Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 55 of 297
Found at i:19642032 original size:28 final size:28
Alignment explanation
Indices: 19641975--19642032 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
19641965 CTGGTCAAAT
* * **
19641975 AATTATTAAGTGTTTTAATTATGTTTTA
1 AATTATTAAGTGTCTTAAATATGTCCTA
*
19642003 AATTATTTAGTGTCTTAAATATGTCCTA
1 AATTATTAAGTGTCTTAAATATGTCCTA
19642031 AA
1 AA
19642033 CTCATACAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.50
Consensus pattern (28 bp):
AATTATTAAGTGTCTTAAATATGTCCTA
Found at i:19643799 original size:66 final size:66
Alignment explanation
Indices: 19643693--19643825 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
19643683 AATTGTGGAA
19643693 ATCGAATTAGAGATTTAATTAAAGATGAAATTAAAGCTTATTAAGTCTAGTTTCAATAAAAGAAA
1 ATCGAATTAGAGATTTAATTAAAGATGAAATTAAAGCTTATTAAGTCTAGTTTCAATAAAAGAAA
19643758 C
66 C
19643759 ATCGAATTAGAGATTTAATTAAAGATGAAATTAAAGCTTATTAAGTCTAGTTTCAATAAAAGAAA
1 ATCGAATTAGAGATTTAATTAAAGATGAAATTAAAGCTTATTAAGTCTAGTTTCAATAAAAGAAA
19643824 C
66 C
19643825 A
1 A
19643826 GTGTAAGCTG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.32
Consensus pattern (66 bp):
ATCGAATTAGAGATTTAATTAAAGATGAAATTAAAGCTTATTAAGTCTAGTTTCAATAAAAGAAA
C
Found at i:19646141 original size:28 final size:27
Alignment explanation
Indices: 19646086--19646142 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
19646076 TATTCAGTAT
*
19646086 CAGTACAGTGTGGGCCTTAACCCTATA
1 CAGTACAGTGTGGGCCTTAACCCAATA
19646113 CAGTAACAGTGTGGGCC-TAAGCCCAATA
1 CAGT-ACAGTGTGGGCCTTAA-CCCAATA
19646141 CA
1 CA
19646143 ATATCAGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGTACAGTGTGGGCCTTAACCCAATA
Found at i:19646150 original size:28 final size:28
Alignment explanation
Indices: 19646090--19646150 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
19646080 CAGTATCAGT
* *
19646090 ACAGTGTGGGCCTTAACCCTATACAGTA
1 ACAGTGTGGGCCTTAACCCAATACAATA
19646118 ACAGTGTGGGCC-TAAGCCCAATACAATA
1 ACAGTGTGGGCCTTAA-CCCAATACAATA
*
19646146 TCAGT
1 ACAGT
19646151 ATAGTGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAACCCAATACAATA
Found at i:19646532 original size:27 final size:27
Alignment explanation
Indices: 19646501--19646619 Score: 134
Period size: 27 Copynumber: 4.4 Consensus size: 27
19646491 GGGCATAATC
*
19646501 GTCATATTACCATACAGGGACATTACG
1 GTCATTTTACCATACAGGGACATTACG
* **
19646528 GTCATTTTACCTTACAGGGGTATTACG
1 GTCATTTTACCATACAGGGACATTACG
* *
19646555 ATCATTTTATCCTATA-GGGGA-ATTACG
1 GTCATTTTA-CC-ATACAGGGACATTACG
* *
19646582 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCATACAGGGACATTACG
19646609 GTCATTTTACC
1 GTCATTTTACC
19646620 TATTTTGGGG
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
25 2 0.03
26 5 0.07
27 62 0.82
28 5 0.07
29 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGACATTACG
Found at i:19646607 original size:54 final size:54
Alignment explanation
Indices: 19646517--19646622 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
19646507 TTACCATACA
* *
19646517 GGGACATTACGGTCATTTTACCTTACAGGGGTATTACGATCATTTTATCCTATAG
1 GGGACATTACGGTCATTTTACCCTACAGGGGCATTACGATCATTTTA-CCTATAG
*
19646572 GGGA-ATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTAT
1 GGGACATTACGGTCATTTTACCCTACAGGGGCATTACGATCATTTTACCTAT
19646623 TTTGGGGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
53 5 0.10
54 39 0.81
55 4 0.08
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (54 bp):
GGGACATTACGGTCATTTTACCCTACAGGGGCATTACGATCATTTTACCTATAG
Found at i:19647867 original size:12 final size:12
Alignment explanation
Indices: 19647850--19647875 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19647840 AGGAATTATG
19647850 GAGAAGAGAAAA
1 GAGAAGAGAAAA
19647862 GAGAAGAGAAAA
1 GAGAAGAGAAAA
19647874 GA
1 GA
19647876 AAAGCTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
GAGAAGAGAAAA
Found at i:19652866 original size:200 final size:200
Alignment explanation
Indices: 19652523--19652923 Score: 793
Period size: 200 Copynumber: 2.0 Consensus size: 200
19652513 TAATGAATTT
*
19652523 CCAAAGTCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTAT
1 CCAAAGTCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTAT
19652588 TAACATACTGTCCATATGATCTTTTCGTTGCTTCTATATGAAAATAGACTCATCGAGCTTCGAAT
66 TAACATACTGTCCATATGATCTTTTCGTTGCTTCTATATGAAAATAGACTCATCGAGCTTCGAAT
19652653 ACATAATTTATTCATCAATTAATTTCACTCCTACTATTTTTTTTAGTGATTTTTCAATCTCATGT
131 ACATAATTTATTCATCAATTAATTTCACTCCTACTATTTTTTTTAGTGATTTTTCAATCTCATGT
19652718 CACTG
196 CACTG
19652723 CCAAAGTCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTAT
1 CCAAAGTCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTAT
19652788 TAACATACTGTCCATATGATCTTTTCGTTGCTTCTATATGAAAATAGACTCATCGAGCTTCGAAT
66 TAACATACTGTCCATATGATCTTTTCGTTGCTTCTATATGAAAATAGACTCATCGAGCTTCGAAT
19652853 ACATAATTTATTCATCAATTAATTTCACTCCTACTATTTTTTTTAGTGATTTTTCAATCTCATGT
131 ACATAATTTATTCATCAATTAATTTCACTCCTACTATTTTTTTTAGTGATTTTTCAATCTCATGT
19652918 CACTG
196 CACTG
19652923 C
1 C
19652924 TGCTGCCAGC
Statistics
Matches: 200, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (200 bp):
CCAAAGTCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTAT
TAACATACTGTCCATATGATCTTTTCGTTGCTTCTATATGAAAATAGACTCATCGAGCTTCGAAT
ACATAATTTATTCATCAATTAATTTCACTCCTACTATTTTTTTTAGTGATTTTTCAATCTCATGT
CACTG
Found at i:19653670 original size:27 final size:27
Alignment explanation
Indices: 19653653--19653776 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
19653643 ATATTAAGTC
19653653 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
19653680 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
19653708 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
19653735 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
19653762 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
19653777 GCACAATTTA
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 66 0.72
28 26 0.28
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:19653737 original size:55 final size:54
Alignment explanation
Indices: 19653653--19653776 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 54
19653643 ATATTAAGTC
* *
19653653 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATC-AACT
* * *
19653708 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACT
19653762 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19653777 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
54 18 0.28
55 46 0.72
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:19657808 original size:40 final size:40
Alignment explanation
Indices: 19657476--19657801 Score: 523
Period size: 40 Copynumber: 8.2 Consensus size: 40
19657466 AACCCAAGTA
* * *
19657476 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
19657515 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
19657555 CCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
19657595 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
19657635 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
19657675 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
19657715 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
19657755 CCTTCGGGACTTAGCCCAGATATAGTAACCAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
19657795 CCTTCGG
1 CCTTCGG
19657802 ATCTTAGTCC
Statistics
Matches: 268, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
39 19 0.07
40 243 0.91
41 6 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:19659238 original size:13 final size:13
Alignment explanation
Indices: 19659222--19659249 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19659212 TTTATTATTT
19659222 TTAACACAAAATA
1 TTAACACAAAATA
19659235 TTAACACAAAATA
1 TTAACACAAAATA
19659248 TT
1 TT
19659250 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:19659939 original size:46 final size:48
Alignment explanation
Indices: 19659835--19659954 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
19659825 TGTCTTCGAC
** * *
19659835 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
19659883 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
19659929 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
19659955 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:19661852 original size:15 final size:15
Alignment explanation
Indices: 19661829--19661859 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19661819 TCAAAAATTC
19661829 CAATACAAAACATAT
1 CAATACAAAACATAT
*
19661844 CAATCCAAAACATAT
1 CAATACAAAACATAT
19661859 C
1 C
19661860 TTTCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:19662392 original size:14 final size:15
Alignment explanation
Indices: 19662375--19662403 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19662365 GCATGAAAAT
19662375 TTCACACAT-ATAAA
1 TTCACACATAATAAA
19662389 TTCACACATAATAAA
1 TTCACACATAATAAA
19662404 CACAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:19676073 original size:79 final size:80
Alignment explanation
Indices: 19675975--19676157 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
19675965 TACTCGTTCA
* *
19675975 AATGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGCAACTCGCACAAATGCCTTC-GGATCTTAACCCAG
* *
19676038 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* ** *
19676055 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
*
19676119 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
19676134 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
19676158 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
ATAGTAACTTAGCAC
Found at i:19676157 original size:40 final size:40
Alignment explanation
Indices: 19675954--19676157 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
19675944 CGGAATTTAA
** *
19675954 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
19675994 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
19676034 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
19676073 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
19676113 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19676153 CCGGA
1 CCGGA
19676158 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.22
40 93 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19681645 original size:47 final size:47
Alignment explanation
Indices: 19681592--19682115 Score: 521
Period size: 47 Copynumber: 11.0 Consensus size: 47
19681582 TTAGGATTTT
** * * *
19681592 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCAAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19681639 ATGTGATGAATGTG-A-ATGCGTATACATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGC--ATATATGTGATAAGGCCGAATGGCCA
* *
19681686 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
19681733 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
19681780 ATGTGGTGAATATGAACAT-TATGA-ATGTGAGCATGCATATGTG-TGATAAGGCCGAA
1 ATGTGATGAATGTGAACATGCAT-ATATGT--G-AT--A-A-G-GCCGA-ATGGCC--A
* * *
19681836 TGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ------ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19681889 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19681936 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19681983 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * **
19682030 ATGTGATGAATGTGAGCATGCATATGTGTGAT-A-TTC----GGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
19682071 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
19682116 TAGTGTGAAA
Statistics
Matches: 411, Mismatches: 35, Indels: 62
0.81 0.07 0.12
Matches are distributed among these distances:
41 32 0.08
42 1 0.00
43 1 0.00
45 3 0.01
46 7 0.02
47 307 0.75
48 1 0.00
49 6 0.01
51 1 0.00
52 1 0.00
53 4 0.01
54 6 0.01
55 6 0.01
56 4 0.01
57 1 0.00
58 1 0.00
60 2 0.00
61 1 0.00
62 20 0.05
63 6 0.01
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:19681739 original size:22 final size:22
Alignment explanation
Indices: 19681664--19681739 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
