Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 130 of 186
Found at i:42941560 original size:11 final size:11
Alignment explanation
Indices: 42941544--42941577 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
42941534 TCAATTATTT
42941544 TCTCAATTTCC
1 TCTCAATTTCC
*
42941555 TCTCAATTTGC
1 TCTCAATTTCC
42941566 TCTCAATTTCC
1 TCTCAATTTCC
42941577 T
1 T
42941578 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:42941590 original size:22 final size:21
Alignment explanation
Indices: 42941540--42941590 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
42941530 TCTCTCAATT
42941540 ATTT-TCTCAATTTCCTCTCA
1 ATTTCTCTCAATTTCCTCTCA
42941560 ATTTGCTCTCAATTTCCT-TCCAA
1 ATTT-CTCTCAATTTCCTCT-C-A
42941583 ATTTCTCT
1 ATTTCTCT
42941591 TAAATCCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.15
21 1 0.04
22 17 0.63
23 5 0.19
ACGTcount: A:0.20, C:0.29, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTCTCTCAATTTCCTCTCA
Found at i:42942810 original size:7 final size:7
Alignment explanation
Indices: 42942798--42942822 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42942788 AGTCGATTGA
42942798 TATTTAG
1 TATTTAG
42942805 TATTTAG
1 TATTTAG
42942812 TATTTAG
1 TATTTAG
42942819 TATT
1 TATT
42942823 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:42944402 original size:621 final size:621
Alignment explanation
Indices: 42943191--42944427 Score: 2071
Period size: 621 Copynumber: 2.0 Consensus size: 621
42943181 CGTGCGTGCT
42943191 GGAATACATGCCATGGTGTAGGATCCATGGAAAGCCGTATTTACTGTCAGTAGAGGAGAGGCAGC
1 GGAATACATGCCATGGTGTAGGATCCATGGAAAGCCGTATTTACTGTCAGTAGAGGAGAGGCAGC
* * * *
42943256 GGCAATTACGTGTCCAAAGGGAACGACGTGGGCCTTTAAATCCAAGATGAAGGGACAACGACTCA
66 GGCAATTACGTGTCCAAAGGGAACAACGTGGGCCTTTAAATCCAAGACGAAGAGACAACGACGCA
42943321 GGCCCATCAACGAGGCCCAAACATTCACCCGGCCCATCATCAGCGGCCATTCAATCACCAGGCCC
131 GGCCCATCAACGAGGCCCAAACATTCACCCGGCCCATCATCAGCGGCCATTCAATCACCAGGCCC
* *
42943386 AGCGAGAGCACCGACACAGTCACACGACCCAGCAGCTCACCCAACGATACCCACGACACAGCCTT
196 AGCGAGAGCACCGACACAGTCACACGACCCAGCAGCTCAACCAACGATACCCACAACACAGCCTT
*
42943451 TTTTGATGATGCCAGGTGCGTATCCTAGCCTTTTTATATATCCTAACCCTTATATGTTTCCTTTT
261 TTTCGATGATGCCAGGTGCGTATCCTAGCCTTTTTATATATCCTAACCCTTATATGTTTCCTTTT
* * *
42943516 TTGAGTCCTATGGCAGGTTAGAGCCAATGGCCCGGTTCATCTCCATTTTCTGTTATGCCGAGTGG
326 TCGAGTCCTATGGCAAGTTAGAGCCAATGACCCGGTTCATCTCCATTTTCTGTTATGCCGAGTGG
* * * *
42943581 ACCGCCGATGTATAGGCTAGCGTCGCACGAGGGATCGCAAGAGGGTCGTTGGGGAGCTCTTCTTT
391 ACCACCGATGTATAGGCCAGCGTCGCACGAAGGATCGCAAGAGGGTCGTCGGGGAGCTCTTCTTT
* * *
42943646 TTACCAATCCCCATCACCGTATGGGTTTCAAACATCGTCGCCGTTGGTGATGCCAACACCTCCAC
456 TTACCAATCCCCATCACCGCATGGGTTTCAAACATCGTCGCCATTGGTGATGCAAACACCTCCAC
*
42943711 ATTCACTATTCTATCAAGGTGGTTCATCGTCCTAACACCGACAACCAGATGCCGTACCGGAGGAA
521 ATTCACTATTCTATCAAGGTGGTTCATCGTCCCAACACCGACAACCAGATGCCGTACCGGAGGAA
* * *
42943776 ACCAGAATCTCCGCCGGAGCAATCACAACCCTCACC
586 ACCAGAATCCCCGCCGAAGAAATCACAACCCTCACC
* * * *
42943812 GGAATACATGCCATGGTGTAGGATCCATGGCAAGCTGTATTTATTGTCGGTAGAGGAGAGGCAGC
1 GGAATACATGCCATGGTGTAGGATCCATGGAAAGCCGTATTTACTGTCAGTAGAGGAGAGGCAGC
*
42943877 GGCAATTACGTGTCCAAAGGGAACAACGTGGGCCTTTAAATCCAAGACGAAGAGACGACGACGCA
66 GGCAATTACGTGTCCAAAGGGAACAACGTGGGCCTTTAAATCCAAGACGAAGAGACAACGACGCA
* * * * *
42943942 GGCCCATCAACGTGGCCCAAACATTTACCCTGCCCATCATTAGCGGCCATTCAATCACCAGGCTC
131 GGCCCATCAACGAGGCCCAAACATTCACCCGGCCCATCATCAGCGGCCATTCAATCACCAGGCCC
* * * *
42944007 AGCGAGAGCACCGACACAGTCACCCGACCCAGTAGTTCAACCAATGATACCCACAACACAGCCTT
196 AGCGAGAGCACCGACACAGTCACACGACCCAGCAGCTCAACCAACGATACCCACAACACAGCCTT
**
42944072 TTTCGATGATGTTAGGTGCGTATCCTAGCCTTTTTATATATCCTAACCCTTATATGTTTCCTTTT
261 TTTCGATGATGCCAGGTGCGTATCCTAGCCTTTTTATATATCCTAACCCTTATATGTTTCCTTTT
*
42944137 TCGAGTCCTATGGCAAGTTAGAGCCAATGACCCGGTTTATCTCCATTTTCTGTTATGCCGAGTGG
326 TCGAGTCCTATGGCAAGTTAGAGCCAATGACCCGGTTCATCTCCATTTTCTGTTATGCCGAGTGG
* * *
42944202 ACCATCGATGTATAGGCCGGCGTCGCACGAAGGATCGTAAGAGGGGTCGTCGGGGAGCTCTTCTT
391 ACCACCGATGTATAGGCCAGCGTCGCACGAAGGATCGCAAGA-GGGTCGTCGGGGAGCTCTTCTT
42944267 TTTACCAATCCCCATCACCGCATGGGTTTCAAACATCGTCGCCATTGGTGATGCAAACACCTCCA
455 TTTACCAATCCCCATCACCGCATGGGTTTCAAACATCGTCGCCATTGGTGATGCAAACACCTCCA
* *
42944332 CATTCACTATTCTATCAAGGTGGTTCATCGTCCCAACACCGACAACCAGATGTCGTATCGGAGG-
520 CATTCACTATTCTATCAAGGTGGTTCATCGTCCCAACACCGACAACCAGATGCCGTACCGGAGGA
42944396 AACCAGAATCCCCGCCGAAGAAATCACAACCC
585 AACCAGAATCCCCGCCGAAGAAATCACAACCC
42944428 CTACCAGAAG
Statistics
Matches: 572, Mismatches: 43, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
621 428 0.75
622 144 0.25
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (621 bp):
GGAATACATGCCATGGTGTAGGATCCATGGAAAGCCGTATTTACTGTCAGTAGAGGAGAGGCAGC
GGCAATTACGTGTCCAAAGGGAACAACGTGGGCCTTTAAATCCAAGACGAAGAGACAACGACGCA
GGCCCATCAACGAGGCCCAAACATTCACCCGGCCCATCATCAGCGGCCATTCAATCACCAGGCCC
AGCGAGAGCACCGACACAGTCACACGACCCAGCAGCTCAACCAACGATACCCACAACACAGCCTT
TTTCGATGATGCCAGGTGCGTATCCTAGCCTTTTTATATATCCTAACCCTTATATGTTTCCTTTT
TCGAGTCCTATGGCAAGTTAGAGCCAATGACCCGGTTCATCTCCATTTTCTGTTATGCCGAGTGG
ACCACCGATGTATAGGCCAGCGTCGCACGAAGGATCGCAAGAGGGTCGTCGGGGAGCTCTTCTTT
TTACCAATCCCCATCACCGCATGGGTTTCAAACATCGTCGCCATTGGTGATGCAAACACCTCCAC
ATTCACTATTCTATCAAGGTGGTTCATCGTCCCAACACCGACAACCAGATGCCGTACCGGAGGAA
ACCAGAATCCCCGCCGAAGAAATCACAACCCTCACC
Found at i:42944642 original size:21 final size:21
Alignment explanation
Indices: 42944604--42944658 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
42944594 TTACTACCCT
42944604 AAAACCCTAAGCCATTAACTTA
1 AAAACCCTAA-CCATTAACTTA
*
42944626 AAAACCCTAACCCTTAACTTA
1 AAAACCCTAACCATTAACTTA
*
42944647 AAAATCCTAACC
1 AAAACCCTAACC
42944659 TAATTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAACCCTAACCATTAACTTA
Found at i:42944792 original size:21 final size:22
Alignment explanation
Indices: 42944717--42944790 Score: 123
Period size: 22 Copynumber: 3.4 Consensus size: 22
42944707 CAAAAACCTT
*
42944717 AAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
42944739 AATCCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
42944761 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
42944782 AAACCCTAA
1 AAACCCTAA
42944791 CCTAATTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
21 21 0.44
22 27 0.56
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:42944892 original size:22 final size:22
Alignment explanation
Indices: 42944861--42944915 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
42944851 AAACCCTAAC
*
42944861 AAAAACCCTAAACCCTTAATTT
1 AAAAACCCTAAACCCTTAACTT
* *
42944883 AAAAAACCTAAGCCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
42944905 AAAAACCCTAA
1 AAAAACCCTAA
42944916 CCTAATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAACCCTAAACCCTTAACTT
Found at i:42945010 original size:110 final size:110
Alignment explanation
Indices: 42944889--42945270 Score: 313
Period size: 112 Copynumber: 3.3 Consensus size: 110
42944879 ATTTAAAAAA
42944889 CCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAA
1 CCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAA
** *
42944954 ATAAATTTATAATTTAATTGACAAACCCGAACAAAAATCTTAAAC
66 ATAAATTTATAATTTAATTGACAAACCAAAACAAAAACCTTAAAC
**
42944999 CCTAAGCCCTTAACTTAAAAACCCTAACC---TTTAGCTTAAAAACCCTA-ACCTAATTTATTAA
1 CCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTA--TTAAAAA-TTTATA---AATTTA-T--
* * * * *
42945060 AAATTTATAAATTTATAATTTATAAATAAATTTATAATTTAATTGACAAACCCTAACAAAAACCT
57 AAA-TTATAAA--TA-AATTTATAATTTAATTGA-CA---AA---CCAAA-----ACAAAAACCT
*
42945125 TAAAT
106 TAAAC
* *
42945130 CTTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAAATATAA
1 CCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAA
* * ** *
42945195 TTAAATTTACAATTTAATTGACAAACCTTAACTTAAAAACCCTAAAC
66 ATAAATTTATAATTTAATTGACAAACCAAAAC--AAAAACCTTAAAC
* *
42945242 CTTAAACCCTTAACTTAAAAACCCTAACC
1 CCTAAGCCCTTAACTTAAAAACCCTAACC
42945271 CTTAACTTAA
Statistics
Matches: 214, Mismatches: 27, Indels: 60
0.71 0.09 0.20
Matches are distributed among these distances:
107 4 0.02
109 8 0.04
110 33 0.15
112 45 0.21
113 1 0.00
115 5 0.02
116 7 0.03
118 4 0.02
119 15 0.07
120 1 0.00
121 1 0.00
122 14 0.07
123 4 0.02
125 5 0.02
126 5 0.02
128 1 0.00
129 6 0.03
131 43 0.20
132 8 0.04
134 4 0.02
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (110 bp):
CCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAA
ATAAATTTATAATTTAATTGACAAACCAAAACAAAAACCTTAAAC
Found at i:42945038 original size:21 final size:21
Alignment explanation
Indices: 42944995--42945049 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
42944985 CAAAAATCTT
*
42944995 AAACCCTAAGCCCTTAACTTAA
1 AAACCCTAA-CCTTTAACTTAA
*
42945017 AAACCCTAACCTTTAGCTTAA
1 AAACCCTAACCTTTAACTTAA
42945038 AAACCCTAACCT
1 AAACCCTAACCT
42945050 AATTTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 22 0.71
22 9 0.29
ACGTcount: A:0.40, C:0.33, G:0.04, T:0.24
Consensus pattern (21 bp):
AAACCCTAACCTTTAACTTAA
Found at i:42945078 original size:26 final size:26
Alignment explanation
Indices: 42945049--42945100 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
42945039 AACCCTAACC
*
42945049 TAATTTATTAA-AAATTTATAAATTTA
1 TAATTTATAAATAAATTTAT-AATTTA
42945075 TAATTTATAAATAAATTTATAATTTA
1 TAATTTATAAATAAATTTATAATTTA
42945101 ATTGACAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TAATTTATAAATAAATTTATAATTTA
Found at i:42945159 original size:131 final size:131
Alignment explanation
Indices: 42944609--42945158 Score: 686
Period size: 131 Copynumber: 4.2 Consensus size: 131
42944599 ACCCTAAAAC
* *
42944609 CCTAAGCCATTAACTTAAAAACCCTAACCCTTAACTTAAAAATCCTAACCTAATTTATTAAAAAT
1 CCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAAT
** * *** *** ***** ***
42944674 TTATAAATTTATAATTTAATTGACAAA-CCCTAACAAAAACCTTAAACCCTAAACCTTTAA-CTT
66 TTATAAATTTATAATTT-ATAAATAAATTTATAATTTAATTGACAAACCCT-AA-CAAAAACCTT
42944737 AAAAT
128 -AAAT
*
42944742 CCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAA
1 -CCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAA
* * *
42944807 ATTATAAATTTATAGTTTATAAATATATTTATAATTTAATTGACAAACCCTAACAAAAA-C----
65 TTTATAAATTTATAATTTATAAATAAATTTATAATTTAATTGACAAACCCTAACAAAAACCTTAA
42944867 --
130 AT
* * *
42944867 CCTAAACCCTTAATTTAAAAAACCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAA
1 CCTAAGCCCTTAACTTAAAAACCCTAA-CCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAA
* * *
42944932 TTTATAAATTTATAAATTATAAATAAATTTATAATTTAATTGACAAACCCGAACAAAAATCTTAA
65 TTTATAAATTTATAATTTATAAATAAATTTATAATTTAATTGACAAACCCTAACAAAAACCTTAA
*
42944997 AC
130 AT
* *
42944999 CCTAAGCCCTTAACTTAAAAACCCTAACCTTTAGCTTAAAAACCCTAACCTAATTTATTAAAAAT
1 CCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAAT
42945064 TTATAAATTTATAATTTATAAATAAATTTATAATTTAATTGACAAACCCTAACAAAAACCTTAAA
66 TTATAAATTTATAATTTATAAATAAATTTATAATTTAATTGACAAACCCTAACAAAAACCTTAAA
42945129 T
131 T
*
42945130 CTTAAGCCCTTAACTTAAAAACCCTAACC
1 CCTAAGCCCTTAACTTAAAAACCCTAACC
42945159 TAATTTATTA
Statistics
Matches: 367, Mismatches: 40, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
124 25 0.07
125 91 0.25
126 1 0.00
131 126 0.34
132 28 0.08
133 7 0.02
134 89 0.24
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (131 bp):
CCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAAT
TTATAAATTTATAATTTATAAATAAATTTATAATTTAATTGACAAACCCTAACAAAAACCTTAAA
T
Found at i:42945234 original size:14 final size:14
Alignment explanation
Indices: 42945217--42945269 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
42945207 TTTAATTGAC
42945217 AAACCTTAACTTAA
1 AAACCTTAACTTAA
*
42945231 AAACCCTAAACCTT-A
1 AAA-CCTTAA-CTTAA
*
42945246 AACCCTTAACTTAA
1 AAACCTTAACTTAA
*
42945260 AAACCCTAAC
1 AAACCTTAAC
42945270 CCTTAACTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 3 0.10
14 17 0.55
15 8 0.26
16 3 0.10
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCTTAACTTAA
Found at i:42945241 original size:21 final size:21
Alignment explanation
Indices: 42945220--42945333 Score: 138
Period size: 21 Copynumber: 5.0 Consensus size: 21
42945210 AATTGACAAA
*
42945220 CCTTAACTTAAAAACCCTAAA
1 CCTTAACTTAAAAACCCTAAC
42945241 CCTTAAACCCTTAACTTAAAAACCCTAAC
1 CCTT-AA--CTT-A---AA-AACCCTAAC
42945270 CCTTAACTTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
42945291 CCTTAACTTAAAAACCCTAAC
1 CCTTAACTTAAAAACCCTAAC
*
42945312 CCTTAACTTAAAAACTCTAAC
1 CCTTAACTTAAAAACCCTAAC
42945333 C
1 C
42945334 TAATTTATTA
Statistics
Matches: 83, Mismatches: 2, Indels: 16
0.82 0.02 0.16
Matches are distributed among these distances:
21 55 0.66
22 4 0.05
24 3 0.04
25 2 0.02
26 3 0.04
28 4 0.05
29 12 0.14
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (21 bp):
CCTTAACTTAAAAACCCTAAC
Found at i:42945253 original size:29 final size:29
Alignment explanation
Indices: 42945220--42945275 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
