Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold1032.1
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: 601554
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 16762 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:5863 original size:40 final size:40
Alignment explanation
Indices: 5826--6010 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
5816 GCTACTCGTT
*
5826 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
5866 CAATTGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
5906 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
5945 TAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
5986 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6011 CATCATTCAA
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:5953 original size:79 final size:81
Alignment explanation
Indices: 5826--6008 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 81
5816 GCTACTCGTT
* ** * *
5826 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTTGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCC-TTCGGATCTTAACCCG
* *
5890 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* * **
5906 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCATAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
5969 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
5986 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
6009 GACATCATTC
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 5 0.06
79 49 0.57
80 32 0.37
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:11235 original size:24 final size:24
Alignment explanation
Indices: 11208--11308 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
11198 AAGGCTGTCA
*
11208 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
11232 GGAGAGGATTTAGGAGATGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
11256 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
11280 GGAGAGGATTTAGGAGTTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
11304 GGAGA
1 GGAGA
11309 ACGGTGTTGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.35, C:0.02, G:0.43, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:12784 original size:27 final size:27
Alignment explanation
Indices: 12740--12844 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
12730 AGGAAGCGTC
* *
12740 CTGGTGGCTATGCGACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
12767 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
*
12794 CTGGTGGCTCTGCCACAATTATCT-ATT
1 CTGGTGGCTCTGCCACATTTATCTGA-T
* *
12821 CTGGTGACTCTGTCACA-TTATCTG
1 CTGGTGGCTCTGCCACATTTATCTG
12845 TTCTTGCAGC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.09
27 61 0.91
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGAT
Found at i:12824 original size:54 final size:53
Alignment explanation
Indices: 12740--12848 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 53
12730 AGGAAGCGTC
* * *
12740 CTGGTGGCTATGCGACATTTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* *
12794 CTGGTGGCTCTGCCACAATTATCT-ATTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGA-TCTGGTGACTCTGCCACATTATCTGTT
12847 CT
1 CT
12849 TGCAGCAATG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 11 0.22
54 38 0.78
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:14851 original size:55 final size:54
Alignment explanation
Indices: 14774--15029 Score: 226
Period size: 55 Copynumber: 4.8 Consensus size: 54
14764 CATTAGGGTT
*
14774 TAAGGATACCATGTAAGACCATG-CTAAGGCATGGCAATTGGTAAGGTTTTTAAGG
1 TAAGGATACCATGTAAGACCATGTC-AAGGCATGGCAATTGGTAA-GTTTATAAGG
* * * * *
14829 TAAGGAAATCATGTAAGACCATGTCAAGACATGG-TATTGATAAGTTACTATAAGG
1 TAAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGTT--TATAAGG
* * * * * *
14884 CAAAGG-TCCCATCTAAGACCATGCCAAGGCATGGC-ATTGGTGAGTTCATAAGG
1 -TAAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGTTTATAAGG
* * *
14937 CAAGGATACCATGTAAGACCATGTCAAGTCATGGCAA-TGGTAAGTTT-CAA--
1 TAAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGTTTATAAGG
* * * *
14987 -AAGGATACCACGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 TAAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAG
15030 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
48 2 0.01
49 38 0.23
52 6 0.04
53 42 0.25
54 8 0.05
55 66 0.40
56 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (54 bp):
TAAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGTTTATAAGG
Found at i:14981 original size:108 final size:110
Alignment explanation
Indices: 14782--14982 Score: 280
Period size: 108 Copynumber: 1.8 Consensus size: 110
14772 TTTAAGGATA
* * ** * *
14782 CCATGTAAGACCATGCTAAGGCATGGCAATTGGTAAGGTTTTTAAGGTAAGGAAATCATGTAAGA
1 CCATCTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
* *
14847 CCATGTCAAGACATGGTATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
14892 CCATCTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GTTCATAAGGCAAGGATACCATGTAAGA
1 CCATCTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
* *
14955 CCATGTCAAGTCATGGCAATGGTAAGTT
66 CCATGTCAAGACATGGCAATGATAAGTT
14983 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
108 47 0.59
109 7 0.09
110 25 0.32
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (110 bp):
CCATCTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:19965 original size:50 final size:50
Alignment explanation
Indices: 19866--19979 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
19856 TGGTTGGTAT
*
19866 CAAAGCTAGCCAAGTTGGGTTAAGGCTCATGAGGCTAGAGTTCACCGAGC
1 CAAAGCTAGCCAAGTTGGGTTAAGACTCATGAGGCTAGAGTTCACCGAGC
* * * **
19916 CAAAGCTAGCTAGGTTGGGTATAA-ACTCTTGAGGCTAGAGTTCTTCGAGC
1 CAAAGCTAGCCAAGTTGGGT-TAAGACTCATGAGGCTAGAGTTCACCGAGC
* *
19966 TAGAGCTAGCCAAG
1 CAAAGCTAGCCAAG
19980 ATAAGTTTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 50 0.94
51 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
CAAAGCTAGCCAAGTTGGGTTAAGACTCATGAGGCTAGAGTTCACCGAGC
Found at i:22765 original size:28 final size:30
Alignment explanation
Indices: 22689--22794 Score: 101
Period size: 33 Copynumber: 3.5 Consensus size: 30
22679 AACAATAGAT
* *
22689 AGATAGCCACAAAGGCGTCCAAAT-ACATACAC
1 AGATAGCCACAAAGGCATCCACATAACAT---C
* ** *
22721 AAGATAGCCACAGAGGCATCCATGT-AGAT-
1 -AGATAGCCACAAAGGCATCCACATAACATC
22750 AGATAGCCACAAAGGCATCCACATAACATC
1 AGATAGCCACAAAGGCATCCACATAACATC
22780 AGATAGCCACAAAGG
1 AGATAGCCACAAAGG
22795 TGTCCTCATA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 21 0.34
29 3 0.05
30 15 0.24
33 23 0.37
ACGTcount: A:0.42, C:0.25, G:0.19, T:0.13
Consensus pattern (30 bp):
AGATAGCCACAAAGGCATCCACATAACATC
Found at i:26979 original size:29 final size:29
Alignment explanation
Indices: 26914--27032 Score: 125
Period size: 29 Copynumber: 4.2 Consensus size: 29
26904 TATATACATG
* * *
26914 CATATAGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * *
26942 CAAATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * **
26971 CTTATGGCCCACTAGGCCCAATTCACCTT
1 CATATGGCCCATTAGGCCCAATTCATATT
*
27000 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
27029 -ATAT
1 CATAT
27033 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
28 20 0.28
29 52 0.72
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:27019 original size:58 final size:57
Alignment explanation
Indices: 26920--27028 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 57
26910 CATGCATATA
* * **
26920 GCCCACTAGGCCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTCATATTCTTATG
1 GCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCTTATG
*
26977 GCCCACTAGGCCCAAT-TCACCTTCATATGGCCCATTAGGCCCAAATCATATT
1 GCCCACTAGGCCCAATCTCA--TTCAAATGGCCCATTAGGCCCAAATCATATT
27029 ATATTCATGC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 2 0.04
57 16 0.36
58 27 0.60
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCTTATG
Found at i:27123 original size:18 final size:19
Alignment explanation
Indices: 27100--27137 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
27090 ATGGGCCCAA
27100 TAGCCCA-TCAGGCCCATT
1 TAGCCCATTCAGGCCCATT
*
27118 TAGCCCATTCTGGCCCATT
1 TAGCCCATTCAGGCCCATT
27137 T
1 T
27138 GGCCAATCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.18, C:0.37, G:0.16, T:0.29
Consensus pattern (19 bp):
TAGCCCATTCAGGCCCATT
Found at i:28407 original size:16 final size:16
Alignment explanation
Indices: 28386--28418 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
28376 AAACCCTCAA
28386 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
28402 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
28418 G
1 G
28419 GGCGTTACAA
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:0.12, C:0.06, G:0.33, T:0.48
Consensus pattern (16 bp):
GATTTCGGGATTTTTG
Found at i:29520 original size:9 final size:9
Alignment explanation
Indices: 29506--29532 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
29496 CCACGTTAGG
29506 AGCCACGCC
1 AGCCACGCC
29515 AGCCACGCC
1 AGCCACGCC
29524 AGCCACGCC
1 AGCCACGCC
29533 CTTAAAGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.56, G:0.22, T:0.00
Consensus pattern (9 bp):
AGCCACGCC
Found at i:32910 original size:16 final size:16
Alignment explanation
Indices: 32889--32921 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32879 AAAAATTCAA
32889 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
*
32905 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
32921 G
1 G
32922 GGCATTACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:39181 original size:47 final size:47
Alignment explanation
Indices: 39111--39499 Score: 607
Period size: 47 Copynumber: 8.3 Consensus size: 47
39101 CCCTTCGGGA
* * * *
39111 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
39158 CTTATCACATATATACACCTTCACATCCATCACATCGGTCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39205 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39252 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39299 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39346 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39393 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39440 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39487 CTTATCACATATA
1 CTTATCACATATA
39500 CATATCTTGT
Statistics
Matches: 314, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 314 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48796 original size:14 final size:14