19681654 ATGCGTATAC
19681664 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
19681686 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
19681708 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
19681733 ATGTGAT
1 ATGTGAT
19681740 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:19681809 original size:62 final size:62
Alignment explanation
Indices: 19681738--19681860 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
19681728 GGCCAATGTG
*
19681738 ATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCAATGTGGTGAATATGAACATT
1 ATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATT
19681800 ATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACAT
1 ATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACAT
19681861 GCATATATGT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.28
Consensus pattern (62 bp):
ATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATT
Found at i:19681814 original size:109 final size:109
Alignment explanation
Indices: 19681691--19681907 Score: 362
Period size: 109 Copynumber: 2.0 Consensus size: 109
19681681 GGCCAATGTG
* *
19681691 ATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCAT
1 ATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCAT
* * *
19681756 ATGTGTGATAAGGCTGAATGGCCAATGTGGTGAATATGAACATT
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATT
*
19681800 ATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCAT
1 ATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCAT
* *
19681865 ATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACAT
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACAT
19681908 GCATATATGT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 100 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (109 bp):
ATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCAT
ATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATT
Found at i:19681922 original size:25 final size:25
Alignment explanation
Indices: 19681888--19682014 Score: 76
Period size: 25 Copynumber: 5.3 Consensus size: 25
19681878 CCGAATGGCC
19681888 TATGTGATGAATGTGAACATGCATA
1 TATGTGATGAATGTGAACATGCATA
* * *
19681913 TATGTGATG-AGGCCG-A-ATGGC-CA
1 TATGTGATGAATG-TGAACAT-GCATA
*
19681936 -ATGTGATGAATGTGAGCATGCATA
1 TATGTGATGAATGTGAACATGCATA
* * *
19681960 TATGTGAT-AAGGCCG-A-ATGGC-CA
1 TATGTGATGAATG-TGAACAT-GCATA
*
19681983 -ATGTGATGAATGTGAGCATGCATA
1 TATGTGATGAATGTGAACATGCATA
19682007 TATGTGAT
1 TATGTGAT
19682015 AAGGCCGAAT
Statistics
Matches: 73, Mismatches: 15, Indels: 28
0.63 0.13 0.24
Matches are distributed among these distances:
22 17 0.23
23 15 0.21
24 16 0.22
25 25 0.34
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.28
Consensus pattern (25 bp):
TATGTGATGAATGTGAACATGCATA
Found at i:19681946 original size:203 final size:202
Alignment explanation
Indices: 19681613--19681993 Score: 611
Period size: 203 Copynumber: 1.9 Consensus size: 202
19681603 GTGAATGTGT
* *
19681613 ATATATGTGATAAGGCCAAATGGCCTATGTGATGAATGTGAATGCGTATACATGTGATAAGGCCG
1 ATATATGTGATAAGGCCAAATGGCCAATGTGATGAATATGAATGCG-ATACATGTGATAAGGCCG
* *
19681678 AATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
65 AATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
* * *
19681743 TGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCAATGTGGTGAATATGAACATTATGAATGT
130 TGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATTATGAATGT
19681808 GAGCATGC
195 GAGCATGC
* * * *
19681816 ATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGC-ATATATGTGATAAGGCC
1 ATATATGTGATAAGGCCAAATGGCCAATGTGATGAATATG-A-ATGCGATACATGTGATAAGGCC
* *
19681880 GAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATGA
64 GAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
19681945 ATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
129 ATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
19681994 GTGAGCATGC
Statistics
Matches: 163, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
203 158 0.97
204 1 0.01
205 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (202 bp):
ATATATGTGATAAGGCCAAATGGCCAATGTGATGAATATGAATGCGATACATGTGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
GTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATTATGAATGTG
AGCATGC
Found at i:19681989 original size:22 final size:22
Alignment explanation
Indices: 19681961--19682036 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
19681951 GCATGCATAT
19681961 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
19681983 ATGTGATGAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
19682007 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
19682030 ATGTGAT
1 ATGTGAT
19682037 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:19682384 original size:37 final size:37
Alignment explanation
Indices: 19682281--19682392 Score: 161
Period size: 37 Copynumber: 3.0 Consensus size: 37
19682271 AATATATTCT
* * *
19682281 GGGTGAGACCCGATGACTACGTGTGGAGAGTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
19682318 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
* * * *
19682355 GGGTAAGACCCGATAACTTCTTGTGGAGATTTCGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
19682392 G
1 G
19682393 AGCTAAAGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
Found at i:19684533 original size:85 final size:85
Alignment explanation
Indices: 19684432--19684648 Score: 290
Period size: 95 Copynumber: 2.4 Consensus size: 85
19684422 TTAACATGTA
* *
19684432 TAACTGTGGCATATCCACTTAGCACCATGCTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCATGCTACATGTGTAACCGTGGTATATCCACTTAGCACCA
19684497 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* *
19684517 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCA---TGC---TA-C---ATGTGTAACCGTGGTATATCCA
19684582 CTTAGCACCACGTTAATGAATCAATATATG
56 CTTAGCACCACGTTAATGAATCAATATATG
* *
19684612 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCATGCTACATGT
19684649 ATAAATATGT
Statistics
Matches: 115, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
85 30 0.26
88 3 0.03
89 2 0.02
91 2 0.02
92 1 0.01
95 77 0.67
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCATGCTACATGTGTAACCGTGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:19684579 original size:48 final size:48
Alignment explanation
Indices: 19684465--19684698 Score: 328
Period size: 48 Copynumber: 4.9 Consensus size: 48
19684455 ACCATGCTAC
* *
19684465 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
19684512 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
19684560 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
19684607 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATAAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
** * * *
19684655 ATGTGTAATTGTGGTATATCCACTTAACACCACATTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
19684699 AACCGTGGTA
Statistics
Matches: 165, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
47 77 0.47
48 88 0.53
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:19684637 original size:95 final size:95
Alignment explanation
Indices: 19684465--19684687 Score: 401
Period size: 95 Copynumber: 2.3 Consensus size: 95
19684455 ACCATGCTAC
* *
19684465 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
*
19684530 TCCACTTAGCACCACGTTACATGTATCAAT
66 TCCACTTAGCACCACGTTACATGTATAAAT
19684560 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
19684625 TCCACTTAGCACCACGTTACATGTATAAAT
66 TCCACTTAGCACCACGTTACATGTATAAAT
* *
19684655 ATGTGTAATTGTGGTATATCCACTTAACACCAC
1 ATGTGTAATCGTGGTATATCCACTTAGCACCAC
19684688 ATTACACGTA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 123 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (95 bp):
ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
TCCACTTAGCACCACGTTACATGTATAAAT
Found at i:19688652 original size:79 final size:82
Alignment explanation
Indices: 19688534--19688718 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
19688524 GCTACTCGTT
* * *
19688534 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCCTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCCTC-GGATCTTAACCC
* *
19688597 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
19688614 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCCTCGGATCTTAACCCG
* *
19688677 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
19688694 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19688719 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCCTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:19688718 original size:40 final size:40
Alignment explanation
Indices: 19688515--19688718 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
19688505 CGGAATTTAA
** *
19688515 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
19688555 CCGGTTATAGTAACTCGCACAATTGCCCTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
19688595 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19688634 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
19688674 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19688714 CCGGA
1 CCGGA
19688719 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 90 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19694171 original size:46 final size:47
Alignment explanation
Indices: 19694067--19694186 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 47
19694057 TGTCTTCGAC
** * *
19694067 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATAAT
* * *
19694115 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
*
19694161 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
19694187 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 33 0.52
48 30 0.48
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
Found at i:19704845 original size:42 final size:43
Alignment explanation
Indices: 19704768--19704869 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
19704758 TCCCGGACGT
* ** *
19704768 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCTAGACAG
1 GGTCTTACATGTAAATCAATATCGATGCCGATGTCCCAGACAG
*
19704811 GGTCTTACATG-AAATCAGATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAAATCA-ATATCGATGCCGATGTCCCAGACAG
* *
19704853 GGTCTTATACGTAAATC
1 GGTCTTACATGTAAATC
19704870 TCAATCGAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 30 0.60
43 20 0.40
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAATATCGATGCCGATGTCCCAGACAG
Found at i:19708527 original size:46 final size:45
Alignment explanation
Indices: 19708460--19708621 Score: 164
Period size: 46 Copynumber: 3.5 Consensus size: 45
19708450 TGTAACCCGC
*
19708460 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
19708506 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * *
19708552 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
19708599 CCATAGGTGAACTCGGACTCAAC
1 CCATAAGTGAACTCGGACTCAAC
19708622 GAGCTCGGAT
Statistics
Matches: 93, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 56 0.60
47 34 0.37
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:19711666 original size:38 final size:38
Alignment explanation
Indices: 19711617--19711700 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 38
19711607 TTTCAAATTA
* *
19711617 ACATGTATAACCGTGGCATATCCACTTAGCACCATGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
*
19711655 ACATGTTTAACCATGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
19711693 ACATGTAT
1 ACATGTAT
19711701 CAATATGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:19711728 original size:48 final size:48
Alignment explanation
Indices: 19711672--19711838 Score: 237
Period size: 48 Copynumber: 3.5 Consensus size: 48
19711662 TAACCATGGC
19711672 ATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATTGTGGT
1 ATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATTGTGGT
* * * * * *
19711720 ATATCCACTTACCACCATGTTA-ATGAATCAATATATGTAACTGTGGC