42945210 AATTGACAAA
42945220 CCTTAACTTAAAAACCCTAAACCTTAAAC
1 CCTTAACTTAAAAACCCTAAACCTTAAAC
*
42945249 CCTTAACTTAAAAACCCTAACCCTTAA
1 CCTTAACTTAAAAACCCTAAACCTTAA
42945276 CTTAAAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (29 bp):
CCTTAACTTAAAAACCCTAAACCTTAAAC
Found at i:42945297 original size:42 final size:42
Alignment explanation
Indices: 42945246--42945333 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
42945236 CTAAACCTTA
42945246 AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT
*
42945288 AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACTCT
1 AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT
42945330 AACC
1 AACC
42945334 TAATTTATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (42 bp):
AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT
Found at i:42945308 original size:15 final size:15
Alignment explanation
Indices: 42945220--42945266 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
42945210 AATTGACAAA
42945220 CCTTAACTTAAAAAC
1 CCTTAACTTAAAAAC
*
42945235 CCTAAACCTT--AAAC
1 CCTTAA-CTTAAAAAC
42945249 CCTTAACTTAAAAAC
1 CCTTAACTTAAAAAC
42945264 CCT
1 CCT
42945267 AACCCTTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.11
14 9 0.33
15 12 0.44
16 3 0.11
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
CCTTAACTTAAAAAC
Found at i:42945363 original size:26 final size:26
Alignment explanation
Indices: 42945334--42945385 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
42945324 AACTCTAACC
*
42945334 TAATTTATTAA-AAATTTATAAATTTA
1 TAATTTATAAATAAATTTAT-AATTTA
42945360 TAATTTATAAATAAATTTATAATTTA
1 TAATTTATAAATAAATTTATAATTTA
42945386 ATTGACAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TAATTTATAAATAAATTTATAATTTA
Found at i:42945430 original size:22 final size:22
Alignment explanation
Indices: 42945402--42945456 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
42945392 AAACCCTAAC
*
42945402 AAAAACCCTAAACCCTTAATTT
1 AAAAACCCTAAACCCTTAACTT
*
42945424 AAAAACCCTAAGCCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
42945446 AAAAACCCTAA
1 AAAAACCCTAA
42945457 CCTAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAACCCTAAACCCTTAACTT
Found at i:42945525 original size:125 final size:123
Alignment explanation
Indices: 42945279--42945514 Score: 312
Period size: 125 Copynumber: 1.9 Consensus size: 123
42945269 CCCTTAACTT
*
42945279 AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACTCTAACCTAATTTATTA
1 AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTA
* ** *** ***
42945344 AAAATTTATAAATTTATAATTTATAAATAAATTTATAATTTAATTGACAAACCCTAAC
66 AAAATTTATAAATTTATAATTTATAAACAAATCCATAACAAAAACCACAAACCCTAAC
*
42945402 AAAAACCCTAAACCCTTAATTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTAT
1 AAAAACCCT-AACCCTTAACTTAAAAACCCTAA-CCCTTAACTTAAAAACCCTAACCTAATTTAT
** *
42945467 TAAAAATTTATAAATTTATAATTTAATTGACAAA-CCCTAACAAAAACC
64 TAAAAATTTATAAATTTATAATTT-ATAAACAAATCCATAACAAAAACC
42945515 TTAAATCCTA
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
123 9 0.09
124 22 0.23
125 59 0.61
126 6 0.06
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.31
Consensus pattern (123 bp):
AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTA
AAAATTTATAAATTTATAATTTATAAACAAATCCATAACAAAAACCACAAACCCTAAC
Found at i:42945595 original size:216 final size:218
Alignment explanation
Indices: 42945306--42945712 Score: 667
Period size: 216 Copynumber: 1.8 Consensus size: 218
42945296 ACTTAAAAAC
* *
42945306 CCTAACCCTTAACTTAAAAACTCTAACCTAATTTATTAAAAATTTATAAATTTATAATTTATAAA
1 CCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAAA
*
42945371 TAAATTTATAATTTAATTGACAAACCCTAAC-AAAAACC-C-TAAACCCTTAATTTAAAAACCCT
66 TAAATTTATAATTTAATTGACAAACCCTAACTAAAAACCACGTAAACCCTTAACTTAAAAACCCT
42945433 AAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAATTTAATTGAC
131 AAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAATTTAATTGAC
42945498 AAACCCTAACAAAAACCTTAAAT
196 AAACCCTAACAAAAACCTTAAAT
42945521 CCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAA
1 CCTAA-CCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAA
* * *
42945586 TTAAATTTATAATTTAATTGACAAATCTTAACTTAAAAACCGTAAATCGTAAACCCTTAACTTAA
65 ATAAATTTATAATTTAATTGACAAACCCTAAC-TAAAAACC----A-CGTAAACCCTTAACTTAA
*
42945651 AAACCTTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAA
124 AAACCCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAA
42945713 AATATAATTA
Statistics
Matches: 175, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
215 5 0.03
216 86 0.49
218 7 0.04
224 1 0.01
225 76 0.43
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (218 bp):
CCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAAA
TAAATTTATAATTTAATTGACAAACCCTAACTAAAAACCACGTAAACCCTTAACTTAAAAACCCT
AAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAATTTAATTGAC
AAACCCTAACAAAAACCTTAAAT
Found at i:42945674 original size:134 final size:131
Alignment explanation
Indices: 42945523--42946025 Score: 553
Period size: 134 Copynumber: 4.0 Consensus size: 131
42945513 CCTTAAATCC
42945523 TAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAATT
1 TAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAATT
*
42945588 AAATTTATAATTTAATTGACAAATCTTAACTTAAAAACCGTAAATCGTAAACCCTTAACTTAAAA
66 AAATTTATAATTTAATTGACAAACCTTAACTTAAAAACC-TAAA-C-TAAACCCTTAACTTAAAA
42945653 ACCT
128 ACCT
*
42945657 TAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAAATATAATT
1 TAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAATT
42945722 AAATTTATAATTTAATTGACAAACCTTAACTTAAAAATCCTAAACCCTAAACCCTTAACTTAAAA
66 AAATTTATAATTTAATTGACAAACCTTAACTTAAAAA-CCTAAA--CTAAACCCTTAACTTAAAA
42945787 ACCT
128 ACCT
* * * * *
42945791 TAA-CCTGATTTA-TTAAAAA--TTTA--TAAATTTA-T---AATTTATAAA--TA-AATTTATA
1 TAAGCC--CTTAACTTAAAAACCCTAACCT-AATTTATTAAAAATTTATAAATTTATAAATTATA
* * * ** * * *
42945843 ATTTAATTGACAACCCTAA--CAAAAACCTT-A------AACC----CTAAACCCTTAATTTAAA
63 ATTAAATTTATAA-TTTAATTGACAAACCTTAACTTAAAAACCTAAACTAAACCCTTAACTTAAA
*
42945895 AACCC
127 AACCT
42945900 TAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAATT
1 TAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAATT
*
42945965 AAATTTATAATTTAATTGACCAACCTTAACTTAAAAACCT----TAAACCCTTAACTTAAAAACC
66 AAATTTATAATTTAATTGACAAACCTTAACTTAAAAACCTAAACTAAACCCTTAACTTAAAAACC
42946026 CTAACCTAAT
Statistics
Matches: 308, Mismatches: 32, Indels: 65
0.76 0.08 0.16
Matches are distributed among these distances:
108 3 0.01
109 31 0.10
110 2 0.01
111 2 0.01
112 6 0.02
113 2 0.01
115 2 0.01
116 12 0.04
118 5 0.02
119 17 0.06
120 7 0.02
121 1 0.00
122 1 0.00
123 8 0.03
124 16 0.05
125 5 0.02
127 34 0.11
130 2 0.01
131 6 0.02
132 2 0.01
133 2 0.01
134 136 0.44
135 6 0.02
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.35
Consensus pattern (131 bp):
TAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATTATAATT
AAATTTATAATTTAATTGACAAACCTTAACTTAAAAACCTAAACTAAACCCTTAACTTAAAAACC
T
Found at i:42945780 original size:112 final size:109
Alignment explanation
Indices: 42945651--42946246 Score: 541
Period size: 112 Copynumber: 5.3 Consensus size: 109
42945641 CTTAACTTAA
* *
42945651 AAACCTTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAAAT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAAAT
* *
42945716 ATAATTAAATTTATAATTTAATTGACAAACCTTAACTTAAAAATCC-T
66 ATAAATAAATTTATAATTTAATTGAC-AACCCTAAC--AAAAA-CCTT
* * **
42945763 AAACCCTAAACCCTTAACTTAAAAACCTTAACCTGATTTATTAAAAATTTATAAATTTATAATTT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAAAT
42945828 ATAAATAAATTTATAATTTAATTGACAACCCTAACAAAAACCTT
66 ATAAATAAATTTATAATTTAATTGACAACCCTAACAAAAACCTT
* * * *
42945872 AAACCCTAAACCCTTAATTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAA--CC-TAA-TT---TA--TTAA--AAATTTA-T-
* * ***
42945937 AAAATTTATAAATTTATAAATTATAA-TTA-AATTTATAATTTA-ATTGA-CC-AACCTTAA-CT
53 -AAATTTATAAA-ATATAAA-TA-AATTTATAA-TT-TAATTGACA---ACCCTAACAAAAACCT
42945996 T
109 T
*
42945997 AAAAACCTTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAA
1 --AAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAA
* * * **
42946062 TTATAATTAAATTTATAATTTAATTGACCAACCTTAAC-TTAA----
64 ATATAAATAAATTTATAATTTAATTGA-CAACCCTAACAAAAACCTT
* *
42946104 AAACCTTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAAAT
* * * *
42946169 ATAATTAAATTTATAATTTAATTGACAAATCTTAACTTAAAAACCCT
66 ATAAATAAATTTATAATTTAATTGAC-AACCCTAAC--AAAAACCTT
* *
42946216 AAATCCTAAACCCTTAACTTAAAAATCCTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAA
42946247 GCCCTTAACT
Statistics
Matches: 412, Mismatches: 33, Indels: 78
0.79 0.06 0.15
Matches are distributed among these distances:
104 1 0.00
105 98 0.24
108 4 0.01
109 36 0.09
110 13 0.03
111 20 0.05
112 123 0.30
113 13 0.03
115 1 0.00
116 7 0.02
118 6 0.01
120 7 0.02
121 1 0.00
123 12 0.03
124 12 0.03
125 13 0.03
126 13 0.03
127 31 0.08
128 1 0.00
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (109 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAAAT
ATAAATAAATTTATAATTTAATTGACAACCCTAACAAAAACCTT
Found at i:42945793 original size:14 final size:14
Alignment explanation
Indices: 42945742--42945794 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
42945732 TTTAATTGAC
42945742 AAACCTTAACTTAA
1 AAACCTTAACTTAA
* *
42945756 AAATCCTAAACCCT-A
1 AAA-CCTTAA-CTTAA
*
42945771 AACCCTTAACTTAA
1 AAACCTTAACTTAA
42945785 AAACCTTAAC
1 AAACCTTAAC
42945795 CTGATTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 2 0.07
14 18 0.60
15 8 0.27
16 2 0.07
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
AAACCTTAACTTAA
Found at i:42945900 original size:22 final size:22
Alignment explanation
Indices: 42945872--42945924 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
42945862 CAAAAACCTT
*
42945872 AAACCCTAAACCCTTAATTTAA
1 AAACCCTAAACCCTTAACTTAA
*
42945894 AAACCCTAAGCCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
42945916 AAACCCTAA
1 AAACCCTAA
42945925 CCTAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:42945908 original size:131 final size:133
Alignment explanation
Indices: 42945763--42946012 Score: 423
Period size: 131 Copynumber: 1.9 Consensus size: 133
42945753 TAAAAATCCT
* * *
42945763 AAACCCTAAACCCTTAACTTAAAAACCTTAACCTGATTTATTAAAAATTTATAAATTTATAATTT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATT
42945828 ATAAATAAATTTATAATTTAATTGA-CAACCCTAAC-AAAAACCTTAAACCCTAAACCCTTAATT
66 ATAAATAAATTTATAATTTAATTGACCAACCCTAACTAAAAACCTTAAACCCTAAACCCTTAATT
42945891 TAA
131 TAA
*
42945894 AAACCCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATT
* *
42945959 ATAATTAAATTTATAATTTAATTGACCAACCTTAACTTAAAAACCTTAAACCCT
66 ATAAATAAATTTATAATTTAATTGACCAACCCTAAC-TAAAAACCTTAAACCCT
42946013 TAACTTAAAA
Statistics
Matches: 110, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
131 85 0.77
132 9 0.08
134 16 0.15
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (133 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAAATTTATAAATT
ATAAATAAATTTATAATTTAATTGACCAACCCTAACTAAAAACCTTAAACCCTAAACCCTTAATT
TAA
Found at i:42945999 original size:105 final size:105
Alignment explanation
Indices: 42945883--42946218 Score: 618
Period size: 105 Copynumber: 3.2 Consensus size: 105
42945873 AACCCTAAAC
* *
42945883 CCTTAATTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAA
1 CCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAA
42945948 ATTTATAAATTATAATTAAATTTATAATTTAATTGACCAA
66 ATTTATAAATTATAATTAAATTTATAATTTAATTGACCAA
*
42945988 CCTTAACTTAAAAACCTTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAA
1 CCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAA
42946053 ATTTATAAATTATAATTAAATTTATAATTTAATTGACCAA
66 ATTTATAAATTATAATTAAATTTATAATTTAATTGACCAA
*
42946093 CCTTAACTTAAAAACCTTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAA
1 CCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAA
*
42946158 ATTTATAAATTATAATTAAATTTATAATTTAATTGACAAA
66 ATTTATAAATTATAATTAAATTTATAATTTAATTGACCAA
*
42946198 TCTTAACTTAAAAACCCTAAA
1 CCTTAACTTAAAAACCCTAAA
42946219 TCCTAAACCC
Statistics
Matches: 225, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 225 1.00
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (105 bp):
CCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAA
ATTTATAAATTATAATTAAATTTATAATTTAATTGACCAA
Found at i:42946242 original size:22 final size:22
Alignment explanation
Indices: 42946216--42946283 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
42946206 TAAAAACCCT
*
42946216 AAATCCTAAACCCTTAACTTAA
1 AAATCCTAAGCCCTTAACTTAA
42946238 AAATCCTAAGCCCTTAACTTAA
1 AAATCCTAAGCCCTTAACTTAA
*
42946260 AAACCCT-AGCCCTTAACTTAA
1 AAATCCTAAGCCCTTAACTTAA
42946281 AAA
1 AAA
42946284 CTCTACCCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
21 17 0.39
22 27 0.61