Alignment explanation
Indices: 48777--48807 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48767 AAAAAATGGT
*
48777 CCGATTAAACTGAA
1 CCGATTAAACCGAA
48791 CCGATTAAACCGAA
1 CCGATTAAACCGAA
48805 CCG
1 CCG
48808 GCCAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.29, G:0.16, T:0.16
Consensus pattern (14 bp):
CCGATTAAACCGAA
Found at i:54689 original size:20 final size:20
Alignment explanation
Indices: 54637--54689 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
54627 TTTGATTATA
* *
54637 TAGTTTTATTAATGATTAAT
1 TAGTTTAATTACTGATTAAT
* *
54657 TAGTTTAACTACTTATTAAT
1 TAGTTTAATTACTGATTAAT
54677 TAGTTTAATTACT
1 TAGTTTAATTACT
54690 CATGTTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.53
Consensus pattern (20 bp):
TAGTTTAATTACTGATTAAT
Found at i:56170 original size:12 final size:12
Alignment explanation
Indices: 56153--56177 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56143 GTGATTTTAC
56153 TTAGTTTCTAGT
1 TTAGTTTCTAGT
56165 TTAGTTTCTAGT
1 TTAGTTTCTAGT
56177 T
1 T
56178 CAAAGACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTAGTTTCTAGT
Found at i:58972 original size:13 final size:14
Alignment explanation
Indices: 58954--58983 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
58944 CATGAACAAA
58954 ACAAAAAATAAC-C
1 ACAAAAAATAACAC
58967 ACAAAAAATAACAC
1 ACAAAAAATAACAC
58981 ACA
1 ACA
58984 CCAAGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.70, C:0.23, G:0.00, T:0.07
Consensus pattern (14 bp):
ACAAAAAATAACAC
Found at i:59826 original size:15 final size:14
Alignment explanation
Indices: 59789--59827 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
59779 AAAGAAATAT
*
59789 ATATTTTTTAAAAA
1 ATATTTTTAAAAAA
59803 ATATCTTTTAAAAAA
1 ATAT-TTTTAAAAAA
59818 ATTATTTTTA
1 A-TATTTTTA
59828 TTTTTAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 15 0.68
16 3 0.14
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATTTTTAAAAAA
Found at i:59833 original size:21 final size:21
Alignment explanation
Indices: 59808--59848 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
59798 AAAAAATATC
*
59808 TTTTAAAAAAAT-TATTTTTA
1 TTTTTAAAAAATATATTTTTA
*
59828 TTTTTAAGAAATATATTTTTA
1 TTTTTAAAAAATATATTTTTA
59849 CTAAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTTAAAAAATATATTTTTA
Found at i:65885 original size:12 final size:12
Alignment explanation
Indices: 65862--65896 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
65852 AGCTCATGTG
*
65862 GCTAGCCCGTGT
1 GCTAGGCCGTGT
*
65874 GTTAGGCCGTGT
1 GCTAGGCCGTGT
65886 GCTAGGCCGTG
1 GCTAGGCCGTG
65897 CCAAACCTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.26, G:0.40, T:0.26
Consensus pattern (12 bp):
GCTAGGCCGTGT
Found at i:67048 original size:39 final size:40
Alignment explanation
Indices: 66947--67051 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 40
66937 CGAATTCTTT
* *
66947 CACACTAAGTGTCATACATAGCTGAAGCTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCG
* *
66987 CACACTAAGTGCCACACATAGCCGAAGCTATCTTGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCG
*
67027 CACACT-AGTGCCGTACATAGCCGAA
1 CACACTAAGTGCCATACATAGCCGAA
67052 TGTTGTCAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 17 0.29
40 42 0.71
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCG
Found at i:68554 original size:34 final size:34
Alignment explanation
Indices: 68511--68583 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
68501 AGTGGCAGTC
*
68511 CAGTATCAGT-TAGGGCCATAGCCCATTACAGCAA
1 CAGTATCAGTGT-GGGCCATAACCCATTACAGCAA
* *
68545 CAGTATCAGTGTGGGCCTTAACCCATTACAGTAA
1 CAGTATCAGTGTGGGCCATAACCCATTACAGCAA
68579 CAGTA
1 CAGTA
68584 ACAGAAATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCATAACCCATTACAGCAA
Found at i:72519 original size:27 final size:26
Alignment explanation
Indices: 72475--72525 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
72465 CTCACTACAA
*
72475 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
72502 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
72526 AGTAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:80412 original size:18 final size:17
Alignment explanation
Indices: 80373--80412 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
80363 AGGCCAGATT
*
80373 TGGGCTTGTGGGCCACA
1 TGGGCGTGTGGGCCACA
*
80390 CGGGCGTGTGGGCCCACA
1 TGGGCGTGTGGG-CCACA
80408 TGGGC
1 TGGGC
80413 CTGTATTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.10, C:0.28, G:0.45, T:0.17
Consensus pattern (17 bp):
TGGGCGTGTGGGCCACA
Found at i:82127 original size:28 final size:27
Alignment explanation
Indices: 82064--82215 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
82054 ATATTAAGTC
* *
82064 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
82091 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
82119 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
82146 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
82174 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
82201 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
82216 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:82148 original size:55 final size:55
Alignment explanation
Indices: 82064--82243 Score: 261
Period size: 55 Copynumber: 3.3 Consensus size: 55
82054 ATATTAAGTC
* * *
82064 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
82119 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
82174 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
*
82230 CGCACATTTAGTGC
1 CGCACACTTAGTGC
82244 CGAGATCAAC
Statistics
Matches: 113, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 95 0.84
56 18 0.16
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:89563 original size:144 final size:144
Alignment explanation
Indices: 89303--89594 Score: 557
Period size: 144 Copynumber: 2.0 Consensus size: 144
89293 TCTCTTAACA
89303 TACTGTCCATATGATCCTTTCGTTACTTCTATATGAAAATAGACTCATCTAAATTCGATTACATA
1 TACTGTCCATATGATCCTTTCGTTACTTCTATATGAAAATAGACTCATCTAAATTCGATTACATA
89368 ATTTATTCATCAATTAATCCCACTCCTACTATTTTTAGTGATTTTTCAATCTCATGTCACTGCTG
66 ATTTATTCATCAATTAATCCCACTCCTACTATTTTTAGTGATTTTTCAATCTCATGTCACTGCTG
89433 CTGCCAGCATCTGT
131 CTGCCAGCATCTGT
* *
89447 TACTGTCCATATGATCTTTTCGTTACTTCTATATGAAAATAGACTCATCTGAATTCGATTACATA
1 TACTGTCCATATGATCCTTTCGTTACTTCTATATGAAAATAGACTCATCTAAATTCGATTACATA
*
89512 ATTTATTCATCAATTAATTCCACTCCTACTATTTTTAGTGATTTTTCAATCTCATGTCACTGCTG
66 ATTTATTCATCAATTAATCCCACTCCTACTATTTTTAGTGATTTTTCAATCTCATGTCACTGCTG
89577 CTGCCAGCATCTGT
131 CTGCCAGCATCTGT
89591 TACT
1 TACT
89595 AAAGCAACTA
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 145 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (144 bp):
TACTGTCCATATGATCCTTTCGTTACTTCTATATGAAAATAGACTCATCTAAATTCGATTACATA
ATTTATTCATCAATTAATCCCACTCCTACTATTTTTAGTGATTTTTCAATCTCATGTCACTGCTG
CTGCCAGCATCTGT
Found at i:90964 original size:49 final size:50
Alignment explanation
Indices: 90899--91033 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 50
90889 ATTTGGTATG
*
90899 CATAGTAGCCTGCACTTAGTACTATACATGCGACCAACAG-TCT-GGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGTTCTGGGTACA
** * * * * *
90948 TGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG-TTCTGGGTACA
90999 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
91034 TCACAATAGA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 4 0.06
49 29 0.41
50 2 0.03
51 35 0.50
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGTTCTGGGTACA
Found at i:92826 original size:50 final size:50
Alignment explanation
Indices: 92712--93000 Score: 285
Period size: 50 Copynumber: 5.7 Consensus size: 50
92702 GTGAGAACAC
* * * *
92712 GTGTAGTACTATGTGCAGGCTACTATGTATTTAAGACAG-TT-TTAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATG--TGT-A-CCAGATTGTTAGGTCACAT
* *
92764 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATTGTTAGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACAT
* * * * * * *
92814 GTGTCGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGTCACAT
* * * *
92865 GTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACAT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACAT
* * * * **
92915 GTGTAGTACTAAGTGCAGGCTTCTACGTGTACCAGATTATTTGGTCGTAT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACAT
* * *
92965 GTGTAGTACTAAGTGCAGGATACTATCTGTATCAGA
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
93001 GAGCTTCGGT
Statistics
Matches: 197, Mismatches: 37, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
48 2 0.01
49 3 0.02
50 127 0.64
51 39 0.20
52 26 0.13
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACAT
Found at i:92947 original size:101 final size:101
Alignment explanation
Indices: 92758--92947 Score: 290
Period size: 101 Copynumber: 1.9 Consensus size: 101
92748 CAGTTTTAGG
* * * * *
92758 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATTGTTAGGTCGCATGTGTCGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
*
92823 TAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
66 TAAGTGCAGGCTACTACGCGTACCCGATAGCTTCGA
* *
92859 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
* *
92924 TAAGTGCAGGCTTCTACGTGTACC
66 TAAGTGCAGGCTACTACGCGTACC
92948 AGATTATTTG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCCGATAGCTTCGA
Found at i:97058 original size:56 final size:56
Alignment explanation
Indices: 96927--97062 Score: 211
Period size: 56 Copynumber: 2.4 Consensus size: 56
96917 TCCCAGACAA
* *
96927 GGTCTTACTCGCACACATAAATCAGAATCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
* **
96983 GGTCTTACTCGGACACATATATCGGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
97039 GGTCTTAC-CTGCACACATATATCG
1 GGTCTTACTC-GCACACATATATCG
97063 ATGCCATGGT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
55 1 0.01
56 72 0.99
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
Found at i:105563 original size:44 final size:44
Alignment explanation
Indices: 105513--105671 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 44
105503 TATGTGTTAT
*
105513 CGTGTAAGACCATGCCTGGGACATTGGCATCGAT-TTGTGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATT-TGATTTA
*
105557 CGTGTAAGAGCATGTCTGGGACATTGGCATCG-TATTTGATTT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTTA
* ** * * * *
105599 TGTGTAAGACCCGGTATAGGATAGTGGCATCGATATTTGA-TTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTTA
* * *
105642 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
105672 TGTATGAGCT
Statistics
Matches: 93, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 26 0.28
43 35 0.38
44 32 0.34
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTTA
Found at i:109709 original size:30 final size:30
Alignment explanation
Indices: 109675--109735 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
109665 TCCTTAACTC
109675 AAACTTTTACAAAATTACAATTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
* * * * *
109705 AAACTTTTTCATATTTATATTTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
109735 A
1 A
109736 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.44
Consensus pattern (30 bp):
AAACTTTTACAAAATTACAATTTTGCCCCT
Found at i:115584 original size:44 final size:44
Alignment explanation
Indices: 115534--115648 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
115524 TATGTGTTAT
* *
115534 CATGTAAGACCACGTCTGGGACATTGGCATTGATTTGTGAATTA
1 CATGTAAGACCACGTCTGGGACATTGGCATCGATTTGGGAATTA
* * * * *
115578 CGTGTAAGATCACATCTAGGACATTGGCATCGATTTGGGATTTA
1 CATGTAAGACCACGTCTGGGACATTGGCATCGATTTGGGAATTA
* *
115622 CATGTGAGACCATGTCTGGGACATTGG
1 CATGTAAGACCACGTCTGGGACATTGG
115649 TGATAAACCG
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (44 bp):
CATGTAAGACCACGTCTGGGACATTGGCATCGATTTGGGAATTA
Found at i:117090 original size:43 final size:42
Alignment explanation
Indices: 117023--117117 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 42
117013 ACGTATCAAT
* * * * *
117023 TGGCATCGTATTTGATTTCGTGTAAGACCATGTCTGGGACAG
1 TGGCATTGTATTTGATTACCTGTAAGACCACGTCTGAGACAG
*
117065 TGGCATTGATATTTGATTACCTGTAAGACCACGTCTGAGACAT
1 TGGCATTG-TATTTGATTACCTGTAAGACCACGTCTGAGACAG
117108 TGGCATTGTA
1 TGGCATTGTA
117118 CGAGCTTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 9 0.20
43 37 0.80
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
TGGCATTGTATTTGATTACCTGTAAGACCACGTCTGAGACAG
Found at i:124731 original size:56 final size:56
Alignment explanation
Indices: 124581--124740 Score: 173
Period size: 56 Copynumber: 2.9 Consensus size: 56
124571 TTTGATAACA
* * *
124581 TGATACATGCTAGGTCCGGGAGCTTGTGTAGCCCCGTTGAGAGGCAT-GTAATTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGGTAA-TATG
* * * * * *
124637 TGGTACACGCTAGGTCCAGGAGCTTATATAGACTTGTTGAGAGGCGTGGT-A-ATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGGTAATATG
* *
124691 TGATGCATGCTAGGTCCGGGTGCTCATATGTAGCCCTGTTGAGAGGCGTG
1 TGATACATGCTAGGTCCGGGAGCT--TATGTAGCCCTGTTGAGAGGCGTG
124741 CTATGTCATG
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
54 22 0.26
56 60 0.71
57 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (56 bp):
TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGGTAATATG
Found at i:133579 original size:56 final size:54
Alignment explanation
Indices: 133483--133639 Score: 163
Period size: 56 Copynumber: 2.8 Consensus size: 54
133473 TTTGATGACA
* * * * *
133483 TGATACATGCTAGGTTCGGGAGCTTGTGTTGCCCCGTTGAGAGGCAT-GTAATTATG
1 TGATACAAGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGT-A--ATG
* * *
133539 TGGTACACGTTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATG
1 TGATACAAGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATG
* * *
133593 TGATGCAAGCTAGGTCTGGGTGCTCATATGTAGCCCTGTTGAGAGGC
1 TGATACAAGCTAGGTCCGGGAGCT--TATGTAGCCCTGTTGAGAGGC
133640 GTGCTATGTC
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 21 0.25
56 62 0.73
57 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (54 bp):
TGATACAAGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATG
Found at i:140945 original size:46 final size:45
Alignment explanation
Indices: 140895--141066 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
140885 TGGGCATCCA
*
140895 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
* *** * *
140941 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC-
1 AACTCATTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
*
140987 AAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AA-CTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*
141034 AGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGG
141067 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:141046 original size:93 final size:93
Alignment explanation
Indices: 140887--141058 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
140877 AGGATGTTTG
* * * *
140887 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
140952 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
140980 GGCATCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
141045 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
141059 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:151405 original size:24 final size:24
Alignment explanation
Indices: 151375--151420 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
151365 ATGTATCGGC
* *
151375 AAAAGCTGAAATGCCAAAAAGCCA
1 AAAAGCTAAAATACCAAAAAGCCA
*
151399 AAAAGCTAAAATACCGAAAAGC
1 AAAAGCTAAAATACCAAAAAGC
151421 TGAAAGTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.20, G:0.15, T:0.09
Consensus pattern (24 bp):
AAAAGCTAAAATACCAAAAAGCCA
Found at i:151717 original size:28 final size:28
Alignment explanation
Indices: 151636--151721 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
151626 GTGAGCATGA
* * **
151636 ATATGAATGTGACTGTGCCTAACAGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
151664 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
*
151693 ATATGAATGTGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
151721 A
1 A
151722 GATATAGGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 27 0.54
29 23 0.46
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:155781 original size:46 final size:45
Alignment explanation
Indices: 155731--155903 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 45
155721 TGGTTGAGCA
155731 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-G
* * * * *
155777 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AAAGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A-G
* *
155822 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGTATGGATGCGAAC
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCAAAG
* *
155869 ACCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
155904 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
43 4 0.04
45 6 0.06
46 57 0.55
47 31 0.30
48 2 0.02
50 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
Found at i:155887 original size:93 final size:93
Alignment explanation
Indices: 155728--155898 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
155718 GGATGGTTGA
**
155728 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATCACCGAACTCGTTGAGT
155793 TGAGTCCGAGTTCGTGAAAAGTAACTAG
66 TGAGTCCGAGTTCGTGAAAAGTAACTAG
* *
155821 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGTATGGATGCGAA-CACCTGAGCTCGTTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCAAATCACC-GAACTCGTTGA
155884 GTTGAGTCCGAGTTC
64 GTTGAGTCCGAGTTC
155899 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATCACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAAAGTAACTAG
Found at i:156164 original size:19 final size:20
Alignment explanation
Indices: 156127--156164 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
156117 ATAAGGTGGT
156127 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
156147 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
156165 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:163374 original size:46 final size:45
Alignment explanation
Indices: 163318--163486 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 45
163308 TGGTTGAGCA
163318 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-G
* * ** * *
163364 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATG-GA-T-GCGAAG
*
163411 TCCGAACTCGTTGAGTCGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-G
* * *
163457 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
163487 CTTAGGGGCG
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 58 0.59
47 31 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAG
Found at i:163485 original size:93 final size:93
Alignment explanation
Indices: 163315--163485 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
163305 GGATGGTTGA
* * *
163315 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTCGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAACTCGTTGAGT
**
163380 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
*
163408 GCATCCGAACTCGTTGAGTCGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTCGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAACTCGTTGAGT
163473 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
163486 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTCGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:163751 original size:19 final size:20
Alignment explanation
Indices: 163714--163751 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
163704 ATAGGGTGGT
163714 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
163734 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
163752 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:167988 original size:20 final size:20
Alignment explanation
Indices: 167963--168016 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
167953 TTTCATGGGC
**
167963 TTGGGCCGTTATGGGCCACG
1 TTGGGCCGAAATGGGCCACG
*
167983 TTGGGCCGAAATGGGCCATG
1 TTGGGCCGAAATGGGCCACG
168003 -TGGGCCG-AATGGGC
1 TTGGGCCGAAATGGGC
168017 TCATGGGTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 7 0.23
19 7 0.23
20 17 0.55
ACGTcount: A:0.15, C:0.22, G:0.43, T:0.20
Consensus pattern (20 bp):
TTGGGCCGAAATGGGCCACG
Found at i:168291 original size:27 final size:27
Alignment explanation
Indices: 168256--168379 Score: 187
Period size: 27 Copynumber: 4.6 Consensus size: 27
168246 CCCAAAAATA
*
168256 GGTAAAATGACTGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAG
*
168283 GGTAAAATGACCGTAATACCCTTGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAG
*
168310 GGTAAAATGAACGTAATGCCC-TGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAG
* *
168336 GGTAAAATGACCGTAGTGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAG
*
168363 GGTAAAATGACCATAAT
1 GGTAAAATGACCGTAAT
168380 ATCCCTATAC
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 24 0.27
27 64 0.73
