Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014770.1 Kokia drynarioides strain JFW-HI SEQ_129811, whole genome shotgun sequence
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: 203025
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Warning! 80 characters in sequence are not A, C, G, or T
Found at i:8508 original size:26 final size:22
Alignment explanation
Indices: 8451--8527 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
8441 GTAATATATC
8451 AATATAATTGATTGATTGTGCCA
1 AATA-AATTGATTGATTGTGCCA
8474 AATAAATTGATTGATTGTGCCA
1 AATAAATTGATTGATTGTGCCA
* * * *
8496 ATTTAATTTATTGATTGTACCA
1 AATAAATTGATTGATTGTGCCA
* *
8518 ATTTAATTGA
1 AATAAATTGA
8528 ATATTTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 45 0.92
23 4 0.08
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (22 bp):
AATAAATTGATTGATTGTGCCA
Found at i:13928 original size:22 final size:22
Alignment explanation
Indices: 13884--13925 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13874 AAAAGATTTT
13884 AAGAATTCTAGAGAAGAAGAAG
1 AAGAATTCTAGAGAAGAAGAAG
13906 AAGAATTGC-AGAGAA-AAGAA
1 AAGAATT-CTAGAGAAGAAGAA
13926 AGATTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 13 0.68
23 1 0.05
ACGTcount: A:0.57, C:0.05, G:0.26, T:0.12
Consensus pattern (22 bp):
AAGAATTCTAGAGAAGAAGAAG
Found at i:24299 original size:55 final size:55
Alignment explanation
Indices: 24222--24333 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
24212 AAAAACAAAT
24222 TCATTATATCACTTTAAATCACTCATTTTAATTACGCATCCAATAGTCAAAAAAC
1 TCATTATATCACTTTAAATCACTCATTTTAATTACGCATCCAATAGTCAAAAAAC
24277 TCATTATATCACTTTAAATCACTCATTTTAATTACGCATCCAATAGTCAAAAAAC
1 TCATTATATCACTTTAAATCACTCATTTTAATTACGCATCCAATAGTCAAAAAAC
24332 TC
1 TC
24334 GTGCATTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (55 bp):
TCATTATATCACTTTAAATCACTCATTTTAATTACGCATCCAATAGTCAAAAAAC
Found at i:27306 original size:48 final size:48
Alignment explanation
Indices: 27242--27336 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
27232 GGGGCATTCA
*
27242 TGTCTATAGTTTATTGTGTCTTATGCTCAATCCCATCAAGCAAGGGCC
1 TGTCTATAGTTTATTGTGCCTTATGCTCAATCCCATCAAGCAAGGGCC
27290 TGTCTATAGTTTATTGTGCCTTATGCTCAATCCCATCAAGCAAGGGC
1 TGTCTATAGTTTATTGTGCCTTATGCTCAATCCCATCAAGCAAGGGC
27337 TCAAAAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (48 bp):
TGTCTATAGTTTATTGTGCCTTATGCTCAATCCCATCAAGCAAGGGCC
Found at i:35167 original size:3 final size:3
Alignment explanation
Indices: 35159--35187 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
35149 TTTTTGTCGT
35159 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
35188 ATAATCAAGA
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:35916 original size:29 final size:29
Alignment explanation
Indices: 35884--35947 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
35874 ATAAAAGAAC
* * * *
35884 CATTAGAAGAATCACAAGAAAAACTTATT
1 CATTAAAAGAATCAAAAGAAAAAATGATT
*
35913 CATTAAAAGAATCAAAATAAAAAATGATT
1 CATTAAAAGAATCAAAAGAAAAAATGATT
35942 CATTAA
1 CATTAA
35948 CCAAAGGAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.25
Consensus pattern (29 bp):
CATTAAAAGAATCAAAAGAAAAAATGATT
Found at i:38208 original size:7 final size:7
Alignment explanation
Indices: 38196--38224 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
38186 TTTACAAAAA
38196 GAATTTT
1 GAATTTT
38203 GAATTTT
1 GAATTTT
38210 GAATTTT
1 GAATTTT
38217 GAATTTT
1 GAATTTT
38224 G
1 G
38225 TTTAAGCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (7 bp):
GAATTTT
Found at i:41664 original size:12 final size:12
Alignment explanation
Indices: 41647--41688 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
41637 AAGTAACCAA
41647 GAAGTGCCAAAG
1 GAAGTGCCAAAG
41659 GAAGTGCCAAAG
1 GAAGTGCCAAAG
41671 GAAGTGCCAAAG
1 GAAGTGCCAAAG
*
41683 AAAGTG
1 GAAGTG
41689 GGAGTTGCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.43, C:0.14, G:0.33, T:0.10
Consensus pattern (12 bp):
GAAGTGCCAAAG
Found at i:49522 original size:29 final size:29
Alignment explanation
Indices: 49469--49898 Score: 262
Period size: 30 Copynumber: 14.7 Consensus size: 29
49459 TAAAATAAAT
49469 GGGTCAAAAATG-AAGTTTTGG-AGAATTTA
1 GGGTC-AAAATGTAA-TTTTGGAAGAATTTA
* *
49498 GGGTTAAAATGTCATTTTGGAAGAATTTA
1 GGGTCAAAATGTAATTTTGGAAGAATTTA
* * *
49527 GGGGTTAAAA-GATAATTTTATGAA-AGTTTA
1 -GGGTCAAAATG-TAATTTT-GGAAGAATTTA
* *
49557 -GGTCAAAATGTGATTTTAGGAAG-GTTTA
1 GGGTCAAAATGTAATTTT-GGAAGAATTTA
** * *
49585 GGGTCAAAACATGATTTTGGGAA-AATTCGA
1 GGGTCAAAATGTAATTTT-GGAAGAATT-TA
*
49615 GGGTCAAAATGTAATTTTGG-AGAAGTTTG
1 GGGTCAAAATGTAATTTTGGAAGAA-TTTA
* * *
49644 GGGTCAAAATATGATTTTGGAAAAATTTAA
1 GGGTCAAAATGTAATTTTGGAAGAATTT-A
* *
49674 GGGTCAAAATGTAAATTTAG-AGAAATTTA
1 GGGTCAAAATGTAATTTTGGAAG-AATTTA
* * *
49703 AGGTCAAAATGTAGTTTT-GAA-AACATTA
1 GGGTCAAAATGTAATTTTGGAAGAA-TTTA
*
49731 GGGTCAAAATGTAATTTTAG-AGAATTTTA
1 GGGTCAAAATGTAATTTTGGAAGAA-TTTA
*
49760 GGGGTCAAAATGTAATTTTGGAA-AAGTTTG
1 -GGGTCAAAATGTAATTTTGGAAGAA-TTTA
* *
49790 GTGGTTAAAATGTAATTTT-TAAGAAGTTTA
1 G-GGTCAAAATGTAATTTTGGAAGAA-TTTA
* * * *
49820 GGGGTTAAAATGCAATTTTTGAA-ATGTTTA
1 -GGGTCAAAATGTAATTTTGGAAGA-ATTTA
* * * *
49850 AGGTGAAAATGTGATTTTGGAA-AGATTTG
1 GGGTCAAAATGTAATTTTGGAAGA-ATTTA
*
49879 GGGTTCAAAATGTTATTTTG
1 GGG-TCAAAATGTAATTTTG
49899 TAAAGGTTTA
Statistics
Matches: 319, Mismatches: 55, Indels: 53
0.75 0.13 0.12
Matches are distributed among these distances:
27 2 0.01
28 56 0.18
29 111 0.35
30 143 0.45
31 7 0.02
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTGGAAGAATTTA
Found at i:49861 original size:89 final size:90
Alignment explanation
Indices: 49469--49919 Score: 291
Period size: 87 Copynumber: 5.1 Consensus size: 90
49459 TAAAATAAAT
* * *
49469 GGGTCAAAAATG-AAGTTTTGGAGAA-TTTAG-GGTTAAAATGTCATTTTGG-AAGAATTTAGGG
1 GGGTC-AAAATGCAA-TTTTAGAGAATTTTAGAGGTCAAAATGTAATTTTGGAAAG-ATTT-GGG
* *
49530 GTT-AAAA-GATAATTTTATGAAAGTTTA-
62 GTTCAAAATG-TAATTTTGTAAAAGTTTAG
** * ** * *
49557 -GGTCAAAATGTGATTTTAG-GAAGGTTTAG-GGTCAAAACATGATTTTGGGAAA-ATTCGAGGG
1 GGGTCAAAATGCAATTTTAGAGAA-TTTTAGAGGTCAAAATGTAATTTT-GGAAAGATTTG-GGG
* *
49618 -TCAAAATGTAATTTTGGAGAAGTTT-G
63 TTCAAAATGTAATTTTGTAAAAGTTTAG
*** * * * * * **
49644 GGGTCAAAATATGATTTTGGAAAAATTTA-AGGGTCAAAATGTAAATTTAGAGAA-ATTTAAGG-
1 GGGTCAAAATGCAATTTTAGAGAATTTTAGA-GGTCAAAATGTAATTTTGGA-AAGATTTGGGGT
* **
49706 TCAAAATGTAGTTTTG-AAAACATTA-
64 TCAAAATGTAATTTTGTAAAAGTTTAG
* *
49731 GGGTCAAAATGTAATTTTAGAGAATTTTAGGGGTCAAAATGTAATTTTGGAAA-AGTTTGGTGGT
1 GGGTCAAAATGCAATTTTAGAGAATTTTAGAGGTCAAAATGTAATTTTGGAAAGA-TTTGG-GGT
49795 T-AAAATGTAATTTT-TAAGAAGTTTAG
64 TCAAAATGTAATTTTGTAA-AAGTTTAG
* * * *
49821 GGGTTAAAATGCAATTTTTGA-AATGTTTA-AGGTGAAAATGTGATTTTGGAAAGATTTGGGGTT
1 GGGTCAAAATGCAATTTTAGAGAAT-TTTAGAGGTCAAAATGTAATTTTGGAAAGATTTGGGGTT
* *
49884 CAAAATGTTATTTTGTAAAGGTTTAG
65 CAAAATGTAATTTTGTAAAAGTTTAG
*
49910 GGGTCCAAAT
1 GGGTCAAAAT
49920 ATAATTTTTA
Statistics
Matches: 287, Mismatches: 50, Indels: 51
0.74 0.13 0.13
Matches are distributed among these distances:
85 3 0.01
86 16 0.06
87 96 0.33
88 63 0.22
89 83 0.29
90 26 0.09
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (90 bp):
GGGTCAAAATGCAATTTTAGAGAATTTTAGAGGTCAAAATGTAATTTTGGAAAGATTTGGGGTTC
AAAATGTAATTTTGTAAAAGTTTAG
Found at i:49897 original size:59 final size:58
Alignment explanation
Indices: 49469--49927 Score: 301
Period size: 59 Copynumber: 7.8 Consensus size: 58
49459 TAAAATAAAT