1 ATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATTGTGGT
* *
19711767 ATATCCACTTAGCACCACGTTACATGTATAAATATGTGTAATCGTGGT
1 ATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATTGTGGT
* *
19711815 ATATCCACTTAACACCACATTACA
1 ATATCCACTTAGCACCACGTTACA
19711839 CATATAACCA
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 41 0.40
48 61 0.60
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (48 bp):
ATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATTGTGGT
Found at i:19714250 original size:32 final size:32
Alignment explanation
Indices: 19714212--19714275 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
19714202 AATTAATGTT
19714212 TAATTAAGAACTTTGAGATACTTACAAAATAA
1 TAATTAAGAACTTTGAGATACTTACAAAATAA
19714244 TAATTAAGAACTTTGAGATACTTACAAAATAA
1 TAATTAAGAACTTTGAGATACTTACAAAATAA
19714276 CCTAAGTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (32 bp):
TAATTAAGAACTTTGAGATACTTACAAAATAA
Found at i:19722814 original size:37 final size:38
Alignment explanation
Indices: 19722756--19722833 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
19722746 TTACGAAGTC
* * *
19722756 TTACCCGGACATAATCTCCACACGAAGTTATCGGGT-T
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
*
19722793 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTCT
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
19722831 TTA
1 TTA
19722834 GAGCTCGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 32 0.89
38 4 0.11
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (38 bp):
TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
Found at i:19723028 original size:47 final size:47
Alignment explanation
Indices: 19722952--19723078 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
19722942 CTTCGGGACT
* * * *
19722952 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
19722999 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
*
19723046 TATCACATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATACACT-TTCACATCCATCACAT
19723079 AGAATCCTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
46 1 0.01
47 67 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:19727914 original size:16 final size:16
Alignment explanation
Indices: 19727893--19727925 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19727883 AATTCCGCTA
19727893 TGGAAGTGGGAAAGAG
1 TGGAAGTGGGAAAGAG
19727909 TGGAAGTGGGAAAGAG
1 TGGAAGTGGGAAAGAG
19727925 T
1 T
19727926 AACAATGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.48, T:0.15
Consensus pattern (16 bp):
TGGAAGTGGGAAAGAG
Found at i:19739848 original size:40 final size:40
Alignment explanation
Indices: 19739793--19740224 Score: 539
Period size: 40 Copynumber: 10.8 Consensus size: 40
19739783 ATAACCACAA
* * * *
19739793 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
19739833 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
19739873 GCATAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
19739913 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
19739953 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
19739993 GCATAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
19740033 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
19740073 GCATAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
19740113 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
19740153 ACACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
19740193 GCATAAATGCCTTCGAGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
19740225 CATTCAAATG
Statistics
Matches: 335, Mismatches: 50, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
39 10 0.03
40 311 0.93
41 14 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:19740006 original size:120 final size:120
Alignment explanation
Indices: 19739793--19740223 Score: 607
Period size: 120 Copynumber: 3.6 Consensus size: 120
19739783 ATAACCACAA
* * * * * *
19739793 GCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
19739857 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
65 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
* **
19739913 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACCCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
19739977 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
65 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
* *
19740033 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAACC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * * * * * *
19740098 CGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CGGATAAAATC-ACTAGCATAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
* * * *
19740153 ACACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGAGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
19740218 CGGATA
66 CGGATA
19740224 TCATTCAAAT
Statistics
Matches: 285, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
119 3 0.01
120 278 0.98
121 4 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
CGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
Found at i:19743849 original size:13 final size:13
Alignment explanation
Indices: 19743831--19743858 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19743821 GTTTACACAT
19743831 GATAGCCTCGGAC
1 GATAGCCTCGGAC
19743844 GATAGCCTCGGAC
1 GATAGCCTCGGAC
19743857 GA
1 GA
19743859 AACACATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.29, G:0.32, T:0.14
Consensus pattern (13 bp):
GATAGCCTCGGAC
Found at i:19748509 original size:48 final size:48
Alignment explanation
Indices: 19748437--19748660 Score: 217
Period size: 48 Copynumber: 4.8 Consensus size: 48
19748427 AAGGTAGGAC
* * * *
19748437 GCCAATGCCATATCCCGGATATGGTCTTTCATGGGATCACATATCGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGAT
* * * ** *
19748485 GCCAATGCCATGTCCCCGACATGGTGTTACATGGAATCGTAGATCGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGAT
* ***
19748533 GCCAATGCCATGTCCCAGCCATGGTCTTACACAAGATCACATATCGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGAT
* * ** *
19748581 GTCGAT---A-G-CCCAG-CTATGGTCTTACATGAAATTACATATCGAT
1 GCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATCGAT
*
19748624 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
19748661 TGCACATAAC
Statistics
Matches: 139, Mismatches: 30, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
42 1 0.01
43 32 0.23
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 101 0.73
49 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (48 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGAT
Found at i:19751541 original size:41 final size:41
Alignment explanation
Indices: 19751454--19751680 Score: 243
Period size: 41 Copynumber: 5.6 Consensus size: 41
19751444 AATTCAGCTA
** *
19751454 TATATATGGCACTTA--GTGCGTGATTCGACATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAAGA-TCGAGATAGCTTCGGC
** * * *
19751494 TATATATCACACTTAGTGTGCGAGATCGAGATGGCTTCTGC
1 TATATATGGCACTTAGTGTGCAAGATCGAGATAGCTTCGGC
* *
19751535 TATATATGGCACTTAGTGTGC--GATCCGAAATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCAAGAT-CGAGATAGCTTCGGC
**
19751575 TATATATGGCACTTAGTGTGCAAGATCGAGATAGCTTTTGC
1 TATATATGGCACTTAGTGTGCAAGATCGAGATAGCTTCGGC
* *
19751616 TATATATGGCACTT-GTGTGC--GATTTGTGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAAGA-TCGAGATAGCTTCGGC
*
19751655 TATATACGGCACTTAGTGTGCAAGAT
1 TATATATGGCACTTAGTGTGCAAGAT
19751681 ATCGAGAATT
Statistics
Matches: 157, Mismatches: 21, Indels: 17
0.81 0.11 0.09
Matches are distributed among these distances:
38 2 0.01
39 28 0.18
40 57 0.36
41 58 0.37
42 12 0.08
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGCAAGATCGAGATAGCTTCGGC
Found at i:19751543 original size:81 final size:81
Alignment explanation
Indices: 19751454--19751680 Score: 314
Period size: 81 Copynumber: 2.8 Consensus size: 81
19751444 AATTCAGCTA
* * * * *
19751454 TATATATGGCACTTAGTGCGTGATTCGACATAGCTTCGGCTATATATCACACTTAGTGTGCGAGA
1 TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATATCGCACTTAGTGTGCAAGA
*
19751519 TCGAGATGGCTTCTGC
66 TCGAGATAGCTTCTGC
* * *
19751535 TATATATGGCACTTAGTGTGCGATCCGAAATAGCTTCGACTATATATGGCACTTAGTGTGCAAGA
1 TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATATCGCACTTAGTGTGCAAGA
*
19751600 TCGAGATAGCTTTTGC
66 TCGAGATAGCTTCTGC
* **
19751616 TATATATGGCACTT-GTGTGCGATTTGTGATAGCTTCGGCTATATA-CGGCACTTAGTGTGCAAG
1 TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATATC-GCACTTAGTGTGCAAG
19751679 AT
65 AT
19751681 ATCGAGAATT
Statistics
Matches: 129, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
80 44 0.34
81 85 0.66
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (81 bp):
TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGGCTATATATCGCACTTAGTGTGCAAGA
TCGAGATAGCTTCTGC
Found at i:19751674 original size:40 final size:40
Alignment explanation
Indices: 19751454--19751675 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
19751444 AATTCAGCTA
* * *
19751454 TATATATGGCACTTAGTGCGTGATTCGACATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
** * * *
19751494 TATATATCACACTTAGTGTGCGAGATCGAGATGGCTTCTGC
1 TATATATGGCACTTAGTGTGCGA-TTCGAGATAGCTTCGGC
* * *
19751535 TATATATGGCACTTAGTGTGCGATCCGAAATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
**
19751575 TATATATGGCACTTAGTGTGCAAGA-TCGAGATAGCTTTTGC
1 TATATATGGCACTTAGTGTGC--GATTCGAGATAGCTTCGGC
* *
19751616 TATATATGGCACTT-GTGTGCGATTTGTGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
*
19751655 TATATACGGCACTTAGTGTGC
1 TATATATGGCACTTAGTGTGC
19751676 AAGATATCGA
Statistics
Matches: 151, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.01
39 25 0.17
40 63 0.42
41 59 0.39
42 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
Found at i:19761212 original size:40 final size:40
Alignment explanation
Indices: 19761166--19761309 Score: 148
Period size: 40 Copynumber: 3.6 Consensus size: 40
19761156 TTCAGCTATA
19761166 TATATATGGCACTTAGTGTGCGATTCCG-CATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGATT-CGACATAGCTTCGAC
* * *
19761206 TATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCTAC
1 TATATATGGCACTTAGTGTGCGA-TTCGACATAGCTTCGAC
* * * * *
19761247 TATGTGTGGCACTTAATGTGCGATTTGAGATAGCTTC-AGC
1 TATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGA-C
* * *
19761287 TATGTACGGAACTTAGTGTGCGA
1 TATATATGGCACTTAGTGTGCGA
19761310 GATATCGAGA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 57 0.64
41 31 0.35
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGAC
Found at i:19764719 original size:22 final size:22
Alignment explanation
Indices: 19764684--19764742 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
19764674 TAAATATGTT
* *
19764684 TGGCACAAATCCATAGTCAAGA
1 TGGCACAGAGCCATAGTCAAGA
** * * *
19764706 TGGCACAGAGCCATTTTTAGGT
1 TGGCACAGAGCCATAGTCAAGA
19764728 TGGCACAGAGCCATA
1 TGGCACAGAGCCATA
19764743 ATCAGATTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (22 bp):
TGGCACAGAGCCATAGTCAAGA
Found at i:19765122 original size:27 final size:26
Alignment explanation
Indices: 19765091--19765284 Score: 156
Period size: 27 Copynumber: 7.2 Consensus size: 26
19765081 TTACCCTACA
*
19765091 AGGGTATTTCAGTAAGTTTACAAATTG
1 AGGGTATTTCAGTAA-TTTACAAATCG
* * *
19765118 GGGGTATTTCAGTAAATTTACAAGTTG
1 AGGGTATTTCAGT-AATTTACAAATCG
* **
19765145 GGGGTATTTTGGTAATTTCACAAATCG
1 AGGGTATTTCAGTAATTT-ACAAATCG
** **
19765172 AGGGTATTTTGGTAATTTCACAAATTA
1 AGGGTATTTCAGTAATTT-ACAAATCG
*
19765199 AGGGTATTT-TGATAATTTTACAAATCG
1 AGGGTATTTCAG-TAA-TTTACAAATCG
* *
19765226 GGGGTATTTCAGTAATTTTAGAAATCG
1 AGGGTATTTCAGTAA-TTTACAAATCG
* *
19765253 AGGGTATTTCAATAATTTCATAAATCG
1 AGGGTATTTCAGTAATTT-ACAAATCG
*
19765280 GGGGT
1 AGGGT
19765285 CATTACGACC
Statistics
Matches: 142, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.06
27 127 0.89
28 6 0.04
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (26 bp):
AGGGTATTTCAGTAATTTACAAATCG
Found at i:19765150 original size:54 final size:53
Alignment explanation