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCTTGTAG
Found at i:168350 original size:53 final size:53
Alignment explanation
Indices: 168256--168400 Score: 184
Period size: 53 Copynumber: 2.7 Consensus size: 53
168246 CCCAAAAATA
*
168256 GGTAAAATG-ACTGTAATGCCCTTGTAGGGTAAAATGACCGTAATACCCTTGTAG
1 GGTAAAATGAAC-GTAATGCCC-TGTAGGGTAAAATGACCGTAATACCCCTGTAG
* *
168310 GGTAAAATGAACGTAATGCCCTGTAGGGTAAAATGACCGTAGTGCCCCTGTAG
1 GGTAAAATGAACGTAATGCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAG
* * * * *
168363 GGTAAAATGACCATAATATCCCTATACGGTAAAATGAC
1 GGTAAAATGAACGTAAT-GCCCTGTAGGGTAAAATGAC
168401 GATTATGACC
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 44 0.54
54 35 0.43
55 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (53 bp):
GGTAAAATGAACGTAATGCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAG
Found at i:168385 original size:27 final size:26
Alignment explanation
Indices: 168256--168400 Score: 182
Period size: 27 Copynumber: 5.4 Consensus size: 26
168246 CCCAAAAATA
*
168256 GGTAAAATGACTGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCC-TGTAG
*
168283 GGTAAAATGACCGTAATACCCTTGTAG
1 GGTAAAATGACCGTAATGCCC-TGTAG
*
168310 GGTAAAATGAACGTAATGCCCTGTAG
1 GGTAAAATGACCGTAATGCCCTGTAG
*
168336 GGTAAAATGACCGTAGTGCCCCTGTAG
1 GGTAAAATGACCGTAATG-CCCTGTAG
* * * *
168363 GGTAAAATGACCATAATATCCCTATAC
1 GGTAAAATGACCGTAAT-GCCCTGTAG
168390 GGTAAAATGAC
1 GGTAAAATGAC
168401 GATTATGACC
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 21 0.20
27 84 0.80
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (26 bp):
GGTAAAATGACCGTAATGCCCTGTAG
Found at i:172465 original size:23 final size:23
Alignment explanation
Indices: 172446--172498 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
172436 TTCAAAAAAT
*
172446 AAATAAAACA-AAACTAAAAACAA
1 AAATAAAA-ATAAAATAAAAACAA
*
172469 AAATAAAAATAAAATAAAAATAA
1 AAATAAAAATAAAATAAAAACAA
172492 AAATAAA
1 AAATAAA
172499 TGGACTCAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (23 bp):
AAATAAAAATAAAATAAAAACAA
Found at i:172482 original size:17 final size:17
Alignment explanation
Indices: 172462--172498 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
172452 AACAAAACTA
172462 AAAACAAAAATAAAAAT
1 AAAACAAAAATAAAAAT
*
172479 AAAATAAAAATAAAAAT
1 AAAACAAAAATAAAAAT
172496 AAA
1 AAA
172499 TGGACTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAACAAAAATAAAAAT
Found at i:172488 original size:6 final size:6
Alignment explanation
Indices: 172440--172498 Score: 66
Period size: 6 Copynumber: 9.5 Consensus size: 6
172430 AAAGTCTTCA
* *
172440 AAAAAT AAATAAA ACAAAACT AAAAAC AAAAAT AAAAAT -AAAAT AAAAAT
1 AAAAAT AAA-AAT A-AAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
172490 AAAAAT AAA
1 AAAAAT AAA
172499 TGGACTCAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 5 0.11
6 28 0.62
7 9 0.20
8 3 0.07
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:175359 original size:15 final size:15
Alignment explanation
Indices: 175335--175364 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
175325 CTAATGTATT
175335 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
175350 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
175365 ACAAGTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:183807 original size:26 final size:27
Alignment explanation
Indices: 183726--183810 Score: 84
Period size: 30 Copynumber: 3.0 Consensus size: 27
183716 TCAAACACAT
*
183726 AATAATAAATAAATAAAGAATTAATAAA
1 AATAA-AAATAAATAAAGAATAAATAAA
*
183754 AGATAAATAA-AAATAAAGAGAATGAAATAGA
1 A-ATAAA-AATAAAT-AA-AGAAT-AAATAAA
183785 AATAAAAATAAATAAAGAA-AAATAAA
1 AATAAAAATAAATAAAGAATAAATAAA
183811 GAAAAGCAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
26 6 0.12
28 10 0.21
29 12 0.25
30 14 0.29
31 6 0.12
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (27 bp):
AATAAAAATAAATAAAGAATAAATAAA
Found at i:194132 original size:21 final size:21
Alignment explanation
Indices: 194089--194141 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
194079 TGGGCAACAG
**
194089 CATGGGCGTGTCCTATGGTCA
1 CATGGGCGTGTCCTATGACCA
194110 CATGGGCGTGTCTCT-TGACCA
1 CATGGGCGTGTC-CTATGACCA
*
194131 CACGGGCGTGT
1 CATGGGCGTGT
194142 GTGCCCTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (21 bp):
CATGGGCGTGTCCTATGACCA
Found at i:196377 original size:14 final size:15
Alignment explanation
Indices: 196347--196379 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
196337 TGCCCCAAAT
196347 TTGGGCCTAGAAGTA
1 TTGGGCCTAGAAGTA
*
196362 TTGGGCCTTG-AGTA
1 TTGGGCCTAGAAGTA
196376 TTGG
1 TTGG
196380 TCTGTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.18, C:0.12, G:0.36, T:0.33
Consensus pattern (15 bp):
TTGGGCCTAGAAGTA
Found at i:198161 original size:28 final size:28
Alignment explanation
Indices: 198108--198173 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
198098 GCATCTGATA
* * * *
198108 CTGATTCT-ATATTGGGTTTAATCCCAC
1 CTGATTCTGTTATTGGGCTAAAGCCCAC
198135 CTGATTCTGTTATTGGGCTAAAGCCCAC
1 CTGATTCTGTTATTGGGCTAAAGCCCAC
* *
198163 ATGATACTGTT
1 CTGATTCTGTT
198174 TCTGCGATGG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 8 0.25
28 24 0.75
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (28 bp):
CTGATTCTGTTATTGGGCTAAAGCCCAC
Found at i:199768 original size:28 final size:28
Alignment explanation
Indices: 199719--199781 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
199709 TCTAATACTA
*
199719 ATTCTG-TATTGGACTTAAGCCCACCTG
1 ATTCTGTTATTGGACTTAAGCCCACATG
*
199746 ATTCTGTTATTGGGC-TAAGGCCCACATG
1 ATTCTGTTATTGGACTTAA-GCCCACATG
*
199774 ATACTGTT
1 ATTCTGTT
199782 TCTGCGATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 9 0.29
28 22 0.71
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (28 bp):
ATTCTGTTATTGGACTTAAGCCCACATG
Found at i:200827 original size:28 final size:28
Alignment explanation
Indices: 200787--200849 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
200777 TCTGATACTT
*
200787 ATTCTG-TATTGGGCTTAA-GCCCACCTG
1 ATTCTGTTATTGGGC-TAAGGCCCACATG
200814 ATTCTGTTATTGGGCTAAGGCCCACATG
1 ATTCTGTTATTGGGCTAAGGCCCACATG
*
200842 ATACTGTT
1 ATTCTGTT
200850 TTTGTGATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (28 bp):
ATTCTGTTATTGGGCTAAGGCCCACATG
Found at i:205472 original size:23 final size:21
Alignment explanation
Indices: 205446--205498 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
205436 TAGCTCATTG
*
205446 GAGCTTACCGATTCAATTCAAAA
1 GAGCTTACCG-TTCAACTC-AAA
* *
205469 GAGCTTACTGTTCAACTCATA
1 GAGCTTACCGTTCAACTCAAA
205490 GAGCTTACC
1 GAGCTTACC
205499 ATTTTCAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 10 0.38
22 7 0.27
23 9 0.35
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
GAGCTTACCGTTCAACTCAAA
Found at i:220687 original size:44 final size:43
Alignment explanation
Indices: 220611--220774 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 43
220601 ACATAGGATC
* * * *
220611 CGATATGTATTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATCTGTTTTCGTGTAAGACCATGTCTGGGACATTGGCAT
* *
220654 CGACT-TCTGTTTTACGTGTAAGACCATGTCTGGGACATCGACAT
1 CGA-TATCTGTTTT-CGTGTAAGACCATGTCTGGGACATTGGCAT
* * * *
220698 CG-TATCTGATTTCGTGTAAGACCTTGTCTGGGATAATGGCAT
1 CGATATCTGTTTTCGTGTAAGACCATGTCTGGGACATTGGCAT
* * * * * *
220740 TGATGTTTGATTACATGTAAGACCATGTCTGGGAC
1 CGATATCTGTTTTCGTGTAAGACCATGTCTGGGAC
220775 GCTTGCATTG
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
42 27 0.28
43 42 0.43
44 29 0.30
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (43 bp):
CGATATCTGTTTTCGTGTAAGACCATGTCTGGGACATTGGCAT
Found at i:222212 original size:27 final size:27
Alignment explanation
Indices: 222115--222213 Score: 76
Period size: 27 Copynumber: 3.7 Consensus size: 27
222105 TTAGTTTACC
* *
222115 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCAATTTATA
* * * *
222142 AAATTACTGAAGTACTAC-CGATTTACA
1 AAATTACTGAAATAC-CCTCAATTTATA
* * **
222169 GAATTACCG-TTTCACCCTCAATTTATA
1 AAATTACTGAAAT-ACCCTCAATTTATA
222196 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
222214 TGTAGGTAGA
Statistics
Matches: 51, Mismatches: 17, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
26 2 0.04
27 47 0.92
28 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAATTTATA
Found at i:222229 original size:26 final size:26
Alignment explanation
Indices: 222197--222310 Score: 129
Period size: 27 Copynumber: 4.3 Consensus size: 26
222187 CAATTTATAA
* *
222197 AATTACTGAAATACCCTTGTAGGTAG
1 AATTACCGAAATACCCTTATAGGTAG
* *
222223 AGTTACTGAAATACCCTTATAAGGTAG
1 AATTACCGAAATACCCTTAT-AGGTAG
* *
222250 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTATA-GGTAG
* *
222277 AATTACCGAGATACCCTTATAGGATAA
1 AATTACCGAAATACCCTTATAGG-TAG
222304 AATTACC
1 AATTACC
222311 ATTTTGCCCC
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 21 0.28
27 54 0.72
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (26 bp):
AATTACCGAAATACCCTTATAGGTAG
Found at i:222750 original size:22 final size:22
Alignment explanation
Indices: 222698--222762 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
222688 GCCAATTATT
* *
222698 CTGATTATGGTTTTGCGCCAAC
1 CTGATTATGGTTCTGTGCCAAC
* *
222720 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGTTCTGTGCCAAC
*
222742 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGTTCTGTGCCAA
222763 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGTTCTGTGCCAAC
Found at i:222951 original size:27 final size:26
Alignment explanation
Indices: 222921--223028 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
222911 ATTCTGTTAA
* *
222921 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTG-TTCTG
222948 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
* *
222975 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* * * *
223002 ATGACTCTGTCACAATATCTGTTCTG
1 GTGGCTATGCCACAATATCTGTTCTG
223028 G
1 G
223029 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 12 0.17
27 51 0.73
28 7 0.10
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:222979 original size:54 final size:53
Alignment explanation
Indices: 222921--223028 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
222911 ATTCTGTTAA
* * * * * *
222921 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTATATCTGATGACTATGCCAC-AATATCTGTTCTG
* *
222975 GTGGCTCTGCCACAATATCTATATCTGATGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTATATCTGATGACTATGCCACAATATCTGTTCTG