* * * * *
49469 GGGTCAAAAATG-AAGTTTTGGAGAA-TTTAGGGTTAAAATGTCATTTTGGAAGAA-TTTAG
1 GGGTC-AAAATGTAA-TTTTGGAAAAGTTTAAGGTCAAAATGTAATTTTAG-AGAAGTTT-G
* * * *
49528 GGGTTAAAA-GATAATTTTATG-AAAGTTT-AGGTCAAAATGTGATTTTAG-GAAGGTTTA
1 GGGTCAAAATG-TAATTTT-GGAAAAGTTTAAGGTCAAAATGTAATTTTAGAGAA-GTTTG
** * * * *
49585 GGGTCAAAACATGATTTTGGGAAAA-TTCGAGGGTCAAAATGTAATTTTGGAGAAGTTTG
1 GGGTCAAAATGTAATTTT-GGAAAAGTT-TAAGGTCAAAATGTAATTTTAGAGAAGTTTG
* * * * * *
49644 GGGTCAAAATATGATTTTGGAAAAATTTAAGGGTCAAAATGTAAATTTAGAGAAATTTA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAA-GGTCAAAATGTAATTTTAGAGAAGTTTG
* * ** * *
49703 AGGTCAAAATGTAGTTTT-GAAAACATTAGGGTCAAAATGTAATTTTAGAGAATTTTAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAAGGTCAAAATGTAATTTTAGAGAAGTTT-G
** *
49761 GGGTCAAAATGTAATTTTGGAAAAGTTTGGTGGTTAAAATGTAATTTTTA-AGAAGTTTAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTT-AAGGTCAAAATGTAA-TTTTAGAGAAGTTT-G
* * * * * * *
49821 GGGTTAAAATGCAATTTTTGAAATGTTTAAGGTGAAAATGTGATTTTGGA-AAGATTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAAGGTCAAAATGTAATTTTAGAGAAG-TTTG
* * * * * *
49879 GGGTTCAAAATGTTATTTTGTAAAGGTTTAGGGGTCCAAATATAATTTT
1 GGG-TCAAAATGTAATTTTGGAAAAGTTTA-AGGTCAAAATGTAATTTT
49928 TAAATAAAAT
Statistics
Matches: 316, Mismatches: 63, Indels: 41
0.75 0.15 0.10
Matches are distributed among these distances:
56 3 0.01
57 43 0.14
58 74 0.23
59 130 0.41
60 61 0.19
61 5 0.02
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (58 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTTAAGGTCAAAATGTAATTTTAGAGAAGTTTG
Found at i:55095 original size:23 final size:23
Alignment explanation
Indices: 55048--55195 Score: 109
Period size: 23 Copynumber: 6.4 Consensus size: 23
55038 AGTGTTGGGG
* * * *
55048 AAACAATAAGCACACACAATACA
1 AAACAGTAAGAACACACAGTGCA
*
55071 AATCAGT-AGAAACACACAGTGCA
1 AAACAGTAAG-AACACACAGTGCA
* *
55094 AAACAGTAAGCATACACAGTGCA
1 AAACAGTAAGAACACACAGTGCA
* * * * *
55117 AAACAATAAGCACATATAGTGCG
1 AAACAGTAAGAACACACAGTGCA
* * *
55140 AATCAGTAAGCACACACAGTGCT
1 AAACAGTAAGAACACACAGTGCA
* * *
55163 GAACAGTAAGCACACACAGTGCT
1 AAACAGTAAGAACACACAGTGCA
*
55186 GAACAGTAAG
1 AAACAGTAAG
55196 CGCGCTAATG
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
22 2 0.02
23 99 0.96
24 2 0.02
ACGTcount: A:0.47, C:0.22, G:0.17, T:0.14
Consensus pattern (23 bp):
AAACAGTAAGAACACACAGTGCA
Found at i:55196 original size:23 final size:23
Alignment explanation
Indices: 55082--55196 Score: 142
Period size: 23 Copynumber: 5.0 Consensus size: 23
55072 ATCAGTAGAA
*
55082 ACACACAGTGCAAAACAGTAAGC
1 ACACACAGTGCAGAACAGTAAGC
* * *
55105 ATACACAGTGCAAAACAATAAGC
1 ACACACAGTGCAGAACAGTAAGC
* *
55128 ACATATAGTGC-GAATCAGTAAGC
1 ACACACAGTGCAGAA-CAGTAAGC
*
55151 ACACACAGTGCTGAACAGTAAGC
1 ACACACAGTGCAGAACAGTAAGC
*
55174 ACACACAGTGCTGAACAGTAAGC
1 ACACACAGTGCAGAACAGTAAGC
55197 GCGCTAATGT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
22 2 0.02
23 76 0.94
24 3 0.04
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.14
Consensus pattern (23 bp):
ACACACAGTGCAGAACAGTAAGC
Found at i:61927 original size:67 final size:66
Alignment explanation
Indices: 61821--61978 Score: 252
Period size: 67 Copynumber: 2.4 Consensus size: 66
61811 TGAGTTTGTT
*
61821 ATTTATTTATTTATATTCAT-AA-AAT-AATAAATAAATAATAAAACAAAGTTAATATTATTTTA
1 ATTTATTTATTTATATTCATAAATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTA
61883 C
66 C
*
61884 ATTTATTTATTTATATTCATACAATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTT
1 ATTTATTTATTTATATTCATA-AATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTT
*
61949 AT
65 AC
61951 ATTTATTTATTTATATTCATAAA-AATAA
1 ATTTATTTATTTATATTCATAAATAATAA
61979 TAAGAAAAAT
Statistics
Matches: 88, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
63 20 0.23
65 7 0.08
66 5 0.06
67 56 0.64
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.45
Consensus pattern (66 bp):
ATTTATTTATTTATATTCATAAATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTA
C
Found at i:62634 original size:29 final size:28
Alignment explanation
Indices: 62602--63037 Score: 277
Period size: 30 Copynumber: 14.9 Consensus size: 28
62592 NNNNNNNNNN
* *
62602 AATTTAGGGTTAAAATGTCATTTTGGAA
1 AATTTAGGGTCAAAATGTAATTTTGGAA
* *
62630 GAATTTAGGGGTTAAAA-GATAATTTTATGAA
1 -AATTTA-GGGTCAAAATG-TAATTTT-GGAA
* *
62661 AGTTTA-GGTCAAAATGTGATTTTAGGAA
1 AATTTAGGGTCAAAATGTAATTTT-GGAA
** ** *
62689 GGTTTAGGGTCAAAACATGATTTTGGGAA
1 AATTTAGGGTCAAAATGTAATTTT-GGAA
*
62718 AATTCGAGGGTCAAAATGTAATTTTGGAGA
1 AATT-TAGGGTCAAAATGTAATTTTGGA-A
* * * *
62748 AGTTTGGGGTCAAAATATGATTTTGGAAA
1 AATTTAGGGTCAAAATGTAATTTTGG-AA
* *
62777 AATTTAAGGGTCAAAATGTAAATTTAGAGA
1 AATTT-AGGGTCAAAATGTAATTTTGGA-A
* *
62807 AATTTAAGGTCAAAATGTAGTTTT-GAA
1 AATTTAGGGTCAAAATGTAATTTTGGAA
* *
62834 AACATTAGGGTCAAAATGTAATTTTAGAGA
1 AA-TTTAGGGTCAAAATGTAATTTTGGA-A
*
62864 ATTTTAGGGGTCAAAATGTAATTTTGGAA
1 AATTTA-GGGTCAAAATGTAATTTTGGAA
* * *
62893 AAGTTTGGTGGTTAAAATGTAATTTT-TAA
1 AA-TTTAG-GGTCAAAATGTAATTTTGGAA
* * *
62922 GAAGTTTAGGGGTTAAAATGCAATTTTTGAA
1 -AA-TTTA-GGGTCAAAATGTAATTTTGGAA
* * * *
62953 ATGTTTAAGGTGAAAATGTGATTTTGGAA
1 A-ATTTAGGGTCAAAATGTAATTTTGGAA
* * *
62982 AGATTTGGGGTTCAAAATGTTATTTTGTAA
1 A-ATTTAGGG-TCAAAATGTAATTTTGGAA
* * *
63012 AGGTTTAGGGGTCCAAATATAATTTT
1 A-ATTTA-GGGTCAAAATGTAATTTT
63038 TAAATAAAAT
Statistics
Matches: 324, Mismatches: 61, Indels: 43
0.76 0.14 0.10
Matches are distributed among these distances:
27 3 0.01
28 43 0.13
29 105 0.32
30 164 0.51
31 9 0.03
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (28 bp):
AATTTAGGGTCAAAATGTAATTTTGGAA
Found at i:62667 original size:59 final size:59
Alignment explanation
Indices: 62604--63037 Score: 322
Period size: 59 Copynumber: 7.4 Consensus size: 59
62594 NNNNNNNNAA
* * * *
62604 TTTAGGGTTAAAATGTCATTTTGGAAGAATTTAGGGGTTAAAA-GATAATTTTATG-AAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAGAATTTAGGGGTCAAAATG-TAATTTT-GGAAAAG
* * ** *
62663 TTTA-GGTCAAAATGTGATTTTAGGAAG-GTTTA-GGGTCAAAACATGATTTTGGGAAAA-
1 TTTAGGGTCAAAATGTAATTTT-GGAAGAATTTAGGGGTCAAAATGTAATTTT-GGAAAAG
* * * *
62720 TTCGAGGGTCAAAATGTAATTTTGG-AGAAGTTT-GGGGTCAAAATATGATTTTGGAAAAA
1 TT-TAGGGTCAAAATGTAATTTTGGAAGAA-TTTAGGGGTCAAAATGTAATTTTGGAAAAG
* * * * *
62779 TTTAAGGGTCAAAATGTAAATTTAG-AGAAATTTA-AGGTCAAAATGTAGTTTT-GAAAAC
1 TTT-AGGGTCAAAATGTAATTTTGGAAG-AATTTAGGGGTCAAAATGTAATTTTGGAAAAG
* *
62837 ATTAGGGTCAAAATGTAATTTTAG-AGAATTTTAGGGGTCAAAATGTAATTTTGGAAAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAGAA-TTTAGGGGTCAAAATGTAATTTTGGAAAAG
* * * * * * *
62896 TTTGGTGGTTAAAATGTAATTTT-TAAGAAGTTTAGGGGTTAAAATGCAATTTTTGAAATG
1 TTTAG-GGTCAAAATGTAATTTTGGAAGAA-TTTAGGGGTCAAAATGTAATTTTGGAAAAG
* * * * * *
62956 TTTAAGGTGAAAATGTGATTTTGGAA-AGATTT-GGGGTTCAAAATGTTATTTTGTAAAGG
1 TTTAGGGTCAAAATGTAATTTTGGAAGA-ATTTAGGGG-TCAAAATGTAATTTTGGAAAAG
* *
63015 TTTAGGGGTCCAAATATAATTTT
1 TTTA-GGGTCAAAATGTAATTTT
63038 TAAATAAAAT
Statistics
Matches: 304, Mismatches: 50, Indels: 41
0.77 0.13 0.10
Matches are distributed among these distances:
56 2 0.01
57 45 0.15
58 58 0.19
59 132 0.43
60 67 0.22
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (59 bp):
TTTAGGGTCAAAATGTAATTTTGGAAGAATTTAGGGGTCAAAATGTAATTTTGGAAAAG
Found at i:62971 original size:89 final size:90
Alignment explanation
Indices: 62604--63029 Score: 282
Period size: 87 Copynumber: 4.8 Consensus size: 90
62594 NNNNNNNNAA
* * * *
