 bp):
ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:66440481 original size:37 final size:36
Alignment explanation
Indices: 66440426--66440512 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
66440416 AACTTGGAAA
66440426 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
*
66440464 TATGTCCGGGTACGACCCGATGACTATGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
66440501 TATGTCCGGGTA
1 TATGTCCGGGTA
66440513 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:66442402 original size:40 final size:40
Alignment explanation
Indices: 66442347--66442498 Score: 259
Period size: 40 Copynumber: 3.8 Consensus size: 40
66442337 GAGAATTGAG
*
66442347 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
66442387 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
66442427 AGTGATGTATCCGGACTAAGTTCCGAAGCGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
66442467 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
66442499 ATCATGCTGG
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:66446372 original size:49 final size:49
Alignment explanation
Indices: 66446303--66446647 Score: 590
Period size: 49 Copynumber: 7.1 Consensus size: 49
66446293 GTACATAATA
66446303 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
66446352 ATTTATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG-AAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
66446400 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
66446449 ATATATGTGATAAGGCCTAATGGCCGA--TGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
66446496 ATATATGTGATGA-GCCTAATGGCCGATGTGATGAATGTGAAGATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
66446544 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* * * *
66446593 ACATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
66446642 ATATAT
1 ATATAT
66446648 ATATGTGGTA
Statistics
Matches: 281, Mismatches: 11, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
46 13 0.05
47 32 0.11
48 78 0.28
49 158 0.56
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.31
Consensus pattern (49 bp):
ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:66446409 original size:97 final size:98
Alignment explanation
Indices: 66446303--66446647 Score: 599
Period size: 97 Copynumber: 3.6 Consensus size: 98
66446293 GTACATAATA
* *
66446303 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATTTATGTGATGAGGC
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
66446368 CTAATGGCCGATGTGATGAATGTG-AAATGTAT
66 CTAATGGCCGATGTGATGAATGTGAAAATGTAT
66446400 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
66446465 CTAATGGCCGA--TGATGAATGTGAAAATGTAT
66 CTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
66446496 ATATATGTGATGA-GCCTAATGGCCGATGTGATGAATGTGAAGATGTATATATATGTGATAAGGC
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
66446560 CTAATGGCCGATGTGATGAATGTGAAAATGTAT
66 CTAATGGCCGATGTGATGAATGTGAAAATGTAT
* * * *
66446593 ACATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATAT
66446648 ATATGTGGTA
Statistics
Matches: 236, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
95 72 0.31
96 21 0.09
97 105 0.44
98 38 0.16
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.31
Consensus pattern (98 bp):
ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:66446497 original size:144 final size:145
Alignment explanation
Indices: 66446303--66446647 Score: 604
Period size: 144 Copynumber: 2.4 Consensus size: 145
66446293 GTACATAATA
* *
66446303 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATTTATGTGATGAGGC
1 ATATATGTGATAAGGCCTAATGGCCGA-GTGATGAATGTGAAAATGTATATATATGTGATGA-GC
*
66446368 CTAATGGCCGATGTGATGAATGTGAA-ATGTATATATATGTGATGAGGCCTAATGGCCGATGTGA
64 CTAATGGCCGATGTGATGAATGTGAAGATGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
66446432 TGAATGTGAAAATGTAT
129 TGAATGTGAAAATGTAT
66446449 ATATATGTGATAAGGCCTAATGGCCGA-TGATGAATGTGAAAATGTATATATATGTGATGAGCCT
1 ATATATGTGATAAGGCCTAATGGCCGAGTGATGAATGTGAAAATGTATATATATGTGATGAGCCT
66446513 AATGGCCGATGTGATGAATGTGAAGATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 AATGGCCGATGTGATGAATGTGAAGATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
66446578 AATGTGAAAATGTAT
131 AATGTGAAAATGTAT
* *
66446593 ACATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
1 ATATATGTGATAAGGCCTAATGGCCGA-GTGATGAATGTGAAAATGTATATATAT
66446648 ATATGTGGTA
Statistics
Matches: 191, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
143 28 0.15
144 112 0.59
146 51 0.27
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.31
Consensus pattern (145 bp):
ATATATGTGATAAGGCCTAATGGCCGAGTGATGAATGTGAAAATGTATATATATGTGATGAGCCT
AATGGCCGATGTGATGAATGTGAAGATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAATGTAT
Found at i:66446773 original size:37 final size:36
Alignment explanation
Indices: 66446718--66446804 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
66446708 AACTTGGAAA
66446718 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
*
66446756 TATGTCCGGGTACGACCCGATGACTATGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
66446793 TATGTCCGGGTA
1 TATGTCCGGGTA
66446805 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:66450828 original size:71 final size:70
Alignment explanation
Indices: 66450712--66450853 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 70
66450702 TTTCTATTTC
66450712 AGTTTTATGGTCTCAAAACAACTGTTCTGACTAGGCCCTAATTTGGGATGTTATAACGTGATCCG
1 AGTTTTATGGTCTCAAAACAACTGTTCTGACTAGGCCCTAATTTGGGATGTTATAACGTGATCC-
66450777 GGTGCT
65 GGTGCT
66450783 AGTTTTATGGTCTCAAAACAACTGTTCTGACTAGGCCCTAATTTGGGATGTTATAACGTGATCCG