223028 G
1 G
223029 CAGCCATGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 14 0.30
54 32 0.70
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTATATCTGATGACTATGCCACAATATCTGTTCTG
Found at i:223154 original size:6 final size:6
Alignment explanation
Indices: 223145--223257 Score: 54
Period size: 6 Copynumber: 18.3 Consensus size: 6
223135 TTGCATTCAC
* * * * *
223145 ATTCTG ATTCTG ATTCT- ATTACCTG ATACCG ATTCTA ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
223195 ATTTTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
223244 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
223258 AATGTTTCTT
Statistics
Matches: 78, Mismatches: 18, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
5 6 0.08
6 60 0.77
7 8 0.10
8 4 0.05
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:223178 original size:25 final size:25
Alignment explanation
Indices: 223145--223236 Score: 121
Period size: 25 Copynumber: 3.7 Consensus size: 25
223135 TTGCATTCAC
* *
223145 ATTCTGATTCTGATTCTATTACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
* * * *
223170 ATACCGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTG
*
223195 ATTTTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
223220 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
223237 CATTTTGATT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:230453 original size:40 final size:40
Alignment explanation
Indices: 230398--230621 Score: 297
Period size: 40 Copynumber: 5.5 Consensus size: 40
230388 TAATCGGATG
230398 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
230438 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
230481 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
230521 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
230561 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
230601 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
230622 ATACTTGGGT
Statistics
Matches: 164, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 113 0.69
41 1 0.01
43 37 0.23
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:230541 original size:83 final size:80
Alignment explanation
Indices: 230402--230621 Score: 293
Period size: 83 Copynumber: 2.7 Consensus size: 80
230392 CGGATGATAT
* **
230402 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
230467 TGCAAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
230485 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
230550 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * * *
230565 CCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
230622 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 44 0.35
81 2 0.02
83 64 0.51
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:234930 original size:39 final size:40
Alignment explanation
Indices: 234720--234950 Score: 331
Period size: 40 Copynumber: 5.8 Consensus size: 40
234710 GGATATAACT
* * *
234720 ACTCGCTCAAATGCCTTCGGGACATAGCCC-GATTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
234760 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
234800 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
234840 ATTCGCACAAATGCCTTCGGGACTTAGCCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
234880 ACTCGCACAGATGCCTTCGGGACTTAGCCCGGA-TTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
234919 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
234951 TTTTCAACCA
Statistics
Matches: 176, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 34 0.19
40 138 0.78
41 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:260006 original size:40 final size:40
Alignment explanation
Indices: 259946--260165 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
259936 TAATCAGATG
*
259946 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
**
259986 ATATTTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
260029 ATACCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
260069 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
260109 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
260149 ATATCC-GGCTAAATCCC
1 ATATCCGGGCTAAGTCCC
260166 AAAGATACTT
Statistics
Matches: 158, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 9 0.06
40 113 0.72
41 1 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:260091 original size:83 final size:80
Alignment explanation
Indices: 259952--260165 Score: 270
Period size: 83 Copynumber: 2.6 Consensus size: 80
259942 GATGATATCT
* ** **
259952 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATTTGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
*
260017 CGAGTAGTTACTATACCC
66 C---TAGTGACTATACCC
* *
260035 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
*
260100 CTAGTGACTATATCC
66 CTAGTGACTATACCC
* * *
260115 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCC
260166 AAAGATACTT
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 10 0.09
80 46 0.39
81 2 0.02
83 59 0.50
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATG
CTAGTGACTATACCC
Found at i:261995 original size:43 final size:43
Alignment explanation
Indices: 261939--262111 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 43
261929 GACATAGGAT
* * *
261939 TCGATATGTGTTTTCGTGTAAGACCATGTGTGGGACGTTGGCA
1 TCGATATCTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
* * * * *
261982 TCGACT-TCTGTTTTACGTGTAAGAACATGTATGGGACATCGGCA
1 TCGA-TATCTGATTT-CGTGTAAGACCATGTCTGGGACGTTGGCA
*
262026 TCG-TATCTGATTTCGTGTAAGACCCTGTCTGGGACAG-TGGCA
1 TCGATATCTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCA
* * * * * *
262068 TCGATGTTTGATTACATGTAAGACTACGTCTGGGACGTTGGCA
1 TCGATATCTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
262111 T
1 T
262112 TGTATATTTT
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
42 28 0.26
43 49 0.46
44 29 0.27
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
TCGATATCTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:262059 original size:42 final size:41
Alignment explanation
Indices: 261950--262071 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 41
261940 CGATATGTGT
* * *
261950 TTTCGTGTAAGACCATGTGTGGGACGTTGGCATCGACTTCTGT
1 TTTCGTGTAAGACCATGTATGGGAC-ATGGCATCGAC-TCTGA
*
261993 TTTACGTGTAAGAACATGTATGGGACATCGGCATCGTA-TCTGA
1 TTT-CGTGTAAGACCATGTATGGGACAT-GGCATCG-ACTCTGA
* *
262036 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGA
1 TTTCGTGTAAGACCATGTATGGGACA-TGGCATCGA
262072 TGTTTGATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.40
43 12 0.18
44 27 0.40
45 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (41 bp):
TTTCGTGTAAGACCATGTATGGGACATGGCATCGACTCTGA
Found at i:267571 original size:88 final size:88
Alignment explanation
Indices: 267387--267560 Score: 244
Period size: 88 Copynumber: 2.0 Consensus size: 88
267377 GTGAATTATG
* * * *
267387 ATATGTGATGTGTGAGTAAGACCATGGCATTGATGCTTGATTCCTATATATGTTTGCGAGTAAGA
1 ATATGTGATGTGCGAGTAAGACCATGGCATCGATGATTGATTCCTATATATGTGTGCGAGTAAGA
*
267452 CCACGTTTAATACGTTGGCATCA
66 CCACATTTAATACGTTGGCATCA
*
267475 ATATGTGATGTGCGAGTAAGGCCATGGCATCGAT-ATGTGATT-CTGATATATGTGTGCGAGTAA
1 ATATGTGATGTGCGAGTAAGACCATGGCATCGATGAT-TGATTCCT-ATATATGTGTGCGAGTAA
* *
267538 GTCCACATTTTATACGTTGGCAT
64 GACCACATTTAATACGTTGGCAT
267561 TGAAATGTGA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 3 0.04
88 73 0.96
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (88 bp):
ATATGTGATGTGCGAGTAAGACCATGGCATCGATGATTGATTCCTATATATGTGTGCGAGTAAGA
CCACATTTAATACGTTGGCATCA
Found at i:278456 original size:40 final size:40
Alignment explanation
Indices: 278148--278455 Score: 535
Period size: 40 Copynumber: 7.7 Consensus size: 40
278138 GCAAACACAC
* * * *
278148 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCCTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
**
278188 TTGCCTTCGGGTCTTAGCCCGGATATATCGTCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
278228 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
**
278268 TTGCCTTCGGGTCTTAGCCCGGATATATCGTCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
278308 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
278348 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
278388 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
278428 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
278456 TCCAATGCTC
Statistics
Matches: 255, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 255 1.00
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:281614 original size:94 final size:94
Alignment explanation
Indices: 281453--281728 Score: 543
Period size: 94 Copynumber: 2.9 Consensus size: 94
281443 CAAATTCGAA
*
281453 TACATCGCCAATCAAACTATGTTCATTAATTACAAATCATACATAAGATTATATGAACTTCTTTA
1 TACATCGCCAATCAAACTATGTTCATTTATTACAAATCATACATAAGATTATATGAACTTCTTTA
281518 TAAACACTTCTAAACTCGAACATATTCAT
66 TAAACACTTCTAAACTCGAACATATTCAT
281547 TACATCGCCAATCAAACTATGTTCATTTATTACAAATCATACATAAGATTATATGAACTTCTTTA
1 TACATCGCCAATCAAACTATGTTCATTTATTACAAATCATACATAAGATTATATGAACTTCTTTA
281612 TAAACACTTCTAAACTCGAACATATTCAT
66 TAAACACTTCTAAACTCGAACATATTCAT
281641 TACATCGCCAATCAAACTATGTTCATTTATTACAAATCATACATAAGATTATATGAACTTCTTTA
1 TACATCGCCAATCAAACTATGTTCATTTATTACAAATCATACATAAGATTATATGAACTTCTTTA
281706 TAAACACTTCTAAACTCGAACAT
66 TAAACACTTCTAAACTCGAACAT
281729 CCATAATTCT
Statistics
Matches: 181, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 181 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.34
Consensus pattern (94 bp):
TACATCGCCAATCAAACTATGTTCATTTATTACAAATCATACATAAGATTATATGAACTTCTTTA
TAAACACTTCTAAACTCGAACATATTCAT
Found at i:289885 original size:17 final size:18
Alignment explanation
Indices: 289851--289886 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
289841 CATATTAAGG
*
289851 GCCCGTGTGAGCCTACAC
1 GCCCGTGTGAGCCCACAC
289869 GCCCGTGT-AGCCCACAC
1 GCCCGTGTGAGCCCACAC
289886 G
1 G
289887 GCCCAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.17, C:0.42, G:0.28, T:0.14
Consensus pattern (18 bp):
GCCCGTGTGAGCCCACAC
Found at i:289890 original size:18 final size:19
Alignment explanation
Indices: 289850--289890 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
289840 CCATATTAAG
*
289850 GGCCCGTGTGAGCCTACAC
1 GGCCCGTGTGAGCCCACAC
289869 -GCCCGTGT-AGCCCACAC
1 GGCCCGTGTGAGCCCACAC
289886 GGCCC
1 GGCCC