62604 TTTAG-GGTTAAAATGTCATTTTGG-AAGAATTTAGGGGTT-AAAA-GATAATTTTATGAAAGTT
1 TTTAGAGGTCAAAATGTAATTTTGGAAAG-ATTT-GGGGTTCAAAATG-TAATTTTGTAAAAGTT
** *
62665 TA--GGTCAAAATGTGATTTTAG-GAAGG
63 TAGGGGTCAAAATGCAATTTTAGAGAA-T
** * * * *
62691 TTTAG-GGTCAAAACATGATTTTGGGAAA-ATTCGAGGG-TCAAAATGTAATTTTGGAGAAGTTT
1 TTTAGAGGTCAAAATGTAATTTT-GGAAAGATTTG-GGGTTCAAAATGTAATTTTGTAAAAGTTT
*** * * *
62753 -GGGGTCAAAATATGATTTTGGAAAAA
64 AGGGGTCAAAATGCAATTTTAGAGAAT
* * ** * **
62779 TTTA-AGGGTCAAAATGTAAATTTAGAGAA-ATTTAAGG-TCAAAATGTAGTTTTG-AAAACATT
1 TTTAGA-GGTCAAAATGTAATTTTGGA-AAGATTTGGGGTTCAAAATGTAATTTTGTAAAAGTTT
*
62840 A-GGGTCAAAATGTAATTTTAGAGAAT
64 AGGGGTCAAAATGCAATTTTAGAGAAT
*
62866 TTTAGGGGTCAAAATGTAATTTTGGAAA-AGTTTGGTGGTT-AAAATGTAATTTT-TAAGAAGTT
1 TTTAGAGGTCAAAATGTAATTTTGGAAAGA-TTTGG-GGTTCAAAATGTAATTTTGTAA-AAGTT
* *
62928 TAGGGGTTAAAATGCAATTTTTGA-AAT
63 TAGGGGTCAAAATGCAATTTTAGAGAAT
* * * *
62955 GTTTA-AGGTGAAAATGTGATTTTGGAAAGATTTGGGGTTCAAAATGTTATTTTGTAAAGGTTTA
1 -TTTAGAGGTCAAAATGTAATTTTGGAAAGATTTGGGGTTCAAAATGTAATTTTGTAAAAGTTTA
*
63019 GGGGTCCAAAT
65 GGGGTCAAAAT
63030 ATAATTTTTA
Statistics
Matches: 268, Mismatches: 48, Indels: 44
0.74 0.13 0.12
Matches are distributed among these distances:
86 5 0.02
87 91 0.34
88 63 0.24
89 83 0.31
90 26 0.10
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (90 bp):
TTTAGAGGTCAAAATGTAATTTTGGAAAGATTTGGGGTTCAAAATGTAATTTTGTAAAAGTTTAG
GGGTCAAAATGCAATTTTAGAGAAT
Found at i:68205 original size:23 final size:23
Alignment explanation
Indices: 68158--68305 Score: 109
Period size: 23 Copynumber: 6.4 Consensus size: 23
68148 AGTGTTGGGG
* * * *
68158 AAACAATAAGCACACACAATACA
1 AAACAGTAAGAACACACAGTGCA
*
68181 AATCAGT-AGAAACACACAGTGCA
1 AAACAGTAAG-AACACACAGTGCA
* *
68204 AAACAGTAAGCATACACAGTGCA
1 AAACAGTAAGAACACACAGTGCA
* * * * *
68227 AAACAATAAGCACATATAGTGCG
1 AAACAGTAAGAACACACAGTGCA
* * *
68250 AATCAGTAAGCACACACAGTGCT
1 AAACAGTAAGAACACACAGTGCA
* * *
68273 GAACAGTAAGCACACACAGTGCT
1 AAACAGTAAGAACACACAGTGCA
*
68296 GAACAGTAAG
1 AAACAGTAAG
68306 CGCGCTAATG
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
22 2 0.02
23 99 0.96
24 2 0.02
ACGTcount: A:0.47, C:0.22, G:0.17, T:0.14
Consensus pattern (23 bp):
AAACAGTAAGAACACACAGTGCA
Found at i:68306 original size:23 final size:23
Alignment explanation
Indices: 68192--68306 Score: 142
Period size: 23 Copynumber: 5.0 Consensus size: 23
68182 ATCAGTAGAA
*
68192 ACACACAGTGCAAAACAGTAAGC
1 ACACACAGTGCAGAACAGTAAGC
* * *
68215 ATACACAGTGCAAAACAATAAGC
1 ACACACAGTGCAGAACAGTAAGC
* *
68238 ACATATAGTGC-GAATCAGTAAGC
1 ACACACAGTGCAGAA-CAGTAAGC
*
68261 ACACACAGTGCTGAACAGTAAGC
1 ACACACAGTGCAGAACAGTAAGC
*
68284 ACACACAGTGCTGAACAGTAAGC
1 ACACACAGTGCAGAACAGTAAGC
68307 GCGCTAATGT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
22 2 0.02
23 76 0.94
24 3 0.04
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.14
Consensus pattern (23 bp):
ACACACAGTGCAGAACAGTAAGC
Found at i:75031 original size:67 final size:66
Alignment explanation
Indices: 74925--75082 Score: 252
Period size: 67 Copynumber: 2.4 Consensus size: 66
74915 TGAGTTTGTT
*
74925 ATTTATTTATTTATATTCAT-AA-AAT-AATAAATAAATAATAAAACAAAGTTAATATTATTTTA
1 ATTTATTTATTTATATTCATAAATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTA
74987 C
66 C
*
74988 ATTTATTTATTTATATTCATACAATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTT
1 ATTTATTTATTTATATTCATA-AATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTT
*
75053 AT
65 AC
75055 ATTTATTTATTTATATTCATAAA-AATAA
1 ATTTATTTATTTATATTCATAAATAATAA
75083 TAAGAAAAAT
Statistics
Matches: 88, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
63 20 0.23
65 7 0.08
66 5 0.06
67 56 0.64
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.45
Consensus pattern (66 bp):
ATTTATTTATTTATATTCATAAATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTA
C
Found at i:75736 original size:79 final size:79
Alignment explanation
Indices: 75626--76138 Score: 550
Period size: 79 Copynumber: 6.5 Consensus size: 79
75616 TATATTATTA
* * *
75626 CAATCTGTCCCATGGTCAGGGTAAGAGATCGAATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAA
1 CAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAA
75691 AGATTTGATTGCTT
66 AGATTTGATTGCTT
* *
75705 CAATCTGCCTCATGGTCGGGGTAAGAGATCGAATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAA
1 CAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAA
75770 AGATTAT-ATTGCTT
66 AGATT-TGATTGCTT
* * * * *
75784 CAATTTGCCCCATGGCCGGGGTAAGAGATCGGATGGTCTTCAATATGCCCTCTAGTCAGGGTAAA
1 CAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAA
* *
75849 AGATTGGACTGCTT
66 AGATTTGATTGCTT
* * * * * * * *
75863 CAATCTGACCCATGGTTGAGTTAAGAGATTGGATGGTCTTCAATCTACCC-CATGATTGGGGTAA
1 CAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTC-TGGTTAGGGTAA
* *
75927 GAGA-TTGAATGGTCTT
65 AAGATTTG-ATTG-CTT
* * * * *
75943 CAATCTGCCCCATGGTCAGGGTAAGAGATTGGATGATCTTCAATCTACCCTCTTGTTAGGGTAAA
1 CAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAA
*
76008 AGATTTGATAGTCTT
66 AGATTTGATTG-CTT
* * ** * * * * * *
76023 CAAGCTACCCTCTAT--TTAGGGTAAAAGATTGGATAGTCTTCAATCTGCTCTTTGATTAGGGTA
1 CAATCTGCCC-C-ATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTA
*
76086 AAAGATTGGATTGCTT
64 AAAGATTTGATTGCTT
* * *
76102 CAATCTACCCCATGGTTGAGGTAAGAGATCGGATGGT
1 CAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGT
76139 TGTAACTTCA
Statistics
Matches: 364, Mismatches: 59, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
77 2 0.01
78 4 0.01
79 226 0.62
80 125 0.34
81 5 0.01
82 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (79 bp):
CAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAA
AGATTTGATTGCTT
Found at i:76004 original size:40 final size:40
Alignment explanation
Indices: 75638--76138 Score: 389
Period size: 40 Copynumber: 12.6 Consensus size: 40
75628 ATCTGTCCCA
* * *
75638 TGGTCAGGGTAAGAGATCGAATGGTCTTCAATCTGCCCTC
1 TGGTTAGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
* * *
75678 TGGTTAGGGTAAAAGATTTGATTG-CTTCAATCTG-CCTC
1 TGGTTAGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
** * *
75716 ATGGTCGGGGTAAGAGATCGAATGGTCTTCAATCTGCCCTC
1 -TGGTTAGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
* ** * *
75757 TGGTTAGGGTAAAAGATTATATTG-CTTCAATTTGCCC-C
1 TGGTTAGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
*** * *
75795 ATGGCCGGGGTAAGAGATCGGATGGTCTTCAATATGCCCTC
1 -TGGTTAGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
* * * *
75836 TAGTCAGGGTAAAAGATTGGACT-G-CTTCAATCTGACCC-A
1 TGGTTAGGGTAAGAGATTGGA-TGGTCTTCAATCTG-CCCTC
* *
75875 TGGTT-GAGTTAAGAGATTGGATGGTCTTCAATCTACCC-C
1 TGGTTAG-GGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
* * *
75914 ATGATTGGGGTAAGAGATTGAATGGTCTTCAATCTGCCC-C
1 -TGGTTAGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
* * *
75954 ATGGTCAGGGTAAGAGATTGGATGATCTTCAATCTACCCTC
1 -TGGTTAGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
* * * * * *
75995 TTGTTAGGGTAAAAGATTTGATAGTCTTCAAGCTACCCTC
1 TGGTTAGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
** * * * *
76035 TATTTAGGGTAAAAGATTGGATAGTCTTCAATCTGCTCTT
1 TGGTTAGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
* * * *
76075 TGATTAGGGTAAAAGATTGGATTG-CTTCAATCTACCC-C
1 TGGTTAGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
*
76113 ATGGTT-GAGGTAAGAGATCGGATGGT
1 -TGGTTAG-GGTAAGAGATTGGATGGT
76139 TGTAACTTCA
Statistics