1 AGTTTTATGGTCTCAAAACAACTGTTCTGACTAGGCCCTAATTTGGGATGTTATAACGTGATCCG
66450848 GTGCT
66 GTGCT
66450853 A
1 A
66450854 ATCATGTACG
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 7 0.10
71 64 0.90
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (70 bp):
AGTTTTATGGTCTCAAAACAACTGTTCTGACTAGGCCCTAATTTGGGATGTTATAACGTGATCCG
GTGCT
Found at i:66451004 original size:7 final size:7
Alignment explanation
Indices: 66450992--66451018 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
66450982 GAATGAGCAT
66450992 TATGTGA
1 TATGTGA
66450999 TATGTGA
1 TATGTGA
66451006 TATGTGA
1 TATGTGA
66451013 TATGTG
1 TATGTG
66451019 GTAGAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (7 bp):
TATGTGA
Found at i:66452564 original size:27 final size:27
Alignment explanation
Indices: 66452534--66452616 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
66452524 ATCTCATATC
* *
66452534 TGTAGGCTAGCATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
* *
66452561 TGTAGGGTAGAATTACTGAAATGCCCC
1 TGTAGGGTAGAATTACTGAAATACCCT
**
66452588 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
66452615 TG
1 TG
66452617 GTTTATAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCT
Found at i:66452628 original size:27 final size:27
Alignment explanation
Indices: 66452598--66452683 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
66452588 TGTAGGGTAG
66452598 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
66452625 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
66452652 AATTACCAAAATA-CCTCGATTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
66452678 AATTAC
1 AATTAC
66452684 TATTTTACCC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 13 0.26
27 37 0.74
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:66452629 original size:54 final size:53
Alignment explanation
Indices: 66452571--66452685 Score: 124
Period size: 54 Copynumber: 2.2 Consensus size: 53
66452561 TGTAGGGTAG
* * * * * *
66452571 AATTACTGAAATGCCCCT-GTAGGGTAGAATTACCAAAATACCCTTGGTTTATAA
1 AATTACTAAAATACCCCTAGT-GGGTAAAATTACCAAAATA-CCTCGATTTACAA
* **
66452625 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCGATTTACAA
1 AATTACTAAAATACCCCTAGTGGGTAAAATTACCAAAATACCTCGATTTACAA
66452678 AATTACTA
1 AATTACTA
66452686 TTTTACCCTC
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
53 17 0.34
54 31 0.62
55 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (53 bp):
AATTACTAAAATACCCCTAGTGGGTAAAATTACCAAAATACCTCGATTTACAA
Found at i:66452703 original size:27 final size:27
Alignment explanation
Indices: 66452665--66452936 Score: 359
Period size: 27 Copynumber: 10.1 Consensus size: 27
66452655 TACCAAAATA
66452665 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* **
66452692 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
66452719 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* *
66452746 CCTCAATTTACAAAATTA-TCGTTTTAC
1 CCTCGATTTACAAAATTACT-ATTTTAC
* *
66452773 CCTCGATTGATAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
66452800 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* * *
66452827 CCTCGATTTAAAAAATTATTGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* *
66452854 CCTCGATTTACAGAATTA-TCGTTTTAC
1 CCTCGATTTACAAAATTACT-ATTTTAC
* *
66452881 CCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* * *
66452908 CCGCGATTTATAAAATTACCATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
66452935 CC
1 CC
66452937 CTAGGGTGTT
Statistics
Matches: 217, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 214 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAAAATTACTATTTTAC
Found at i:66453462 original size:31 final size:31
Alignment explanation
Indices: 66453431--66453530 Score: 128
Period size: 31 Copynumber: 3.2 Consensus size: 31
66453421 ATTCACATTT
* * * *
66453431 TGATTTTGATTCTGTTACCTGATACTGATTT
1 TGATTCTGATTCTGTCACCTGATTCTGATTC
* * * *
66453462 TGATTCTAATTCTATCACCTAATTTTGATTC
1 TGATTCTGATTCTGTCACCTGATTCTGATTC
66453493 TGATTCTGATTCTGTCACCTGATTCTGATTC
1 TGATTCTGATTCTGTCACCTGATTCTGATTC
66453524 TGATTCT
1 TGATTCT
66453531 AATTTTGATT
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (31 bp):
TGATTCTGATTCTGTCACCTGATTCTGATTC
Found at i:66453498 original size:6 final size:6
Alignment explanation
Indices: 66453487--66453551 Score: 62
Period size: 6 Copynumber: 10.7 Consensus size: 6
66453477 CACCTAATTT
* * *
66453487 TGATTC TGATTC TGATTC TG-TCACC TGATTC TGATTC TGATTC TAATTT
1 TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC
66453536 TGATTC T-AGTTC TGAT
1 TGATTC TGA-TTC TGAT
66453552 AATGTTTCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
5 2 0.04
6 41 0.85
7 4 0.08
8 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:66455397 original size:27 final size:27
Alignment explanation
Indices: 66455367--66455449 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 27
66455357 ATCTCATATC
* * *
66455367 TGTAGGCTAGCATTATTGAAATACCCT
1 TGTAGGATAGAATTACTGAAATACCCT
* *
66455394 TGTAGGATAGAATTACTGAAATGCCCC
1 TGTAGGATAGAATTACTGAAATACCCT
* **
66455421 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGATAGAATTACTGAAATACCCT
66455448 TG
1 TG
66455450 GTTTATAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (27 bp):
TGTAGGATAGAATTACTGAAATACCCT
Found at i:66455486 original size:26 final size:26
Alignment explanation
Indices: 66455431--66455542 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
66455421 TGTAGGGTAG
*
66455431 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCC-TAGTTTATAA
*
66455458 AATTACCAAAATACCCTAGTTTGTAA
1 AATTACCAAAATACCCTAGTTTATAA
*
66455484 AATTACCAAAATACCCCTAGTTTTTAA
1 AATTACCAAAATA-CCCTAGTTTATAA