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.25
Consensus pattern (22 bp):
AAATCCTAAGCCCTTAACTTAA
Found at i:42946270 original size:21 final size:21
Alignment explanation
Indices: 42946226--42946292 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
42946216 AAATCCTAAA
*
42946226 CCCTTAACTTAAAAATCCTAAG
1 CCCTTAACTTAAAAACCCT-AG
42946248 CCCTTAACTTAAAAACCCTAG
1 CCCTTAACTTAAAAACCCTAG
*
42946269 CCCTTAACTTAAAAACTCTA-
1 CCCTTAACTTAAAAACCCTAG
42946289 CCCT
1 CCCT
42946293 AATTTATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.09
21 21 0.49
22 18 0.42
ACGTcount: A:0.37, C:0.33, G:0.03, T:0.27
Consensus pattern (21 bp):
CCCTTAACTTAAAAACCCTAG
Found at i:42946284 original size:155 final size:154
Alignment explanation
Indices: 42946093--42947020 Score: 1190
Period size: 153 Copynumber: 6.2 Consensus size: 154
42946083 AATTGACCAA
* *
42946093 CCTTAACTTAAAAACCTTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTATAA
1 CCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAA
*
42946158 ATTTATAAATTATAATTAAATTTATAATTTAATTGACAAATCTTAACTTAAAAACCCTAAATCCT
65 ATTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTTAACTTAAAAACCCTAAA-CCT
*
42946223 AAACCCTTAACTTAAAAATCCTAAGC
129 AAACCCTTAACTTAAAAACCCTAAGC
* *
42946249 CCTTAACTTAAAAACCCTAGCCCTTAACTTAAAAACTCTACCCTAATTTATTAAAAATTTATAAA
1 CCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAA
*
42946314 TTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTTAACTTAAAAA--C----CGTAA
66 TTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTTAACTTAAAAACCCTAAACCTAA
* *
42946373 ACCGTTAACTTAGAAACCCTAA-C
131 ACCCTTAACTTAAAAACCCTAAGC
* **
42946396 CCTTAACTTAAAAACCCTAA-CC-TAATTTATTAA----A----AATTTA-T--AAATTTATAAA
1 CCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAA
* * * *
42946448 TTATAATTAAATTTATAATTTAATTGACAAATCTTAACTT-A-AAA----ACCTT--AAACCCTA
66 TT-T-A-TAAA-TTATAATTAAATTTA-TAAT-TTAA-TTGACAAACCTTAACTTAAAAACCCTA
*
42946505 AACCT------TTAACTTAAAAACCATAAGC
124 AACCTAAACCCTTAACTTAAAAACCCTAAGC
42946530 CCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAA
1 CCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAA
*
42946595 TTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTTAACTTAAAAATCCTAAACCCTA
66 TTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTTAACTTAAAAACCCTAAA-CCTA
*
42946660 AACCTTTAACTT-AAAACCCTAAG-
130 AACCCTTAACTTAAAAACCCTAAGC
*
42946683 CCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTGCCCTAATTTATTAAAAATTTATAAA
1 CCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAA
* * *
42946748 TTTATAATTTAGAATTAAATTTATAATTTAATTGACAAATCTTAACTT-AAAACCCTAAACCCTA
66 TTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTTAACTTAAAAACCCTAAA-CCTA
42946812 AACCCTTAACTTAAAAACCCTAAGC
130 AACCCTTAACTTAAAAACCCTAAGC
*
42946837 CCTTAACTTAAAAACCCTAACCCTCAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAA
1 CCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAA
* *
42946902 TTTATAATTTATAATTAAATTTATAATTTAATTGACAAACCCTAAC--AAAAA--C----CCTAA
66 TTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTTAACTTAAAAACCCTAAACCTAA
42946959 ACCCTTAACTTAAAAACCCTAAGC
131 ACCCTTAACTTAAAAACCCTAAGC
*
42946983 CCTTAACTTAAATACCCTAAGCCCTTAACTTAAAAACC
1 CCTTAACTTAAAAACCCTAA-CCCTTAACTTAAAAACC
42947021 TTAAAACCCT
Statistics
Matches: 684, Mismatches: 42, Indels: 101
0.83 0.05 0.12
Matches are distributed among these distances:
133 19 0.03
134 34 0.05
135 8 0.01
136 10 0.01
137 10 0.01
138 13 0.02
139 8 0.01
140 8 0.01
141 8 0.01
142 6 0.01
143 13 0.02
144 10 0.01
145 10 0.01
146 55 0.08
147 49 0.07
148 32 0.05
149 3 0.00
151 1 0.00
152 26 0.04
153 125 0.18
154 116 0.17
155 103 0.15
156 17 0.02
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (154 bp):
CCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAA
TTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTTAACTTAAAAACCCTAAACCTAA
ACCCTTAACTTAAAAACCCTAAGC
Found at i:42946381 original size:22 final size:21
Alignment explanation
Indices: 42946350--42946415 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
42946340 TTTAATTGAC
*
42946350 AAACCTTAACTTAAAAACCGT
1 AAACCTTAACTTAAAAACCCT
*
42946371 AAACCGTTAACTTAGAAACCCT
1 AAACC-TTAACTTAAAAACCCT
*
42946393 AACCCTTAACTTAAAAACCCT
1 AAACCTTAACTTAAAAACCCT
42946414 AA
1 AA
42946416 CCTAATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 22 0.55
22 18 0.45
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.23
Consensus pattern (21 bp):
AAACCTTAACTTAAAAACCCT
Found at i:42946422 original size:281 final size:280
Alignment explanation
Indices: 42946091--42947002 Score: 1355
Period size: 281 Copynumber: 3.2 Consensus size: 280
42946081 TTAATTGACC
*
42946091 AACC-TTAACTTAAAAACCTTAAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTA
1 AACCGTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTA
*
42946155 TAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAATCTTAACTTAAAAACCCTAAAT
65 TAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAATCTTAACTTAAAAACCCTAAAC
*
42946220 CCTAAACCCTTAACTTAAAAATCCTAAGCCCTTAACTTAAAAACCCTAGCCCTTAACTTAAAAAC
130 CCTAAACCCTTAACTTAAAAA-CCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAAC
*
42946285 TCTACCCTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGAC
194 CCTACCCTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGAC
*
42946350 AAACCTTAACTTAAAAACCGTA
259 AAACCTTAACTTAAAAACCCTA
*
42946372 AACCGTTAACTTAGAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTAT
1 AACCGTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTAT
*
42946437 AAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAATCTTAACTTAAAAACCTTAAACC
66 AAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAATCTTAACTTAAAAACCCTAAACC
*
42946502 CTAAACCTTTAACTTAAAAACCATAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACC
131 CTAAACCCTTAACTTAAAAACC-TAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACC
42946567 CTACCCTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACA
195 CTACCCTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACA
42946632 AACCTTAACTTAAAAATCCTAAACCCTAAACCTTTAACTTAA
260 AACCTTAAC-------T--T-AA----AAACC-----C-T-A
**
42946674 AACCCTAAGCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTGCCCTAATTTATTAAAA
1 AA-CC---G--TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAA
* *
42946739 ATTTATAAATTTATAATTTAGAATTAAATTTATAATTTAATTGACAAATCTTAACTT-AAAACCC
60 ATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAATCTTAACTTAAAAACCC
*
42946803 TAAACCCTAAACCCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCCTCAACTTA
125 TAAACCCTAAACCCTTAACTTAAAAA-CCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTA
*
42946868 AAAACCCTACCCTAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAATTTAA
189 AAAACCCTACCCTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAA
*
42946933 TTGACAAACCCTAAC--AAAAACCCTA
254 TTGACAAACCTTAACTTAAAAACCCTA
* *
42946958 AACCCTTAACTTAAAAACCCTAAGCCCTTAACTTAAATACCCTAA
1 AACCGTTAACTTAAAAACCCTAA-CCCTTAACTTAAAAACCCTAA
42947003 GCCCTTAACT
Statistics
Matches: 578, Mismatches: 22, Indels: 64
0.87 0.03 0.10
Matches are distributed among these distances:
278 18 0.03
279 18 0.03
280 2 0.00
281 244 0.42
282 14 0.02
283 2 0.00
284 3 0.01
285 1 0.00
286 1 0.00
288 1 0.00
290 1 0.00
291 7 0.01
295 7 0.01
301 1 0.00
302 3 0.01
303 2 0.00
306 1 0.00
307 144 0.25
308 108 0.19
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (280 bp):
AACCGTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTTATTAAAAATTTAT
AAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAATCTTAACTTAAAAACCCTAAACC
CTAAACCCTTAACTTAAAAACCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCC
TACCCTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAA
ACCTTAACTTAAAAACCCTA
Found at i:42946535 original size:22 final size:21
Alignment explanation
Indices: 42946505--42946566 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
42946495 TTAAACCCTA
*
42946505 AACCTTTAACTTAAAAACCAT
1 AACCCTTAACTTAAAAACCAT
*
42946526 AAGCCCTTAACTTAAAAACCCT
1 AA-CCCTTAACTTAAAAACCAT
42946548 AACCCTTAACTTAAAAACC
1 AACCCTTAACTTAAAAACC
42946567 CTACCCTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (21 bp):
AACCCTTAACTTAAAAACCAT
Found at i:42946585 original size:21 final size:21
Alignment explanation
Indices: 42946497--42946573 Score: 111
Period size: 22 Copynumber: 3.6 Consensus size: 21
42946487 TAAAAACCTT
*
42946497 AAACCCTAAACCTTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
*
42946519 AAACCATAAGCCCTTAACTTAA
1 AAACCCTAA-CCCTTAACTTAA
42946541 AAACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
42946562 AAACCCT-ACCCT
1 AAACCCTAACCCT
42946574 AATTTATTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
20 5 0.10
21 21 0.41
22 25 0.49
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.23
Consensus pattern (21 bp):
AAACCCTAACCCTTAACTTAA
Found at i:42946688 original size:20 final size:21
Alignment explanation
Indices: 42946652--42946721 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
42946642 TAAAAATCCT
42946652 AAACCCTAAACCTTTAACTT-A
1 AAACCCTAAACC-TTAACTTAA
*
42946673 AAACCCTAAGCCTTAACTTAA
1 AAACCCTAAACCTTAACTTAA
*
42946694 AAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCTTAACTTAA
42946715 AAACCCT
1 AAACCCT
42946722 GCCCTAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.15
21 39 0.85
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.24
Consensus pattern (21 bp):
AAACCCTAAACCTTAACTTAA
Found at i:42946830 original size:22 final size:22
Alignment explanation
Indices: 42946804--42946876 Score: 121
Period size: 22 Copynumber: 3.4 Consensus size: 22
42946794 TTAAAACCCT
42946804 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
42946826 AAACCCTAAGCCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
42946848 AAACCCT-AACCCTCAACTTAA
1 AAACCCTAAACCCTTAACTTAA
42946869 AAACCCTA
1 AAACCCTA
42946877 CCCTAATTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 19 0.40
22 28 0.60
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.21
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:42946907 original size:154 final size:155
Alignment explanation
Indices: 42946353--42947020 Score: 1072
Period size: 155 Copynumber: 4.4 Consensus size: 155
42946343 AATTGACAAA
* * * * *
42946353 CCTTAACTTAAAAACCGTAAACCGTTAACTTAGAAACCCTAACCCTTAACTTAAAAACCCTAACC
1 CCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCC
*
42946418 TAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAATCTT
66 TAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTT
*
42946483 AACTTAAAAACCTTAAACCCTAAAC
131 AACTTAAAAACCCTAAACCCTAAAC
* *
42946508 CTTTAACTTAAAAACCATAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCC
1 CCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCC
42946573 TAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTT
66 TAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTT
*
42946638 AACTTAAAAATCCTAAACCCTAAAC
131 AACTTAAAAACCCTAAACCCTAAAC
* *
42946663 CTTTAACTT-AAAACCCTAAG-CCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTGCCC
1 CCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCC
* * *
42946726 TAATTTATTAAAAATTTATAAATTTATAATTTAGAATTAAATTTATAATTTAATTGACAAATCTT
66 TAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTT
42946791 AACTT-AAAACCCTAAACCCTAAAC
131 AACTTAAAAACCCTAAACCCTAAAC
*
42946815 CCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCCTCAACTTAAAAACCCTACCC
1 CCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCC
*
42946880 TAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAATTTAATTGACAAACC--
66 TAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTT
*
42946943 --C-TAACAA----AAACCCTAAAC
131 AACTTAAAAACCCTAAACCCTAAAC
*
42946961 CCTTAACTTAAAAACCCTAAGCCCTTAACTTAAATACCCTAAGCCCTTAACTTAAAAACC
1 CCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAA-CCCTTAACTTAAAAACC
42947021 TTAAAACCCT
Statistics
Matches: 486, Mismatches: 23, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
146 52 0.11
147 16 0.03
149 1 0.00
150 4 0.01
152 26 0.05
153 120 0.25
154 112 0.23
155 155 0.32
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (155 bp):
CCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTACCC
TAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAACCTT
AACTTAAAAACCCTAAACCCTAAAC
Found at i:42946912 original size:7 final size:7
Alignment explanation
Indices: 42946892--42946931 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
42946882 ATTTATTAAA
42946892 AATTTAT
1 AATTTAT
42946899 AAATTTAT
1 -AATTTAT
42946907 AATTTAT
1 AATTTAT
42946914 AA-TTA-
1 AATTTAT
42946919 AATTTAT
1 AATTTAT
42946926 AATTTA
1 AATTTA
42946932 ATTGACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.07
6 6 0.20
7 15 0.50
8 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTAT
Found at i:42946923 original size:307 final size:305
Alignment explanation
Indices: 42946350--42947020 Score: 1093
Period size: 307 Copynumber: 2.2 Consensus size: 305
42946340 TTTAATTGAC
* * *
42946350 AAACCTTAACTTAAAAACCGTAAACCGTTAACTTAGAAACCCTAACCCTTAACTTAAAAACCCTA
1 AAACCTTAACTT-AAAACCCTAAGCC-TTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTA
*
42946415 ACCTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTTATAATTTAATTGACAAAT
64 ACCTAATTTATTAAAAATTTATAAATTTATAAATTAGAATTAAATTTATAATTTAATTGACAAAT
* *
42946480 CTTAACTTAAAAACCTTAAACCCTAAACCTTTAACTTAAAAACCATAAGCCCTTAACTTAAAAAC
129 CTTAACTTAAAAACCCTAAACCCTAAACCCTTAACTTAAAAACCATAAGCCCTTAACTTAAAAAC
*
42946545 CCTAACCCTTAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAATTTATAAATTATAAT
194 CCTAACCCTCAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAATTTATAAATTATAAT
* *
42946610 TAAATTTATAATTTAATTGACAAACCTTAACTTAAAAATCCTAAACCCT
259 TAAATTTATAATTTAATTGACAAACCCTAAC--AAAAACCCTAAACCCT
**
42946659 AAACCTTTAACTTAAAACCCTAAGCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTGC
1 AAACC-TTAACTTAAAACCCTAAGCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAA
*
42946724 CCTAATTTATTAAAAATTTATAAATTTATAATTTAGAATTAAATTTATAATTTAATTGACAAATC
65 CCTAATTTATTAAAAATTTATAAATTTATAAATTAGAATTAAATTTATAATTTAATTGACAAATC
*
42946789 TTAACTT-AAAACCCTAAACCCTAAACCCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACC
130 TTAACTTAAAAACCCTAAACCCTAAACCCTTAACTTAAAAACCATAAGCCCTTAACTTAAAAACC
*
42946853 CTAACCCTCAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAATTTATAATTTATAATT
195 CTAACCCTCAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAATTTATAAATTATAATT
42946918 AAATTTATAATTTAATTGACAAACCCTAACAAAAACCCTAAACCCT
260 AAATTTATAATTTAATTGACAAACCCTAACAAAAACCCTAAACCCT
* *
42946964 TAA-CTT-A---AAAACCCTAAGCCCTTAACTTAAATACCCTAAGCCCTTAACTTAAAAACC
1 AAACCTTAACTTAAAACCCTAAG-CCTTAACTTAAAAACCCTAA-CCCTTAACTTAAAAACC
42947021 TTAAAACCCT
Statistics
Matches: 343, Mismatches: 16, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
299 11 0.03
300 19 0.06
301 17 0.05
302 1 0.00
303 2 0.01
304 1 0.00
305 17 0.05
307 146 0.43
308 106 0.31
309 16 0.05
310 7 0.02
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (305 bp):
AAACCTTAACTTAAAACCCTAAGCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAAC
CTAATTTATTAAAAATTTATAAATTTATAAATTAGAATTAAATTTATAATTTAATTGACAAATCT
TAACTTAAAAACCCTAAACCCTAAACCCTTAACTTAAAAACCATAAGCCCTTAACTTAAAAACCC
TAACCCTCAACTTAAAAACCCTACCCTAATTTATTAAAAATTTATAAATTTATAAATTATAATTA
AATTTATAATTTAATTGACAAACCCTAACAAAAACCCTAAACCCT
Found at i:42946976 original size:22 final size:22
Alignment explanation
Indices: 42946948--42947038 Score: 121
Period size: 22 Copynumber: 4.1 Consensus size: 22
42946938 AAACCCTAAC
42946948 AAAAACCCTAAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
*
42946970 AAAAACCCTAAGCCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
* *
42946992 AAATACCCTAAGCCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
*
42947014 AAAAACCTTAAAACCC-TAACATT
1 AAAAACCCT-AAACCCTTAAC-TT
42947037 AA
1 AA
42947039 CAAAAACCCT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
22 53 0.85
23 9 0.15
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAAACCCTAAACCCTTAACTT
Found at i:42947080 original size:146 final size:145
Alignment explanation
Indices: 42946652--42947061 Score: 396
Period size: 154 Copynumber: 2.8 Consensus size: 145
42946642 TAAAAATCCT
* *
42946652 AAACCCTAAACCTTTAACTT-AAAACCCTAAG-CCTTAACTTAAAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCCTCAACTTAA
* * ** ** * * * * *
42946715 AAACCCTGCCCTAATTTATTAAAAATTTATAAATTTATAATTTAGAATTAAATTTATAATTTAAT
66 AAACCCTACCCTAAATTAACAAAAATCCATAAATCTATAACTTATAACTAAA-TTATAATATAAT
* *
42946780 TGACAAATCTTAACTTAAAA
130 TGACAAACCCTAAC----AA
42946800 CCCTAAACCCTAAACCCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCCTCAAC
1 ----AAACCCTAAACCCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCCTCAAC
* ** ** * * * *
42946865 TTAAAAACCCTACCCTAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAATT
62 TTAAAAACCCTACCCTAAATTAACAAAAATCCATAAATCTATAACTTATAACTAAA-TTATAATA
42946930 TAATTGACAAACCCTAACAA
126 TAATTGACAAACCCTAACAA
* *
42946950 AAACCCTAAACCCTTAACTTAAAAACCCTAAGCCCTTAACTTAAATACCCTAAGCCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAA-CCCTCAACTTA
* * *
42947015 AAAACCTTAAAACCCTAACATTAACAAAAA-CCCTAACTCTA-AACTTA
65 AAAACCCT---ACCCTAA-ATTAACAAAAATCCATAAATCTATAACTTA
42947062 ACCCTAATAT
Statistics
Matches: 233, Mismatches: 18, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
146 52 0.22
147 17 0.07
149 5 0.02
150 15 0.06
151 8 0.03
152 19 0.08
153 11 0.05
154 106 0.45
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (145 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCCTCAACTTAA
AAACCCTACCCTAAATTAACAAAAATCCATAAATCTATAACTTATAACTAAATTATAATATAATT
GACAAACCCTAACAA
Found at i:42947114 original size:16 final size:16
Alignment explanation
Indices: 42947093--42947155 Score: 74
Period size: 16 Copynumber: 3.8 Consensus size: 16
42947083 AAAAATTTAC
42947093 TAACAATTAATACAAT
1 TAACAATTAATACAAT
*
42947109 TAACAATTAATA-ATTTTAC
1 TAACAATTAATACA----AT
42947128 TAACAATTAATACAAT
1 TAACAATTAATACAAT
42947144 TAACAATTAATA
1 TAACAATTAATA
42947156 ATTTTACTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 1 0.03
16 25 0.62
19 13 0.32
20 1 0.03
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (16 bp):
TAACAATTAATACAAT
Found at i:42947131 original size:19 final size:19
Alignment explanation
Indices: 42947109--42947174 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
42947099 TTAATACAAT
42947109 TAACAATTAATAATTTTAC
1 TAACAATTAATAATTTTAC
*
42947128 TAACAATTAATACA----AT
1 TAACAATTAATA-ATTTTAC
42947144 TAACAATTAATAATTTTAC
1 TAACAATTAATAATTTTAC
42947163 TAACAATTAATA
1 TAACAATTAATA
42947175 CTATAAAAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 1 0.03
16 13 0.32
19 25 0.62
20 1 0.03
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (19 bp):
TAACAATTAATAATTTTAC
Found at i:42947132 original size:35 final size:35
Alignment explanation
Indices: 42947088--42947175 Score: 176
Period size: 35 Copynumber: 2.5 Consensus size: 35
42947078 ATTTAAAAAA
42947088 TTTACTAACAATTAATACAATTAACAATTAATAAT
1 TTTACTAACAATTAATACAATTAACAATTAATAAT
42947123 TTTACTAACAATTAATACAATTAACAATTAATAAT
1 TTTACTAACAATTAATACAATTAACAATTAATAAT
42947158 TTTACTAACAATTAATAC
1 TTTACTAACAATTAATAC
42947176 TATAAAAGCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (35 bp):
TTTACTAACAATTAATACAATTAACAATTAATAAT
Found at i:42948449 original size:3 final size:3
Alignment explanation
Indices: 42948443--42948492 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
42948433 TTACTACTAC
42948443 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
42948489 TAT T
1 TAT T
42948493 CATTTATATC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:42948605 original size:26 final size:26
Alignment explanation
Indices: 42948576--42948625 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
42948566 ATTTACTTTA
*
42948576 TAATTTATATATACATATACACATTT
1 TAATTTATATACACATATACACATTT
* *
42948602 TAATTTATGTACATATATACACAT
1 TAATTTATATACACATATACACAT
42948626 ATTTTCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (26 bp):
TAATTTATATACACATATACACATTT
Found at i:42948750 original size:20 final size:23
Alignment explanation
Indices: 42948704--42948752 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
42948694 TTTTCTTATG
*
42948704 TATATATTTTATATTTCATATAA
1 TATATATTTTATATTTCATACAA
42948727 -ATAT-TTTTATA-TTC-TACAA
1 TATATATTTTATATTTCATACAA
42948746 TATATAT
1 TATATAT
42948753 ATACATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 4 0.17
20 7 0.30
21 8 0.35
22 4 0.17
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (23 bp):
TATATATTTTATATTTCATACAA
Found at i:42953226 original size:61 final size:61
Alignment explanation
Indices: 42953131--42953254 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 61
42953121 CCCAAACATG
*
42953131 CTACTGTAGCAAAAGTGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATC
*
42953192 CTACTGTAGCAAAAGCGCGTCCACGTGGGTGCGATTTCAGAAATTCTTCTGATAAAGCATC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATC
42953253 CT
1 CT
42953255 GCTTTGATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (61 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATC
Found at i:42953645 original size:30 final size:30
Alignment explanation
Indices: 42953610--42953728 Score: 184
Period size: 30 Copynumber: 4.0 Consensus size: 30
42953600 TTAAACTTTT
*
42953610 CTCAACTAGCCACTCCTTTTCCACCACCAA
1 CTCAACTAGCCACACCTTTTCCACCACCAA
42953640 CTCAACTAGCCACACCTTTTCCACCACCAA
1 CTCAACTAGCCACACCTTTTCCACCACCAA
* * *
42953670 CTCCACTAGCCACTCTTTTTCCACCACCAA
1 CTCAACTAGCCACACCTTTTCCACCACCAA
* *
42953700 CTCCACTAGCCACACCTTCTCCACCACCA
1 CTCAACTAGCCACACCTTTTCCACCACCA
42953729 CTTGTACCTA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.22
Consensus pattern (30 bp):
CTCAACTAGCCACACCTTTTCCACCACCAA
Found at i:42953679 original size:60 final size:60
Alignment explanation
Indices: 42953614--42953728 Score: 203
Period size: 60 Copynumber: 1.9 Consensus size: 60
42953604 ACTTTTCTCA
*
42953614 ACTAGCCACTCCTTTTCCACCACCAACTCAACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCAACTAGCCACACCTTCTCCACCACCAACTCC
* *
42953674 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCAACTCAACTAGCCACACCTTCTCCACCACCA
42953729 CTTGTACCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.22
Consensus pattern (60 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCAACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:42954269 original size:23 final size:23
Alignment explanation
Indices: 42954242--42954367 Score: 66
Period size: 23 Copynumber: 5.5 Consensus size: 23
42954232 CCTTTTTTGT
42954242 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATATTA
* *
42954265 TATTA-TATATATTCTT-TTAATA
1 TATTATTATAT-TTCTTAATATTA
* *
42954287 TATTAGGTATATTT-TAAAT-TCTA
1 TATTA-TTATATTTCTTAATAT-TA
* * * *
42954310 TATTACGTATATATATT-ATACTA
1 TATTA-TTATATTTCTTAATATTA
* *
42954333 TTTTATGTATATATCTTTAATATTA
1 TATTAT-TATATTTC-TTAATATTA
42954358 TATT-TTATAT
1 TATTATTATAT
42954368 ATATATATAT
Statistics
Matches: 79, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
22 15 0.19
23 47 0.59
24 9 0.11
25 8 0.10
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATTATATTTCTTAATATTA
Found at i:42954351 original size:14 final size:13
Alignment explanation
Indices: 42954321--42954373 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
42954311 ATTACGTATA
42954321 TATATTATACTATTT
1 TATA-TATA-TATTT
*
42954336 TATGTATATATCTT
1 TATATATATAT-TT
42954350 TA-ATATTATATTT
1 TATATA-TATATTT
42954363 TATATATATAT
1 TATATATATAT
42954374 ATATATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 14 0.42
14 16 0.48
15 3 0.09
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (13 bp):
TATATATATATTT
Found at i:42954424 original size:22 final size:24
Alignment explanation
Indices: 42954396--42954454 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
42954386 ACATGTTATC
42954396 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
42954418 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
42954443 TTATGTACATAT
1 TTATGTATATAT
42954455 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:42954444 original size:25 final size:25
Alignment explanation
Indices: 42954412--42954460 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
42954402 ATATATCTTA
**
42954412 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
42954437 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
42954461 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:42954465 original size:20 final size:20
Alignment explanation
Indices: 42954440--42954495 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
42954430 TTTTAACACT
42954440 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* * *
42954460 ATATTAT-CACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
42954479 TTATATATGTACATATT
1 ATAT-TATGTACATATT
42954496 GATGTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:42954634 original size:16 final size:15
Alignment explanation
Indices: 42954610--42954657 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
42954600 TAATTATTAT
*
42954610 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
42954626 TATTTTAATATTTTA
1 TATTTTAATATTTTA
42954641 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
42954657 T
1 T
42954658 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:42954645 original size:7 final size:8
Alignment explanation
Indices: 42954610--42954661 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
42954600 TAATTATTAT