Matches: 367, Mismatches: 77, Indels: 34
0.77 0.16 0.07
Matches are distributed among these distances:
38 8 0.02
39 112 0.31
40 239 0.65
41 8 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (40 bp):
TGGTTAGGGTAAGAGATTGGATGGTCTTCAATCTGCCCTC
Found at i:76309 original size:50 final size:50
Alignment explanation
Indices: 76189--76312 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 50
76179 ATCCTTACGA
* * *
76189 CTTCAATCTGTCCCTCTATAGCTTTAGGTGAATGACATTTGCCATTGCGG
1 CTTCAATCTGTCCCTCTACAGCTTTAGGTGAATGACATTCGCCATAGCGG
* * * * * *
76239 CTTCAATTTGCCCCTTTACAGGTTTAGGT-ATATGAGATTCGCCATAGTGG
1 CTTCAATCTGTCCCTCTACAGCTTTAGGTGA-ATGACATTCGCCATAGCGG
*
76289 CTTCAATCTGTTCCTCTACAGCTT
1 CTTCAATCTGTCCCTCTACAGCTT
76313 CAAGGGTATA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
49 1 0.02
50 58 0.98
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (50 bp):
CTTCAATCTGTCCCTCTACAGCTTTAGGTGAATGACATTCGCCATAGCGG
Found at i:81109 original size:31 final size:31
Alignment explanation
Indices: 81063--81139 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
81053 AGTCTTTCTC
*
81063 AAACTTT-T-AATGCATGAAAATGCGATGCA
1 AAACTTTATGAATGCATGAAAATGCGATACA
* *
81092 AAACTTTATGAATGCATGAAAATGCTATACG
1 AAACTTTATGAATGCATGAAAATGCGATACA
*
81123 AAATTTTATGAATGCAT
1 AAACTTTATGAATGCAT
81140 ATGCAAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 7 0.17
30 1 0.02
31 34 0.81
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.31
Consensus pattern (31 bp):
AAACTTTATGAATGCATGAAAATGCGATACA
Found at i:83684 original size:63 final size:62
Alignment explanation
Indices: 83588--83746 Score: 189
Period size: 63 Copynumber: 2.5 Consensus size: 62
83578 TGTTATTTAT
* *
83588 TTATTTAGTTATCTATATTCATAAAATAATAAATAAAT-AAT-A-AAACAAAATTAATATTA
1 TTATTTATTTATTTATATTCATAAAATAATAAATAAATAAATAAGAAACAAAATTAATATTA
* * * *
83647 TTTTACATTTATTTATTTATATTTATACAATATTAAATAAATAAATAATGAAATAAAATTAATAT
1 --TT--ATTTATTTATTTATATTCATAAAATAATAAATAAATAAATAA-GAAACAAAATTAATAT
83712 TA
61 TA
83714 TTATTTATTTATTTATATTCATAAAAATAATAA
1 TTATTTATTTATTTATATTCAT-AAAATAATAA
83747 GAAAAATGGA
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
61 2 0.02
63 50 0.61
64 11 0.13
65 3 0.04
67 16 0.20
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (62 bp):
TTATTTATTTATTTATATTCATAAAATAATAAATAAATAAATAAGAAACAAAATTAATATTA
Found at i:86120 original size:6 final size:6
Alignment explanation
Indices: 86095--86139 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
86085 ACAATTCATA
* * *
86095 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
86140 ATTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:90316 original size:28 final size:28
Alignment explanation
Indices: 90284--90343 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
90274 AAATAAAAAA
90284 TGGGTAAAAAATG-AAGTTTCGAAGAATT
1 TGGGT-AAAAATGTAAGTTTCGAAGAATT
* * *
90312 TGGGTTAAAATGTAATTTTGGAAGAATT
1 TGGGTAAAAATGTAAGTTTCGAAGAATT
90340 TGGG
1 TGGG
90344 GGTCAAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (28 bp):
TGGGTAAAAATGTAAGTTTCGAAGAATT
Found at i:90359 original size:30 final size:30
Alignment explanation
Indices: 90313--90761 Score: 394
Period size: 30 Copynumber: 15.3 Consensus size: 30
90303 CGAAGAATTT
* *
90313 GGGTTAAAATGTAATTTTGGAAGAA-TTTGG
1 GGGTCAAAATGTAATTTTGGAA-AAGTTTAG
* *
90343 GGGTCAAAAGGTAATTTTATG-AAAGTTTA-
1 GGGTCAAAATGTAATTTT-GGAAAAGTTTAG
* *
90372 GGGTCAAAATGTAATTTTGGGAAGGTTT--
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
** * *
90400 GGGTCAAAACATGATTTTAGGAAAA--TTCG
1 GGGTCAAAATGTAATTTT-GGAAAAGTTTAG
* * *
90429 AGGGTTAAAAGGTAATTTTGGAGAAGTTT-G
1 -GGGTCAAAATGTAATTTTGGAAAAGTTTAG
* *
90459 GGGTCAAAATGTGATTTTAGG-AAAGTTTAA
1 GGGTCAAAATGTAATTTT-GGAAAAGTTTAG
*
90489 GGGTTAAAATGTAATTTTGGAAAAGTTTAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
* * *
90519 AGGTCAAAATGTAATTTTAGAGAAGTTTA-
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
* * * * *
90548 GGGTTAATACGTAATTTTGGAAATGTTTAA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
*
90578 GGGT--AAATATAATTTTGGAAAAGTTTAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
* *
90606 AGGTGAAAATGTAATTTTGGAAAAGTTTAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
* * * *
90636 TGGCCAAAATGCAATTTTGGAGAAGTTTAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
90666 GGGTCAAAAT-TAATTTTGGAAAAGTTT-G
1 GGGTCAAAATGTAATTTTGGAAAAGTTTAG
* *
90694 GGGT-GAAATGTGATTTT-GAAAATGTTTAG
1 GGGTCAAAATGTAATTTTGGAAAA-GTTTAG
* *
90723 GGGTCAAAATGTGATTTT-AAAAAGGTTT-G
1 GGGTCAAAATGTAATTTTGGAAAA-GTTTAG
90752 GGGTCAAAAT
1 GGGTCAAAAT
90762 ATAGTTTTTA
Statistics
Matches: 343, Mismatches: 57, Indels: 39
0.78 0.13 0.09
Matches are distributed among these distances:
27 11 0.03
28 53 0.15
29 110 0.32
30 166 0.48
31 3 0.01
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTTAG
Found at i:90390 original size:59 final size:59
Alignment explanation
Indices: 90313--90761 Score: 415
Period size: 59 Copynumber: 7.7 Consensus size: 59
90303 CGAAGAATTT
* * *
90313 GGGTTAAAATGTAATTTTGGAAGAA-TTTGGGGGTCAAAAGGTAATTTTATGAAAGTTTA
1 GGGTTAAAATGTAATTTTGGAA-AAGTTTAGGGGTCAAAATGTAATTTTAGGAAAGTTTA
* * * ** * * *
90372 GGGTCAAAATGTAATTTTGGGAAGGTTT--GGGTCAAAACATGATTTTAGGAAAATTCGA
1 GGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTAGGAAAGTT-TA
* * *
90430 GGGTTAAAAGGTAATTTTGGAGAAGTTT-GGGGTCAAAATGTGATTTTAGGAAAGTTTAA
1 GGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTAGGAAAGTTT-A
*
90489 GGGTTAAAATGTAATTTTGGAAAAGTTTAGAGGTCAAAATGTAATTTTA-GAGAAGTTTA
1 GGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTAGGA-AAGTTTA
* * * * *
90548 GGGTTAATACGTAATTTTGGAAATGTTTAAGGGT--AAATATAATTTT-GGAAAAGTTTA
1 GGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTAGG-AAAGTTTA
* * * *
90605 GAGGTGAAAATGTAATTTTGGAAAAGTTTAGTGGCCAAAATGCAATTTT-GGAGAAGTTTA
1 G-GGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTAGGA-AAGTTTA
* * * *
90665 GGGGTCAAAAT-TAATTTTGGAAAAGTTT-GGGGT-GAAATGTGATTTT-GAAAATGTTTA
1 -GGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTAGGAAA-GTTTA
* * *
90722 GGGGTCAAAATGTGATTTT-AAAAAGGTTT-GGGGTCAAAAT
1 -GGGTTAAAATGTAATTTTGGAAAA-GTTTAGGGGTCAAAAT
90762 ATAGTTTTTA
Statistics
Matches: 326, Mismatches: 47, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
56 2 0.01
57 74 0.23
58 70 0.21
59 128 0.39
60 51 0.16
61 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (59 bp):
GGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTAGGAAAGTTTA
Found at i:90416 original size:28 final size:29
Alignment explanation
Indices: 90343--90569 Score: 104
Period size: 29 Copynumber: 7.8 Consensus size: 29
90333 AAGAATTTGG
** * *
90343 GGGTCAAAAGGTAATTTTATGAAAGTTTA
1 GGGTCAAAACATAATTTTAGGAAGGTTTA
** *
90372 GGGTCAAAATGTAATTTTGGGAAGGTTT-
1 GGGTCAAAACATAATTTTAGGAAGGTTTA
* ** *
90400 GGGTCAAAACATGATTTTAGGAAAATTCGA
1 GGGTCAAAACATAATTTTAGGAAGGTT-TA
* ** * *
90430 GGGTTAAAAGGTAATTTT-GGAGAAGTTTG
1 GGGTCAAAACATAATTTTAGGA-AGGTTTA
** * *
90459 GGGTCAAAATGTGATTTTAGGAAAGTTTAA
1 GGGTCAAAACATAATTTTAGGAAGGTTT-A
* ** *
90489 GGGTTAAAATGTAATTTT-GGAAAAGTTTA
1 GGGTCAAAACATAATTTTAGG-AAGGTTTA
**
90518 GAGGTCAAAATGTAATTTTAGAGAA-GTTTA
1 G-GGTCAAAACATAATTTTAG-GAAGGTTTA
* * *
90548 GGGTTAATACGTAATTTT-GGAA
1 GGGTCAAAACATAATTTTAGGAA
90570 ATGTTTAAGG
Statistics
Matches: 161, Mismatches: 28, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
27 3 0.02
28 22 0.14