Indices: 19765091--19765284 Score: 185
Period size: 54 Copynumber: 3.6 Consensus size: 53
19765081 TTACCCTACA
* *
19765091 AGGGTATTTCAGTAAGTTTACAAATTGGGGGTATTTCAGTAAATTTACAAGTTG
1 AGGGTATTTCAGTAA-TTTACAAATCGGGGGTATTTCAGTAAATTTACAAATTG
* ** * ** *
19765145 GGGGTATTTTGGTAATTTCACAAATCGAGGGTATTTTGGT-AATTTCACAAATTA
1 AGGGTATTTCAGTAATTT-ACAAATCGGGGGTATTTCAGTAAATTT-ACAAATTG
* * * *
19765199 AGGGTATTT-TGATAATTTTACAAATCGGGGGTATTTCAGTAATTTTAGAAATCG
1 AGGGTATTTCAG-TAA-TTTACAAATCGGGGGTATTTCAGTAAATTTACAAATTG
* *
19765253 AGGGTATTTCAATAATTTCATAAATCGGGGGT
1 AGGGTATTTCAGTAATTT-ACAAATCGGGGGT
19765285 CATTACGACC
Statistics
Matches: 112, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
53 12 0.11
54 93 0.83
55 7 0.06
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (53 bp):
AGGGTATTTCAGTAATTTACAAATCGGGGGTATTTCAGTAAATTTACAAATTG
Found at i:19765269 original size:81 final size:81
Alignment explanation
Indices: 19765091--19765277 Score: 216
Period size: 81 Copynumber: 2.3 Consensus size: 81
19765081 TTACCCTACA
** * * *
19765091 AGGGTATTTCAGTAAGTTT-ACAAATTGGGGGTATTTCAGTAAATTTACAAGTTGGGGGTATTTT
1 AGGGTATTTCAGTAA-TTTCACAAATTAAGGGTATTTCAGTAAATTTACAAATCGGGGGTATTTC
*
19765155 GGTAATTTCACAAATCG
65 AGTAATTTCACAAATCG
** * *
19765172 AGGGTATTTTGGTAATTTCACAAATTAAGGGTATTT-TGATAATTTTACAAATCGGGGGTATTTC
1 AGGGTATTTCAGTAATTTCACAAATTAAGGGTATTTCAG-TAAATTTACAAATCGGGGGTATTTC
* *
19765236 AGTAATTTTAGAAATCG
65 AGTAATTTCACAAATCG
* *
19765253 AGGGTATTTCAATAATTTCATAAAT
1 AGGGTATTTCAGTAATTTCACAAAT
19765278 CGGGGGTCAT
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 4 0.05
81 84 0.95
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGTATTTCAGTAATTTCACAAATTAAGGGTATTTCAGTAAATTTACAAATCGGGGGTATTTCA
GTAATTTCACAAATCG
Found at i:19770893 original size:27 final size:27
Alignment explanation
Indices: 19770862--19771310 Score: 601
Period size: 27 Copynumber: 16.6 Consensus size: 27
19770852 TTAGTTTACC
*
19770862 AAATTACCAAAATACCCCTGGTTGGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
19770889 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
19770916 AAATCACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
19770943 AAATTAACAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
19770970 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
19770997 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
19771024 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
19771051 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
19771078 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
19771105 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
19771132 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
19771159 AAATTACCAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
19771186 AAAATACTAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
19771213 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
19771240 AAATTATCAAAATACCTCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
19771267 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
19771294 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
19771311 TCGACCTGTA
Statistics
Matches: 363, Mismatches: 59, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 363 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:19770927 original size:54 final size:54
Alignment explanation
Indices: 19770862--19771310 Score: 673
Period size: 54 Copynumber: 8.3 Consensus size: 54
19770852 TTAGTTTACC
* *
19770862 AAATTACCAAAATACCCCTGGTTGGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
19770916 AAATCACCAAAATACCTCTGGTTTGTAAAATTAACAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
19770970 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
19771024 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
19771078 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
19771132 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * *
19771186 AAAATACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * * *
19771240 AAATTATCAAAATACCTCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
**
19771294 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
19771311 TCGACCTGTA
Statistics
Matches: 362, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 362 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:19771334 original size:108 final size:108
Alignment explanation
Indices: 19770856--19771364 Score: 619
Period size: 108 Copynumber: 4.7 Consensus size: 108
19770846 AATACTTTAG
* * * *
19770856 TTTACCAAATTACCAAAATACCCCTGGTTGGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
1 TTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATT
* * * *
19770921 ACCAAAATACCTCTGGTTTGTAAAATTAACAAAATACCCTTGG
66 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGA
* *
19770964 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
1 TTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATT
* *
19771029 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGG
66 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGA
* * *
19771072 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATT
1 TTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATT
*
19771137 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCCTTA
66 ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGA
* * * * * *
19771179 GTTTATAAAAATACTAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAA
1 -TTTACAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATACCCTTGGTTTATAAAA
* * *
19771243 TTATCAAAATACCTCTAGTTTGTAAAATTACCAAAATACCCCTGA
64 TTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGA
*** ** ** * * * ** *
19771288 TTTGTGAAATTACTGAAATA-CCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAAT
1 TTTACAAAATTACCAAAATACCCCT-GATTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAT
*
19771352 TACCAAAGTACCC
65 TACCAAAATACCC
19771365 TTAATTTACA
Statistics
Matches: 359, Mismatches: 37, Indels: 10
0.88 0.09 0.02
Matches are distributed among these distances:
107 7 0.02
108 346 0.96
109 6 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (108 bp):
TTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATT
ACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGA
Found at i:19771363 original size:27 final size:27
Alignment explanation
Indices: 19770862--19771365 Score: 488
Period size: 27 Copynumber: 18.7 Consensus size: 27
19770852 TTAGTTTACC
*
19770862 AAATTACCAAAATACCC-CTGGTTGGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * *
19770889 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
19770916 AAATCACCAAAATA-CCTCTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * **
19770943 AAATTAACAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
19770970 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * *
19770997 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
19771024 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* **
19771051 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
19771078 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* **
19771105 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
19771132 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
** *
19771159 AAATTACCAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
* * *
19771186 AAAATACTAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
19771213 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* *
19771240 AAATTATCAAAATA-CCTCTAGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* *
19771267 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GGTTTGTA
** ***
19771294 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*** **
19771321 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
19771348 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
19771366 TAATTTACAG
Statistics
Matches: 398, Mismatches: 64, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.01
27 387 0.97
28 6 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGGTTTGTA
Found at i:19771417 original size:27 final size:26
Alignment explanation
Indices: 19770942--19771419 Score: 130
Period size: 27 Copynumber: 17.7 Consensus size: 26
19770932 TCTGGTTTGT
* **
19770942 AAAATTAACAAAATACCCTTGGTTTAC
1 AAAATT-ACCAAATACCCTTAATTTAC
* ** **
19770969 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACC-AAATACCCTTAATTTAC
* ** *
19770996 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTAC-CAAATACCCTTAATTTAC
* * ** **
19771023 AAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACC-AAATACCCTTAATTTAC
**
19771050 AAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACC-AAATACCCTTAATTTAC
* ** **
19771077 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACC-AAATACCCTTAATTTAC
**
19771104 AAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACC-AAATACCCTTAATTTAC
* ** **
19771131 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACC-AAATACCCTTAATTTAC
* *
19771158 AAAATTACCAAAATACCCTTAGTTTAT
1 AAAATTACC-AAATACCCTTAATTTAC
* * * * **
19771185 AAAAATACTAAAATACCCCTAGTTTGT
1 AAAATTAC-CAAATACCCTTAATTTAC
* ** **
19771212 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACC-AAATACCCTTAATTTAC
* * **
19771239 AAAATTATCAAAATA-CCTCTAGTTTGT
1 AAAATTA-CCAAATACCCT-TAATTTAC
* * **
19771266 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACC-AAATACCCTTAATTTAC
* * ** ** **
19771293 GAAATTACTGAAATACCCTCGACCTGT
1 AAAATTAC-CAAATACCCTTAATTTAC
** ** * **
19771320 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTA-CCAAATACCCTTAATTTAC
19771347 AAAATTACCAAAGTACCCTTAATTTAC
1 AAAATTACCAAA-TACCCTTAATTTAC
* **
19771374 AGAATTACCATTTTACCCTTAATTTAC
1 AAAATTACCA-AATACCCTTAATTTAC
*
19771401 AAAATTATCGAAATACCCT
1 AAAATTA-CCAAATACCCT
19771420 CGTAGGGTAG
Statistics
Matches: 373, Mismatches: 64, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
26 8 0.02
27 360 0.97
28 5 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTAATTTAC
Found at i:19771441 original size:27 final size:27
Alignment explanation
Indices: 19771411--19771652 Score: 235
Period size: 27 Copynumber: 9.0 Consensus size: 27
19771401 AAAATTATCG
*
19771411 AAATACCCTCGTAGGGTAGAAATGCCA
1 AAATACCCTCGTAGGGTAGAAATACCA
*
19771438 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCTCGTAGGGTAGAAATACCA
*
19771465 AAATACCC-CTGTAGGGTAGAAATACCG
1 AAATACCCTC-GTAGGGTAGAAATACCA
* *
19771492 AAATACCC-CTGTAGGGTAGAATTACTA
1 AAATACCCTC-GTAGGGTAGAAATACCA
* *
19771519 AAATACCC-CTGTAGGGTAGAATTACCG
1 AAATACCCTC-GTAGGGTAGAAATACCA
* *
19771546 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCTCGTAGGGTAGAAATACCA
* * **
19771573 AAATACCCT-GTACGGTAGAATTACTG
1 AAATACCCTCGTAGGGTAGAAATACCA
* * *
19771599 AAATACTCCT-GTAAGGTAGAATTACCG
1 AAATAC-CCTCGTAGGGTAGAAATACCA
* *
19771626 AGATACCCTTGTAGGGTA-AAATTACCA
1 AAATACCCTCGTAGGGTAGAAA-TACCA
19771653 TTTTACCCCT
Statistics
Matches: 190, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
26 25 0.13
27 165 0.87
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
AAATACCCTCGTAGGGTAGAAATACCA
Found at i:19771469 original size:54 final size:54
Alignment explanation
Indices: 19771411--19771647 Score: 277
Period size: 54 Copynumber: 4.4 Consensus size: 54
19771401 AAAATTATCG
* *
19771411 AAATACCCTCGTAGGGTAGAAATGCCAAAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCTCGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCA
* * *
19771465 AAATACCC-CTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCTC-GTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCA
* *
19771519 AAATACCC-CTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCTC-GTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCA
* * * * * *
19771573 AAATACCCT-GTACGGTAGAATTACTGAAATACTCC-TGTAAGGTAGAATTACCG
1 AAATACCCTCGTAGGGTAGAAATACCGAAATAC-CCTTGTAGGGTAGAAATACCA
* *
19771626 AGATACCCTTGTAGGGTA-AAAT
1 AAATACCCTCGTAGGGTAGAAAT
19771648 TACCATTTTA
Statistics