* *
66455511 AATTACCAAAATA-CCTCAATTTACAA
1 AATTACCAAAATACCCT-AGTTTATAA
66455537 AATTAC
1 AATTAC
66455543 TATTTTACCC
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
25 3 0.04
26 33 0.43
27 41 0.53
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTATAA
Found at i:66455552 original size:53 final size:53
Alignment explanation
Indices: 66455431--66455542 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 53
66455421 TGTAGGGTAG
* * * **
66455431 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTAATTTACAA
*
66455484 AATTACCAAAATACCCCTAGTTTTTAAAATTACCAAAATA-CCTCAATTTACAA
1 AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCT-AATTTACAA
66455537 AATTAC
1 AATTAC
66455543 TATTTTACCC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 3 0.06
53 49 0.94
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (53 bp):
AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTAATTTACAA
Found at i:66455562 original size:27 final size:27
Alignment explanation
Indices: 66455524--66455624 Score: 175
Period size: 27 Copynumber: 3.7 Consensus size: 27
66455514 TACCAAAATA
*
66455524 CCTCAATTTACAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* *
66455551 CCTCGATTTACAGAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
66455578 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
66455605 CCTCGATTTACAAAATTACT
1 CCTCGATTTACAAAATTACT
66455625 TGTAACACCC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAAAATTACTATTTTAC
Found at i:66456284 original size:6 final size:6
Alignment explanation
Indices: 66456273--66456351 Score: 63
Period size: 6 Copynumber: 12.8 Consensus size: 6
66456263 TATCAAAACT
* * *
66456273 AGAATC AGAATC AGAATC AAAATC AG-GTGAC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
66456322 AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
66456352 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 3 0.05
6 46 0.81
7 6 0.11
8 2 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:66456309 original size:31 final size:31
Alignment explanation
Indices: 66456273--66456351 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
66456263 TATCAAAACT
*
66456273 AGAATCAGAATCAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
* **
66456304 AGAATCAGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
*
66456335 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
66456352 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAAATCAGGTAAC
Found at i:66456518 original size:27 final size:26
Alignment explanation
Indices: 66456469--66456576 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
66456459 AACATGGCTT
* ** *
66456469 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTTTGGCAGAGCCA
*
66456495 CTAGATACAGATATTTTGGCAGAGCCA
1 CCAGA-ACAGATATTTTGGCAGAGCCA
*
66456522 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATTT-TGGCAGAGCCA
* * *
66456549 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTTTGGCAGAGCCA
66456576 C
1 C
66456577 TTAACAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 14 0.20
27 48 0.70
28 7 0.10
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTTTGGCAGAGCCA
Found at i:66457177 original size:27 final size:27
Alignment explanation
Indices: 66457142--66457204 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 27
66457132 GGCAAAATAG
66457142 TAATTTTACCCCAAGAGGGTATCTCGA
1 TAATTTTACCCCAAGAGGGTATCTCGA
* * *
66457169 TAATTTTA-CCCTAGAGGGTATTTTGA
1 TAATTTTACCCCAAGAGGGTATCTCGA
*
66457195 TAATTCTACC
1 TAATTTTACC
66457205 TTACAGGGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
TAATTTTACCCCAAGAGGGTATCTCGA
Found at i:66457305 original size:81 final size:80
Alignment explanation
Indices: 66457140--66457415 Score: 367
Period size: 81 Copynumber: 3.4 Consensus size: 80
66457130 GAGGCAAAAT
* * * * *
66457140 AGTAATTTTACCCCA-AGAGGGTATCTCGATAATTTTACCCTAGA-GGGTATTTTGATAATTCTA
1 AGTAATTCTACCCTAGAG-GGGTATTTCGATAATTCTACCCTACAGGGGTA-TTTGATAATTCTA
*
66457203 CCTTACAGGGGTATTTT
64 CCTTACAGGGGTATTTC
66457220 AGTAATTCTACCCTAGAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
1 AGTAATTCTACCCTAGAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTT-GATAATTCTAC
66457285 CTTACAGGGGTATTTC
65 CTTACAGGGGTATTTC
* *
66457301 AGTAATTCTACCCTAGAGGGGTATTTCGATAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
1 AGTAATTCTACCCTAGAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTGA-TAATTCTAC
* *
66457366 CCTAAAGGGGTATTTC
65 CTTACAGGGGTATTTC
* * * * *
66457382 GGTAATTCTACCCTATAGGGTTGTTTCGGTAATT
1 AGTAATTCTACCCTAGAGGGGTATTTCGATAATT
66457416 TTGTAAATCG
Statistics
Matches: 177, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
80 40 0.23
81 137 0.77
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (80 bp):
AGTAATTCTACCCTAGAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTGATAATTCTACC
TTACAGGGGTATTTC
Found at i:66457408 original size:27 final size:27
Alignment explanation
Indices: 66457141--66457415 Score: 302
Period size: 27 Copynumber: 10.2 Consensus size: 27
66457131 AGGCAAAATA
* * *
66457141 GTAATTTTACCCCA-AGAGGGTATCTCG
1 GTAATTCTACCCTACAG-GGGTATTTCG
* * * *
66457168 ATAATTTTACCCTAGA-GGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * **
66457194 ATAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
66457221 GTAATTCTACCCTAGAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
66457248 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
66457275 ATAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
66457302 GTAATTCTACCCTAGAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * **
66457329 ATAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
66457356 GTAATTCTACCCTAAAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
66457383 GTAATTCTACCCTATAGGGTTGTTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
66457410 GTAATT
1 GTAATT
66457416 TTGTAAATCG
Statistics
Matches: 214, Mismatches: 32, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
26 21 0.10
27 192 0.90
28 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:66457468 original size:27 final size:27
Alignment explanation
Indices: 66457438--66457766 Score: 378
Period size: 27 Copynumber: 12.2 Consensus size: 27
66457428 GGTAAAACGA
** *
66457438 TAATTTTGTAAATCGAGGGTACTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* * * *
66457465 TAATTTTACAAGTTGAAGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTTGG
* **
66457492 TAATTTTTCAAATCG-GGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTTGG
**
66457518 TAATTTTACAAATC-AGAGGTATTTCAG
1 TAATTTTACAAATCGAG-GGTATTTTGG
* *
66457545 TAATTTTGCAAATCGAGGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTTGG
*
66457572 TAATTTTACAAATCAAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
66457599 TAATTTTACAAATC-AGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTTGG
*
66457626 TAATTTTACAAA-CTAAGGGTATTTTGG
1 TAATTTTACAAATC-GAGGGTATTTTGG
* *
66457653 TAATTTTTCTAATCGAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* * ***
66457680 TAATTTTACAAACCAAGGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTTGG
*
66457707 TAATTTTACTAATCGAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
*
66457734 TAATTTTACTAATCGAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
66457761 TAATTT
1 TAATTT
66457767 GGTAAACTAA
Statistics
Matches: 261, Mismatches: 34, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
26 25 0.10
27 232 0.89
28 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTTGG
Found at i:66459728 original size:6 final size:6
Alignment explanation
Indices: 66459710--66459754 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
66459700 AAGAAACATT
*
66459710 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAGA ATC
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATC
66459755 TGTATCAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 1 0.03
6 33 0.94
7 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:66460216 original size:22 final size:23
Alignment explanation
Indices: 66460166--66460218 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
66460156 AGGTAAATAC
66460166 GTTTGGCACGAAGCCATAGTCAA
1 GTTTGGCACGAAGCCATAGTCAA
* **
66460189 G-ATGGCACGAAGCCATA-TTTA
1 GTTTGGCACGAAGCCATAGTCAA
66460210 GTTTGGCAC
1 GTTTGGCAC
66460219 TTAACAGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 3 0.12
22 21 0.84
23 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (23 bp):
GTTTGGCACGAAGCCATAGTCAA
Found at i:66460424 original size:22 final size:23
Alignment explanation
Indices: 66460374--66460434 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
66460364 AGGTAAATAC
66460374 GTTTGGCACGAAGCCATAGTCAA
1 GTTTGGCACGAAGCCATAGTCAA
* **
66460397 G-ATGGCACGAAGCCATA-TTTA
1 GTTTGGCACGAAGCCATAGTCAA
66460418 GTTTGGCAC-AGAGCCAT
1 GTTTGGCACGA-AGCCAT
66460435 CGATAAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.12
22 27 0.84
23 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (23 bp):
GTTTGGCACGAAGCCATAGTCAA
Found at i:66460802 original size:28 final size:27
Alignment explanation
Indices: 66460746--66460802 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
66460736 TTGCCCACAA
*
66460746 GGGCAAAACAGTAATTTAACACCCTAG
1 GGGCAAAACAGTAATTTAACACCCGAG
*
66460773 GGGCAAAATAGTAATTTTAAC-CCACGAG
1 GGGCAAAACAGTAA-TTTAACACC-CGAG
66460801 GG
1 GG
66460803 TATCTCGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (27 bp):
GGGCAAAACAGTAATTTAACACCCGAG
Found at i:66461124 original size:27 final size:27
Alignment explanation
Indices: 66460800--66461138 Score: 410
Period size: 27 Copynumber: 12.6 Consensus size: 27
66460790 TAACCCACGA
* *
66460800 GGGTATCTCGGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
66460827 GGGTATTTCGATAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
** *
66460854 GGGTATTTTAGTAATTCTACCCTAGAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
66460881 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
66460908 GGGTATTTCAGTAATTCTACCCTAGAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
66460935 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
66460962 AGGTATTTCAGTAATTCTACCATACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
66460989 GGGTATTTTGGTAATT-TACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
66461015 GGGTATTTCAGTAATTCTACCATACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
66461042 GGGTATTTTGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
66461069 CGGTATTTCGATAATTCTACTCTAAAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
66461096 GGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
66461123 GGTTGTTTTGGTAATT
1 GGGTATTTCGGTAATT
66461139 TTGTAAATCG
Statistics
Matches: 261, Mismatches: 50, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 22 0.08
27 239 0.92
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:66461191 original size:27 final size:27
Alignment explanation
Indices: 66461128--66461487 Score: 297
Period size: 27 Copynumber: 13.4 Consensus size: 27
66461118 TATAGGGTTG
*
66461128 TTTTGGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTATAAATCGAGGGTA
**** * * *
66461155 AAACGATAATTTTGTAAATCGGGGGTA
1 TTTTGGTAATTTTATAAATCGAGGGTA
* * * * *
66461182 CTTTGGTAATTTTACAAGTTGAAGGTA