29 66 0.41
30 66 0.41
31 3 0.02
32 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.34
Consensus pattern (29 bp):
GGGTCAAAACATAATTTTAGGAAGGTTTA
Found at i:90456 original size:87 final size:87
Alignment explanation
Indices: 90313--90769 Score: 385
Period size: 87 Copynumber: 5.2 Consensus size: 87
90303 CGAAGAATTT
* * * * * *
90313 GGGTTAAAATGTAATTTTGGAAGAATTTGGGGGTCAAAAGGTAATTTTATG-AAAGTTTAGGGTC
1 GGGTCAAAATATAATTTTGGAA-AAGTTGAGGGTCAAAATGTAATTTT-GGAAAAGTTTAGGGTC
90377 AAAATGTAATTTTGGGAAGGTTT-
64 AAAATGTAATTTTGGGAAGGTTTA
* * * * * *
90400 GGGTCAAAACATGATTTTAGGAAAA-TTCGAGGGTTAAAAGGTAATTTTGGAGAAGTTTGGGGTC
1 GGGTCAAAATATAATTTT-GGAAAAGTT-GAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGTC
* * *
90464 AAAATGTGATTTTAGGAAAGTTTAA
64 AAAATGTAATTTTGGGAAGGTTT-A
* * * * * *
90489 GGGTTAAAATGTAATTTTGGAAAAGTTTAGAGGTCAAAATGTAATTTTAGAGAAGTTTAGGGTTA
1 GGGTCAAAATATAATTTTGGAAAAGTTGAG-GGTCAAAATGTAATTTTGGAAAAGTTTAGGGTCA
* * * *
90554 ATACGTAATTTTGGAAATGTTTAA
65 AAATGTAATTTTGGGAAGGTTT-A
* * *
90578 GGGT--AAATATAATTTTGGAAAAGTTTAGAGGTGAAAATGTAATTTTGGAAAAGTTTAGTGGCC
1 GGGTCAAAATATAATTTTGGAAAAGTTGAG-GGTCAAAATGTAATTTTGGAAAAGTTTAG-GGTC
*
90641 AAAATGCAATTTTGGAGAA-GTTTA
64 AAAATGTAATTTTGG-GAAGGTTTA
* *
90665 GGGGTCAAAAT-TAATTTTGGAAAAGTTTG-GGGT-GAAATGTGATTTT-GAAAATGTTTAGGGG
1 -GGGTCAAAATATAATTTTGGAAAAG-TTGAGGGTCAAAATGTAATTTTGGAAAA-GTTTA-GGG
* *** *
90726 TCAAAATGTGATTTTAAAAAGGTTTG
62 TCAAAATGTAATTTTGGGAAGGTTTA
*
90752 GGGTCAAAATATAGTTTT
1 GGGTCAAAATATAATTTT
90770 TAAATAAAAT
Statistics
Matches: 304, Mismatches: 49, Indels: 34
0.79 0.13 0.09
Matches are distributed among these distances:
86 20 0.07
87 156 0.51
88 38 0.12
89 84 0.28
90 6 0.02
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (87 bp):
GGGTCAAAATATAATTTTGGAAAAGTTGAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGTCAA
AATGTAATTTTGGGAAGGTTTA
Found at i:90593 original size:117 final size:111
Alignment explanation
Indices: 90306--90761 Score: 400
Period size: 117 Copynumber: 3.9 Consensus size: 111
90296 GAAGTTTCGA
* * *
90306 AGAA-TTT-GGGTTAAAATGTAATTTTGGAAGAATTTGGGGGTCAAAAGGTAATTTTATGAAAGT
1 AGAAGTTTAGGGTTAAAA-GTAATTTTGGAA-AGTTT-GGGGT-AAAATGTAATTTT-GGAAAGT
* * ** *
90369 TTAGGGTCAAAATGTAATTTTGGGAAGGTTTGGGTCAAAACATGATTTTAG
61 TTAGGGTCAAAATGTAATTTTGGAAAAGTTTGGGTCAAAATGTAATTTTAG
* * *
90420 -GAAAATTCGAGGGTTAAAAGGTAATTTTGGAGAAGTTTGGGGTCAAAATGTGATTTTAGGAAAG
1 AG-AAGTT-TAGGGTTAAAA-GTAATTTTGGA-AAGTTTGGGGT-AAAATGTAATTTT-GGAAAG
*
90484 TTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTAGAGGTCAAAATGTAATTTTAG
60 TTT-AGGGTCAAAATGTAATTTTGGAAAAGTTT-G-GGTCAAAATGTAATTTTAG
* * *
90539 AGAAGTTTAGGGTTAATACGTAATTTTGGAAATGTTTAAGGGT-AAATATAATTTTGGAAAAGTT
1 AGAAGTTTAGGGTTAA-AAGTAATTTTGGAAA-GTTT-GGGGTAAAATGTAATTTTGG-AAAGTT
* * * *
90603 TAGAGGTGAAAATGTAATTTTGGAAAAGTTTAGTGGCCAAAATGCAATTTTGG
62 TAG-GGTCAAAATGTAATTTTGGAAAAGTTT-G-GGTCAAAATGTAATTTTAG
* * * * *
90656 AGAAGTTTAGGGGTCAAAATTAATTTTGGAAAAGTTTGGGGTGAAATGTGATTTTGAAAATGTTT
1 AGAAGTTTA-GGGTTAAAAGTAATTTTGG-AAAGTTTGGGGTAAAATGTAATTTTGGAAA-GTTT
* *
90721 AGGGGTCAAAATGTGATTTT-AAAAAGGTTTGGGGTCAAAAT
63 A-GGGTCAAAATGTAATTTTGGAAAA-GTTT-GGGTCAAAAT
90762 ATAGTTTTTA
Statistics
Matches: 287, Mismatches: 35, Indels: 38
0.80 0.10 0.11
Matches are distributed among these distances:
113 1 0.00
114 2 0.01
115 2 0.01
116 49 0.17
117 172 0.60
118 35 0.12
119 25 0.09
120 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (111 bp):
AGAAGTTTAGGGTTAAAAGTAATTTTGGAAAGTTTGGGGTAAAATGTAATTTTGGAAAGTTTAGG
GTCAAAATGTAATTTTGGAAAAGTTTGGGTCAAAATGTAATTTTAG
Found at i:91529 original size:8 final size:8
Alignment explanation
Indices: 91516--91550 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
91506 GAATGGTAAA
91516 ATAAATAT
1 ATAAATAT
91524 ATAAATAT
1 ATAAATAT
*
91532 ATAAATAA
1 ATAAATAT
91540 ATAAATAT
1 ATAAATAT
91548 ATA
1 ATA
91551 TAAACGAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
ATAAATAT
Found at i:93789 original size:29 final size:30
Alignment explanation
Indices: 93744--93800 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
93734 TAGTTTAATG
*
93744 TGTATTTTTATATATG-AATTTTAATTTTA
1 TGTAATTTTATATATGAAATTTTAATTTTA
*
93773 TGTAATTTTAT-TCATGAAATTTTGATTT
1 TGTAATTTTATAT-ATGAAATTTTAATTT
93801 GATCTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 13 0.54
30 10 0.42
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.60
Consensus pattern (30 bp):
TGTAATTTTATATATGAAATTTTAATTTTA
Found at i:100762 original size:20 final size:18
Alignment explanation
Indices: 100734--100798 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 18
100724 CCACATCAGC
*
100734 AAATGATTTTAAAATTATAA
1 AAATTATTTTAAAA-TAT-A
100754 AAATTATTTTTTAAAATATA
1 AAATTA--TTTTAAAATATA
*
100774 AAATT-CTTTAAAATATA
1 AAATTATTTTAAAATATA
100791 AAATTATT
1 AAATTATT
100799 AAAAATATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 16 0.41
18 1 0.03
20 11 0.28
21 3 0.08
22 8 0.21
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AAATTATTTTAAAATATA
Found at i:100785 original size:17 final size:17
Alignment explanation
Indices: 100763--100806 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
100753 AAAATTATTT
*
100763 TTTAAAATATAAAATTC
1 TTTAAAATATAAAATTA
100780 TTTAAAATATAAAATTA
1 TTTAAAATATAAAATTA
*
100797 TTAAAAATAT
1 TTTAAAATAT
100807 TTTTTTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAAATATAAAATTA
Found at i:100802 original size:16 final size:16
Alignment explanation
Indices: 100764--100832 Score: 61
Period size: 17 Copynumber: 4.3 Consensus size: 16
100754 AAATTATTTT
*
100764 TTAAAATATAAAATTCT
1 TTAAAATATAAAATT-A
100781 TTAAAATATAAAATTA
1 TTAAAATATAAAATTA
** *
100797 TTAAAA-AT-ATTTTT
1 TTAAAATATAAAATTA
*
100811 TTGAAATAATAAAATTA
1 TTAAAAT-ATAAAATTA
100828 TTAAA
1 TTAAA
100833 TAATTTTAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
14 8 0.20
15 2 0.05
16 8 0.20
17 22 0.55
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (16 bp):
TTAAAATATAAAATTA
Found at i:100834 original size:46 final size:46
Alignment explanation
Indices: 100743--100832 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 46
100733 CAAATGATTT
*
100743 TAAAATTATAAAAATTATTTTTTAAAATATAAAATTCTTTAAAATA
1 TAAAATTATAAAAATTATTTTTTAAAATATAAAATTCATTAAAATA
*
100789 TAAAATTATTAAAAA-TATTTTTTTGAAATAATAAAATT-ATTAAA
1 TAAAATTA-TAAAAATTA-TTTTTTAAAAT-ATAAAATTCATTAAA
100833 TAATTTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
46 10 0.26
47 21 0.54
48 8 0.21
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (46 bp):
TAAAATTATAAAAATTATTTTTTAAAATATAAAATTCATTAAAATA
Found at i:100873 original size:15 final size:15
Alignment explanation
Indices: 100849--100878 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100839 TAATTTCCAA
*
100849 TTTCATCTTCTTCTT
1 TTTCACCTTCTTCTT
100864 TTTCACCTTCTTCTT
1 TTTCACCTTCTTCTT
100879 CATCATTTTA
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:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTCACCTTCTTCTT
Found at i:101672 original size:20 final size:20
Alignment explanation
Indices: 101647--101740 Score: 85
Period size: 20 Copynumber: 4.9 Consensus size: 20
101637 GATGATGATT
101647 ATAATTTTAAAATAATTTTA
1 ATAATTTTAAAATAATTTTA
101667 ATAATTTT---AT-ATTTTAA
1 ATAATTTTAAAATAATTTT-A
* *
101684 AAAAATTTAAAA-AATTTT-
1 ATAATTTTAAAATAATTTTA
101702 AT-ATTTTAAAAAATAATTTTA
1 ATAATTTT--AAAATAATTTTA
*