*
42954610 TATTCTAA
1 TATTTTAA
*
42954618 TATTTTGA
1 TATTTTAA
42954626 TATTTTAA
1 TATTTTAA
42954634 TATTTT-A
1 TATTTTAA
42954641 TATTTTATA
1 TATTTTA-A
*
42954650 TATTTTAT
1 TATTTTAA
42954658 TATT
1 TATT
42954662 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:42958923 original size:31 final size:31
Alignment explanation
Indices: 42958885--42958947 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
42958875 AGTACCAGGG
42958885 ATAGTTTGATCACTTTACTCCGCGAATACAA
1 ATAGTTTGATCACTTTACTCCGCGAATACAA
42958916 ATAGTTTGATCACTTTACTCCGCGAATACAA
1 ATAGTTTGATCACTTTACTCCGCGAATACAA
42958947 A
1 A
42958948 GATGTTTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (31 bp):
ATAGTTTGATCACTTTACTCCGCGAATACAA
Found at i:42962127 original size:46 final size:45
Alignment explanation
Indices: 42962061--42962150 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 45
42962051 TACCAAGATG
* *
42962061 GATGGGAATGAGTTGTCGAATCCAGTGAACTCAGATGCTGTGAANA
1 GATGGCAAGGAGTTGTCGAATCCAGTGAACTCAGATGCTGTGAA-A
*
42962107 GATGGCAAGGAGTTGTCGAATCCAGTGAACTCAGATGTTGTGAA
1 GATGGCAAGGAGTTGTCGAATCCAGTGAACTCAGATGCTGTGAA
42962151 GAAATATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.24
Consensus pattern (45 bp):
GATGGCAAGGAGTTGTCGAATCCAGTGAACTCAGATGCTGTGAAA
Found at i:42963186 original size:35 final size:35
Alignment explanation
Indices: 42963147--42963217 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
42963137 GCAAGAGGTG
*
42963147 AGTTGAGCCTTGGCTCACACACTGAGGTATTTTCA
1 AGTTGAGCCTCGGCTCACACACTGAGGTATTTTCA
** *
42963182 AGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCA
1 AGTTGAGCCTCGGCTCACACACTGAGGTATTTTCA
42963217 A
1 A
42963218 TTTCTGTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (35 bp):
AGTTGAGCCTCGGCTCACACACTGAGGTATTTTCA
Found at i:42963232 original size:14 final size:14
Alignment explanation
Indices: 42963213--42963245 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
42963203 CTGAGGTCTT
42963213 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
*
42963227 TTCAATTTCTGTTT
1 TTCAATTTCTGTTC
42963241 TTCAA
1 TTCAA
42963246 AAAAATCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.58
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:42963348 original size:73 final size:75
Alignment explanation
Indices: 42963227--42963389 Score: 231
Period size: 75 Copynumber: 2.2 Consensus size: 75
42963217 ATTTCTGTTC
* *
42963227 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG-GACAC
1 TTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCCACAC
42963291 GCTGAGGTAAT
65 GCTGAGGTAAT
* * *
42963302 TTCAATTTCTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGC-CACAC
**
42963366 GCTGAGGTCTT
65 GCTGAGGTAAT
42963377 TTCAATTTCTGTT
1 TTCAATTTCTGTT
42963390 CTTCAATTTC
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
73 38 0.48
75 41 0.52
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (75 bp):
TTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCCACACG
CTGAGGTAAT
Found at i:42963396 original size:14 final size:14
Alignment explanation
Indices: 42963377--42963409 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
42963367 CTGAGGTCTT
42963377 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
*
42963391 TTCAATTTCTGTTT
1 TTCAATTTCTGTTC
42963405 TTCAA
1 TTCAA
42963410 AAAAATCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.58
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:42963453 original size:164 final size:164
Alignment explanation
Indices: 42963182--42963734 Score: 1063
Period size: 164 Copynumber: 3.4 Consensus size: 164
42963172 GGTATTTTCA
42963182 AGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTTTTCAAA
1 AGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTTTTCAAA
42963247 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
66 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
42963312 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTG
131 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTG
42963346 AGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTTTTCAAA
1 AGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTTTTCAAA
42963411 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
66 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
42963476 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTG
131 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTG
42963510 AGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTTTTCAAA
1 AGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTTTTCAAA
42963575 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
66 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
42963640 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTG
131 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTG
* * *
42963674 AGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTACTT-TTCAATTTCTGTTTTT
1 AGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCT-GTTCTTCAATTTCTGTTTTT
42963735 TCAATTTATA
Statistics
Matches: 385, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
164 383 0.99
165 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (164 bp):
AGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTTTTCAAA
AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
GTTTGTCAAAAATTAACTCATATTGCGAGAGGTG
Found at i:42963469 original size:89 final size:88
Alignment explanation
Indices: 42963302--42963478 Score: 257
Period size: 89 Copynumber: 2.0 Consensus size: 88
42963292 CTGAGGTAAT
* * *
42963302 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGC-CACACG
**
42963367 CTGAGGTCTTTTCAATTTCTGTTC
65 CTGAGGTAATTTCAATTTCTGTTC
* *
42963391 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG-GACAC
1 TTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCCACAC
42963455 GCTGAGGTAATTTCAATTTCTGTT
64 GCTGAGGTAATTTCAATTTCTGTT
42963479 TGTCAAAAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 41 0.52
91 38 0.48
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (88 bp):
TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCCACACGC
TGAGGTAATTTCAATTTCTGTTC
Found at i:42963512 original size:73 final size:75
Alignment explanation
Indices: 42963391--42963553 Score: 231
Period size: 75 Copynumber: 2.2 Consensus size: 75
42963381 ATTTCTGTTC
* *
42963391 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG-GACAC
1 TTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCCACAC
42963455 GCTGAGGTAAT
65 GCTGAGGTAAT
* * *
42963466 TTCAATTTCTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGC-CACAC
**
42963530 GCTGAGGTCTT
65 GCTGAGGTAAT
42963541 TTCAATTTCTGTT
1 TTCAATTTCTGTT
42963554 CTTCAATTTC
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
73 38 0.48
75 41 0.52
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (75 bp):
TTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCCACACG
CTGAGGTAAT
Found at i:42963560 original size:14 final size:14
Alignment explanation
Indices: 42963541--42963573 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
42963531 CTGAGGTCTT
42963541 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
*
42963555 TTCAATTTCTGTTT
1 TTCAATTTCTGTTC
42963569 TTCAA
1 TTCAA
42963574 AAAAATCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.58
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:42963633 original size:89 final size:88
Alignment explanation
Indices: 42963466--42963642 Score: 257
Period size: 89 Copynumber: 2.0 Consensus size: 88
42963456 CTGAGGTAAT
* * *
42963466 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGC-CACACG
**
42963531 CTGAGGTCTTTTCAATTTCTGTTC
65 CTGAGGTAATTTCAATTTCTGTTC
* *
42963555 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG-GACAC
1 TTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCCACAC
42963619 GCTGAGGTAATTTCAATTTCTGTT
64 GCTGAGGTAATTTCAATTTCTGTT
42963643 TGTCAAAAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 41 0.52
91 38 0.48
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (88 bp):
TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCCACACGC
TGAGGTAATTTCAATTTCTGTTC
Found at i:42963714 original size:75 final size:74
Alignment explanation
Indices: 42963555--42963701 Score: 206
Period size: 73 Copynumber: 2.0 Consensus size: 74
42963545 ATTTCTGTTC
* *
42963555 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACG
1 TTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACG
42963620 CTGAGGTAAT
65 CTGAGGTAAT
* * * *
42963630 TTCAATTTCTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACAT
1 TTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG--CACAC
42963694 GCTGAGGT
64 GCTGAGGT
42963702 CTTTTTAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
73 37 0.58
75 27 0.42
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (74 bp):
TTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGC
TGAGGTAAT
Found at i:42969114 original size:44 final size:44
Alignment explanation
Indices: 42969061--42969148 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
42969051 TCTAAAGAGA
42969061 ATTTTCTAAAGTATATATATGAAAATCGAATCTAAGAAGAGCGG
1 ATTTTCTAAAGTATATATATGAAAATCGAATCTAAGAAGAGCGG
42969105 ATTTTCTAAAGTATATATATGAAAATCGAATCTAAGAAGAGCGG
1 ATTTTCTAAAGTATATATATGAAAATCGAATCTAAGAAGAGCGG
42969149 TGTTATAGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (44 bp):
ATTTTCTAAAGTATATATATGAAAATCGAATCTAAGAAGAGCGG
Found at i:42975064 original size:19 final size:18
Alignment explanation
Indices: 42975036--42975083 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
42975026 AAAGAAGCAG
* *
42975036 AAGAAGGAAAGGAGAAATA
1 AAGAAAGAAAGG-GAAAAA
42975055 AAGAAAGAAAGGGAAAAA
1 AAGAAAGAAAGGGAAAAA
42975073 AATGAAA-AAAG
1 AA-GAAAGAAAG
42975084 AGTGAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (18 bp):
AAGAAAGAAAGGGAAAAA
Found at i:42984609 original size:40 final size:40
Alignment explanation
Indices: 42984554--42984832 Score: 522
Period size: 40 Copynumber: 7.0 Consensus size: 40
42984544 AGTTACTGAG
42984554 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
1 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
42984594 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
1 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
42984634 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
1 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
42984674 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
1 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
42984714 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
1 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
* *
42984754 TCAGACTATACGTCTAGCAGGCTTAATGCTGATGAAATAT
1 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
* *
42984794 TCAGATTATACATCTAGCAGGCTTAATGCCGGTGAAATA
1 TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATA
42984833 ATACATCTAG
Statistics
Matches: 233, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 233 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (40 bp):
TCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATAT
Found at i:42984842 original size:32 final size:32
Alignment explanation
Indices: 42984801--42984861 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
42984791 TATTCAGATT
42984801 ATACATCTAGCAGGCTTAATGCCGGTGAAATA
1 ATACATCTAGCAGGCTTAATGCCGGTGAAATA
42984833 ATACATCTAGCAGGCTTAATGCCGGTGAA
1 ATACATCTAGCAGGCTTAATGCCGGTGAA
42984862 CGGAATCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (32 bp):
ATACATCTAGCAGGCTTAATGCCGGTGAAATA
Found at i:42995602 original size:41 final size:41
Alignment explanation
Indices: 42995458--42995617 Score: 119
Period size: 41 Copynumber: 3.9 Consensus size: 41
42995448 TCAATATTAG
* * *
42995458 CGCCGCTAATGCTGAGACCTTTAACGGCGTTTTTGAGTATA
1 CGCCGCTAATGCTGGGACTTTTAGCGGCGTTTTTGAGTATA
* * * *
42995499 CGCCACTAATGGTAGGG-TTTTTTGCGGCGTTTTT-A-TAATA
1 CGCCGCTAATGCT-GGGACTTTTAGCGGCGTTTTTGAGT-ATA
* * * ** *
42995539 GAGCCGCAAATTCTATGACTTTTACCGGCGTTTTTGAGTATA
1 -CGCCGCTAATGCTGGGACTTTTAGCGGCGTTTTTGAGTATA
* * * *
42995581 CGCCGCTAATGGTGGGTCTTTTAGTGGCGTTTGTGAG
1 CGCCGCTAATGCTGGGACTTTTAGCGGCGTTTTTGAG
42995618 AAACCGCCAG
Statistics
Matches: 86, Mismatches: 27, Indels: 12
0.69 0.22 0.10
Matches are distributed among these distances:
39 1 0.01
40 5 0.06
41 73 0.85
42 6 0.07
43 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (41 bp):
CGCCGCTAATGCTGGGACTTTTAGCGGCGTTTTTGAGTATA
Found at i:42995881 original size:41 final size:41
Alignment explanation
Indices: 42995829--42996007 Score: 104
Period size: 41 Copynumber: 4.3 Consensus size: 41
42995819 TTTGGTCAAT
*
42995829 CGCCACTAATGTTAAGGTATTTAGCGGCGTTTCTATCCTAA
1 CGCCGCTAATGTTAAGGTATTTAGCGGCGTTTCTATCCTAA
* * * *
42995870 CGCCGCTAATGTT--GTGAATTTTA-CTGGCGTTTTTAT-GTATG
1 CGCCGCTAATGTTAAG-GTA-TTTAGC-GGCGTTTCTATCCTA-A