1 TTTTGGTAATTTTATAAATCGAGGGTA
*
66461209 TTTTAGTAATTTT-TCAAATCG-GGGTA
1 TTTTGGTAATTTTAT-AAATCGAGGGTA
** *
66461235 TTTCAGTAATTTTACAAATCG-GAGGTA
1 TTTTGGTAATTTTATAAATCGAG-GGTA
** **
66461262 TTTCAGTAATTTTGCAAATCGAGGGTA
1 TTTTGGTAATTTTATAAATCGAGGGTA
* * *
66461289 TTTCGGTAATTTTACAAATCAAGGGTA
1 TTTTGGTAATTTTATAAATCGAGGGTA
*
66461316 TTTTGGTAATTTTACAAATC-AGGGTA
1 TTTTGGTAATTTTATAAATCGAGGGTA
* *
66461342 TTTTGGTAATTTTACAAA-CTAAGGGTA
1 TTTTGGTAATTTTATAAATC-GAGGGTA
*
66461369 TTTTGGTAATTTT-TCTAATCGAGGGTA
1 TTTTGGTAATTTTAT-AAATCGAGGGTA
* *
66461396 TTTTGGTAATTTTA-AAACCAAGGGTA
1 TTTTGGTAATTTTATAAATCGAGGGTA
***
66461422 TTTCAATAATTTTACT-AATCGAGGGTA
1 TTTTGGTAATTTTA-TAAATCGAGGGTA
*
66461449 TTTTGGTAATTTTGCT-AATCGAGGGTA
1 TTTTGGTAATTTT-ATAAATCGAGGGTA
66461476 TTTTGGTAATTT
1 TTTTGGTAATTT
66461488 GGTAAACTAA
Statistics
Matches: 276, Mismatches: 45, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.00
26 67 0.24
27 206 0.75
28 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
TTTTGGTAATTTTATAAATCGAGGGTA
Found at i:66461271 original size:80 final size:81
Alignment explanation
Indices: 66461128--66461487 Score: 356
Period size: 80 Copynumber: 4.5 Consensus size: 81
66461118 TATAGGGTTG
**** * ** * *
66461128 TTTTGGTAATTTTGT-AAATCGAGGGTAAAACGATAATTTTGTAAATCGGGGGTACTTT-GGTAA
1 TTTTGGTAATTTT-TCAAATCGAGGGTATTTTGGTAATTTTACAAATCGGAGGTA-TTTCAGTAA
* *
66461191 TTTTACAAGTTGAAGGTA
64 TTTTACAAATCGAAGGTA
* **
66461209 TTTTAGTAATTTTTCAAATCG-GGGTATTTCAGTAATTTTACAAATCGGAGGTATTTCAGTAATT
1 TTTTGGTAATTTTTCAAATCGAGGGTATTTTGGTAATTTTACAAATCGGAGGTATTTCAGTAATT
* *
66461273 TTGCAAATCGAGGGTA
66 TTACAAATCGAAGGTA
* * * * **
66461289 TTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCAG-GGTATTTTGGTAATT
1 TTTTGGTAATTTTTCAAATCGAGGGTATTTTGGTAATTTTACAAATCGGAGGTATTTCAGTAATT
*
66461353 TTACAAA-CTAAGGGTA
66 TTACAAATCGAA-GGTA
* ** *
66461369 TTTTGGTAATTTTTCTAATCGAGGGTATTTTGGTAATTTTA-AAA-CCAAGGGTATTTCAATAAT
1 TTTTGGTAATTTTTCAAATCGAGGGTATTTTGGTAATTTTACAAATCGGA-GGTATTTCAGTAAT
* *
66461432 TTTACTAATCGAGGGTA
65 TTTACAAATCGAAGGTA
* *
66461449 TTTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTT
1 TTTTGGTAATTTTTCAAATCGAGGGTATTTTGGTAATTT
66461488 GGTAAACTAA
Statistics
Matches: 233, Mismatches: 39, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
78 1 0.00
79 8 0.03
80 180 0.77
81 44 0.19
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
TTTTGGTAATTTTTCAAATCGAGGGTATTTTGGTAATTTTACAAATCGGAGGTATTTCAGTAATT
TTACAAATCGAAGGTA
Found at i:66461281 original size:107 final size:106
Alignment explanation
Indices: 66461161--66461487 Score: 338
Period size: 107 Copynumber: 3.1 Consensus size: 106
66461151 GGTAAAACGA
* * * * *
66461161 TAATTTTGTAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAA-GGTATTTTAGTAATTTTTCA
1 TAATTTTGCAAATCGAGGGTA-TTTGGTAATTTTACAA-ATCAAGGGTATTTTAGTAATTTTACA
* *
66461225 AATCGGGGTATTTCAGTAATTTTACAAATCGGA-GGTATTTCAG
64 AATCAGGGTATTTCAGTAATTTTACAAA-CGAAGGGTATTTCAG
*
66461268 TAATTTTGCAAATCGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAA
1 TAATTTTGCAAATCGAGGGTATTT-GGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAA
** * **
66461333 ATCAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGG
65 ATCAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAG
* * * * * *
66461375 TAATTTTTCTAATCGAGGGTATTTTGGTAATTTTA-AAACCAAGGGTATTTCAATAATTTTACTA
1 TAATTTTGCAAATCGAGGGTA-TTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAA
** * * **
66461439 ATCGAGGGTATTTTGGTAATTTTGCTAATCG-AGGGTATTTTGG
65 ATC-AGGGTATTTCAGTAATTTTAC-AAACGAAGGGTATTTCAG
66461482 TAATTT
1 TAATTT
66461488 GGTAAACTAA
Statistics
Matches: 191, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
106 35 0.18
107 150 0.79
108 6 0.03
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (106 bp):
TAATTTTGCAAATCGAGGGTATTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAA
TCAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAG
Found at i:66461419 original size:53 final size:54
Alignment explanation
Indices: 66461161--66461487 Score: 360
Period size: 53 Copynumber: 6.1 Consensus size: 54
66461151 GGTAAAACGA
** * * * *
66461161 TAATTTTGTAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAA-GGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAA-ATCAAGGGTATTTTAG
* ** * *
66461215 TAATTTTTCAAATCG-GGGTATTTCAGTAATTTTACAAATC-GGAGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAG-GGTATTTTAG
* * *
66461268 TAATTTTGCAAATCGAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAG
*
66461322 TAATTTTACAAATC-AGGGTATTTTGGTAATTTTACAAA-CTAAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATC-AAGGGTATTTTAG
* * * * *
66461375 TAATTTTTCTAATCGAGGGTATTTTGGTAATTTTA-AAACCAAGGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAG
* * * * *
66461428 TAATTTTACTAATCGAGGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAG
66461482 TAATTT
1 TAATTT
66461488 GGTAAACTAA
Statistics
Matches: 236, Mismatches: 29, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
52 2 0.01
53 136 0.58
54 97 0.41
55 1 0.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAG
Found at i:66462367 original size:27 final size:27
Alignment explanation
Indices: 66462329--66462424 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 27
66462319 AGGGTGTTAC
* *
66462329 ATTACTATTTTACCCTTGATTTAAAAA
1 ATTACCATTTTACCCTCGATTTAAAAA
** *
66462356 ATTATTATTTTACCCTCGATTTACAAA
1 ATTACCATTTTACCCTCGATTTAAAAA
* *
66462383 ATTACCATTTTACCCTCAATTTATAAA
1 ATTACCATTTTACCCTCGATTTAAAAA
66462410 ATTACCATTTTACCC
1 ATTACCATTTTACCC
66462425 CTAGGGTGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (27 bp):