101723 ATAATTTTAAAATCATTT
1 ATAATTTTAAAATAATTT
101741 ACTGACATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
16 5 0.08
17 13 0.22
18 1 0.02
19 4 0.07
20 29 0.49
21 2 0.03
22 5 0.08
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATTTTAAAATAATTTTA
Found at i:101684 original size:27 final size:27
Alignment explanation
Indices: 101645--101731 Score: 120
Period size: 27 Copynumber: 3.1 Consensus size: 27
101635 ATGATGATGA
101645 TTATAATTTTAAAATAATTTTAATAATT
1 TTAT-ATTTTAAAATAATTTTAATAATT
* * *
101673 TTATATTTTAAAAAAATTTAAAAAATT
1 TTATATTTTAAAATAATTTTAATAATT
101700 TTATATTTTAAAAAATAATTTTAATAATT
1 TTATATTTT--AAAATAATTTTAATAATT
101729 TTA
1 TTA
101732 AAATCATTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
27 29 0.57
28 4 0.08
29 18 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TTATATTTTAAAATAATTTTAATAATT
Found at i:112552 original size:29 final size:30
Alignment explanation
Indices: 112495--112553 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
112485 CCTTTTATGG
* * * *
112495 CCCCCTTTTTACTCCCATTTTTGTGCAAAT
1 CCCCCTTTTCACTCCCATTTGTCTCCAAAT
112525 CCCCCTTTTCACTCCC-TTTGTCTCCAAAT
1 CCCCCTTTTCACTCCCATTTGTCTCCAAAT
112554 TTACCAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.15, C:0.39, G:0.05, T:0.41
Consensus pattern (30 bp):
CCCCCTTTTCACTCCCATTTGTCTCCAAAT
Found at i:113739 original size:55 final size:55
Alignment explanation
Indices: 113680--113801 Score: 199
Period size: 55 Copynumber: 2.2 Consensus size: 55
113670 ATAGCATGAA
*
113680 AAGCATGACATTATGAAAGTATGTGTAAAAATATATGAGATCTGATTCACATGTT
1 AAGCATGCCATTATGAAAGTATGTGTAAAAATATATGAGATCTGATTCACATGTT
* * *
113735 AAGCATGCCATTATGAAAGTATTTGTAAAAATATATGAGATCTTATTCGCATGTT
1 AAGCATGCCATTATGAAAGTATGTGTAAAAATATATGAGATCTGATTCACATGTT
*
113790 AAGAATGCCATT
1 AAGCATGCCATT
113802 TTTTTGATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.34
Consensus pattern (55 bp):
AAGCATGCCATTATGAAAGTATGTGTAAAAATATATGAGATCTGATTCACATGTT
Found at i:116272 original size:19 final size:19
Alignment explanation
Indices: 116248--116296 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
116238 AACCTTATAG
* *
116248 ACTCCACTATTTGACCACC
1 ACTCCACCATTGGACCACC
* *
116267 ACTCCACCGTTGGACTACC
1 ACTCCACCATTGGACCACC
116286 ACTCCACCATT
1 ACTCCACCATT
116297 ATCAGACCAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.43, G:0.08, T:0.24
Consensus pattern (19 bp):
ACTCCACCATTGGACCACC
Found at i:117297 original size:28 final size:30
Alignment explanation
Indices: 117252--117313 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
117242 GGTTTTTTGG
*
117252 TTATGGATTTTTAAGAT-A-ATTTTGGACTT
1 TTATGGATCTTTAAGATAATATTTTGGA-TT
*
117281 TTATGGA-CTTTATGATAATATTTTGGATT
1 TTATGGATCTTTAAGATAATATTTTGGATT
117310 TTAT
1 TTAT
117314 TGTTTGGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.24
29 14 0.48
30 8 0.28
ACGTcount: A:0.27, C:0.03, G:0.16, T:0.53
Consensus pattern (30 bp):
TTATGGATCTTTAAGATAATATTTTGGATT
Found at i:119814 original size:41 final size:41
Alignment explanation
Indices: 119769--119855 Score: 174
Period size: 41 Copynumber: 2.1 Consensus size: 41
119759 AAACGTTCGG
119769 TTAACTCTTGCCATGTCGAAATTGAGCTAGGTGGAAATGAA
1 TTAACTCTTGCCATGTCGAAATTGAGCTAGGTGGAAATGAA
119810 TTAACTCTTGCCATGTCGAAATTGAGCTAGGTGGAAATGAA
1 TTAACTCTTGCCATGTCGAAATTGAGCTAGGTGGAAATGAA
119851 TTAAC
1 TTAAC
119856 CCATGCTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (41 bp):
TTAACTCTTGCCATGTCGAAATTGAGCTAGGTGGAAATGAA
Found at i:128011 original size:19 final size:19
Alignment explanation
Indices: 127987--128034 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
127977 ATATTTTTTT
127987 TATTTTTTTATTTTTCTCG
1 TATTTTTTTATTTTTCTCG
128006 TATTTTCTTT-TTTTTCTCG
1 TATTTT-TTTATTTTTCTCG
*
128025 -ACTTTTTTAT
1 TATTTTTTTAT
128035 CACTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 5 0.19
19 15 0.58
20 3 0.12
ACGTcount: A:0.10, C:0.12, G:0.04, T:0.73
Consensus pattern (19 bp):
TATTTTTTTATTTTTCTCG
Found at i:128722 original size:10 final size:10
Alignment explanation
Indices: 128707--128734 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
128697 AGCAAGAAAT
128707 AAACTAGATC
1 AAACTAGATC
128717 AAACTAGATC
1 AAACTAGATC
128727 AAACTAGA
1 AAACTAGA
128735 ACGATAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.18, G:0.11, T:0.18
Consensus pattern (10 bp):
AAACTAGATC
Found at i:128938 original size:26 final size:25
Alignment explanation
Indices: 128901--128952 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
128891 TTAAAACAAC
*
128901 TTCTAAAAAAAAAACTC-AAGAGCAA
1 TTCTTAAAAAAAAACTCAAAGAG-AA
*
128926 TTCTTAAAGAAAAACTCAAAGAGAA
1 TTCTTAAAAAAAAACTCAAAGAGAA
128951 TT
1 TT
128953 ATTATTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (25 bp):
TTCTTAAAAAAAAACTCAAAGAGAA
Found at i:129870 original size:13 final size:13
Alignment explanation
Indices: 129827--129875 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
129817 CCATATAAAT
*
129827 ATTTCATATAACC
1 ATTTCATTTAACC
*
129840 ATTTCATCTAAACC
1 ATTTCAT-TTAACC
*
129854 -TTTCATTTTACC
1 ATTTCATTTAACC
129866 ATTTCATTTA
1 ATTTCATTTA
129876 CACAATTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.14
13 21 0.72
14 4 0.14
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTCATTTAACC
Found at i:133318 original size:17 final size:17
Alignment explanation
Indices: 133290--133324 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
133280 GCTTGAAAAA
133290 AAAATCAAAAAATCAAAT
1 AAAATCAAAAAAT-AAAT
133308 AAAAT-AAAAAATAAAT
1 AAAATCAAAAAATAAAT
133324 A
1 A
133325 TATTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 7 0.41
18 5 0.29
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAATCAAAAAATAAAT
Found at i:143130 original size:17 final size:17
Alignment explanation
Indices: 143108--143140 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
143098 AGTTTCGTTT
*
143108 TTTTTTCTTTCATTTTG
1 TTTTTTATTTCATTTTG
143125 TTTTTTATTTCATTTT
1 TTTTTTATTTCATTTT
143141 AAAAAATCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTTATTTCATTTTG
Found at i:148943 original size:48 final size:48
Alignment explanation
Indices: 148872--148995 Score: 151
Period size: 48 Copynumber: 2.6 Consensus size: 48
148862 TTCAAACCCC
* * *
148872 CATCTTCTTGATAACATACAGAGAAGTAGG-TCAAAGCAATAAAGTGGT
1 CATCTTCTTGATGAGATACAGAGAAGT-GGATCAAAGCAATAAAGCGGT
* * * * *
148920 CATCTTCCTGATGAGATACAGAGAAGTGGATTAGATCAATGAAGCGGT
1 CATCTTCTTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGT
*
148968 CATCTTCTTGATGAGATATAGAGAAGTG
1 CATCTTCTTGATGAGATACAGAGAAGTG
148996 AACCAAATTG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 2 0.03
48 63 0.97
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (48 bp):
CATCTTCTTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGT
Found at i:149010 original size:48 final size:48
Alignment explanation
Indices: 148872--149014 Score: 126
Period size: 48 Copynumber: 3.0 Consensus size: 48
148862 TTCAAACCCC
* * * ** * * *
148872 CATCTTCTTGATAACATACAGAGAAGT-AGGTCAAAGCAATAAAGTGGT
1 CATCTTCCTGATGAGATACAGAGAAGTGA-ACCAAATCAATGAAGCGGT
* ** *
148920 CATCTTCCTGATGAGATACAGAGAAGTGGATTAGATCAATGAAGCGGT
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAATGAAGCGGT
* * **
148968 CATCTTCTTGATGAGATATAGAGAAGTGAACCAAATTGATGAAGCGG
1 CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAATGAAGCGG
149015 AGCTCAATGT