* ** * **
42995911 CGCCGCTATTGGTTGGGGGTGA--TAGTGGCGTGTT-T-TGGTCAA
1 CGCCGCTAAT-GTT-AAGGT-ATTTAGCGGCGT-TTCTATCCT-AA
*
42995953 TCGCCACTAATGTTAAGGTATTTAGCGGCGTTTCTATCCTAA
1 -CGCCGCTAATGTTAAGGTATTTAGCGGCGTTTCTATCCTAA
42995995 CGCCGCTAATGTT
1 CGCCGCTAATGTT
42996008 GTGAATTTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 36
0.66 0.11 0.23
Matches are distributed among these distances:
39 1 0.01
40 6 0.06
41 53 0.51
42 27 0.26
43 13 0.13
44 1 0.01
45 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (41 bp):
CGCCGCTAATGTTAAGGTATTTAGCGGCGTTTCTATCCTAA
Found at i:42996040 original size:41 final size:41
Alignment explanation
Indices: 42995870--42996043 Score: 117
Period size: 41 Copynumber: 4.2 Consensus size: 41
42995860 TCTATCCTAA
42995870 CGCCGCTAATGTTGTGAATTTTACTGGCGTTTTTATGTATG
1 CGCCGCTAATGTTGTGAATTTTACTGGCGTTTTTATGTATG
* * ** ** * *
42995911 CGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTT-GGTCAAT-
1 CGCCGCTAAT-GTTGTGAATTTTACTGGCGT-TTTTATGT--ATG
* * * * *
42995954 CGCCACTAATGTTAAG-GTA-TTTAGC-GGCGTTTCTATCCTA-A
1 CGCCGCTAATGTT--GTGAATTTTA-CTGGCGTTTTTAT-GTATG
42995995 CGCCGCTAATGTTGTGAATTTTACTGGCGTTTTTATGTATG
1 CGCCGCTAATGTTGTGAATTTTACTGGCGTTTTTATGTATG
42996036 CGCCGCTA
1 CGCCGCTA
42996044 TTGGTTGGGG
Statistics
Matches: 96, Mismatches: 23, Indels: 28
0.65 0.16 0.19
Matches are distributed among these distances:
39 1 0.01
40 5 0.05
41 47 0.49
42 26 0.27
43 14 0.15
44 3 0.03
ACGTcount: A:0.17, C:0.18, G:0.27, T:0.38
Consensus pattern (41 bp):
CGCCGCTAATGTTGTGAATTTTACTGGCGTTTTTATGTATG
Found at i:42996151 original size:125 final size:125
Alignment explanation
Indices: 42995771--42996110 Score: 637
Period size: 125 Copynumber: 2.7 Consensus size: 125
42995761 GGTATTAGCA
* * *
42995771 GCGTTTTTCTCGTA-GCGCCGCTATCGGTTGGGGGTGATAGTGGCGTTTTTTGGTCAATCGCCAC
1 GCGTTTTTAT-GTATGCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCAC
42995835 TAATGTTAAGGTATTTAGCGGCGTTTCTATCCTAACGCCGCTAATGTTGTGAATTTTACTG
65 TAATGTTAAGGTATTTAGCGGCGTTTCTATCCTAACGCCGCTAATGTTGTGAATTTTACTG
42995896 GCGTTTTTATGTATGCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACT
1 GCGTTTTTATGTATGCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACT
42995961 AATGTTAAGGTATTTAGCGGCGTTTCTATCCTAACGCCGCTAATGTTGTGAATTTTACTG
66 AATGTTAAGGTATTTAGCGGCGTTTCTATCCTAACGCCGCTAATGTTGTGAATTTTACTG
42996021 GCGTTTTTATGTATGCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACT
1 GCGTTTTTATGTATGCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACT
42996086 AATGTTAAGGTATTTAGCGGCGTTT
66 AATGTTAAGGTATTTAGCGGCGTTT
42996111 GGTTTTAAAG
Statistics
Matches: 211, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
124 3 0.01
125 208 0.99
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.37
Consensus pattern (125 bp):
GCGTTTTTATGTATGCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACT
AATGTTAAGGTATTTAGCGGCGTTTCTATCCTAACGCCGCTAATGTTGTGAATTTTACTG
Found at i:42996206 original size:41 final size:41
Alignment explanation
Indices: 42996096--42996212 Score: 107
Period size: 41 Copynumber: 2.9 Consensus size: 41
42996086 AATGTTAAGG
* * **
42996096 TATTTAGCGGCGTTTGGTTTTA-AAGCGCCGCTAAGGTTGGGT
1 TATTTAGCGGCGTTT-GTTTGATAAGCGCCG-GAAAATTGGGT
* * *
42996138 T-TTTTGCGGCGTTT-ATTGGTAAGCGCCGGAAAATT-GGT
1 TATTTAGCGGCGTTTGTTTGATAAGCGCCGGAAAATTGGGT
42996176 CTATTTAGCGGCGTTTGTTTGATAAGCGCCGGTAAAA
1 -TATTTAGCGGCGTTTGTTTGATAAGCGCCGG-AAAA
42996213 AGCATTTTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
38 3 0.05
39 7 0.12
40 20 0.33
41 25 0.42
42 5 0.08
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.35
Consensus pattern (41 bp):
TATTTAGCGGCGTTTGTTTGATAAGCGCCGGAAAATTGGGT
Found at i:42998951 original size:30 final size:30
Alignment explanation
Indices: 42998916--42999099 Score: 323
Period size: 30 Copynumber: 6.1 Consensus size: 30
42998906 TCCATATTTA
* * *
42998916 TGGAAAATCAAAGATATGTGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
42998946 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
42998976 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
42999006 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
42999036 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
42999066 TGGAAAGTCAAAGATATGGGTATCTAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
42999097 TGG
1 TGG
42999100 TATAATAAAA
Statistics
Matches: 149, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
30 141 0.95
31 8 0.05
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:43003697 original size:45 final size:44
Alignment explanation
Indices: 43003646--43003765 Score: 152
Period size: 44 Copynumber: 2.7 Consensus size: 44
43003636 GGTGGAGATT
* * *
43003646 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-CCACCAATATAG
* *
43003691 GAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCCCACCAATATAG
* * *
43003734 GAAAATAGGATCTGCTATCTTCGATCTACTTC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC
43003766 TTGCCCCGGG
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
43 22 0.34
44 28 0.43
45 15 0.23
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCCCACCAATATAG
Found at i:43003937 original size:134 final size:134
Alignment explanation
Indices: 43003773--43004289 Score: 822
Period size: 134 Copynumber: 3.8 Consensus size: 134
43003763 TTCTTGCCCC
* * *
43003773 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* * *
43003838 GATCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAGA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
43003903 TACA
131 TACA
* *
43003907 GGGAGATAGAGTTATCGGCTTCAATGTACTCC-CATGTAGTCAGGGAAGTAAAATCTGCCATCTT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCAC-TGTAGTCAGGGAGGTAAAATCTGCCATCTT
*
43003971 TGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
65 CGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAA
43004036 ATACA
130 ATACA
* * * *
43004041 GGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTGGTTAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
*
43004106 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
43004171 TACA
131 TACA
*
43004175 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCT
* * *
43004240 TCGATCAGCTTCGCTGCCAAATACAGAAAAGCAAGATCTG-ATATCTTCAA
64 TCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA-ATCTTCAA
43004290 CCAGCTCTGC
Statistics
Matches: 355, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
133 1 0.00
134 287 0.81
135 2 0.01
136 65 0.18
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (134 bp):
GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACA
Found at i:43004378 original size:86 final size:86
Alignment explanation
Indices: 43004237--43004586 Score: 520
Period size: 86 Copynumber: 4.1 Consensus size: 86
43004227 AAATCTGCCA
* * * * * * *
43004237 TCTTCGATCAGCTTCGCTGCCAAATACAGAAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCGTCAACCAGCTCTACTA
43004302 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* * *
43004324 TCTTCGATCTGCTTTGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCGTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCGTCAACCAGCTCTACTAC
*
43004389 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
*
43004410 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCGTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCGTCAACCAGCTCTACTAC
*
43004475 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
43004496 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCGTCAACCAGCTCTACTAC
* * *
43004561 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
43004582 TCTTC
1 TCTTC
43004587 AATTTTTACT
Statistics
Matches: 242, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
86 224 0.93
87 18 0.07
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCGTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:43004446 original size:42 final size:42
Alignment explanation
Indices: 43004399--43004532 Score: 98
Period size: 42 Copynumber: 3.1 Consensus size: 42
43004389 AAACGAGAGT
43004399 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
1 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
* * ** * * * *
43004441 GGCAAGATCTG-CTATCG-TCAAC--CAGCTCT-ACTACAAACGAGAGT
1 GGCAAGGTTTGTCT-TCGATCTGCTTC-GCTGTCAATGC--A-G-GA-A
43004485 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
1 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
43004527 GGCAAG
1 GGCAAG
43004533 ATCTGATAAC
Statistics
Matches: 64, Mismatches: 16, Indels: 24
0.62 0.15 0.23
Matches are distributed among these distances:
39 4 0.06
40 4 0.06
41 6 0.09
42 19 0.30
43 4 0.06
44 13 0.20
45 6 0.09
46 4 0.06
47 4 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (42 bp):
GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
Found at i:43005214 original size:108 final size:108
Alignment explanation
Indices: 43005014--43005220 Score: 290
Period size: 108 Copynumber: 1.9 Consensus size: 108
43005004 AAATGCTTGA
* *
43005014 AAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAA
1 AAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAATCAA
*
43005079 TCAAGATAGCAAATTTTGCTGAGATACAAGATGAATAAGATGG
66 TCAAGATAGCAAATTTTGCTGAGATACAAAATGAATAAGATGG
* * * * ** * *
43005122 AAAATATTATCACAATGGATAAGATGAAAATTTGTTGAGAGCAAAACTCTAAATGAACACATTAA
1 AAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAATCAA
*
43005187 TCAGGATAGCAAATTTTGCT-AGAATACAAAATGA
66 TCAAGATAGCAAATTTTGCTGAG-ATACAAAATGA
43005221 GAATAAATTA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 2 0.02
108 84 0.98
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (108 bp):
AAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAACTCTAAACAAACAAATCAA
TCAAGATAGCAAATTTTGCTGAGATACAAAATGAATAAGATGG
Found at i:43005568 original size:8 final size:7
Alignment explanation
Indices: 43005543--43005592 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
43005533 TGGCCTCTCA
43005543 TTTTTC-
1 TTTTTCT
43005549 TTTTTCT
1 TTTTTCT
*
43005556 TTCTTC-
1 TTTTTCT
43005562 -TTTTCT
1 TTTTTCT
43005568 TTTTTCAT
1 TTTTTC-T
*
43005576 TTTTTCA
1 TTTTTCT
43005583 TTTTTCT
1 TTTTTCT
43005590 TTT
1 TTT
43005593 CGTTTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
5 4 0.11
6 6 0.17
7 19 0.53
8 7 0.19
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:43006044 original size:12 final size:12
Alignment explanation
Indices: 43006020--43006087 Score: 68
Period size: 13 Copynumber: 5.7 Consensus size: 12
43006010 GAGGTTTTTC
*
43006020 TTTTATTTGT-T
1 TTTTTTTTGTCT
*
43006031 TTTTTTTCGT-T
1 TTTTTTTTGTCT
**
43006042 TTTTTTTTACCTT
1 TTTTTTTTGTC-T
43006055 TTTTTTTTGTCT
1 TTTTTTTTGTCT
43006067 TTTTTTTTGTCCT
1 TTTTTTTTGT-CT
43006080 TTTTTTTT
1 TTTTTTTT
43006088 TGCCTCCACT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
11 16 0.34
12 11 0.23
13 20 0.43
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (12 bp):
TTTTTTTTGTCT
Found at i:43006045 original size:13 final size:13
Alignment explanation
Indices: 43006029--43006088 Score: 77
Period size: 13 Copynumber: 4.6 Consensus size: 13
43006019 CTTTTATTTG
*
43006029 TTTTTTTTTCGTT
1 TTTTTTTTTCCTT
*
43006042 TTTTTTTTACCTT
1 TTTTTTTTTCCTT
43006055 TTTTTTTTGT-CTT
1 TTTTTTTT-TCCTT
*
43006068 TTTTTTTGTCCTT
1 TTTTTTTTTCCTT
43006081 TTTTTTTT
1 TTTTTTTT
43006089 GCCTCCACTG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
12 1 0.03
13 39 0.98
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTCCTT
Found at i:43006049 original size:26 final size:24
Alignment explanation
Indices: 43006029--43006089 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 24
43006019 CTTTTATTTG
*
43006029 TTTTTTTTTCGTTTTTTTTTTACC
1 TTTTTTTTTTGTTTTTTTTTTACC
*
43006053 TTTTTTTTTTGTCTTTTTTTTTGTCC
1 TTTTTTTTTTGT-TTTTTTTTT-ACC
43006079 TTTTTTTTTTG
1 TTTTTTTTTTG
43006090 CCTCCACTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 11 0.33
25 9 0.27
26 13 0.39
ACGTcount: A:0.02, C:0.10, G:0.07, T:0.82
Consensus pattern (24 bp):
TTTTTTTTTTGTTTTTTTTTTACC
Found at i:43007476 original size:61 final size:62
Alignment explanation
Indices: 43007318--43007499 Score: 303
Period size: 62 Copynumber: 3.0 Consensus size: 62
43007308 CTAAACTCGA
* * *
43007318 CGTACTTTTGGATTTTAGGAAATTTATTGTGTGCAATGAAATGTAATGTTGATGCATGAACG
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
* *
43007380 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
43007442 CGTA-TTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGAATGA
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGA
43007500 GGAGATACGT
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
61 52 0.46
62 61 0.54
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.41
Consensus pattern (62 bp):
CGTACTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:43010247 original size:46 final size:46