Matches: 162, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
53 49 0.30
54 113 0.70
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (54 bp):
AAATACCCTCGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCA
Found at i:19771660 original size:80 final size:79
Alignment explanation
Indices: 19771409--19771647 Score: 327
Period size: 81 Copynumber: 3.0 Consensus size: 79
19771399 ACAAAATTAT
* * * * * * *
19771409 CGAAATACCCTCGTAGGGTAGAAATGCCAAAATACCCTTGTAGGGTAGAAATACCAAAATACCCC
1 CGAAATACCCT-GTACGGTAGAATTACTAAAATACCC-TGTAGGGTAGAATTACCGAAATACCCT
19771474 TGTAGGGTAGAAATAC
64 TGTAGGGTAGAAATAC
*
19771490 CGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCT
1 CGAAATA-CCCTGTACGGTAGAATTACTAAAATA-CCCTGTAGGGTAGAATTACCGAAATACCCT
19771555 TGTAGGGTAGAAATAC
64 TGTAGGGTAGAAATAC
* * *
19771571 CGAAATACCCTGTACGGTAGAATTACTGAAATACTCCTGTAAGGTAGAATTACCGAGATACCCTT
1 CGAAATACCCTGTACGGTAGAATTACTAAAATAC-CCTGTAGGGTAGAATTACCGAAATACCCTT
19771636 GTAGGGTA-AAAT
65 GTAGGGTAGAAAT
19771648 TACCATTTTA
Statistics
Matches: 145, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
79 5 0.03
80 60 0.41
81 73 0.50
82 7 0.05
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (79 bp):
CGAAATACCCTGTACGGTAGAATTACTAAAATACCCTGTAGGGTAGAATTACCGAAATACCCTTG
TAGGGTAGAAATAC
Found at i:19771968 original size:27 final size:26
Alignment explanation
Indices: 19771930--19771989 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
19771920 ATGTATATAT
* *
19771930 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
19771956 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
19771983 ATATCTG
1 ATATCTG
19771990 GTAGCCTCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:19772116 original size:6 final size:6
Alignment explanation
Indices: 19772107--19772321 Score: 145
Period size: 6 Copynumber: 34.8 Consensus size: 6
19772097 TTGCATTCAC
* * *
19772107 ATTCTG ATTCTA ATTCTG -TTACCTA ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
19772156 -TTACCTA ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * *
19772206 ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG -TTACCTA ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * * *
19772256 ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTC ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* *
19772305 ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
19772322 AGTTCTAATA
Statistics
Matches: 161, Mismatches: 30, Indels: 36
0.71 0.13 0.16
Matches are distributed among these distances:
5 11 0.07
6 129 0.80
7 13 0.08
8 8 0.05
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:19772145 original size:31 final size:31
Alignment explanation
Indices: 19772107--19772309 Score: 182
Period size: 31 Copynumber: 6.5 Consensus size: 31
19772097 TTGCATTCAC
*
19772107 ATTCTGATTCTAATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
*
19772138 ATTCTGATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
* **
19772169 ATTCTGGTTCTGATTCTGATT--CTGTTACCTG
1 ATTCTGATTCTGATTCTG-TTACCTAATA-CTG
* *
19772200 ATACTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
* * * *
19772231 ATTCTGATTTTG-TTACCTAATT--CTGATTCTG
1 ATTCTGATTCTGATT--CT-GTTACCTAATACTG
* * * *
19772262 ATTCTGATTTTGATTCTGTCACCTCATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
*
19772293 ATTCTGATTTTGATTCT
1 ATTCTGATTCTGATTCT
19772310 CATTTTGATT
Statistics
Matches: 146, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
29 1 0.01
30 9 0.06
31 123 0.84
32 11 0.08
33 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTAATACTG
Found at i:19772166 original size:25 final size:24
Alignment explanation
Indices: 19772133--19772301 Score: 100
Period size: 25 Copynumber: 6.8 Consensus size: 24
19772123 TGTTACCTAA
19772133 TACTGATTCTGATTCTGATTCTGT
1 TACTGATTCTGATTCTGATTCTGT
* *
19772157 TACCTAATTCTGATTCTGGTTCTGAT
1 TA-CTGATTCTGATTCTGATTCTG-T
*
19772183 T-CTGATTCTG-TTACCTGATACTGAT
1 TACTGATTCTGATT--CTGATTCTG-T
*
19772208 T-CTGATTCTG-TTACCTGATACTGAT
1 TACTGATTCTGATT--CTGATTCTG-T
* *
19772233 T-CTGATTTTG-TTACCTAATTCTGAT
1 TACTGATTCTGATT--CTGATTCTG-T
*
19772258 T-CTGATTCTGATTTTGATTCTGT
1 TACTGATTCTGATTCTGATTCTGT
* *
19772281 CACCTCATTCTGATTCTGATT
1 TA-CTGATTCTGATTCTGATT
19772302 TTGATTCTCA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.02
24 17 0.14
25 100 0.81
26 4 0.03
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (24 bp):
TACTGATTCTGATTCTGATTCTGT
Found at i:19778957 original size:54 final size:54
Alignment explanation
Indices: 19778872--19779542 Score: 596
Period size: 54 Copynumber: 12.4 Consensus size: 54
19778862 AGATCCCAGG
* * * *
19778872 TTGTAAAATTACCGAAATACTCTC-GAATTGTAAAATTATCAAAATACCCCTAAT
1 TTGTAAAATTACCGAAATACCCCCAG-TTTGTAAAATTATCGAAATACCCCTAAT
* *
19778926 TTGTAAAATTACCAAAATACCCCCAGTTTGTAAAATTATTGAAATACCCC-AAGT
1 TTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTATCGAAATACCCCTAA-T
* * * *
19778980 TTTTAAAATTACTGAAATACCCCCAATTTGTAAAATTATCGAAATACCCCCAAT
1 TTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTATCGAAATACCCCTAAT
* * * * *
19779034 TTGTAAAATTATCGAAATACCCCTAATTTGTAAAATTACCGAAATA-CCCTCAAA
1 TTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTATCGAAATACCCCT-AAT
* * * * ** *
19779088 TTGTAAAATTATCGAAATACCCTCAAATTT-TAAAATTATCAAAATACCTTTAGT
1 TTGTAAAATTACCGAAATACCC-CCAGTTTGTAAAATTATCGAAATACCCCTAAT
* **** * *
19779142 TTGTAAAATTACCCAAATACCTTTGGATTATAAAATTATCGAAATAACCCC-AAT
1 TTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTATCGAAAT-ACCCCTAAT
* ** * * * *
19779196 TTGTAAAATTACTGAAATACCCTTAGATTGTAAAATTACCGAGATACCCCAAAT
1 TTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTATCGAAATACCCCTAAT
* ** * * * **
19779250 TTGTAAAATTACCCAAAATA-CCCTTGATTTGTAATATTACCAAAATACCCTCGGA-
1 TTGTAAAATTA-CCGAAATACCCCCAG-TTTGTAAAATTATCGAAATACCC-CTAAT
*
19779305 TTGTGAAATTACCGAAATACCCCCAGTTTGTAAAATTA-CGAAAATA-CCCTCAGA-
1 TTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTATCG-AAATACCCCT-A-AT
* * * * *
19779359 TTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTATAGAAATACTCCC-GAT
1 TTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTATCGAAATAC-CCCTAAT
* * *
19779413 TTGTAAAATTATCGAAATACCCCCAGTTTGTAAAATTACCGAAATA-CCCTATT
1 TTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTATCGAAATACCCCTAAT
* * **
19779466 TTGTAAAATTATCGAAATACCCCCAGTTTGTAAAATTA-CTGAAATA-CTCTTGT
1 TTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTATC-GAAATACCCCTAAT
*
19779519 AGTGTAAAATTACCGAAATACCCC
1 -TTGTAAAATTACCGAAATACCCC
19779543 TGTAGGGTAA
Statistics
Matches: 513, Mismatches: 81, Indels: 46
0.80 0.13 0.07
Matches are distributed among these distances:
52 5 0.01
53 65 0.13
54 384 0.75
55 54 0.11
56 5 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATTATCGAAATACCCCTAAT
Found at i:19779001 original size:81 final size:81
Alignment explanation
Indices: 19778866--19779542 Score: 602
Period size: 81 Copynumber: 8.4 Consensus size: 81
19778856 TCATTAAGAT
* * * * *
19778866 CCCAGGTTGTAAAATTACCGAAATACTCTCGAA--TTGTAAAATTATCAAAATACCCCTAATTTG
1 CCCAGTTTGTAAAATTACCGAAATAC-C-CCAAGTTTGTAAAATTACCGAAATACCCCCAATTTG
*
19778929 TAAAATTACCAAAATACC
64 TAAAATTACCGAAATACC
** * *
19778947 CCCAGTTTGTAAAATTATTGAAATACCCCAAGTTTTTAAAATTACTGAAATACCCCCAATTTGTA
1 CCCAGTTTGTAAAATTACCGAAATACCCCAAGTTTGTAAAATTACCGAAATACCCCCAATTTGTA
*
19779012 AAATTATCGAAATACC
66 AAATTACCGAAATACC
* * * *
19779028 CCCAATTTGTAAAATTATCGAAATACCCCTAA-TTTGTAAAATTACCGAAATACCCTCAAATTGT
1 CCCAGTTTGTAAAATTACCGAAATACCCC-AAGTTTGTAAAATTACCGAAATACCCCCAATTTGT
*
19779092 AAAATTATCGAAATACC
65 AAAATTACCGAAATACC
* * * * *** * **** *
19779109 CTCAAATTT-TAAAATTATCAAAATACCTTTAGTTTGTAAAATTACCCAAATACCTTTGGA-TTA
1 C-CCAGTTTGTAAAATTACCGAAATACCCCAAGTTTGTAAAATTACCGAAATACC-CCCAATTTG
* *
19779172 TAAAATTATCGAAATAAC
64 TAAAATTACCGAAATACC
* * ** * * *
19779190 CCCAATTTGTAAAATTACTGAAATACCCTTAGATTGTAAAATTACCGAGATACCCCAAATTTGTA
1 CCCAGTTTGTAAAATTACCGAAATACCCCAAGTTTGTAAAATTACCGAAATACCCCCAATTTGTA
*
19779255 AAATTACCCAAAATA-C
66 AAATTA-CCGAAATACC
** * * * * * *
19779271 CCTTGATTTGTAATATTACCAAAATACCCTC-GGATTGTGAAATTACCGAAATACCCCCAGTTTG
1 CCCAG-TTTGTAAAATTACCGAAATACCC-CAAGTTTGTAAAATTACCGAAATACCCCCAATTTG
19779335 TAAAATTA-CGAAAATACC
64 TAAAATTACCG-AAATACC
* * * ** * *
19779353 CTCAGATTGTAAAATTACCAAAATACCCTCAA-TTTGTAAAATTATAGAAATACTCCCGATTTGT
1 CCCAGTTTGTAAAATTACCGAAATACCC-CAAGTTTGTAAAATTACCGAAATACCCCCAATTTGT
*
19779417 AAAATTATCGAAATACC
65 AAAATTACCGAAATACC
* * * *
19779434 CCCAGTTTGTAAAATTACCGAAATA-CCCTATTTTGTAAAATTATCGAAATACCCCCAGTTTGTA
1 CCCAGTTTGTAAAATTACCGAAATACCCCAAGTTTGTAAAATTACCGAAATACCCCCAATTTGTA
*
19779498 AAATTACTGAAATA-C
66 AAATTACCGAAATACC
* ** *
19779513 TCTTGTAGTGTAAAATTACCGAAATACCCC
1 CCCAGT-TTGTAAAATTACCGAAATACCCC
19779543 TGTAGGGTAA
Statistics
Matches: 495, Mismatches: 83, Indels: 36
0.81 0.14 0.06
Matches are distributed among these distances:
79 9 0.02
80 71 0.14
81 338 0.68
82 77 0.16
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
CCCAGTTTGTAAAATTACCGAAATACCCCAAGTTTGTAAAATTACCGAAATACCCCCAATTTGTA
AAATTACCGAAATACC
Found at i:19779554 original size:27 final size:26
Alignment explanation
Indices: 19778872--19779545 Score: 449
Period size: 27 Copynumber: 25.0 Consensus size: 26
19778862 AGATCCCAGG
* *
19778872 TTGTAAAATTACCGAAATA-CTCTCGAA
1 TTGTAAAATTACCGAAATACCCCT-G-T
* * *
19778899 TTGTAAAATTATCAAAATACCCCTAAT
1 TTGTAAAATTACCGAAATACCCCT-GT
* *
19778926 TTGTAAAATTACCAAAATACCCCCAGT
1 TTGTAAAATTACCGAAATA-CCCCTGT
** *
19778953 TTGTAAAATTATTGAAATACCCCAAGT
1 TTGTAAAATTACCGAAATACCCC-TGT
* * **
19778980 TTTTAAAATTACTGAAATACCCCCAAT
1 TTGTAAAATTACCGAAATA-CCCCTGT
* **
19779007 TTGTAAAATTATCGAAATACCCCCAAT
1 TTGTAAAATTACCGAAATA-CCCCTGT
* *
19779034 TTGTAAAATTATCGAAATACCCCTAAT
1 TTGTAAAATTACCGAAATACCCCT-GT
***
19779061 TTGTAAAATTACCGAAATACCCTCAAA
1 TTGTAAAATTACCGAAATACCC-CTGT
* **
19779088 TTGTAAAATTATCGAAATACCCTCAAAT
1 TTGTAAAATTACCGAAATACCC-C-TGT
* * **
19779116 TT-TAAAATTATCAAAATACCTTTAGT
1 TTGTAAAATTACCGAAATACCCCT-GT
* ** *
19779142 TTGTAAAATTACCCAAATACCTTTGGA
1 TTGTAAAATTACCGAAATACCCCT-GT
* * **
19779169 TTATAAAATTATCGAAATAACCCCAAT
1 TTGTAAAATTACCGAAAT-ACCCCTGT
* * *
19779196 TTGTAAAATTACTGAAATACCCTTAGA
1 TTGTAAAATTACCGAAATACCCCT-GT
* **
19779223 TTGTAAAATTACCGAGATACCCCAAAT
1 TTGTAAAATTACCGAAATACCCC-TGT
* *
19779250 TTGTAAAATTACCCAAAATACCCTTGAT
1 TTGTAAAATTA-CCGAAATACCCCTG-T
* * * *
19779278 TTGTAATATTACCAAAATACCCTCGGA
1 TTGTAAAATTACCGAAATACCC-CTGT
* *
19779305 TTGTGAAATTACCGAAATACCCCCAGT
1 TTGTAAAATTACCGAAATA-CCCCTGT
* *
19779332 TTGTAAAATTA-CGAAAATACCCTCAGA
1 TTGTAAAATTACCG-AAATACCC-CTGT
* **
19779359 TTGTAAAATTACCAAAATACCCTCAAT
1 TTGTAAAATTACCGAAATACCC-CTGT
**
19779386 TTGTAAAATTATAGAAATACTCCC-GAT
1 TTGTAAAATTACCGAAATAC-CCCTG-T
* *
19779413 TTGTAAAATTATCGAAATACCCCCAGT
1 TTGTAAAATTACCGAAATA-CCCCTGT
*
19779440 TTGTAAAATTACCGAAATA-CCCTATT
1 TTGTAAAATTACCGAAATACCCCT-GT
* *
19779466 TTGTAAAATTATCGAAATACCCCCAGT
1 TTGTAAAATTACCGAAATA-CCCCTGT
* * *
19779493 TTGTAAAATTACTGAAATACTCTTGT
1 TTGTAAAATTACCGAAATACCCCTGT
*
19779519 AGTGTAAAATTACCGAAATACCCCTGT
1 -TTGTAAAATTACCGAAATACCCCTGT
19779546 AGGGTAAAAA
Statistics
Matches: 527, Mismatches: 93, Indels: 54
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.01
26 43 0.08
27 430 0.82
28 51 0.10
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACCGAAATACCCCTGT
Found at i:19783325 original size:56 final size:56
Alignment explanation
Indices: 19783259--19783370 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
19783249 ATAATGTACC
19783259 TTATACTTCATTGATTGATGTTGGATCTACGCATTCTTATATAGCATGCACTGTGT
1 TTATACTTCATTGATTGATGTTGGATCTACGCATTCTTATATAGCATGCACTGTGT
*
19783315 TTATACTTCATTGATTGATGTTGGATCTATGCATTCTTATATAGCATGCACTGTGT
1 TTATACTTCATTGATTGATGTTGGATCTACGCATTCTTATATAGCATGCACTGTGT
19783371 CTGAGACTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (56 bp):
TTATACTTCATTGATTGATGTTGGATCTACGCATTCTTATATAGCATGCACTGTGT