ATTACCATTTTACCCTCGATTTAAAAA
Found at i:66462954 original size:31 final size:31
Alignment explanation
Indices: 66462919--66463029 Score: 150
Period size: 31 Copynumber: 3.6 Consensus size: 31
66462909 TTGCATTCAC
* * * * *
66462919 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
*
66462950 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
**
66462981 ATTCTGATTCTGGTTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
66463012 ATTCTGATTCTAATTCTG
1 ATTCTGATTCTAATTCTG
66463030 ATTCTAGTTC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATTCTG
Found at i:66462984 original size:6 final size:6
Alignment explanation
Indices: 66462919--66463043 Score: 78
Period size: 6 Copynumber: 20.3 Consensus size: 6
66462909 TTGCATTCAC
* * * *
66462919 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
66462968 -TCACCTA ATTCTG ATTCTG ATTCTG GTTCTG -TCACCTG ATTCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
66463018 ATTCTA ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
66463044 AATGTTTCTT
Statistics
Matches: 91, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
5 5 0.05
6 74 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:66474286 original size:29 final size:29
Alignment explanation
Indices: 66474253--66474413 Score: 205
Period size: 29 Copynumber: 5.6 Consensus size: 29
66474243 GTGACGAGAT
66474253 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
66474282 TGGCACTAAGTGTGTGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
66474311 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
66474340 TGACACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
66474369 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
66474398 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
66474414 GGCTTAAATT
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 114 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:66487915 original size:39 final size:39
Alignment explanation
Indices: 66487840--66488022 Score: 294
Period size: 39 Copynumber: 4.7 Consensus size: 39
66487830 CCGCACAAAG
*
66487840 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
66487880 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
66487919 GCCTTCGGGCTTAGCCCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
66487958 GCCTTCAGGCTTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
66487997 GCCTTCGGGCTTAGCCTGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
66488023 TCGAACATTC
Statistics
Matches: 131, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 122 0.93
40 9 0.07
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:66487957 original size:78 final size:78
Alignment explanation
Indices: 66487800--66488022 Score: 302
Period size: 78 Copynumber: 2.8 Consensus size: 78
66487790 TCGTTCAAAC
* * ** * ** *
66487800 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATC
66487865 ACAATTTGCACAATT
64 ACAATTTGCACAATT
*
66487880 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGGTATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
66487945 AATTTGCACAATT
66 AATTTGCACAATT
* * * * *
66487958 GCCTTCAGGCTTAGCCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAGCCTGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
66488023 TCGAACATTC
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
78 87 0.68
79 32 0.25
80 9 0.07
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
AATTTGCACAATT
Found at i:66492650 original size:500 final size:500
Alignment explanation
Indices: 66491693--66492683 Score: 1429
Period size: 500 Copynumber: 2.0 Consensus size: 500
66491683 ACCCCTTTTG
* * *
66491693 ATAATTCCATATGCAATACACTTGTTTATAAATAAAGCATCATGGGATCATACATACTGAAGTAA
1 ATAATTCCATATGCAATACACTTGTTTATAAATAAACCATCATGGGATCATACATACTAAACTAA
* * *
66491758 AATGGCGAACACTTATAAACCCATGTAACCTTACAACATTCTTAGCATTTTTGGGTTTGAGAGCA
66 AATAGCGAACACTTATAAACCCATGCAACCTTACAACATTCTTAGCATTTTTGGGTTGGAGAGCA
* * ** * *
66491823 GAAACTCCCCTGATGTTTCTTTGCCTTGTTCGCTTAGCTTTTCCAGACACTAGAGCTTCCATTTT
131 GAAACTCACCTGATGCTTCTTTGCCTTGTAAGCTTAGCTTTTCCAGACACCAGAGCTTCCATTCT
* * * *
66491888 CTTGGAATCTAAGCAAGACAACCAATTCATGGGTTAAACTCAACAATCCGAGTTTAAATATAGTT
196 CCTAGAAGCTAAGCAAGACAACCAATTCATGGGTTAAACTCAACAATCCCAGTTTAAATATAGTT
*
66491953 TTCCAAAAACATGCAGAATCCTTAAAATGGTTTATAGAAACCCTTAATTTTGGTTTTTAAATCTT
261 TTCCAAAAACATGCAGAATCCTTAAAATGGTTTATAGAAACCCTTAATTTTGGTTCTTAAATCTT
* *
66492018 ACGTAAGCTAAAGGACTTAGAACCTTACCAGCTTACTCGATCCTCTATTTTCCTGACTCAAAACT
326 ACATAAGCTAAAGGACTTAGAACCTTACCAGCTTACTAGATCCTCTATTTTCCTGACTCAAAACT
* * * * *
66492083 CATGATCACTGCTCCATGTAGAGCATCTCGTAATCATCCAGTCTTCGAATCAACGAATAAGATGA
391 CATGATCACTACTCCATGCAAAGCATCTCGTAATCATCCAGTCTTAGAATCAACGAATAAAATGA
*
66492148 ATAAAGAGAAGAAAATGAAATAGAATTGAAATGAATACCCTAGTC
456 ATAAAGAGAAGAAAATAAAATAGAATTGAAATGAATACCCTAGTC
* *
66492193 ATAATTCCATATGCAATACATTTGTTTATAAATAAACCATCATGGGATTATACATACTAAACTAA
1 ATAATTCCATATGCAATACACTTGTTTATAAATAAACCATCATGGGATCATACATACTAAACTAA
* * * * * *
66492258 AATAGCGGACACTTATAGACCCATGCAACTTTACAACATTCTTAGCGTTTTTGGGTTGGAGTGTA
66 AATAGCGAACACTTATAAACCCATGCAACCTTACAACATTCTTAGCATTTTTGGGTTGGAGAGCA
* *
66492323 GAAACTCACCTGATGCTTCTTTGCCTTGTAAGCTTAGCTTTTCTAGACACCAGAGCTTTCATTCT
131 GAAACTCACCTGATGCTTCTTTGCCTTGTAAGCTTAGCTTTTCCAGACACCAGAGCTTCCATTCT
* * *
66492388 CCTAGCAGCTAAGCAAGACAACCAATTCATTGGTTAAACTCAACAATCCCAGTTTAAGCT-TAGT
196 CCTAGAAGCTAAGCAAGACAACCAATTCATGGGTTAAACTCAACAATCCCAGTTTAA-ATATAGT
* * * * * * *
66492452 TTTTCAGAAACATGTAGAATCCTTAAAATGGTTT-TTGCAAGCCTTTAATTTTGGTTCTTAAATG
260 TTTCCAAAAACATGCAGAATCCTTAAAATGGTTTATAG-AAACCCTTAATTTTGGTTCTTAAATC
*