289891 AAAATAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (19 bp):
GGCCCGTGTGAGCCCACAC
Found at i:293243 original size:39 final size:39
Alignment explanation
Indices: 293200--293366 Score: 235
Period size: 39 Copynumber: 4.3 Consensus size: 39
293190 GGTCTTTAAC
** * *
293200 CCGGATATTTTTCCAGCACGTAGCCTGTGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
293239 CCGGATATATTTCTAGCATATAGGCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* *
293278 CCAGATATTTTTCCAGCATATAGCCTGTGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
293317 CCGGATATTTTTCCAACATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
293356 CCAGATATTTT
1 CCGGATATTTT
293367 CAATCTCATA
Statistics
Matches: 112, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:293319 original size:78 final size:78
Alignment explanation
Indices: 293203--293366 Score: 265
Period size: 78 Copynumber: 2.1 Consensus size: 78
293193 CTTTAACCCG
* * * *
293203 GATATTTTTCCAGCACGTAGCCTGTGGACCTCAAGTCCGGATATATTTCTAGCATATAGGCTGCG
1 GATATTTTTCCAGCACATAGCCTGTGGACCTCAAGTCCGGATATATTTCCAACATATAGCCTGCG
293268 GACCTCATGTCCA
66 GACCTCATGTCCA
* * *
293281 GATATTTTTCCAGCATATAGCCTGTGGACCTCATGTCCGGATATTTTTCCAACATATAGCCTGCG
1 GATATTTTTCCAGCACATAGCCTGTGGACCTCAAGTCCGGATATATTTCCAACATATAGCCTGCG
293346 GACCTCATGTCCA
66 GACCTCATGTCCA
293359 GATATTTT
1 GATATTTT
293367 CAATCTCATA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (78 bp):
GATATTTTTCCAGCACATAGCCTGTGGACCTCAAGTCCGGATATATTTCCAACATATAGCCTGCG
GACCTCATGTCCA
Found at i:297201 original size:763 final size:759
Alignment explanation
Indices: 295706--298332 Score: 3579
Period size: 762 Copynumber: 3.5 Consensus size: 759
295696 CAAATGTAAC
* * * * * *
295706 ACCCCTAACCAGTATCCATCGACGTACTAAGGTTAAGAAGCATTATCGGACATATCAAAACATTT
1 ACCCCTAACCCGTATCCATCGTCGGACTAGGGTTAAGAGGCATTACCGGACATATCAAAACATTT
* *
295771 CGCAACCATTTCACAATCAAAAGTCATGCATCATCATATCATAGTCAAACATCAACATTAAGACC
66 CGCAATCATTTCACAATCAAAAGTCATGCATCATCATATCATAGTCAAACATCAACATTAAGTCC
* * * * *
295836 CTTTCTTAGGTCAATGAGACCATAAACTTGCATCAGGAAGAGGTCGGGACTAAACCGAACATATT
131 ATTTCTTAGGTCAATGAGACCATAAACATGCATTAGGAAGAGGTCGGGACTAAACCGAACACA-G
* *
295901 A-AAAATTTTTCTGAAACTTAACAATTTTTCTAAGTTACAAAGATCACATGCCCGTGTGAGCAGA
195 ACAAAATTTTTCTGAAACTTAACAATTTTTCTAAGCTACAAAGATCACATGCCCATGTGAGCAGA
* * *
295965 CCGTGTGCCTCACACGACATTAGCCACGCCCATGTGTCTAGGCCATGGTGAAATAGGGCATACAT
260 CCGTGTGCCTCACACGGCATTAGACACGCCCATGTGTCTAGGCCATGGCGAAATAGGGCATACAT
*
296030 ACTAACTTATCCACACGGCCACAAGACACGCCCGTGTGTCTAGCCCGTGGTTGAAACTGACTTGG
325 ACTAACTTATCCACACGGCCACAAGACACGCCCGTGTGTCTAGCCCGTGGTCGAAACTGACTTGG
* * *
296095 CCACACAGACTGGCACA-----------CGC-CCGTGTGGTCTGCCCAGGCTCATTTCGAAATGG
390 CCACACAGCCTGGCACACGCTTGGTGTTCGCACCGTGTGGTCTACCCAAGCTCATTTCGAAATGG
* * * * *
296148 CCCTCGAGCAACACGACAGAGACACACACCCATGTCACTGCCCGTGTGGGTAAAAATAGACCATT
455 CCCTCGAGCAACACGACAGAGACACACGCCCGTG-CCCTGCCCGTGTGGGAAAAAATAGGCCATT
* * *
296213 TACAAGGCCAATATGCCACCCATTTGGGTCCTCCCTGCAACTCCAAAATCAGGCATCATATATGC
519 TACAAGGCCAATATGCCACCCATTTGGGTCCTCCCTACAATTCCAAAATCAAGCATCATATATGC
* *
296278 AACATTTTCAGCCAAACTCAACTCCAAACATGTATCAATCAATTCATAATATCACCAACAAATTT
584 AACATTTTCAGCCAAATTCAACTCCAAACATGTATCAATCAATTCATAATATCATCAACAAATTT
* * * *
296343 CATGCTCAATCGATATATCAAAGCATATTAAAATCACATGCTAAAGC-TTACCAAATTCCTAACT
649 CATGCTCATTCTATATATCAAAGCATATTAAAATCACATGCTAAA-CATTACCAAATTCCCAAAT
* * *
296407 ATGAACATACTAAACTGACCATTTCACTTGGCCATATACATATATAT
713 ATGGACATACCAAAATGACCATTTCACTTGGCCATATACATATATAT
***
296454 ACCCCTAACCCGTATCCATCG-CTGGACTAGGGTTAAGAGGCATTACCGGACATATTGGAACATT
1 ACCCCTAACCCGTATCCATCGTC-GGACTAGGGTTAAGAGGCATTACCGGACATATCAAAACATT
* * * ** *
296518 TTGCAATTATTTCACAATCAAAAGTCATCCATTGTCATATCATAGTCAAACATCAATATTAAGTC
65 TCGCAATCATTTCACAATCAAAAGTCATGCATCATCATATCATAGTCAAACATCAACATTAAGTC
* *
296583 CATTCCTTAGGTCAATGAGACCATAAACATGCATTAGGAAGAGGTCGGGACTAAACCGAACACAT
130 CATTTCTTAGGTCAATGAGACCATAAACATGCATTAGGAAGAGGTCGGGACTAAACCGAACACAG
* * * * *
296648 ACAAAATTTTTTTGAAACATAACAATTTTTCTAAGTTACAAAGATCACATGCCCATGTGACCAAA
195 ACAAAATTTTTCTGAAACTTAACAATTTTTCTAAGCTACAAAGATCACATGCCCATGTGAGCAGA
* * * * *
296713 TCGTGTGCCTTACACGGCATTGGACAAGCCCATGTGTCTAGGCTATGGCGAAATAGGGCATACAT
260 CCGTGTGCCTCACACGGCATTAGACACGCCCATGTGTCTAGGCCATGGCGAAATAGGGCATACAT
* * * *
296778 ACTAACTTATCCACACGGCCCACAAGACACGCCAGTGTTTCTAGCCCATGGTCGAAACTGACTTT
325 ACTAACTTATCCACACGG-CCACAAGACACGCCCGTGTGTCTAGCCCGTGGTCGAAACTGACTTG
* * * * *
296843 GCCAAAGAGCCTGGCACACGCTTGTGTGTTCGCAACCGTGTGGGCTACCCAAGCTCATTACAAAA
389 GCCACACAGCCTGGCACACGCTTG-GTGTTCGC-ACCGTGTGGTCTACCCAAGCTCATTTCGAAA
* * * * * * *
296908 TGGCCCTCAAGCAACACGACCGAGACACATGCCCGTGCCGCTACCCATGCGGGCAAAAATAGGCC
452 TGGCCCTCGAGCAACACGACAGAGACACACGCCCGTGCC-CTGCCCGTGTGGGAAAAAATAGGCC
*
296973 ATTTACTAGGCCAATATGCCACCCATTTGGGTCCTCCCTACAATTCCAAAATCAAGCATCATATA
516 ATTTACAAGGCCAATATGCCACCCATTTGGGTCCTCCCTACAATTCCAAAATCAAGCATCATATA
* *
297038 TGAAACATTTTCAGCCAAATTCAACTCCAAACATGTATCAATCAATTCATAATATCATCAACCAA
581 TGCAACATTTTCAGCCAAATTCAACTCCAAACATGTATCAATCAATTCATAATATCATCAACAAA
* *
297103 TTTCATGCTCATTCTTTATATCAAAGTATATTAAAATCACATGCTAAACATTACCAAATTCCCAA
646 TTTCATGCTCATTCTATATATCAAAGCATATTAAAATCACATGCTAAACATTACCAAATTCCCAA
*
297168 ATATGGACATACCAAAATGACCATTTCACTTGGCCATATACATATATGT
711 ATATGGACATACCAAAATGACCATTTCACTTGGCCATATACATATATAT
* * *
297217 ACCCCTAACCCGTATCCATCGTCGGACTAGGGTTAAGAGGCATTACAGGGCATATCAGAACATTT
1 ACCCCTAACCCGTATCCATCGTCGGACTAGGGTTAAGAGGCATTACCGGACATATCAAAACATTT
* * * ** * * *
297282 CGTAATCATTTCACAATCAATAGTCATGTATTGTCATATCGTAGTCAAA-ATTTAACATTAAGCC
66 CGCAATCATTTCACAATCAAAAGTCATGCATCATCATATCATAGTCAAACA-TCAACATTAAGTC
* * * *
297346 CATTTCTTAGGTCAATGAGACCATAAACATGTATTAGGAAGAGGTCAGGACTAAACAGATCACAG
130 CATTTCTTAGGTCAATGAGACCATAAACATGCATTAGGAAGAGGTCGGGACTAAACCGAACACAG
* *
297411 ACAAAATTTTTCTGAAACTTAACCATTTTCCTAAGCTACAAAGATCACACT-CCCATGTGAGCAG
195 ACAAAATTTTTCTGAAACTTAACAATTTTTCTAAGCTACAAAGATCACA-TGCCCATGTGAGCAG
* * ** * * * *
297475 ACTGTGTGCCTCACACGGCATTAGACACTCCTGTGTGTCTAGGTCGTGGTGAAACAGGGCATACA
259 ACCGTGTGCCTCACACGGCATTAGACACGCCCATGTGTCTAGGCCATGGCGAAATAGGGCATACA
* * * * *
297540 TACTGACTTATCCACATGACCACAAGACACGCCCTTGTGTCTAGCCCGTGGTCGAAACTTACTTG
324 TACTAACTTATCCACACGGCCACAAGACACGCCCGTGTGTCTAGCCCGTGGTCGAAACTGACTTG
* * *
297605 GCCACACAGCCTGGCACACGCTGGTGCGTGTTTG-ACTGTGTGGTCTA-CCAAGGGTCATTTCGA
389 GCCACACAGCCTGGCACACGCT--TG-GTGTTCGCACCGTGTGGTCTACCCAA-GCTCATTTCGA
* * * *
297668 GATGGCCCTCGAGCAACACGGCAGAGACACACGCCCGTGTCCTTGCCCGTGTGGTAAAAAATAGG
450 AATGGCCCTCGAGCAACACGACAGAGACACACGCCCGTG-CCCTGCCCGTGTGGGAAAAAATAGG
* * *
297733 CCATTTAAAAGGACAATATGCCACCCATTTGGATCCTCCCTACAATTCCAAAATCAAGCATCATA
514 CCATTTACAAGGCCAATATGCCACCCATTTGGGTCCTCCCTACAATTCCAAAATCAAGCATCATA
* * *
297798 TATGCAACATTTTTAGCCAAATTCAAC-CTCAAACATGTATCAATCAATTCATAACATCATCAAG
579 TATGCAACATTTTCAGCCAAATTCAACTC-CAAACATGTATCAATCAATTCATAATATCATCAAC
* * **
297862 AAATTTCGTGCTCATTCTCTATATCAAAGCATATTAAAATCACATTATAAACATTACCAAATT-C
643 AAATTTCATGCTCATTCTATATATCAAAGCATATTAAAATCACATGCTAAACATTACCAAATTCC
*
297926 CAAACTATGGACATACCAAAATGACCATTTCACTTGGCCAGATACATATATAT
708 CAAA-TATGGACATACCAAAATGACCATTTCACTTGGCCATATACATATATAT
* * *
297979 ACCCCTAACCCATATCCATCGTCGGACTAGGGTTAAGAGGCATTAACGGACATATCGAAACATTT
1 ACCCCTAACCCGTATCCATCGTCGGACTAGGGTTAAGAGGCATTACCGGACATATCAAAACATTT
** * * * ** **
298044 CATAATTATTTCAAAATCAATAGTCATTTATCATCATATCATAGTCAAACATTTACATTAAGTCC
66 CGCAATCATTTCACAATCAAAAGTCATGCATCATCATATCATAGTCAAACATCAACATTAAGTCC
* *
298109 CTTTCTTAGGTCAATGATACCATAAACATGCATTAGGAAGAGGTCGGGACTAAACCGAACACAGA
131 ATTTCTTAGGTCAATGAGACCATAAACATGCATTAGGAAGAGGTCGGGACTAAACCGAACACAGA
* *
298174 CAAAATTTTT-TCGAAACTTAACAATTTTTCTAAGCTACAAATATCACATGCCCGTGTGAGCAGA
196 CAAAATTTTTCT-GAAACTTAACAATTTTTCTAAGCTACAAAGATCACATGCCCATGTGAGCAGA
* * * *
298238 CCTTGTGCCTCACACGGCATTAGACACGCCCGTGTGTCTAGGCCGTGGCAAAATAGGGCATACAT
260 CCGTGTGCCTCACACGGCATTAGACACGCCCATGTGTCTAGGCCATGGCGAAATAGGGCATACAT
*
298303 ACTGACTTATCCACACGGCCACAAGACACG
325 ACTAACTTATCCACACGGCCACAAGACACG
298333 TGTAACATCC
Statistics
Matches: 1652, Mismatches: 196, Indels: 48
0.87 0.10 0.03
Matches are distributed among these distances:
747 3 0.00
748 303 0.18
749 56 0.03
761 15 0.01
762 668 0.40
763 597 0.36
764 10 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (759 bp):
ACCCCTAACCCGTATCCATCGTCGGACTAGGGTTAAGAGGCATTACCGGACATATCAAAACATTT
CGCAATCATTTCACAATCAAAAGTCATGCATCATCATATCATAGTCAAACATCAACATTAAGTCC
ATTTCTTAGGTCAATGAGACCATAAACATGCATTAGGAAGAGGTCGGGACTAAACCGAACACAGA
CAAAATTTTTCTGAAACTTAACAATTTTTCTAAGCTACAAAGATCACATGCCCATGTGAGCAGAC
CGTGTGCCTCACACGGCATTAGACACGCCCATGTGTCTAGGCCATGGCGAAATAGGGCATACATA
CTAACTTATCCACACGGCCACAAGACACGCCCGTGTGTCTAGCCCGTGGTCGAAACTGACTTGGC
CACACAGCCTGGCACACGCTTGGTGTTCGCACCGTGTGGTCTACCCAAGCTCATTTCGAAATGGC
CCTCGAGCAACACGACAGAGACACACGCCCGTGCCCTGCCCGTGTGGGAAAAAATAGGCCATTTA
CAAGGCCAATATGCCACCCATTTGGGTCCTCCCTACAATTCCAAAATCAAGCATCATATATGCAA
CATTTTCAGCCAAATTCAACTCCAAACATGTATCAATCAATTCATAATATCATCAACAAATTTCA
TGCTCATTCTATATATCAAAGCATATTAAAATCACATGCTAAACATTACCAAATTCCCAAATATG
GACATACCAAAATGACCATTTCACTTGGCCATATACATATATAT
Found at i:302020 original size:15 final size:15
Alignment explanation
Indices: 302000--302032 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
301990 TTTCGAATCT
302000 ATTCTTTATTTCGGG
1 ATTCTTTATTTCGGG
302015 ATTCTTTATTTCGGG
1 ATTCTTTATTTCGGG
302030 ATT
1 ATT
302033 TAGAACAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.55
Consensus pattern (15 bp):
ATTCTTTATTTCGGG
Found at i:302901 original size:27 final size:26
Alignment explanation
Indices: 302840--302952 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
302830 AGGAAGCGTC
* *
302840 CTGGTGGCTATACCACAAATTATCTGAT
1 CTGGTGGCTCTACCAC--ATTATCTGTT
*
302868 CTAGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTACCACAT-TATCTGTT
* *
302895 TTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTACCAC-ATTATCTGT-T
* **
302923 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTACCACATTATCTGTT
302949 CTGG
1 CTGG
302953 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 7 0.10
27 36 0.49
28 30 0.41
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTACCACATTATCTGTT
Found at i:310684 original size:27 final size:26
Alignment explanation
Indices: 310623--310735 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
310613 AGGAAGCGTC
* * *
310623 CTGGTGGCTATACCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