Found at i:19787632 original size:45 final size:45
Alignment explanation
Indices: 19787424--19787629 Score: 276
Period size: 45 Copynumber: 4.6 Consensus size: 45
19787414 CCGAAATTTT
* *
19787424 GCCTGCTAGGCTCAAA-GCCCG-ATA-TCCTTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATTATA
* * *
19787467 GCCTGCTAGGCTCGAAA-GCCTGAATAGTATCTCATCGGCATTGTA
1 GCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCGGCATTATA
* *
19787512 GCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATTATG
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
* *
19787557 GCCTGCTAGGCTCAAAGGCCCGAATAGTGTCTCACCGGTATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
*
19787602 GCCTGCTAGGGTCAAAGGCCCGAATAGT
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT
19787630 GTCGTACGAT
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
43 13 0.09
44 10 0.07
45 120 0.83
46 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
Found at i:19795276 original size:45 final size:45
Alignment explanation
Indices: 19795151--19795278 Score: 186
Period size: 45 Copynumber: 2.8 Consensus size: 45
19795141 CTTTCATCAA
* * * *
19795151 CATTATAGCCTGCTAGGCTCGAAA-GCTCAAATAGTATCTCACTGG
1 CATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTGTCTCACCGG
* *
19795196 CATTGTAGCCTGCTAGGCTCAAAGTCCCGAATAGTGTCTCACCGG
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTCTCACCGG
19795241 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
19795279 ATACAATAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
44 3 0.04
45 71 0.96
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (45 bp):
CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTCTCACCGG
Found at i:19803038 original size:40 final size:41
Alignment explanation
Indices: 19802983--19803335 Score: 404
Period size: 40 Copynumber: 8.8 Consensus size: 41
19802973 TACTCGAATG
* * *
19802983 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAG-CGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTTGCT
* * * *
19803023 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAG-CGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTTGCT
*
19803063 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTTGCT
* * *
19803103 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGAGATT--T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-AG-TTGCT
*
19803144 -TATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTTGCT
* * * *
19803183 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCT-AG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTTG-CT
* * *
19803223 TTATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTTGCT
19803263 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTTGCT
* * *
19803303 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT
19803336 TGTGGTTATA
Statistics
Matches: 273, Mismatches: 28, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 5 0.02
40 257 0.94
41 3 0.01
42 2 0.01
43 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTTGCT
Found at i:19803335 original size:120 final size:118
Alignment explanation
Indices: 19802983--19803354 Score: 460
Period size: 120 Copynumber: 3.1 Consensus size: 118
19802973 TACTCGAATG
* * * * * *
19802983 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGAGATATATCCGGGCTAAGACCCGAAGGCA
* * * * * * *
19803048 TTTGTGCTAAG-CGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
65 TTTGTGCT-AGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGTT
* * * * *
19803103 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGAGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGAGA-TATATCCGGGCTAAGACCCGAAGGCA
*
19803168 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
65 TTTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG-TT
* * *
19803223 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-AGATATATCCGGGCTAAGACCCGAAGGCA
*
19803288 TTTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
65 TTTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-GTT
19803343 ATATCC-GGCTAA
1 ATATCCGGGCTAA
19803355 ATTCCGAAGA
Statistics
Matches: 218, Mismatches: 29, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
119 13 0.06
120 202 0.93
121 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (118 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGAGATATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCTAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGTT
Found at i:19803350 original size:80 final size:80
Alignment explanation
Indices: 19802983--19803334 Score: 467
Period size: 80 Copynumber: 4.4 Consensus size: 80
19802973 TACTCGAATG
* * * * *
19802983 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAG-CGCTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTGCTATATCCGGGCTAAGACCCGAAGGC
** *
19803047 TTTTGTGCTAAGCGA-T
65 AATTGTGCT-AGTGATT
* *
19803063 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
*
19803128 ATTGTGCTAGAGATT
66 ATTGTGCTAGTGATT
* * *
19803143 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
19803208 ATTGTGCTAGTGATT
66 ATTGTGCTAGTGATT
* *
19803223 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
* *
19803288 TTTGTGCTAGTTG-CT
66 ATTGTGCTAG-TGATT
* * *
19803303 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
19803335 TTGTGGTTAT
Statistics
Matches: 248, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
79 6 0.02
80 240 0.97
81 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGATT
Found at i:19806648 original size:21 final size:20
Alignment explanation
Indices: 19806609--19806648 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19806599 ATTTACTTAT
*
19806609 TTTATTTTATTATACATTAG
1 TTTATTTTATTATAAATTAG
*
19806629 TTTATTATTATTGTAAATTA
1 TTTATT-TTATTATAAATTA
19806649 AGTAAACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTATTTTATTATAAATTAG
Found at i:19807442 original size:26 final size:26
Alignment explanation
Indices: 19807412--19807462 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
19807402 TAGTGCTTAG
19807412 TATGCTCGTATAAAGGAACTTAAACA
1 TATGCTCGTATAAAGGAACTTAAACA
19807438 TATGCTCGTATAAAGGAACTTAAAC
1 TATGCTCGTATAAAGGAACTTAAAC
19807463 TTACCAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (26 bp):
TATGCTCGTATAAAGGAACTTAAACA
Found at i:19808499 original size:60 final size:60
Alignment explanation
Indices: 19808432--19808548 Score: 234
Period size: 60 Copynumber: 1.9 Consensus size: 60
19808422 TAGTCATAAG
19808432 TACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAATGACCAGCATGTCCCT
1 TACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAATGACCAGCATGTCCCT
19808492 TACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAATGACCAGCATGTC
1 TACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAATGACCAGCATGTC
19808549 ATAAAACATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (60 bp):
TACATGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAATGACCAGCATGTCCCT
Found at i:19809130 original size:46 final size:46
Alignment explanation
Indices: 19809076--19809249 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
19809066 TTTGGGCATT
*
19809076 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* * * * * *
19809122 TGAACTCGTTGAGTTGAGTCTGAATTCA-TGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTC
* *
19809169 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* *
19809215 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19809250 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.58
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
Found at i:19812225 original size:15 final size:15
Alignment explanation
Indices: 19812186--19812256 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
19812176 GTATCTTGGG
*
19812186 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
19812201 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
19812216 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
19812231 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
19812246 TTTCTTTATTC
1 TTTCTTTATTC
19812257 CGTTTTCTTG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
14 2 0.04
15 41 0.91
16 2 0.04
ACGTcount: A:0.11, C:0.20, G:0.13, T:0.56
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:19812255 original size:30 final size:30
Alignment explanation
Indices: 19812177--19812258 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 30
19812167 CATAGTATCG
* *
19812177 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATCTCTC
* *
19812207 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATCTCTC
19812237 TATCTTGGATTTCTTTATTCCG
1 TATCTTGGATTTCTTTATTCCG
19812259 TTTTCTTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 1 0.02
30 40 0.89
31 4 0.09
ACGTcount: A:0.11, C:0.20, G:0.16, T:0.54
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATCTCTC
Found at i:19814549 original size:46 final size:46
Alignment explanation
Indices: 19814496--19814671 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
19814486 TATTTGGGCA
*
19814496 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
19814542 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
19814589 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
19814635 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19814672 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.06
46 60 0.55
47 29 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:19814651 original size:93 final size:93
Alignment explanation
Indices: 19814492--19814664 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
19814482 GGGATATTTG
* * *
19814492 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACGTCCCAACTCGTTGAG
19814557 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
19814585 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACGTCCCAA-CTCGTTGA
19814649 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
19814665 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCAAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:19816393 original size:20 final size:20
Alignment explanation
Indices: 19816370--19816412 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
19816360 AGGCACGATG
* *
19816370 GTGCAATTAGAGGCACCAAA
1 GTGCAATCAGAGACACCAAA
19816390 GTGCAATCAGAGACACCAAA
1 GTGCAATCAGAGACACCAAA
19816410 GTG
1 GTG
19816413 TAACAAAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.14
Consensus pattern (20 bp):
GTGCAATCAGAGACACCAAA
Found at i:19816430 original size:19 final size:20
Alignment explanation
Indices: 19816370--19816436 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
19816360 AGGCACGATG
* *
19816370 GTGCAATTAGAGGCACCAAA
1 GTGCAATCAAAGGCACCAAA
* *
19816390 GTGCAATCAGAGACACCAAA
1 GTGCAATCAAAGGCACCAAA
* *
19816410 GTGTAA-CAAAGGCACCCAA
1 GTGCAATCAAAGGCACCAAA
*
19816429 GTACAATC
1 GTGCAATC
19816437 CCGTACAAGC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 14 0.37
20 24 0.63
ACGTcount: A:0.42, C:0.24, G:0.21, T:0.13
Consensus pattern (20 bp):
GTGCAATCAAAGGCACCAAA
Found at i:19818876 original size:35 final size:35
Alignment explanation
Indices: 19818837--19818906 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
19818827 TCTACAATTG
19818837 ATCTATGTCCCAACTACAATTCAAGAACTTTTTTT
1 ATCTATGTCCCAACTACAATTCAAGAACTTTTTTT
19818872 ATCTATGTCCCAACTACAATTCAAGAACTTTTTTT
1 ATCTATGTCCCAACTACAATTCAAGAACTTTTTTT
19818907 TCTTCTTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (35 bp):
ATCTATGTCCCAACTACAATTCAAGAACTTTTTTT
Found at i:19823892 original size:17 final size:16
Alignment explanation
Indices: 19823869--19823903 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
19823859 TCACCCTACA
19823869 CGGTTCAGCACACGGG
1 CGGTTCAGCACACGGG
19823885 CNGGTTCAGCACACGGG
1 C-GGTTCAGCACACGGG
19823902 CG
1 CG
19823904 TGTGTCTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.17, C:0.31, G:0.37, T:0.11
Consensus pattern (16 bp):
CGGTTCAGCACACGGG
Found at i:19831037 original size:27 final size:27