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCAATGAAGCGGT
Found at i:149035 original size:172 final size:173
Alignment explanation
Indices: 148793--149120 Score: 516
Period size: 172 Copynumber: 1.9 Consensus size: 173
148783 GAATCGATGT
*
148793 GGTCATCTTCCTAATGAGATACAGAGAAGTGAACTAAATCGATGAAGCGGAGCTCAATGTGAGTG
1 GGTCATCTTCCTAATGAGATACAGAGAAGTGAACCAAATCGATGAAGCGGAGCTCAATGTGAGTG
* * *
148858 AAACTTCAAA-CCCCCATCTT-CTTGATAACATACAGAGAAGTAGGTCAAAGCAATAAAGTGGTC
66 AAACTTCAAACCCCCCATCTTAC-TGATAACATACAAAGAAGTAGGTCAAAGCAATAAAGCGATC
*
148921 ATCTTCCTGATGAGATACAGAGAAGTGGATTAGATCAATGAAGC
130 ATCTTCCTAATGAGATACAGAGAAGTGGATTAGATCAATGAAGC
* * * *
148965 GGTCATCTTCTTGATGAGATATAGAGAAGTGAACCAAATTGATGAAGCGGAGCTCAATGTGAGTG
1 GGTCATCTTCCTAATGAGATACAGAGAAGTGAACCAAATCGATGAAGCGGAGCTCAATGTGAGTG
* * *
149030 AAACTTCAAACCCCCCATCTTACTGATGAGATACAAAGAAGTTGGTCAAAGCAATAAAGCGATCA
66 AAACTTCAAACCCCCCATCTTACTGATAACATACAAAGAAGTAGGTCAAAGCAATAAAGCGATCA
*
149095 TCTTCCTAATGAGATATAGAGAAGTG
131 TCTTCCTAATGAGATACAGAGAAGTG
149121 AACCAAATTC
Statistics
Matches: 141, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
172 70 0.50
173 70 0.50
174 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (173 bp):
GGTCATCTTCCTAATGAGATACAGAGAAGTGAACCAAATCGATGAAGCGGAGCTCAATGTGAGTG
AAACTTCAAACCCCCCATCTTACTGATAACATACAAAGAAGTAGGTCAAAGCAATAAAGCGATCA
TCTTCCTAATGAGATACAGAGAAGTGGATTAGATCAATGAAGC
Found at i:149145 original size:37 final size:37
Alignment explanation
Indices: 149095--149194 Score: 164
Period size: 37 Copynumber: 2.7 Consensus size: 37
149085 AAAGCGATCA
* *
149095 TCTTCCTAATGAGATATAGAGAAGTGAACCAAATTCG
1 TCTTCCTGATGAGATATAGAGAAGTGAACCAAATCCG
*
149132 TCTTCCTGATGAGATATAGAGAAGTGAATCAAATCCG
1 TCTTCCTGATGAGATATAGAGAAGTGAACCAAATCCG
*
149169 TCTTCCTGATGAGATACAGAGAAGTG
1 TCTTCCTGATGAGATATAGAGAAGTG
149195 GGCTAAATCA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (37 bp):
TCTTCCTGATGAGATATAGAGAAGTGAACCAAATCCG
Found at i:150103 original size:14 final size:15
Alignment explanation
Indices: 150084--150112 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
150074 AAACGTTTCT
150084 TAAATAAAA-AGAAA
1 TAAATAAAAGAGAAA
150098 TAAATAAAAGAGAAA
1 TAAATAAAAGAGAAA
150113 GATTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (15 bp):
TAAATAAAAGAGAAA
Found at i:154465 original size:23 final size:23
Alignment explanation
Indices: 154439--154490 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
154429 TGTATTGAAT
154439 AGGAGTACCAAAGTACTA-ACAAC
1 AGGAGTACCAAAGTACTAGA-AAC
**
154462 AGGAGTACGGAAGTACTAGAAAC
1 AGGAGTACCAAAGTACTAGAAAC
154485 AGGAGT
1 AGGAGT
154491 TCCCTATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.15, G:0.27, T:0.13
Consensus pattern (23 bp):
AGGAGTACCAAAGTACTAGAAAC
Found at i:154576 original size:16 final size:17
Alignment explanation
Indices: 154545--154579 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
154535 TTAGAGCATT
*
154545 TTTTTTCATTACTTTTA
1 TTTTTTCAATACTTTTA
154562 TTTTTTCAATA-TTTTA
1 TTTTTTCAATACTTTTA
154578 TT
1 TT
154580 AACTAGATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTCAATACTTTTA
Found at i:155935 original size:18 final size:17
Alignment explanation
Indices: 155892--155937 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
155882 ATTCGATCAG
155892 TTAATCGATTAATCGTA
1 TTAATCGATTAATCGTA
155909 TTCAATCGATTAATC-TAA
1 TT-AATCGATTAATCGT-A
155927 TTAATTCGATT
1 TTAA-TCGATT
155938 TTACCTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (17 bp):
TTAATCGATTAATCGTA
Found at i:158304 original size:96 final size:97
Alignment explanation
Indices: 158131--158312 Score: 240
Period size: 96 Copynumber: 1.9 Consensus size: 97
158121 AGGATGTTTG
* * * * *
158131 ATTATCTCGATTTGAAGAACAGTCGCACCTAGTAAGTTAAGGCACAAATTTTCAGAATTAGAGAT
1 ATTATCTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCAAAACTAGAAAT
* *
158196 AAAGAAACATTGCCTTGATTTAAGGGTATTCA
66 AAAAAAACATTGCCTCGATTTAAGGGTATTCA
* * * * *
158228 ATTATTTCGATTTG-AGAAAAATTGCACCTAGTAAGTTAATGTACAAATTTTCAAAACTCGAAAT
1 ATTATCTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCAAAACTAGAAAT
*
158292 AAAAAAATATTGCCTCGATTT
66 AAAAAAACATTGCCTCGATTT
158313 TAAAGTTTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
96 59 0.82
97 13 0.18
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (97 bp):
ATTATCTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCAAAACTAGAAAT
AAAAAAACATTGCCTCGATTTAAGGGTATTCA
Found at i:158648 original size:29 final size:30
Alignment explanation
Indices: 158528--158876 Score: 184
Period size: 29 Copynumber: 12.0 Consensus size: 30
158518 TACCCGAGGA
* *
158528 GGGGTAAAAATGGTAA-TTTTGGATA-TTT
1 GGGGTAAAAATGGTAATTTTTGGAAAGTTC
** ** *
158556 GGGGGCAAAATGGTAA-TTTTAAAAAGATC
1 GGGGTAAAAATGGTAATTTTTGGAAAGTTC
* *
158585 GGGGTCATAAATGG-AGTTTTTGG-AAGTTC
1 GGGGT-AAAAATGGTAATTTTTGGAAAGTTC
* **
158614 AAGGGT-AAAATGGTAATTTTTGGAAAAAAT-
1 -GGGGTAAAAATGGTAATTTTTGG-AAAGTTC
* *
158644 GGGGTCAAAAA-CG-AAATTTTGGAAAGTTC
1 GGGGT-AAAAATGGTAATTTTTGGAAAGTTC
*
158673 GGGAGTAAAAAT-GTAATTTTTGGAAAGATC
1 GGG-GTAAAAATGGTAATTTTTGGAAAGTTC
*
158703 GAGGTCAAAAATGG-AATTTTTGG-AAGTTC
1 GGGGT-AAAAATGGTAATTTTTGGAAAGTTC
*
158732 GAGGGT--AAATGGTAATTTTTGGAAAAATT-
1 G-GGGTAAAAATGGTAATTTTTGG-AAAGTTC
* * *
158761 GGGGTCAAAGATAG-AA-TTTTGAAAAGTTC
1 GGGGT-AAAAATGGTAATTTTTGGAAAGTTC
** **
158790 GGGGGTAAAAAT-GTAA-TTTTCAAAAAATC
1 -GGGGTAAAAATGGTAATTTTTGGAAAGTTC
*
158819 GAGGTTAAAAATGG-AA-TTTTGGAAAGTTC
1 G-GGGTAAAAATGGTAATTTTTGGAAAGTTC
* * *
158848 GGGGGTAAAAAT-ATGATTTTTGGATAGTT
1 -GGGGTAAAAATGGTAATTTTTGGAAAGTT
158877 TAGGGACCTT
Statistics
Matches: 244, Mismatches: 47, Indels: 58
0.70 0.13 0.17
Matches are distributed among these distances:
27 6 0.02
28 50 0.20
29 101 0.41
30 75 0.31
31 12 0.05
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.31
Consensus pattern (30 bp):
GGGGTAAAAATGGTAATTTTTGGAAAGTTC
Found at i:158755 original size:28 final size:28
Alignment explanation
Indices: 158562--158755 Score: 94
Period size: 30 Copynumber: 6.7 Consensus size: 28
158552 ATTTGGGGGC
*** *
158562 AAAATGGTAATTTTAAAAAGATCGGGGT
1 AAAATGGTAATTTTTGGAAGATCGAGGT
* * *
158590 CATAAATGG-AGTTTTTGGAAGTTCAAGGGT
1 -A-AAATGGTAATTTTTGGAAGATCGA-GGT
* *
158620 AAAATGGTAATTTTTGGAAAAAAT-GGGGT
1 AAAATGGTAATTTTTGG--AAGATCGAGGT
** * * *
158649 CAAAAACG-AAATTTTGGAAAGTTCGGGAGT
1 -AAAATGGTAATTTTTGG-AAGATCGAG-GT
158679 AAAAAT-GTAATTTTTGGAAAGATCGAGGT
1 -AAAATGGTAATTTTTGG-AAGATCGAGGT
*
158708 CAAAAATGG-AATTTTTGGAAGTTCGAGGGT
1 --AAAATGGTAATTTTTGGAAGATCGA-GGT
158738 -AAATGGTAATTTTTGGAA
1 AAAATGGTAATTTTTGGAA
158756 AAATTGGGGT
Statistics
Matches: 129, Mismatches: 23, Indels: 27
0.72 0.13 0.15
Matches are distributed among these distances:
27 6 0.05
28 21 0.16
29 44 0.34
30 54 0.42
31 4 0.03
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (28 bp):
AAAATGGTAATTTTTGGAAGATCGAGGT
Found at i:158858 original size:58 final size:60
Alignment explanation
Indices: 158528--158859 Score: 323
Period size: 58 Copynumber: 5.7 Consensus size: 60
158518 TACCCGAGGA
* * *
158528 GGGGT-AAAAATGGTAATTTTGGATA-TTTGGGGG-CAAAATGGTAA-TTTT-AAAAAGATC
1 GGGGTCAAAAATGG-AATTTTGGAAAGTTCGGGGGTAAAAATGGTAATTTTTGAAAAA-ATC
* * **
158585 GGGGTCATAAATGGAGTTTTTGG-AAGTTCAAGGGT-AAAATGGTAATTTTTGGAAAAAAT-
1 GGGGTCAAAAATGGA-ATTTTGGAAAGTTCGGGGGTAAAAATGGTAATTTTT-GAAAAAATC
* * * * *
158644 GGGGTCAAAAACGAAATTTTGGAAAGTTCGGGAGTAAAAAT-GTAATTTTTGGAAAGATC