Alignment explanation
Indices: 43010197--43010372 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
43010187 TGGTTGAGCA
*
43010197 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
43010243 TCCGAACTCGTTGAGTTGAGTTCGAGATC-GTGAAATGTAACTAG-GCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAATG
*
43010291 T-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
43010336 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43010373 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 63 0.60
47 28 0.27
48 3 0.03
49 4 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43015612 original size:7 final size:7
Alignment explanation
Indices: 43015600--43015639 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
43015590 ATTTGCTTTC
43015600 ATTTTTA
1 ATTTTTA
43015607 ATTTTTA
1 ATTTTTA
43015614 ATTTTTA
1 ATTTTTA
*
43015621 ATTTATA
1 ATTTTTA
*
43015628 AGTATTTA
1 A-TTTTTA
43015636 ATTT
1 ATTT
43015640 GGGTGTTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (7 bp):
ATTTTTA
Found at i:43016226 original size:43 final size:43
Alignment explanation
Indices: 43016069--43016227 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
43016059 ATATGTGTTT
* * * *
43016069 CGTGTAAAACCACGTCTAGGACGTTGGCATCGACATATGATTTA
1 CGTGTAAGACCACGTCTAGGACATTGGCATCGATATTTGA-TTA
* * * * *
43016113 GGTGTAAGACCATGTCT-GGCACATCGACATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTAGG-ACATTGGCATCGATATTTGATTA
* * * *
43016155 TGTGTAAGACC-CTGTCTGGGATAATGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTAGGACATTGGCATCGATATTTGATTA
* *
43016198 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACATTGGCAT
43016228 TGTATGAGCT
Statistics
Matches: 88, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
42 24 0.27
43 40 0.45
44 24 0.27
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACATTGGCATCGATATTTGATTA
Found at i:43026532 original size:31 final size:31
Alignment explanation
Indices: 43026480--43026541 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
43026470 ATTACATTGT
* *
43026480 TGGTTTTAATTACGGCGATTGGATGTGAATA
1 TGGTCTTAATTACGGCCATTGGATGTGAATA
*
43026511 TGGTCTTAATTATGGCCATTGGATGTGAATA
1 TGGTCTTAATTACGGCCATTGGATGTGAATA
43026542 AAATAGAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.39
Consensus pattern (31 bp):
TGGTCTTAATTACGGCCATTGGATGTGAATA
Found at i:43030978 original size:40 final size:40
Alignment explanation
Indices: 43030926--43031197 Score: 418
Period size: 40 Copynumber: 6.8 Consensus size: 40
43030916 ATAACCACAA
* * * *
43030926 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
43030966 GCACGAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
43031006 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
43031046 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
*
43031088 GCACAAATGCCTTCGGGTCTTAGCTCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
43031128 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
43031168 GCACAAATGCGTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
43031198 GTATTCAAAT
Statistics
Matches: 212, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
40 173 0.82
42 39 0.18
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:43031118 original size:122 final size:122
Alignment explanation
Indices: 43030926--43031205 Score: 431
Period size: 122 Copynumber: 2.3 Consensus size: 122
43030916 ATAACCACAA
* * * *
43030926 GCACAATTGCCTTCGGGTCTTAACCCGGGTATA-G-CAACTCGCACGAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
* * *
43030989 CCCGGATAAATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CCCGGATAAATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTC
43031046 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
* * *
43031111 CTCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTT
66 CCCGGATAAATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTC
* *
43031168 GCACAAATGCGTTCGGGTCTTAGCCCGGATGTAT-TCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAA
43031206 ATGCTCATGC
Statistics
Matches: 146, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
120 30 0.21
121 5 0.03
122 111 0.76
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (122 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
CCCGGATAAATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTC
Found at i:43033437 original size:37 final size:37
Alignment explanation
Indices: 43033394--43033467 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
43033384 AAAATTGTTT
43033394 AAAAATATTAAATATCATGTTATATTTGATAAATTAA
1 AAAAATATTAAATATCATGTTATATTTGATAAATTAA
43033431 AAAAATATTAAATATCATGTTATATTTGATAAATTAA
1 AAAAATATTAAATATCATGTTATATTTGATAAATTAA
43033468 CTTGCTGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (37 bp):
AAAAATATTAAATATCATGTTATATTTGATAAATTAA
Found at i:43033859 original size:30 final size:30
Alignment explanation
Indices: 43033824--43033886 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
43033814 ACACTGTTTC
43033824 CATTTACTGAAAGTATGTGATTAGTGAGGA
1 CATTTACTGAAAGTATGTGATTAGTGAGGA
*
43033854 CATTTACTGAAAGTATGTGATTTGTGAGGA
1 CATTTACTGAAAGTATGTGATTAGTGAGGA
43033884 CAT
1 CAT
43033887 GCTCAGAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (30 bp):
CATTTACTGAAAGTATGTGATTAGTGAGGA
Found at i:43036808 original size:28 final size:28
Alignment explanation
Indices: 43036776--43036829 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
43036766 TGAAATCAAC
43036776 CACATGCTTCTTAACATATATTCTAAAT
1 CACATGCTTCTTAACATATATTCTAAAT
43036804 CACATGCTTCTTAACATATATTCTAA
1 CACATGCTTCTTAACATATATTCTAA
43036830 CACCTGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (28 bp):
CACATGCTTCTTAACATATATTCTAAAT
Found at i:43039327 original size:42 final size:43
Alignment explanation
Indices: 43039227--43039365 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 43
43039217 CTGAGATATC
* *
43039227 GTGTAAGACCGTGTCTGGGACATAGGCCTC-GATTGATATTTAT
1 GTGTAAGACCATGTCTGGGACATAGGCATCAGATTGA-ATTTAT
* * *
43039270 GTATAAGACCATGTCTGGGACATCGGCATCATATCTG-ATTT-T
1 GTGTAAGACCATGTCTGGGACATAGGCATCAGAT-TGAATTTAT
* * * *
43039312 GTGTAAGACCCTGTCTGGGACAGAGGCATCAATATTGAA-TTAC
1 GTGTAAGACCATGTCTGGGACATAGGCATC-AGATTGAATTTAT
*
43039355 ATGTAAGACCA
1 GTGTAAGACCA
43039366 CGTCAAAGAC
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
42 31 0.39
43 44 0.56
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATAGGCATCAGATTGAATTTAT
Found at i:43045780 original size:42 final size:43
Alignment explanation
Indices: 43045675--43045812 Score: 122
Period size: 43 Copynumber: 3.2 Consensus size: 43
43045665 TGAGATATCG
* * ** *
43045675 TGTAAGACCATGTCTGGGACACAACCCTC-A-ATTGATATTTACA
1 TGTAAGACCATGTCTCGGACAGAGGCATCGATATTGA-ATTT-CA
* * **
43045718 TATAAGACCATGTCTGGGACATTGGCATCG-TATTTG-ATTTCA
1 TGTAAGACCATGTCTCGGACAGAGGCATCGATA-TTGAATTTCA
* *
43045760 TGTAAGACCCTGTCTCGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTCGGACAGAGGCATCGATATTGAATTTCA
43045803 TGTAAGACCA
1 TGTAAGACCA
43045813 CGTCAGGGAC
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
42 30 0.39
43 43 0.56
44 1 0.01
45 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTCGGACAGAGGCATCGATATTGAATTTCA
Found at i:43046751 original size:6 final size:6
Alignment explanation
Indices: 43046721--43046851 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
43046711 AAGAAACATT
* *
43046721 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
43046768 GTGACAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
43046819 ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
43046852 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
5 5 0.05
6 80 0.83
7 8 0.08
8 3 0.03
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:43046780 original size:31 final size:31
Alignment explanation
Indices: 43046742--43046851 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
43046732 AATCAAAATG
*
43046742 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATTAGGTGAC
43046773 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATTAGGTGAC
* * *
43046804 AGAATTAGAATCAGAATCAGTATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGGTGAC
*
43046835 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
43046852 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:43047110 original size:27 final size:26
Alignment explanation
Indices: 43047069--43047119 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
43047059 CGAGGCTGCC
*
43047069 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
*
43047095 AGATATATGTGGCGAAGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
43047120 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:43047485 original size:27 final size:27
Alignment explanation
Indices: 43047346--43047479 Score: 178
Period size: 27 Copynumber: 5.0 Consensus size: 27
43047336 GGGATAAAAT
* * *
43047346 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
43047373 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
43047400 GGTATTTCTACCTTATAAGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
43047427 GGTGATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
43047454 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
43047480 TAGTAAATCG
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:43047503 original size:27 final size:27
Alignment explanation
Indices: 43047476--43047576 Score: 148
Period size: 27 Copynumber: 3.7 Consensus size: 27
43047466 CTACAGGGGT
43047476 ATTTTAGTAAATCGAGGGTAAAACGGTA
1 ATTTT-GTAAATCGAGGGTAAAACGGTA
* * * *
43047504 AATCTATAAATCGAGGGTAAAACGATA
1 ATTTTGTAAATCGAGGGTAAAACGGTA
43047531 ATTTTGTAAATCGAGGGTAAAACGGTA
1 ATTTTGTAAATCGAGGGTAAAACGGTA
*
43047558 ATTTTGTAAATCAAGGGTA
1 ATTTTGTAAATCGAGGGTA
43047577 CTTTGGTAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
27 61 0.95
28 3 0.05
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
ATTTTGTAAATCGAGGGTAAAACGGTA
Found at i:43047584 original size:27 final size:26
Alignment explanation
Indices: 43047529--43047616 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 26
43047519 GGTAAAACGA
* ***
43047529 TAATTTTGTAAATCGAGGGTAAAACGG
1 TAATTTTGTAAATCAAGGGT-ATTTGG
43047556 TAATTTTGTAAATCAAGGGTACTTTGG
1 TAATTTTGTAAATCAAGGGTA-TTTGG
** * *
43047583 TAATTTTACAAGTCAAGGGTATTTCAG
1 TAATTTTGTAAATCAAGGGTATTT-GG
43047610 TAATTTT
1 TAATTTT
43047617 ATAGGTCGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.08
27 47 0.92
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (26 bp):
TAATTTTGTAAATCAAGGGTATTTGG
Found at i:43047617 original size:27 final size:27
Alignment explanation
Indices: 43047568--43047647 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
43047558 ATTTTGTAAA
*
43047568 TCAAGGGTACTTT-GGTAATTTTACAAG
1 TCAAGGGTA-TTTCAGTAATTTTACAAG
* *
43047595 TCAAGGGTATTTCAGTAATTTTATAGG
1 TCAAGGGTATTTCAGTAATTTTACAAG
* *
43047622 TCGAGGGTATTTCAGTAATTTCACAA
1 TCAAGGGTATTTCAGTAATTTTACAA
43047648 ATCAGAGGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.07
27 42 0.93
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
TCAAGGGTATTTCAGTAATTTTACAAG
Found at i:43047673 original size:26 final size:27
Alignment explanation
Indices: 43047657--43047725 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
43047647 AATCAGAGGT
43047657 TTTTGGTAAATTTACAAACTAGGGGTA
1 TTTTGGTAAATTTACAAACTAGGGGTA
*
43047684 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAAATTTACAAACTAGGGGTA
*
43047711 TTTTGGTAATTTTAC
1 TTTTGGTAAATTTAC
43047726 CCTACAGGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
TTTTGGTAAATTTACAAACTAGGGGTA
Found at i:43047734 original size:27 final size:27
Alignment explanation
Indices: 43047657--43047767 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 27
43047647 AATCAGAGGT
* *
43047657 TTTTGGTAAATTTA-CAAACTAGGGGTA
1 TTTTGGTAATTTTACCATAC-AGGGGTA
*
43047684 TTTTGGTAATTTTA-CAAACTAGGGGTA
1 TTTTGGTAATTTTACCATAC-AGGGGTA
* *
43047711 TTTTGGTAATTTTACCCTACAGGGGCA
1 TTTTGGTAATTTTACCATACAGGGGTA
** * * *
43047738 TTTCAGTAATTCTACCTTACAAGGGTA
1 TTTTGGTAATTTTACCATACAGGGGTA
43047765 TTT
1 TTT
43047768 CAGTAATGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 70 0.96
28 3 0.04
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTACCATACAGGGGTA
Found at i:43047747 original size:54 final size:53
Alignment explanation
Indices: 43047630--43047748 Score: 125
Period size: 54 Copynumber: 2.2 Consensus size: 53
43047620 GGTCGAGGGT
*
43047630 ATTTCAGTAATTTCACAAATCAGAGGTTTTTGGTAAATTTACAAACTAGGGGT
1 ATTTCAGTAATTTCACAAATCAGAGGTTTTTGGTAAATTTACAAACTAGGGGC
** * * * **
43047683 ATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACCCTAC-AGGGGC
1 ATTTCAGTAATTTCACAAATC-AGAGGT-TTTTGGTAAATTTA-CAAACTAGGGGC
43047737 ATTTCAGTAATT
1 ATTTCAGTAATT
43047749 CTACCTTACA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
52 1 0.02