310651 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
310678 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
310706 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
310732 CTGG
1 CTGG
310736 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.51
28 30 0.40
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:312639 original size:42 final size:43
Alignment explanation
Indices: 312540--312699 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
312530 ACCTTGTACA
* * * **
312540 ATGCCAACGTCCCAGACGTGGTCTTATATGTGATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
312583 ATGCC-ACTGTCCCAGACAAGGTCTTACACGAAATCATATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
312625 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-AATATCG
* *
312669 ATGCCAACGTCTCAGACGTGGTCTTACACGA
1 ATGCCAACGTCCCAGACATGGTCTTACACGA
312700 TAACACATAT
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
42 30 0.31
43 39 0.40
44 29 0.30
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:315213 original size:42 final size:41
Alignment explanation
Indices: 315123--315233 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 41
315113 TACCGTATCA
* * *
315123 ATGCCATATCCCGAATATGGTCTTACATGAAATATCATATCG
1 ATGCCATATCCC-AATATGGTCTTATATGAAATATCACACCG
* * *
315165 ACGCCATGTCCCTAACATGGTCTTATATGAAATCA-CACACCG
1 ATGCCATATCCC-AATATGGTCTTATATGAAAT-ATCACACCG
315207 ATGCCATATCCCAGATATGGTCTTATA
1 ATGCCATATCCCA-ATATGGTCTTATA
315234 CAGAATCTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.02
42 55 0.96
43 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAATATGGTCTTATATGAAATATCACACCG
Found at i:320769 original size:27 final size:27
Alignment explanation
Indices: 320739--320916 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
320729 ATATTGAGTC
* * * *
320739 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
320766 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
320793 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
320821 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
320848 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
320875 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
320902 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
320917 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:320878 original size:82 final size:81
Alignment explanation
Indices: 320760--320915 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
320750 TGCTATATAA
* *
320760 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
320825 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
320842 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
320906 CACTTAGTGC
65 CACTTAGTGC
320916 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:324183 original size:49 final size:49
Alignment explanation
Indices: 324127--324453 Score: 528
Period size: 49 Copynumber: 6.8 Consensus size: 49
324117 TATTTGAATA
324127 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
324176 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
324223 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
324272 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
324321 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
324370 AATGTGAACA-TG--CATATATGAGATAAGGCCGAATGG-CAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
324416 AATGTGAACA-TG--TGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCC
324454 GATTCAAGTA
Statistics
Matches: 266, Mismatches: 8, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
46 42 0.16
47 69 0.26
49 154 0.58
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:325755 original size:40 final size:40
Alignment explanation
Indices: 325700--325828 Score: 222
Period size: 40 Copynumber: 3.2 Consensus size: 40
325690 GAGAATTGAG
325700 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
325740 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
325780 AGTGATATATCCAGGTTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
325820 AGTGATATA
1 AGTGATATA
325829 ATTTATCACA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:334403 original size:16 final size:16
Alignment explanation
Indices: 334378--334408 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
334368 ATCTATAAGA
*
334378 CACATTTTTCATTATC
1 CACATATTTCATTATC
334394 CACATATTTCATTAT
1 CACATATTTCATTAT
334409 AATCATACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (16 bp):
CACATATTTCATTATC
Found at i:343919 original size:43 final size:43
Alignment explanation
Indices: 343831--344023 Score: 192
Period size: 43 Copynumber: 4.5 Consensus size: 43
343821 TCTAAAATAT
* * * *
343831 GATTTCATGTAAGACCACGTCTAGGACGTTGGCATCAATTTGA
1 GATTTCGTGTAAGACCATGTCTAGGACATTGGCATCAATTAGA
* * *
343874 GATATT-GTGTAAGACCATGTCTAGTACATTGACATCGATTAGA
1 GAT-TTCGTGTAAGACCATGTCTAGGACATTGGCATCAATTAGA
* * * *
343917 GATTTCATGTAAGACCACGTTTAGGACATTGGCATCAATTTGA
1 GATTTCGTGTAAGACCATGTCTAGGACATTGGCATCAATTAGA
* * * * * * *
343960 GATATCGTGTAAGACCGTGTTTGGGACACT-GCATCGATTACA
1 GATTTCGTGTAAGACCATGTCTAGGACATTGGCATCAATTAGA
*
344002 GATTTCGTGTAAGACCCTGTCT
1 GATTTCGTGTAAGACCATGTCT
344024 GGTATAGTGG
Statistics
Matches: 122, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
42 30 0.25
43 90 0.74
44 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTAGGACATTGGCATCAATTAGA
Found at i:344246 original size:56 final size:56
Alignment explanation
Indices: 344123--344249 Score: 227
Period size: 56 Copynumber: 2.3 Consensus size: 56
344113 AATACGTTGA
* *
344123 CATCGATATGTAATTTCAATATGTGTTTACGAGTAAGACCCTATCTGGGACAGTGG
1 CATCGATATGTGATTTCAATATGTGTTTACGAGTAAGACCCTATCTGGGACAGAGG
*
344179 CATCGATATGTGATTTCAATATGTGTTTATGAGTAAGACCCTATCTGGGACAGAGG
1 CATCGATATGTGATTTCAATATGTGTTTACGAGTAAGACCCTATCTGGGACAGAGG
344235 CATCGATATGTGATT
1 CATCGATATGTGATT
344250 ACATGTAAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (56 bp):
CATCGATATGTGATTTCAATATGTGTTTACGAGTAAGACCCTATCTGGGACAGAGG
Found at i:351566 original size:43 final size:43
Alignment explanation
Indices: 351515--351751 Score: 172
Period size: 43 Copynumber: 5.5 Consensus size: 43
351505 AGATATGATT
** *
351515 TCGTGTAAGACCACGTCTGGGACATTGATATCGATTTGAGATA
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATTAGAGATA
* ** * ** * * *
351558 TAGTGTAAGACCGTGCCTAAGACACTGGCATTGATTAGAGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATTAGAGATA
* * ** *
351601 TCGTGTAAGACGACGTTTGGGATGTTGGCATCGATTTGAGATA
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATTAGAGATA
* ** * *
351644 TCGTCTAAGACCGTGTCTGGGACATTGGCATCGATTAGTGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATTAGAGATA
** * ** *
351687 TCGTGTAAGACCTTGTCTAGGACAAAGGCATCGA-TATGTGAT-
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATTA-GAGATA
* *
351729 TACATGTAAGACCACGTTTGGGA
1 T-CGTGTAAGACCACGTCTGGGA
351752 TGTTAGCATT
Statistics
Matches: 146, Mismatches: 46, Indels: 4
0.74 0.23 0.02
Matches are distributed among these distances:
42 3 0.02
43 143 0.98
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGATTAGAGATA
Found at i:351717 original size:86 final size:86
Alignment explanation
Indices: 351510--351721 Score: 253
Period size: 86 Copynumber: 2.5 Consensus size: 86
351500 TTCCGAGATA
** *
351510 TGATTTCGTGTAAGACCACGTCTGGGACATTGATATCGATTTGAGATATAGTGTAAGACCGTGCC
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTGAGATATAGTCTAAGACCGTGCC
*
351575 TAAGACACTGGCATTGATTAG
66 TAAGACACTGGCATCGATTAG
* * * ** * *
351596 AGATTTCGTGTAAGACGACGTTTGGGATGTTGGCATCGATTTGAGATATCGTCTAAGACCGTGTC
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTGAGATATAGTCTAAGACCGTGCC
** *
351661 TGGGACATTGGCATCGATTAG
66 TAAGACACTGGCATCGATTAG
** * **
351682 TGATTTCGTGTAAGACCTTGTCTAGGACAAAGGCATCGAT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
351722 ATGTGATTAC
Statistics
Matches: 102, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
86 102 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (86 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTGAGATATAGTCTAAGACCGTGCC
TAAGACACTGGCATCGATTAG
Found at i:351750 original size:129 final size:129
Alignment explanation
Indices: 351515--351760 Score: 296
Period size: 129 Copynumber: 1.9 Consensus size: 129
351505 AGATATGATT
* * *
351515 TCGTGTAAGACCACGTCTGGGACATTGATATCGATTTGAGATATAGTGTAAGACCGTGCCTAAGA
1 TCGTCTAAGACCACGTCTGGGACATTGACATCGATTAGAGATATAGTGTAAGACCGTGCCTAAGA
** * * * * *
351580 CACTGGCATTGATTAGAGATTTCGTGTAAGACGACGTTTGGGATGTTGGCATCGATTTGAGATA
66 CAAAGGCATCGATTAGAGATTACATGTAAGACCACGTTTGGGATGTTAGCATCGATTTGAGATA
** * * * * * * *
351644 TCGTCTAAGACCGTGTCTGGGACATTGGCATCGATTAGTGATTTCGTGTAAGACCTTGTCTAGGA
1 TCGTCTAAGACCACGTCTGGGACATTGACATCGATTAGAGATATAGTGTAAGACCGTGCCTAAGA
*
351709 CAAAGGCATCGA-TATGTGATTACATGTAAGACCACGTTTGGGATGTTAGCAT
66 CAAAGGCATCGATTA-GAGATTACATGTAAGACCACGTTTGGGATGTTAGCAT
351761 TGTACAATAT
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
128 2 0.02
129 94 0.98
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (129 bp):
TCGTCTAAGACCACGTCTGGGACATTGACATCGATTAGAGATATAGTGTAAGACCGTGCCTAAGA
CAAAGGCATCGATTAGAGATTACATGTAAGACCACGTTTGGGATGTTAGCATCGATTTGAGATA
Found at i:351884 original size:43 final size:43
Alignment explanation
Indices: 351820--351906 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
351810 ATATGTTAAT
* *
351820 TCAATATGTGTTTACGAGTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCAATAAGTGATTACGAGTAAGACCAC-GTCTGGGAC-GTTGGCA
351863 TCAATAAGTGATTAC-ATGTAAGACCACGTCTGGGACGTTGGCA
1 TCAATAAGTGATTACGA-GTAAGACCACGTCTGGGACGTTGGCA
351906 T
1 T
351907 TGTACAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 36 0.92
44 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (43 bp):
TCAATAAGTGATTACGAGTAAGACCACGTCTGGGACGTTGGCA
Found at i:353641 original size:56 final size:56
Alignment explanation
Indices: 353555--353668 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
353545 TGATTGTATG
353555 TTTGAATATGTGATTCAAATATATGAATTTGACTTGTATGAGTAAGAGGTCAGTTA
1 TTTGAATATGTGATTCAAATATATGAATTTGACTTGTATGAGTAAGAGGTCAGTTA
353611 TTTGAATATGTGATTCAAATATATGAATTTGACTTGTATGAGTAAGAGGTCAGTTA
1 TTTGAATATGTGATTCAAATATATGAATTTGACTTGTATGAGTAAGAGGTCAGTTA
353667 TT
1 TT
353669 AATTTATTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (56 bp):
TTTGAATATGTGATTCAAATATATGAATTTGACTTGTATGAGTAAGAGGTCAGTTA