66492516 TCT-CATACA-CTAAAGGACTTAGAACCTTACCAGCTTACTAGATCCTCTATTTT-CTCGACTTA
324 T-TACATA-AGCTAAAGGACTTAGAACCTTACCAGCTTACTAGATCCTCTATTTTCCT-GACTCA
* *
66492578 AAACTCATGATCACTACTCCATGCAAAGCATCTCGTAATCATCCTGTCTTTAG-ATCAATG-ATG
386 AAACTCATGATCACTACTCCATGCAAAGCATCTCGTAATCATCCAGTC-TTAGAATCAACGAAT-
*
66492641 AAAATGAATAAAGAGAAGAAAATAAAATAGAATTGAGATGAAT
449 AAAATGAATAAAGAGAAGAAAATAAAATAGAATTGAAATGAAT
66492684 CCTTGACTTC
Statistics
Matches: 435, Mismatches: 49, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
499 6 0.01
500 423 0.97
501 6 0.01
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (500 bp):
ATAATTCCATATGCAATACACTTGTTTATAAATAAACCATCATGGGATCATACATACTAAACTAA
AATAGCGAACACTTATAAACCCATGCAACCTTACAACATTCTTAGCATTTTTGGGTTGGAGAGCA
GAAACTCACCTGATGCTTCTTTGCCTTGTAAGCTTAGCTTTTCCAGACACCAGAGCTTCCATTCT
CCTAGAAGCTAAGCAAGACAACCAATTCATGGGTTAAACTCAACAATCCCAGTTTAAATATAGTT
TTCCAAAAACATGCAGAATCCTTAAAATGGTTTATAGAAACCCTTAATTTTGGTTCTTAAATCTT
ACATAAGCTAAAGGACTTAGAACCTTACCAGCTTACTAGATCCTCTATTTTCCTGACTCAAAACT
CATGATCACTACTCCATGCAAAGCATCTCGTAATCATCCAGTCTTAGAATCAACGAATAAAATGA
ATAAAGAGAAGAAAATAAAATAGAATTGAAATGAATACCCTAGTC
Found at i:66497483 original size:13 final size:14
Alignment explanation
Indices: 66497455--66497487 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
66497445 GAAATGTTTT
66497455 TATGAAAATAGATA
1 TATGAAAATAGATA
*
66497469 TATGAAACT-GATA
1 TATGAAAATAGATA
66497482 TATGAA
1 TATGAA
66497488 GTGTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.30
Consensus pattern (14 bp):
TATGAAAATAGATA
Found at i:66498531 original size:21 final size:21
Alignment explanation
Indices: 66498507--66498567 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
66498497 GAGCGTGTAG
66498507 AGTAGCCACACAGGCATGTGA
1 AGTAGCCACACAGGCATGTGA
* *
66498528 AGTAACCACATC-GGCATGTGT
1 AGTAGCCACA-CAGGCATGTGA
* *
66498549 GGTAGCCACACAGCCATGT
1 AGTAGCCACACAGGCATGT
66498568 TTCTAAGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (21 bp):
AGTAGCCACACAGGCATGTGA
Found at i:66503389 original size:40 final size:40
Alignment explanation
Indices: 66503334--66503507 Score: 249
Period size: 40 Copynumber: 4.3 Consensus size: 40
66503324 TATTCGGATG
* **
66503334 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
66503374 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
66503414 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-G--ACT
* *
66503457 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
66503497 ATATCCGGGCT
1 ATATCCGGGCT
66503508 GTGGCAGCCC
Statistics
Matches: 119, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 82 0.69
41 1 0.01
42 1 0.01
43 35 0.29
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:66503487 original size:83 final size:80
Alignment explanation
Indices: 66503334--66503506 Score: 283
Period size: 83 Copynumber: 2.1 Consensus size: 80
66503324 TATTCGGATG
* * *
66503334 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTTCCTATACCCGGGCTAAGTCCCGAAGGCA
66503399 TTTGTGCTAGTGACT
66 TTTGTGCTAGTGACT
*
66503414 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGC--G-AGTTCCTATACCCGGGCTAAGTCCCGAAG
66503479 GCATTTGTGCTAGTGACT
63 GCATTTGTGCTAGTGACT
66503497 ATATCCGGGC
1 ATATCCGGGC
66503507 TGTGGCAGCC
Statistics
Matches: 86, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
80 30 0.35
82 1 0.01
83 55 0.64
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTTCCTATACCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:66505117 original size:28 final size:28
Alignment explanation
Indices: 66505048--66505148 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
66505038 GACAAGATTG
* * * *
66505048 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
66505078 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
66505106 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
66505135 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66505149 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:66505142 original size:29 final size:28
Alignment explanation
Indices: 66505077--66505148 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
66505067 AAAATTGTAC
*
66505077 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
66505105 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
66505134 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
66505149 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:66515737 original size:40 final size:39
Alignment explanation
Indices: 66515572--66515755 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
66515562 AAATTGAATG
* * *
66515572 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
66515612 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
66515652 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
66515692 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
66515731 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
66515756 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:66515780 original size:80 final size:81
Alignment explanation
Indices: 66515612--66515800 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
66515602 GCTGGAAATT
* * * *
66515612 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
66515677 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
66515693 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
66515756 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
66515772 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
66515801 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:66525691 original size:40 final size:40
Alignment explanation
Indices: 66525631--66525854 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