53 21 0.40
54 28 0.53
55 3 0.06
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (53 bp):
ATTTCAGTAATTTCACAAATCAGAGGTTTTTGGTAAATTTACAAACTAGGGGC
Found at i:43047768 original size:27 final size:27
Alignment explanation
Indices: 43047706--43047774 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
43047696 TACAAACTAG
** * *
43047706 GGGTATTTTGGTAATTTTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAA
* *
43047733 GGGCATTTCAGTAATTCTACCTTACAA
1 GGGTATTTCAGTAATTCTACCCTACAA
43047760 GGGTATTTCAGTAAT
1 GGGTATTTCAGTAAT
43047775 GCTAGCCTGC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAA
Found at i:43052349 original size:144 final size:142
Alignment explanation
Indices: 43052075--43052390 Score: 447
Period size: 144 Copynumber: 2.2 Consensus size: 142
43052065 TGAATTGCCA
* * * * *
43052075 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGACCGATGCCTGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCGCACATATCAAGACCGATGCCTGTCCCAGACAT
* *
43052140 GGTCTTACACTAGCTCTCATCTTAATGCTGATGCCATGTCCCAAACATGGCCTTAGACTGACTCT
66 GGTCTTACACTAGATCTCA-CTTAATGCTGATGCCATGTCCCAAACATGGCCTTACACTGACTCT
43052205 CATATCGTGGCCG
130 CATATCGTGGCCG
* *
43052218 ATGCCATGTCCCAGACATGGTCTTACATTGGCGCACATATCAATG-TCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCGCACATATCAA-GACCGATGCC-TGTCCCAGAC
* * * *
43052282 ATGGTCTTACACTAGATCTCA-TTACATTGCTGATGCCATGTTCTAAACATGGTCTTACACTGGC
64 ATGGTCTTACACTAGATCTCACTTA-A-TGCTGATGCCATGTCCCAAACATGGCCTTACACTGAC
43052346 TCTCATATCGTGGCCG
127 TCTCATATCGTGGCCG
*
43052362 ATGCCATGTCCCAGACATGGTTTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
43052391 AACACACATA
Statistics
Matches: 154, Mismatches: 15, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
142 3 0.02
143 45 0.29
144 106 0.69
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (142 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCGCACATATCAAGACCGATGCCTGTCCCAGACAT
GGTCTTACACTAGATCTCACTTAATGCTGATGCCATGTCCCAAACATGGCCTTACACTGACTCTC
ATATCGTGGCCG
Found at i:43052402 original size:48 final size:48
Alignment explanation
Indices: 43052075--43052390 Score: 318
Period size: 48 Copynumber: 6.6 Consensus size: 48
43052065 TGAATTGCCA
* * * * *
43052075 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGA-GACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGCCG
* * * *
43052123 ATGCC-TGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAAT-GCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCATGGCCG
* * * * *
43052170 ATGCCATGTCCCAAACATGGCCTTAGACTGACTCTCATATCGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCG
* * * *
43052218 ATGCCATGTCCCAGACATGGTCTTACATTGGCGCACATATCAAT-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGCCG
* * * *
43052266 ATGCCATGTCCCAGACATGGTCTTACACTAGATCTCAT-TACATTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CATGGCCG
* * * *
43052314 ATGCCATGTTCTAAACATGGTCTTACACTGGCTCTCATATCGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCG
*
43052362 ATGCCATGTCCCAGACATGGTTTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
43052391 AACACACATA
Statistics
Matches: 215, Mismatches: 45, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
47 41 0.19
48 172 0.80
49 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCG
Found at i:43053638 original size:48 final size:48
Alignment explanation
Indices: 43053586--43053904 Score: 243
Period size: 48 Copynumber: 6.6 Consensus size: 48
43053576 TGTCGAGACT
* *
43053586 GATGCCATGTCCCAGACATGGTCTTACATTATCTCTCATCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATCAATGCC
* * * * * *
43053634 GATGCCATGTCCCAGAGATGGTTTTATATTATCTCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATCAATGCC
* * ** * * *
43053682 GATGCCATGTCCTACACATGGTCTTACACTGGCTCCCATATC-GTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATCAAT-GCC
* * * *
43053730 GATGCTATGTCCCAAACATGGTCTTACACTAGT-GCACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTA-TCTCTCATATCAATGCC
* ** * * **
43053778 GATGCCATGTCCCAGATATGGTCTTACACTGGCTCTTAT-TACATTGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATAT-CAATGCC
* * * * *
43053826 GATGTCATGTTCCAAACATGGTCTTACACTAGT-TCTCATGTC-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTA-TCTCTCATATCAAT-GCC
** * *
43053874 GATGCCATGTCTTAGACATAGTCTGACACTA
1 GATGCCATGTCCCAGACATGGTCTTACACTA
43053905 GCACATATAT
Statistics
Matches: 209, Mismatches: 54, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
47 3 0.01
48 204 0.98
49 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATCAATGCC
Found at i:43053903 original size:96 final size:96
Alignment explanation
Indices: 43053674--43053903 Score: 268
Period size: 96 Copynumber: 2.4 Consensus size: 96
43053664 ATCTCTCGTC
* *
43053674 TCAATGCCGATGCCATGTCCTACACATGGTCTTACACTGGCTCCCATATCGTGGTCGATGCTATG
1 TCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCCCATATCATGGTCGATGCTATG
43053739 TCCCAAACATGGTCTTACACTAGTGCACATA
66 TCCCAAACATGGTCTTACACTAGTGCACATA
* * ** * *
43053770 TCAATGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTTAT-TACATTGTTGATG-TCA
1 TCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCCCATAT-CATGGTCGATGCT-A
* * * *
43053833 TGTTCCAAACATGGTCTTACACTAGTTCTCATG
64 TGTCCCAAACATGGTCTTACACTAGTGCACATA
* * * *
43053866 TC-GTGGCCGATGCCATGTCTTAGACATAGTCTGACACT
1 TCAAT-GCCGATGCCATGTCCTAGACATGGTCTTACACT
43053904 AGCACATATA
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
95 3 0.03
96 110 0.97
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (96 bp):
TCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCCCATATCATGGTCGATGCTATG
TCCCAAACATGGTCTTACACTAGTGCACATA
Found at i:43053903 original size:144 final size:143
Alignment explanation
Indices: 43053532--43053912 Score: 390
Period size: 144 Copynumber: 2.7 Consensus size: 143
43053522 AAGAGGGTGA
* * * * * *
43053532 AATGCTGATACCATGTTCCAAACATGGTCTTACACGGGCTCACATGTCGAGACTGATGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGTGGCCGATGCCATGTC
* * * * * *
43053597 CCAGACATGGTCTTACATTATCTCTCATCTCAATGCCGATGCCATGTCCCAGAGATGGTTTTATA
66 CCAGACATGGTCTTACACTAT-GCACATATCAATGCCGATGCCATGTCCCAGAGATGGTCTTACA
* * *
43053662 TTATCTCTCGTCTC
130 CTAGCTCTCATCTC
* * * * *
43053676 AATGCCGATGCCATG-TCCTACACATGGTCTTACACTGGCTCCCATATCGTGGTCGATGCTATGT
1 AATGCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATGTCGTGGCCGATGCCATGT
* *
43053740 CCCAAACATGGTCTTACACTAGTGCACATATCAATGCCGATGCCATGTCCCAGATATGGTCTTAC
65 CCCAGACATGGTCTTACACTA-TGCACATATCAATGCCGATGCCATGTCCCAGAGATGGTCTTAC
* *
43053805 ACTGGCTCTTAT-TAC
129 ACTAGCTCTCATCT-C
* ** * * * *
43053820 ATTGTTGATGTCATGTTCCAAACATGGTCTTACACTAGTTCTCATGTCGTGGCCGATGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGTGGCCGATGCCATGTC
** * *
43053885 TTAGACATAGTCTGACACTA-GCACATAT
66 CCAGACATGGTCTTACACTATGCACATAT
43053913 ATCACCCAAA
Statistics
Matches: 193, Mismatches: 40, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
142 8 0.04
143 4 0.02
144 177 0.92
145 4 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (143 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGTGGCCGATGCCATGTC
CCAGACATGGTCTTACACTATGCACATATCAATGCCGATGCCATGTCCCAGAGATGGTCTTACAC
TAGCTCTCATCTC
Found at i:43059075 original size:47 final size:47
Alignment explanation
Indices: 43059012--43059468 Score: 729
Period size: 47 Copynumber: 9.6 Consensus size: 47
43059002 CCCTTCGGGA
* * *
43059012 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
43059059 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
43059106 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43059153 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
43059200 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
43059247 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
43059296 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
43059343 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
43059390 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
43059437 CTTATCACATATATATACACTTTCACATTCAT
1 CTTATCAC--ATATATACACTTTCACATTCAT
43059469 TCAAATATAC
Statistics
Matches: 387, Mismatches: 17, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 321 0.83
49 64 0.17
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:43059305 original size:22 final size:22
Alignment explanation
Indices: 43059277--43059352 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
43059267 TTTCACATTC
43059277 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
43059299 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
43059323 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
43059346 ATCACAT
1 ATCACAT
43059353 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:43059333 original size:190 final size:190
Alignment explanation
Indices: 43059033--43059468 Score: 727
Period size: 190 Copynumber: 2.3 Consensus size: 190
43059023 TATACACTTC
*
43059033 CACATCCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
*
43059096 GCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
66 GCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* * *
43059161 ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC-ATGTT
131 ATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACGAT-TT
43059221 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
43059286 GCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
66 GCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* * * *
43059351 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACGCTTT
131 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACGATTT
* *
43059411 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCAT
43059469 TCAAATATAC
Statistics
Matches: 233, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
188 33 0.14
190 198 0.85
191 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (190 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
GCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACGATTT
Found at i:43059440 original size:237 final size:235
Alignment explanation
Indices: 43059012--43059445 Score: 746
Period size: 237 Copynumber: 1.8 Consensus size: 235
43059002 CCCTTCGGGA
43059012 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
43059077 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
* * * *
43059142 GGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATGCATGTTCACATTCATCACATCGGCCATTAGGCCTTATCA
43059207 CACATACACATGTTCACATTCATCACATTGGCCATTCGGC
196 CACATACACATGTTCACATTCATCACATTGGCCATTCGGC
* *
43059247 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATAC
43059312 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
43059377 TCGGCTATTAGGCCTTATCACATATATACGC-T-TTCACATTCATCACATCGGCCATTAGGCCTT
129 TCGGCCATTAGGCCTTATCACATATAT--GCATGTTCACATTCATCACATCGGCCATTAGGCCTT
43059440 ATCACA
192 ATCACA
43059446 TATATATACA
Statistics
Matches: 187, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
235 10 0.05
236 1 0.01
237 173 0.93
238 1 0.01
239 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (235 bp):
CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATGCATGTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CACATACACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:43066210 original size:144 final size:144
Alignment explanation
Indices: 43065865--43066249 Score: 362
Period size: 144 Copynumber: 2.7 Consensus size: 144
43065855 AAGAGGGTGA
* * * * * *
43065865 AATGCTGATACCATGTTCCAAACATGGTCTTACACGAGCTCACATGTCGAGACTGATGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGTGGCCGATGCCATGTC
* * * * * * * * *
43065930 CCATATATGGTCTTACATTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGAGATGGTTTTATA
66 CCAAACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACA
* * *
43065995 TTATCTCTCGTCTC
131 CTAGCTCTCATCTC
* * * * * * * * *
43066009 AATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCCCATATCATGGTCGATGCTATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGTGGCCGATGCCATGTC
43066074 CCAAACATGGTCTTACACTAG-TGCACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTAC
66 CCAAACATGGTCTTACACTAGCT-CACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTAC
* *
43066138 ACTGGCTCTTAT-TAC
130 ACTAGCTCTCATCT-C
* * * * * *
43066153 ATTGTCGATGTCATGTTCCAAACATGGTCTTACACTAGTTCTCATGTTGTGGCCGATGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGTGGCCGATGCCATGTC
* * * * *
43066218 TCAGACATAGT-TTGACACTAGCACATATATCA
66 CCAAACATGGTCTT-ACACTAGCTCACATATCA
43066250 CCCAAATGTC
Statistics
Matches: 189, Mismatches: 48, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
143 4 0.02
144 185 0.98
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (144 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGTGGCCGATGCCATGTC
CCAAACATGGTCTTACACTAGCTCACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACA
CTAGCTCTCATCTC
Done.