Alignment explanation
Indices: 19830999--19831054 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
19830989 TGGATGAAAT
19830999 ATGTTTGTTTTATTTCATTTCATCATA
1 ATGTTTGTTTTATTTCATTTCATCATA
*
19831026 ATGTTTGTTTTATTTTATTTCATCATA
1 ATGTTTGTTTTATTTCATTTCATCATA
19831053 AT
1 AT
19831055 ACACTAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.61
Consensus pattern (27 bp):
ATGTTTGTTTTATTTCATTTCATCATA
Found at i:19835170 original size:27 final size:26
Alignment explanation
Indices: 19835122--19835181 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
19835112 GCGAAGCTGC
*
19835122 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
19835149 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
19835175 CAGATAT
1 CAGATAT
19835182 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:19835194 original size:33 final size:32
Alignment explanation
Indices: 19835143--19835206 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
19835133 ACAAAGTCAC
* *
19835143 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
19835175 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
19835207 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:19847880 original size:46 final size:46
Alignment explanation
Indices: 19847830--19847999 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 46
19847820 TTGAGCATCC
*
19847830 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
* * * * * *
19847876 GAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGTATT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGT-CT
* * * * *
19847922 CGAACTCGTGGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCC
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
* *
19847969 GAGCTGGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
19848000 GGGGCGGGTT
Statistics
Matches: 97, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 53 0.55
47 24 0.25
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
Found at i:19852146 original size:48 final size:48
Alignment explanation
Indices: 19852075--19852427 Score: 652
Period size: 48 Copynumber: 7.4 Consensus size: 48
19852065 AAGCTATTGC
19852075 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
19852123 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
*
19852171 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
* *
19852219 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCAAGTG
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
*
19852267 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
*
19852315 TGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
19852363 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
*
19852411 TGAAATATGTAGGAGAT
1 TGAAATATGTATGAGAT
19852428 GTGTGTATAT
Statistics
Matches: 294, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 294 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTG
Found at i:19858369 original size:16 final size:16
Alignment explanation
Indices: 19858345--19858380 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
19858335 CCATCTGTCT
19858345 GTTTAAATTTTTCTAA
1 GTTTAAATTTTTCTAA
*
19858361 GTTTGAATTTTTCTAA
1 GTTTAAATTTTTCTAA
19858377 GTTT
1 GTTT
19858381 TTCCTCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.58
Consensus pattern (16 bp):
GTTTAAATTTTTCTAA
Found at i:19860307 original size:46 final size:44
Alignment explanation
Indices: 19860254--19860424 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 44
19860244 GACGAGAGCT
**
19860254 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGTGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGT--GCC
*
19860300 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTGCC
* * *
19860344 AGTGTAAGACCATGTCTGGGACATGGCATTGGC-ACATATAGAGGTGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC--A-AGATGTGCC
* *
19860392 AATGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
19860425 ACAGATATGT
Statistics
Matches: 111, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
44 11 0.10
45 18 0.16
46 43 0.39
47 1 0.01
48 38 0.34
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTGCC
Found at i:19860402 original size:48 final size:47
Alignment explanation
Indices: 19860299--19860468 Score: 188
Period size: 48 Copynumber: 3.6 Consensus size: 47
19860289 TGATGTAAGC
*
19860299 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-A-AGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAATAGAGGTGT
*
19860343 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACATATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACA-ATAGAGGTGT
* * * *
19860391 CAATGTAAGACCATGTCTAGGACATGGCATCGGCACAGATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACA-ATA-GAG-GTGT
*
19860440 CTAGTGTAAGACCATGTTTGGGACATGGC
1 C-AGTGTAAGACCATGTCTGGGACATGGC
19860469 GTTAGCCTCG
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
44 10 0.09
45 16 0.15
46 7 0.07
47 1 0.01
48 44 0.41
49 3 0.03
50 26 0.24
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAATAGAGGTGT
Found at i:19867159 original size:21 final size:21
Alignment explanation
Indices: 19867135--19867175 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19867125 ATTCAGCCGT
* *
19867135 GTACAATAATACACGGGCGTG
1 GTACAAGAACACACGGGCGTG
*
19867156 GTACCAGAACACACGGGCGT
1 GTACAAGAACACACGGGCGT
19867176 AGGAGAAGCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.24, G:0.29, T:0.15
Consensus pattern (21 bp):
GTACAAGAACACACGGGCGTG
Found at i:19869097 original size:12 final size:12
Alignment explanation
Indices: 19869080--19869113 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
19869070 CCTCTTATTT
*
19869080 TTTTTATTTTTA
1 TTTTTATGTTTA
19869092 TTTTTATGTTTA
1 TTTTTATGTTTA
19869104 TTTTT-TGTTT
1 TTTTTATGTTT
19869114 TAAGGACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (12 bp):
TTTTTATGTTTA
Found at i:19872028 original size:13 final size:13
Alignment explanation
Indices: 19872012--19872044 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19872002 TTTGATTAAA
*
19872012 TTAGTTAATTAGT
1 TTAGATAATTAGT
19872025 TTAGATAATTAGT
1 TTAGATAATTAGT
19872038 TTA-ATAA
1 TTAGATAA
19872045 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:19876454 original size:40 final size:40
Alignment explanation
Indices: 19876389--19876509 Score: 197
Period size: 40 Copynumber: 3.0 Consensus size: 40
19876379 CAAATGTAAC
* * *
19876389 AACCAGCACGAATGCCTTCGAGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
19876429 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
19876469 AACCCGCACGAATGCCTTCGGGACTTAACCCGGCTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
19876509 A
1 A
19876510 GCTAGCACAA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:19876525 original size:40 final size:40
Alignment explanation
Indices: 19876389--19876569 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
19876379 CAAATGTAAC
* *
19876389 AACCAGCACGAATGCCTTCGAGACTTAGCCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
19876429 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
19876469 AACCCGCACGAATGCCTTCGGGACTTAACCCGGCTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * ** * *
19876509 AGCTAGCAC-AATTGCCTTC-GGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* * *
19876549 GACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
19876570 ATCTTAGTCC
Statistics
Matches: 122, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.04
40 114 0.93
41 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:19884627 original size:40 final size:40
Alignment explanation
Indices: 19884578--19884700 Score: 228
Period size: 40 Copynumber: 3.1 Consensus size: 40
19884568 CGGATGTAAA
* *
19884578 AACCAGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
19884618 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
19884658 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
19884698 AAC
1 AAC
19884701 TAGCACAATT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:19884752 original size:80 final size:80
Alignment explanation
Indices: 19884568--19884758 Score: 224
Period size: 80 Copynumber: 2.4 Consensus size: 80
19884558 GAACTTGGTT
* * * *
19884568 CGGATGTAAAAACCAGCACGAATGCCTTCGGGACTTAGCCCGGTTATAATAACCCGCACGAATGC
1 CGGATATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGCACGAATGC
*
19884633 CTTCGGGACTTAACC
66 CGTCGGGACTTAACC
* * *
19884648 CGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACTAGCAC-AATTG
1 CGGATATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGCACGAA-TG
**
19884712 CCGTC-GGATCTTAGTC
65 CCGTCGGGA-CTTAACC
* * * *
19884728 CGGATATAGTGACTAGCACAAATGCCTTCGG
1 CGGATATAATAACCAGCACGAATGCCTTCGG
19884759 ATCTTAGTCC
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 5 0.05
80 88 0.95
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (80 bp):
CGGATATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGCACGAATGC
CGTCGGGACTTAACC
Found at i:19884759 original size:40 final size:40
Alignment explanation
Indices: 19884554--19884774 Score: 169
Period size: 40 Copynumber: 5.5 Consensus size: 40
19884544 TATGACTACT
* * * * * * *
19884554 TTCGGAACTTGGTTCGGATGTAAAAACCAGCACGAATGCC
1 TTCGGATCTTAGTCCGGATATAATAACTAGCACAAATGCC
* * ** *
19884594 TTCGGGA-CTTAGCCCGGTTATAATAACCCGCACGAATGCC
1 TTC-GGATCTTAGTCCGGATATAATAACTAGCACAAATGCC
** * ** *
19884634 TTCGGGA-CTTAACCCGGTTATAATAACCCGCACGAATGCC
1 TTC-GGATCTTAGTCCGGATATAATAACTAGCACAAATGCC
** * *
19884674 TTCGGGA-CTTAACCCGGTTATAATAACTAGCACAATTGCC
1 TTC-GGATCTTAGTCCGGATATAATAACTAGCACAAATGCC
* * *
19884714 GTCGGATCTTAGTCCGGATATAGTGACTAGCACAAATGCC
1 TTCGGATCTTAGTCCGGATATAATAACTAGCACAAATGCC
19884754 TTCGGATCTTAGTCCGGATAT
1 TTCGGATCTTAGTCCGGATAT
19884775 CATCCGAATA
Statistics
Matches: 159, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 3 0.02
40 153 0.96
41 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCGGATCTTAGTCCGGATATAATAACTAGCACAAATGCC
Found at i:19885971 original size:13 final size:13
Alignment explanation
Indices: 19885953--19885978 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19885943 ATTTTTATTT
19885953 TTAACATAAAATA
1 TTAACATAAAATA
19885966 TTAACATAAAATA
1 TTAACATAAAATA
19885979 ATTACAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:19889013 original size:27 final size:26
Alignment explanation
Indices: 19888955--19889065 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
19888945 AGCATGGCTG
* *
19888955 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
19888981 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
19889008 CGAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
19889035 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
19889062 CCAG
1 CCAG
19889066 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:19890471 original size:24 final size:24
Alignment explanation
Indices: 19890436--19890488 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
19890426 CCAACACCGT
19890436 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTAATCAGCTCCTAAATCC
* *
19890460 TCTCCCTTATCAGCTCCTAAATCT
1 TCTCCCTAATCAGCTCCTAAATCC
19890484 TCTCC
1 TCTCC
19890489 TGATAGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.21, C:0.42, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTAATCAGCTCCTAAATCC
Found at i:19893258 original size:55 final size:54
Alignment explanation
Indices: 19893123--19893260 Score: 150
Period size: 55 Copynumber: 2.5 Consensus size: 54
19893113 GTTTAAGGAT
* * * ** *
19893123 ACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAATTTTTACAAGGCAAGGAA
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAA
* * * * * *
19893177 ATCATGTAAGACCATGTCTAGACATGGCATTGATAAACTACTATAAGGCAAAGAT
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAAGAA
*
19893232 CCCATGTAAGACCATGCCAAGGCATGGCA
1 ACCATGTAAGACCATGCCAAGGCATGGCA
19893261 ATGGTGAGTT
Statistics
Matches: 66, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