66525621 TATTCGGATG
*
66525631 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
* *
66525671 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT
* * *
66525711 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--GTG-AGTTACT
* *
66525754 ATA-CCGGGCTAAGTCCCGAAGGTATTTGTGCT-AGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT
* * *
66525793 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
*
66525833 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
66525855 TACTTGGGTT
Statistics
Matches: 156, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 22 0.14
40 100 0.64
41 1 0.01
42 25 0.16
43 8 0.05
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
Found at i:66525788 original size:82 final size:81
Alignment explanation
Indices: 66525631--66525856 Score: 343
Period size: 82 Copynumber: 2.8 Consensus size: 81
66525621 TATTCGGATG
* * * *
66525631 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTCCTATATTCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGGAGTTGCTATATCCGGGCTAAGTCCCGAAGGT
66525695 ATTTGTGCTAGTGACT
66 ATTTGTGCTAGTGACT
*
66525711 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATA-CCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG-G-AGTTGCTATATCCGGGCTAAGTCCCGAAG
66525775 GTATTTGTGCTAGTGACT
64 GTATTTGTGCTAGTGACT
* *
66525793 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTGCTATATCC-GGCTAAATCCCGAAGGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGGAGTTGCTATATCCGGGCTAAGTCCCGAAGGT
66525856 A
66 A
66525857 CTTGGGTTTG
Statistics
Matches: 134, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
79 27 0.20
80 33 0.25
82 65 0.49
83 9 0.07
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGGAGTTGCTATATCCGGGCTAAGTCCCGAAGGT
ATTTGTGCTAGTGACT
Found at i:66534845 original size:43 final size:41
Alignment explanation
Indices: 66534798--66534939 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 41
66534788 ATGATACCGA
66534798 TGTCCCAGACATGGTCCTTTACATAAATCTTAATCGAGGCCTG
1 TGTCCCAGACATGGT-CTTTACATAAATC-TAATCGAGGCCTG
* ** ** *
66534841 TGTCCCAAACACAGTC-TTACGCGAAATC-AGATACGATGCC-G
1 TGTCCCAGACATGGTCTTTAC-ATAAATCTA-AT-CGAGGCCTG
* *
66534882 ATATCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTG
1 -TGTCCCAGACATGGTCTT-TACATAAATCT-AATCGAGGCCTG
66534926 TGTCCCAGACATGG
1 TGTCCCAGACATGG
66534940 CCTTACACGA
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
40 1 0.01
41 7 0.09
42 24 0.32
43 37 0.49
44 6 0.08
45 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
TGTCCCAGACATGGTCTTTACATAAATCTAATCGAGGCCTG
Found at i:66534858 original size:85 final size:85
Alignment explanation
Indices: 66534769--66534932 Score: 258
Period size: 85 Copynumber: 1.9 Consensus size: 85
66534759 CCCAGATAGG
* * *
66534769 GTCTTACACGAAATCAGATATGATACCGATGTCCCAGACATGGTCCTT-TACATAAATCTTAATC
1 GTCTTACACGAAATCAGATACGATACCGATATCCCAGACATGGT-CTTATACATAAATCTCAATC
66534833 GAGGCCTGTGTCCCAAACACA
65 GAGGCCTGTGTCCCAAACACA
* * *
66534854 GTCTTACGCGAAATCAGATACGATGCCGATATCCCAGACATGGTCTTATACGTAAATCTCAATCG
1 GTCTTACACGAAATCAGATACGATACCGATATCCCAGACATGGTCTTATACATAAATCTCAATCG
66534919 AGGCCTGTGTCCCA
66 AGGCCTGTGTCCCA
66534933 GACATGGCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
84 3 0.04
85 69 0.96
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (85 bp):
GTCTTACACGAAATCAGATACGATACCGATATCCCAGACATGGTCTTATACATAAATCTCAATCG
AGGCCTGTGTCCCAAACACA
Found at i:66534900 original size:42 final size:41
Alignment explanation
Indices: 66534756--66534901 Score: 100
Period size: 42 Copynumber: 3.5 Consensus size: 41
66534746 TCGATGCATC
* * * *
66534756 TATCCCAGATAGGGTCTTACACGAAATCAGATATGATACCGA
1 TATCCCAGACATGGTCTTAC-CGAAATCAGATACGATGCCGA
* ** *
66534798 TGTCCCAGACATGGTCCTTTACATAAATCTTA-AT-CGAGGCCTG-
1 TATCCCAGACATGGT-C-TTACCGAAATC--AGATACGATGCC-GA
* * **
66534841 TGTCCCAAACACAGTCTTACGCGAAATCAGATACGATGCCGA
1 TATCCCAGACATGGTCTTAC-CGAAATCAGATACGATGCCGA
66534883 TATCCCAGACATGGTCTTA
1 TATCCCAGACATGGTCTTA
66534902 TACGTAAATC
Statistics
Matches: 77, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
40 1 0.01
41 7 0.09
42 39 0.51
43 22 0.29
44 7 0.09
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (41 bp):
TATCCCAGACATGGTCTTACCGAAATCAGATACGATGCCGA
Found at i:66540032 original size:40 final size:39
Alignment explanation
Indices: 66539854--66540061 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
66539844 CAATTGAATG
* * * * * *
66539854 ATATCCGGGCTAAGTCCCAAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
* * * * * *
66539894 ATATCTGGGTTAAGACCCAAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTG-TT
* *
66539934 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGTT
* *
66539974 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
* * *
66540014 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
66540054 ATATCCGG
1 ATATCCGG
66540062 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 136 0.98
41 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGTT
Found at i:66547961 original size:40 final size:40
Alignment explanation
Indices: 66547902--66548109 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
66547892 CAATTGAATG
* * * *
66547902 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
66547942 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
66547982 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
66548022 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
66548062 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
66548102 ATATCCGG
1 ATATCCGG
66548110 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Done.