Found at i:362239 original size:29 final size:29
Alignment explanation
Indices: 362206--362316 Score: 150
Period size: 29 Copynumber: 3.8 Consensus size: 29
362196 TGCAATAAGA
*
362206 TCGCACACTTAATGCTCGATAGTTTTACT
1 TCGCACACTTAATGCTCGATAATTTTACT
* *
362235 TCGCACACTTAGTGCTCAATAATTTTACT
1 TCGCACACTTAATGCTCGATAATTTTACT
* * * *
362264 TCGCACACTTAGTGCTTGTTAATTTTTCT
1 TCGCACACTTAATGCTCGATAATTTTACT
*
362293 TTGCACACTTAATGCTCGATAATT
1 TCGCACACTTAATGCTCGATAATT
362317 CACATATATA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.41
Consensus pattern (29 bp):
TCGCACACTTAATGCTCGATAATTTTACT
Found at i:362597 original size:30 final size:30
Alignment explanation
Indices: 362563--362632 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
362553 TTAAAAATTC
362563 AAATTGAACTCATTCAAAGAAAATTTTATT
1 AAATTGAACTCATTCAAAGAAAATTTTATT
362593 AAATTGAACTCATTCAAAGAAAATTTTATT
1 AAATTGAACTCATTCAAAGAAAATTTTATT
362623 AAATT-AACTC
1 AAATTGAACTC
362633 CAAAACTCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 5 0.12
30 35 0.88
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (30 bp):
AAATTGAACTCATTCAAAGAAAATTTTATT
Found at i:362640 original size:37 final size:41
Alignment explanation
Indices: 362599--362688 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 41
362589 TATTAAATTG
362599 AACTCAT-T-CAAA-GA-AAATTTTATTAAATTAACTCCAA
1 AACTCATATACAAATGACAAATTTTATTAAATTAACTCCAA
*
362636 AACTCATAGTCAAGCAAATTACAAATTTTATTAAATTAACTCCAA
1 AACTCATA-T--A-CAAATGACAAATTTTATTAAATTAACTCCAA
362681 AACTCATA
1 AACTCATA
362689 ATCAAGCAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
37 7 0.16
39 1 0.02
43 4 0.09
44 1 0.02
45 31 0.70
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (41 bp):
AACTCATATACAAATGACAAATTTTATTAAATTAACTCCAA
Found at i:362677 original size:45 final size:45
Alignment explanation
Indices: 362613--362707 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
362603 CATTCAAAGA
*
362613 AAATTTTATTAAATTAACTCCAAAACTCATAGTCAAGCAAATTAC
1 AAATTTTATTAAATTAACTCCAAAACTCATAATCAAGCAAATTAC
362658 AAATTTTATTAAATTAACTCCAAAACTCATAATCAAGCAAATTAC
1 AAATTTTATTAAATTAACTCCAAAACTCATAATCAAGCAAATTAC
*
362703 CAATT
1 AAATT
362708 ATCCCTTCAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (45 bp):
AAATTTTATTAAATTAACTCCAAAACTCATAATCAAGCAAATTAC
Found at i:369241 original size:27 final size:27
Alignment explanation
Indices: 369201--369264 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
369191 GGAAAAACAA
* *
369201 TCATTTTACCCTACAGGGGTATGTCGG
1 TCATTTTACACTACAAGGGTATGTCGG
* *
369228 TCATTTTACACTACAAGGGTATTTTGG
1 TCATTTTACACTACAAGGGTATGTCGG
*
369255 TAATTTTACA
1 TCATTTTACA
369265 AATTGAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATGTCGG
Found at i:369273 original size:27 final size:27
Alignment explanation
Indices: 369217--369501 Score: 344
Period size: 27 Copynumber: 10.6 Consensus size: 27
369207 TACCCTACAG
* * * *
369217 GGGTATGTCGGTCATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* *
369244 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
369271 GGGTATTTCGGTAATTTTACAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
* **
369298 AGGTATTTCAATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
** *
369325 GGGTATTTTAGTAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
369351 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
369378 GGGTATTTCGTTAATTTTAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
369404 GGGTATTTTGGTAATTTTACAAATCGG
1 GGGTATTTCGGTAATTTTACAAATCGA
*
369431 GGGTATTTGGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
369458 AGGTGTTTCGGTAATTTCACAAATCTG-
1 GGGTATTTCGGTAATTTTACAAATC-GA
369485 GGGTATTTCGGTAATTT
1 GGGTATTTCGGTAATTT
369502 ACCTTTATTA
Statistics
Matches: 222, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 47 0.21
27 172 0.77
28 3 0.01
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:369503 original size:53 final size:54
Alignment explanation
Indices: 369245--369501 Score: 340
Period size: 53 Copynumber: 4.8 Consensus size: 54
369235 ACACTACAAG
* * *
369245 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCAAA
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAA
** ** * *
369299 GGTATTTCAATAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC-AATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAA
* *
369352 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGTTAATTTTAC-AATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAA
* * *
369405 GGTATTTTGGTAATTTTACAAATCGGGGGTATTTGGGTAATTTTACAAATCGAA
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAA
* *
369459 GGTGTTTCGGTAATTTCACAAATCTG-GGGTATTTCGGTAATTT
1 GGTATTTCGGTAATTTTACAAATC-GAGGGTATTTCGGTAATTT
369502 ACCTTTATTA
Statistics
Matches: 177, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 94 0.53
54 82 0.46
55 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAA
Found at i:369503 original size:80 final size:81
Alignment explanation
Indices: 369243--369501 Score: 371
Period size: 80 Copynumber: 3.2 Consensus size: 81
369233 TTACACTACA
* * *
369243 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCAAAGGTATTTCA
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAAGGTATTTCG
369308 ATAATTTTACAAATCG
66 ATAATTTTACAAATCG
* * *
369324 AGGGTATTTTAGTAATTTCAC-AATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCG
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAAGGTATTTCG
*
369388 TTAATTTTAC-AATCG
66 ATAATTTTACAAATCG
* * *
369403 AGGGTATTTTGGTAATTTTACAAATCGGGGGTATTTGGGTAATTTTACAAATCGAAGGTGTTTCG
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAAGGTATTTCG
* *
369468 GTAATTTCACAAATCTG
66 ATAATTTTACAAATC-G
*
369485 -GGGTATTTCGGTAATTT
1 AGGGTATTTTGGTAATTT
369502 ACCTTTATTA
Statistics
Matches: 159, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
79 24 0.15
80 95 0.60
81 39 0.25
82 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAAGGTATTTCG
ATAATTTTACAAATCG
Found at i:369854 original size:28 final size:28
Alignment explanation
Indices: 369818--369909 Score: 148
Period size: 28 Copynumber: 3.3 Consensus size: 28
369808 TGGCCACTTT
*
369818 AGGCCCAATCTCGTTCACATGGCCCAAC
1 AGGCCCAATCTCGTTCACATGGCCCATC
369846 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
* * *
369874 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
369902 AGGCCCAA
1 AGGCCCAA
369910 CTAGTTCCCA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.26, C:0.38, G:0.17, T:0.18
Consensus pattern (28 bp):
AGGCCCAATCTCGTTCACATGGCCCATC
Found at i:374422 original size:40 final size:40
Alignment explanation
Indices: 374378--374729 Score: 614
Period size: 40 Copynumber: 8.8 Consensus size: 40
374368 ACACATCACT
* *
374378 GGCACGAATGCCCTTCGGGACTTAGCCCGGATATAACATC
1 GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACC
* *
374418 GGCACGAATACCCTTCGGGATTTAGCCCAGATATAACACC
1 GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACC
374458 GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACC
1 GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACC
*
374498 GGCATGAATGCCCTTCGGGATTTAGCCCGGATATAACACC
1 GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACC
*
374538 GGCACGAATGCCCTTCGGGACTTAGCCCGGATATAACACC
1 GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACC
*
374578 GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACT
1 GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACC
*
374618 GGCACGAATGCCCTTCGGGACTTAGCCCGGATATAACACC
1 GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACC
*
374658 GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACT
1 GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACC
*
374698 GGCACGAATGCCCTTCGGGACTTAGCCCGGAT
1 GGCACGAATGCCCTTCGGGATTTAGCCCGGAT
374730 CATCGTCGAG
Statistics
Matches: 296, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 296 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (40 bp):
GGCACGAATGCCCTTCGGGATTTAGCCCGGATATAACACC
Found at i:374856 original size:38 final size:38
Alignment explanation
Indices: 374770--374861 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
374760 CTCTATATGA
* * * **
374770 AGCCAGTGGGTCTTAATCCGGACATAATCTCTGTACAT
1 AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
* *
374808 AGCCATCGGGTCTTTACCCGGACATAATCTCTACATAT
1 AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
*
374846 AGTCAGCGGGTCTTTA
1 AGCCAGCGGGTCTTTA
374862 AACTCGGATT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (38 bp):
AGCCAGCGGGTCTTTACCCGGACATAATCTCTACACAT
Found at i:376870 original size:47 final size:47
Alignment explanation
Indices: 376801--376905 Score: 165
Period size: 47 Copynumber: 2.2 Consensus size: 47
376791 CCCTTCGGGA
* * *
376801 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATCCGAC
*
376848 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATCCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATCCGAC
*
376895 CTTATAACATA
1 CTTATCACATA
376906 ATTAATACTA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATCCGAC
Found at i:387637 original size:33 final size:34
Alignment explanation
Indices: 387560--387640 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
387550 TATGGGTCAT
*
387560 ACTGTTATCTGAATAAGGGGCCAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCCAAGGCCCAGTTC
* * *
387594 AATGTAATCTGAA-AA-GGGCTC-TGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGC-CAAGGCCCAGT-TC
387627 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
387641 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
32 12 0.32
33 15 0.39
34 11 0.29
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCCAAGGCCCAGTTC
Found at i:395166 original size:26 final size:26
Alignment explanation
Indices: 395136--395188 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
395126 TTTATAGTTT
395136 TACCCCTAGGAGTTAAATT-ACCGAAA
1 TACCCCTAGG-GTTAAATTGACCGAAA
*
395162 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGTTAAATTGACCGAAA
395188 T
1 T
395189 GCATGTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGTTAAATTGACCGAAA
Found at i:399956 original size:3 final size:3
Alignment explanation
Indices: 399950--399978 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
399940 TACTACTATT
399950 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
399979 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Done.