54 28 0.42
55 38 0.58
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (54 bp):
ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAA
Found at i:19893324 original size:53 final size:53
Alignment explanation
Indices: 19893218--19893325 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 53
19893208 GATAAACTAC
* * ** * * *
19893218 TATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTT
1 TATAAGGCAAAGATACCACGTAAGACCATGCCAAGAAATGGAAAGGGTAAGTT
* *
19893271 TATAAGGCAAGGATACCACGTAAGACCATGTCAAGAAATGGAAAGGGTAAGTT
1 TATAAGGCAAAGATACCACGTAAGACCATGCCAAGAAATGGAAAGGGTAAGTT
19893324 TA
1 TA
19893326 AAAAGGAATG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (53 bp):
TATAAGGCAAAGATACCACGTAAGACCATGCCAAGAAATGGAAAGGGTAAGTT
Found at i:19906705 original size:22 final size:21
Alignment explanation
Indices: 19906679--19906719 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
19906669 GTTGAAATGT
*
19906679 CACACGGGTGTGTTGTCCCTCC
1 CACACGGGCGTG-TGTCCCTCC
19906701 CACACGGGCGTGTGTCCCT
1 CACACGGGCGTGTGTCCCT
19906720 GTGTTAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.37, G:0.29, T:0.24
Consensus pattern (21 bp):
CACACGGGCGTGTGTCCCTCC
Found at i:19919416 original size:45 final size:46
Alignment explanation
Indices: 19919331--19919422 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 46
19919321 GATACTCGAA
* *
19919331 TAATCACATATATCGTACAATGCCAACGTCCTAGGCATGGTCTTACATG
1 TAATCACATATATCG---AATGCCAACGTCCCAGACATGGTCTTACATG
*
19919380 TAATCACATATATCG-ATGCCAACGTCCCAGATATGGTCTTACA
1 TAATCACATATATCGAATGCCAACGTCCCAGACATGGTCTTACA
19919423 CGAGAACAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
45 25 0.62
49 15 0.38
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (46 bp):
TAATCACATATATCGAATGCCAACGTCCCAGACATGGTCTTACATG
Found at i:19921309 original size:28 final size:28
Alignment explanation
Indices: 19921278--19921350 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
19921268 TGGTGATATC
*
19921278 TGTTAAAGGAAACCTTTATGGCAATCTA
1 TGTTAAAGGAAGCCTTTATGGCAATCTA
* *
19921306 TGTTAAAGGAAGCCTTTGTGGCAATCTC
1 TGTTAAAGGAAGCCTTTATGGCAATCTA
*
19921334 TATTAAAGGAAGCCTTT
1 TGTTAAAGGAAGCCTTT
19921351 CTAGTCTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (28 bp):
TGTTAAAGGAAGCCTTTATGGCAATCTA
Found at i:19925271 original size:77 final size:77
Alignment explanation
Indices: 19925189--19925341 Score: 261
Period size: 77 Copynumber: 2.0 Consensus size: 77
19925179 ATGTTGAAAC
* *
19925189 TTGATTGGTTTTCTTGCAAAATTTTAGAATTTAATGGATGATTAGGATGTAAATAAATTCAGCAA
1 TTGATTGGTTTTCTTGCAAAATTTTAGAATTTAAGGGATGATTAGGATGAAAATAAATTCAGCAA
19925254 TATGGATTAGGT
66 TATGGATTAGGT
* **
19925266 TTGATTGGTTTTCTTGCGAAATTTTAGAATTTAAGGGATGATTTTGATGAAAATAAATTCAGCAA
1 TTGATTGGTTTTCTTGCAAAATTTTAGAATTTAAGGGATGATTAGGATGAAAATAAATTCAGCAA
19925331 TATGGATTAGG
66 TATGGATTAGG
19925342 GATTAATTGT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (77 bp):
TTGATTGGTTTTCTTGCAAAATTTTAGAATTTAAGGGATGATTAGGATGAAAATAAATTCAGCAA
TATGGATTAGGT
Found at i:19931156 original size:25 final size:25
Alignment explanation
Indices: 19931128--19931269 Score: 171
Period size: 25 Copynumber: 5.7 Consensus size: 25
19931118 ATAATAATAC
19931128 GATCGGCACAAAGCCATCGATAACA
1 GATCGGCACAAAGCCATCGATAACA
* *
19931153 GATCGACACATAGCCATC-A-AATCA
1 GATCGGCACAAAGCCATCGATAA-CA
* * *
19931177 TATCAGTACAAAGCCATCGATAACA
1 GATCGGCACAAAGCCATCGATAACA
* * *
19931202 GATCGGCACATAGCCATCAATATCA
1 GATCGGCACAAAGCCATCGATAACA
*
19931227 TATCGGCACAAAGCCATCGATAACA
1 GATCGGCACAAAGCCATCGATAACA
*
19931252 GATCGGCACATAGCCATC
1 GATCGGCACAAAGCCATC
19931270 AATATCATAT
Statistics
Matches: 95, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
23 2 0.02
24 16 0.17
25 75 0.79
26 2 0.02
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.17
Consensus pattern (25 bp):
GATCGGCACAAAGCCATCGATAACA
Found at i:19931248 original size:50 final size:50
Alignment explanation
Indices: 19931129--19931280 Score: 270
Period size: 50 Copynumber: 3.1 Consensus size: 50
19931119 TAATAATACG
*
19931129 ATCGGCACAAAGCCATCGATAACAGATCGACACATAGCCATCAA-ATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
* *
19931178 ATCAGTACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
19931228 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
19931278 ATC
1 ATC
19931281 TGTAACACCT
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 41 0.42
50 56 0.58
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.18
Consensus pattern (50 bp):
ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
Found at i:19932683 original size:49 final size:49
Alignment explanation
Indices: 19932610--19932793 Score: 242
Period size: 49 Copynumber: 3.7 Consensus size: 49
19932600 CGAAGCTATT
* *
19932610 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
* * * * * *
19932659 TGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCACAGTTTTC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATC
* *
19932710 AGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
* *
19932759 CGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACA
19932794 CGTGACCTCA
Statistics
Matches: 114, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 73 0.64
50 2 0.02
51 39 0.34
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
Found at i:19932725 original size:100 final size:100
Alignment explanation
Indices: 19932611--19932798 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
19932601 GAAGCTATTT
*
19932611 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
19932676 TGTACTTAGTACTACACACGTGATCACAGTTTTCA
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCA
*
19932711 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
19932776 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
19932799 CCTCACAATA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCA
Found at i:19934425 original size:27 final size:27
Alignment explanation
Indices: 19934395--19934597 Score: 119
Period size: 27 Copynumber: 7.6 Consensus size: 27
19934385 GAAAGCCAAT
* *
19934395 GGTATTTCTGTAATTTTGTAAATCAGG
1 GGTATTTCTGTAATTTTATAAATCAAG
* *
19934422 GGTATTTCTGTAATTTTACAAATTAAG
1 GGTATTTCTGTAATTTTATAAATCAAG
* * * *
19934449 GGTATTTC-GATAATTTCACAAATTAGG
1 GGTATTTCTG-TAATTTTATAAATCAAG
* * *
19934476 GGTATTT-TGGTAATTTTACAAATTAGG
1 GGTATTTCT-GTAATTTTATAAATCAAG
* **
19934503 GGTATTT-TGGTAATTTT-TCTAATTGAG
1 GGTATTTCT-GTAATTTTAT-AAATCAAG
* * * *
19934530 GGTATTTTTGTAATTTTGTAAACCAAA
1 GGTATTTCTGTAATTTTATAAATCAAG
** * *
19934557 GGTA-TTCAATAATTTTGTAAACCAAG
1 GGTATTTCTGTAATTTTATAAATCAAG
* *
19934583 GGCATTTCAGTAATT
1 GGTATTTCTGTAATT
19934598 CTACCCTACA
Statistics
Matches: 147, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
26 22 0.15
27 122 0.83
28 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.43
Consensus pattern (27 bp):
GGTATTTCTGTAATTTTATAAATCAAG
Found at i:19934463 original size:54 final size:54
Alignment explanation
Indices: 19934395--19934597 Score: 162
Period size: 54 Copynumber: 3.8 Consensus size: 54
19934385 GAAAGCCAAT
19934395 GGTATTTCTG-TAATTTTGTAAATCAGGGGTATTTCTGTAATTTTACAAATTAAG
1 GGTATTTC-GATAATTTTGTAAATCAGGGGTATTTCTGTAATTTTACAAATTAAG
*** * *
19934449 GGTATTTCGATAATTTCACAAATTAGGGGTATTT-TGGTAATTTTACAAATTAGG
1 GGTATTTCGATAATTTTGTAAATCAGGGGTATTTCT-GTAATTTTACAAATTAAG
* * * * * * ** ** *
19934503 GGTATTTTGGTAATTTTTCTAATTGA-GGGTATTTTTGTAATTTTGTAAACCAAA
1 GGTATTTCGATAA-TTTTGTAAATCAGGGGTATTTCTGTAATTTTACAAATTAAG
* * * * *
19934557 GGTA-TTCAATAATTTTGTAAACCAAGGGCATTTCAGTAATT
1 GGTATTTCGATAATTTTGTAAATCAGGGGTATTTCTGTAATT
19934598 CTACCCTACA
Statistics
Matches: 116, Mismatches: 28, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
52 8 0.07
53 20 0.17
54 80 0.69
55 8 0.07
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.43
Consensus pattern (54 bp):
GGTATTTCGATAATTTTGTAAATCAGGGGTATTTCTGTAATTTTACAAATTAAG
Found at i:19934612 original size:27 final size:27
Alignment explanation
Indices: 19934582--19934662 Score: 135
Period size: 27 Copynumber: 3.0 Consensus size: 27
19934572 TGTAAACCAA
19934582 GGGCATTTCAGTAATTCTACCCTACAG
1 GGGCATTTCAGTAATTCTACCCTACAG
*
19934609 GGGCATTTCAGTAATTCTATCCTACAG
1 GGGCATTTCAGTAATTCTACCCTACAG
* *
19934636 GGGCATTTCAGTAATACTAGCCTACAG
1 GGGCATTTCAGTAATTCTACCCTACAG
19934663 ATATGAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (27 bp):
GGGCATTTCAGTAATTCTACCCTACAG
Found at i:19937488 original size:25 final size:25
Alignment explanation
Indices: 19937458--19937523 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
19937448 CGATCGACAT
*
19937458 AAAGCCATCGATAACAAATCGGTAT
1 AAAGCCATCGATAACAAATCGGTAC
* * * *
19937483 ATAGCCATCAATATCATATCGGTAC
1 AAAGCCATCGATAACAAATCGGTAC
19937508 AAAGCCATCGATAACA
1 AAAGCCATCGATAACA
19937524 GAATAATTGG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (25 bp):
AAAGCCATCGATAACAAATCGGTAC
Found at i:19938112 original size:81 final size:81
Alignment explanation
Indices: 19937969--19938232 Score: 241
Period size: 81 Copynumber: 3.3 Consensus size: 81
19937959 ATCTATAAAC
* ** * ** ** *
19937969 CAAGGGTATTTCAGTAATTTTTAAAAGTCAATGGTATTTTTTTAATTTTTTAAAT-TAGGGGTAT
1 CAAGGGTATTTCGGTAATTTTCCAAA-TCAAGGGTATTTTGGTAATTTTACAAATCGA-GGGTAT
19938033 TTCTA-TAATTTTC-CAAAT
64 TTC-AGTAA-TTTCACAAAT
*
19938051 CAATGGTATTTCGGTAATTTTCCAAATC-AGAGGTATTTTGGTAATTTTACAAATCGAGGGTATT
1 CAAGGGTATTTCGGTAATTTTCCAAATCAAG-GGTATTTTGGTAATTTTACAAATCGAGGGTATT
19938115 TCAGTAATTTCACAAAT
65 TCAGTAATTTCACAAAT
* * * * ** * * *
19938132 CAGGGGTATTTTGGTAATTTTTCTAATCAAGGGTATTTTGGTAATTTTGTAAACCAAAGGTA-TT
1 CAAGGGTATTTCGGTAATTTTCCAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTT
* * *
19938196 CAGTAATTTTATAAAA
66 CAGTAATTTCACAAAT
*
19938212 CAAGGGTATTTCAGTAATTTT
1 CAAGGGTATTTCGGTAATTTT
19938233 ACCCTACAGG
Statistics
Matches: 151, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
80 39 0.26
81 87 0.58
82 25 0.17
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (81 bp):
CAAGGGTATTTCGGTAATTTTCCAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTT
CAGTAATTTCACAAAT
Found at i:19938233 original size:27 final size:27
Alignment explanation
Indices: 19937942--19938233 Score: 198
Period size: 27 Copynumber: 10.8 Consensus size: 27
19937932 TTTCACCCTA
* * * * *
19937942 CAAGGGTGTTTTAGTAAATCTATAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
19937969 CAAGGGTATTTCAGTAATTTT-TAAAAGT
1 CAAGGGTATTTCAGTAATTTTAT-AAA-T
* *** *
19937997 CAATGGTATTTTTTTAATTTTTTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* * **
19938024 TAGGGGTATTTCTA-TAATTTTCCAAAT
1 CAAGGGTATTTC-AGTAATTTTATAAAT
* * **
19938051 CAATGGTATTTCGGTAATTTTCCAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
** *
19938078 C-AGAGGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTCAGTAATTTTATAAAT
* * *
19938105 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* ** *
19938132 CAGGGGTATTTTGGTAATTTT-TCTAAT
1 CAAGGGTATTTCAGTAATTTTAT-AAAT
** * *
19938159 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
* *
19938186 CAAAGGTA-TTCAGTAATTTTATAAAA
1 CAAGGGTATTTCAGTAATTTTATAAAT
19938212 CAAGGGTATTTCAGTAATTTTA
1 CAAGGGTATTTCAGTAATTTTA
19938234 CCCTACAGGG
Statistics
Matches: 213, Mismatches: 42, Indels: 20
0.77 0.15 0.07
Matches are distributed among these distances:
26 23 0.11
27 166 0.78
28 23 0.11
29 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTATAAAT
Found at i:19938249 original size:27 final size:27
Alignment explanation
Indices: 19938219--19938319 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
19938209 AAACAAGGGT
* *
19938219 ATTTCAGTAATTTTACCCTACAGGGGC
1 ATTTCAGTAATTCTACCCTATAGGGGC
* * *
19938246 ATTTCAATAATTCTATCTTATAGGGGC
1 ATTTCAGTAATTCTACCCTATAGGGGC
* *
19938273 ATTTTAGTAATTCTACCCTATAGGGGT
1 ATTTCAGTAATTCTACCCTATAGGGGC
* *
19938300 ATTTCAGTAATACTAGCCTA
1 ATTTCAGTAATTCTACCCTA
19938320 CAGATATGAG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTATAGGGGC
Done.