1 GGGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAAATGGTAATTTTTGAAAAAATC
* * * *
158703 GAGGTCAAAAATGGAATTTTTGG-AAGTTCGAGGGT--AAATGGTAATTTTTGGAAAAATT
1 GGGGTCAAAAATGGAA-TTTTGGAAAGTTCGGGGGTAAAAATGGTAATTTTTGAAAAAATC
* * * *
158761 GGGGTCAAAGATAGAATTTTGAAAAGTTCGGGGGTAAAAAT-GTAA-TTTTCAAAAAATC
1 GGGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAAATGGTAATTTTTGAAAAAATC
* *
158819 GAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAAAT
1 GGGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAAAT
158860 ATGATTTTTG
Statistics
Matches: 225, Mismatches: 35, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
57 16 0.07
58 126 0.56
59 61 0.27
60 17 0.08
61 5 0.02
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.30
Consensus pattern (60 bp):
GGGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAAATGGTAATTTTTGAAAAAATC
Found at i:160790 original size:17 final size:17
Alignment explanation
Indices: 160767--160860 Score: 125
Period size: 17 Copynumber: 5.4 Consensus size: 17
160757 ACTTTTATTT
*
160767 ATTTAAATTTATAATAA
1 ATTTAAATTTAAAATAA
*
160784 TTTTAAATTTAAATATAA
1 ATTTAAATTTAAA-ATAA
* *
160802 ATTTAAACTTAAATTAA
1 ATTTAAATTTAAAATAA
*
160819 ATTTAAATTTTAGAATAA
1 ATTTAAA-TTTAAAATAA
160837 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
160854 ATTTAAA
1 ATTTAAA
160861 ATGAGTTAAG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
17 37 0.56
18 29 0.44
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:160794 original size:6 final size:6
Alignment explanation
Indices: 160767--160860 Score: 83
Period size: 6 Copynumber: 16.2 Consensus size: 6
160757 ACTTTTATTT
* * *
160767 ATTTAA ATTTATA A--TAA TTTTAA ATTTAA ATATAA ATTTAA ACTTAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
160814 A-TTAA ATTTAA ATTTTAGA A--TAA ATTTAA ATTTAA A-ATAA ATTTAA
1 ATTTAA ATTTAA A-TTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
160860 A
1 A
160861 ATGAGTTAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
4 3 0.04
5 13 0.18
6 48 0.67
7 6 0.08
8 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:160803 original size:29 final size:28
Alignment explanation
Indices: 160770--160858 Score: 82
Period size: 29 Copynumber: 3.3 Consensus size: 28
160760 TTTATTTATT
160770 TAAATTTATAATAATTTTAAATTTAAATA
1 TAAATTTATAATAA-TTTAAATTTAAATA
* *
160799 TAAA-TT-T-A-AACTTAAA-TTAAATT
1 TAAATTTATAATAATTTAAATTTAAATA
*
160822 TAAATTTTAGAATAAATTTAAATTTAAA-A
1 TAAA-TTTATAAT-AATTTAAATTTAAATA
160851 TAAATTTA
1 TAAATTTA
160859 AAATGAGTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
23 10 0.21
24 5 0.10
25 4 0.08
26 1 0.02
27 2 0.04
28 6 0.12
29 15 0.31
30 5 0.10
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
TAAATTTATAATAATTTAAATTTAAATA
Found at i:160824 original size:35 final size:34
Alignment explanation
Indices: 160767--160860 Score: 118
Period size: 35 Copynumber: 2.7 Consensus size: 34
160757 ACTTTTATTT
*
160767 ATTTAAATTTATAATAATTTTAAA-TTTAAATATAA
1 ATTTAAATTTA-AATAAATTTAAATTTTAAA-ATAA
* *
160802 ATTTAAACTTAAATTAAATTTAAATTTTAGAATAA
1 ATTTAAATTTAAA-TAAATTTAAATTTTAAAATAA
160837 ATTTAAATTTAAAATAAATTTAAA
1 ATTTAAATTT-AAATAAATTTAAA
160861 ATGAGTTAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
34 2 0.04
35 42 0.81
36 8 0.15
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (34 bp):
ATTTAAATTTAAATAAATTTAAATTTTAAAATAA
Found at i:161462 original size:99 final size:99
Alignment explanation
Indices: 161334--162060 Score: 885
Period size: 99 Copynumber: 7.4 Consensus size: 99
161324 GTCTTCGCGA
** * * *
161334 TACTGGATTTGCCGTTGTGGCTTAAATCTTTCCCTTCATG-TCTCTGAGGTACTAGGTTCGTCGT
1 TACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTTATGCT-TCTGAGGTACTAGGTTCGTCGT
* * * *
161398 TGAGATTTAAATCTTTCCCTTTTGTATCTTTTTGG
65 TGCGACTTAAACCTTTCCCTTTTGTATCTTTGTGG
* * * * *
161433 TATTGGATCCGTCGTCGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACAAGGTTCGCCGTT
1 TACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTT
* *
161498 GCGACTTAAACCCTTCCC-TTTGTGTCTTTGTGG
66 GCGACTTAAACCTTTCCCTTTTGTATCTTTGTGG
* * *
161531 TACTGGATCCGCTGTTGCTGCTTAGATCTTTCCCTTTATG-TCTCTGTGGTACT-GGATTCGTCG
1 TACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTTATGCT-TCTGAGGTACTAGG-TTCGTCG
* * *
161594 TTACGGCTTAAATCTTT-CCTTTCTGTATCTTTGTGG
64 TTGCGACTTAAACCTTTCCCTTT-TGTATCTTTGTGG
* *
161630 TACTAGATCCACCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTT
1 TACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTT
*
161695 GCGACTTAAACCTTTCCCTTTTGTATCTTTGCGG
66 GCGACTTAAACCTTTCCCTTTTGTATCTTTGTGG
** * * * * *
161729 TACTGGATCCGCCGTCACGGCTTAGATCTTT-CCTATCATGCTTCTAAGGTACAATGTTCGCCGT
1 TACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCT-TTATGCTTCTGAGGTACTAGGTTCGTCGT
* * *
161793 TGCGACTTGAACCCTTCCC-TTTGTGTCTTTGTGG
65 TGCGACTTAAACCTTTCCCTTTTGTATCTTTGTGG
* * * * **
161827 TACTGGATCCGCCGTTACGGCTTAGATCTTTCCTTTTATG-TCTCTGTGGTACTAGATTCACCGT
1 TACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTTATGCT-TCTGAGGTACTAGGTTCGTCGT
* * * * * *
161891 TACGGCTTAAATCTTTCCCTTCTGTGTCTTTGCGG
65 TGCGACTTAAACCTTTCCCTTTTGTATCTTTGTGG
161926 TACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTT
1 TACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTT
* *
161991 GCGACTTAAACCTTTCTCTTTTGTATCTTTGTTG
66 GCGACTTAAACCTTTCCCTTTTGTATCTTTGTGG
* *
162025 TACTGGATCCACCATTGCGGCTTAGATCTTTCCCTT
1 TACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTT
162061 CATGTTTTGT
Statistics
Matches: 532, Mismatches: 83, Indels: 26
0.83 0.13 0.04
Matches are distributed among these distances:
97 6 0.01
98 158 0.30
99 358 0.67
100 10 0.02
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (99 bp):
TACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTT
GCGACTTAAACCTTTCCCTTTTGTATCTTTGTGG
Found at i:161894 original size:296 final size:295
Alignment explanation
Indices: 161345--162064 Score: 1109
Period size: 296 Copynumber: 2.4 Consensus size: 295
161335 ACTGGATTTG
* * * * *
161345 CCGTTGTGGCTTAAATCTTTCCCTTCATG-TCTCTGAGGTACTAGGTTCGTCGTTGAGATTTAAA
1 CCGTTGCGGCTTAGATCTTTCCCTTTATGCT-TCTGAGGTACTAGGTTCGTCGTTGCGACTTAAA
* * * * *
161409 TCTTTCCCTTTTGTATCTTTTTGGTATTGGATCCGTCGTCGCGGCTTAGATCTTTCCCTTTATGC
65 CCTTTCCCTTTTGTATCTTTGTGGTACTGGATCCGCCGTCGCGGCTTAGATCTTT-CCTTCATGC
*
161474 TTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCCTTCCCTTTGTGTCTTTGTGGTACTGGAT
129 TTCTAAGGTACAAGGTTCGCCGTTGCGACTTAAACCCTTCCCTTTGTGTCTTTGTGGTACTGGAT
* * * * **
161539 CCGCTGTTGCTGCTTAGATCTTTCCCTTTATGTCTCTGTGGTACTGGATTCGTCGTTACGGCTTA
194 CCGCCGTTACGGCTTAGATCTTTCCCTTTATGTCTCTGTGGTACTAGATTCACCGTTACGGCTTA
* *
161604 AATCTTTCCTTTCTGTATCTTTGTGGTACTAGATCCA
259 AATCTTTCCCTTCTGTATCTTTGCGGTACTAGATCCA
161641 CCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTTGCGACTTAAAC
1 CCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTTGCGACTTAAAC
* *
161706 CTTTCCCTTTTGTATCTTTGCGGTACTGGATCCGCCGTCACGGCTTAGATCTTTCCTATCATGCT
66 CTTTCCCTTTTGTATCTTTGTGGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCT-TCATGCT
* *
161771 TCTAAGGTACAATGTTCGCCGTTGCGACTTGAACCCTTCCCTTTGTGTCTTTGTGGTACTGGATC
130 TCTAAGGTACAAGGTTCGCCGTTGCGACTTAAACCCTTCCCTTTGTGTCTTTGTGGTACTGGATC
*
161836 CGCCGTTACGGCTTAGATCTTTCCTTTTATGTCTCTGTGGTACTAGATTCACCGTTACGGCTTAA
195 CGCCGTTACGGCTTAGATCTTTCCCTTTATGTCTCTGTGGTACTAGATTCACCGTTACGGCTTAA
* * *
161901 ATCTTTCCCTTCTGTGTCTTTGCGGTACTGGATCCG
260 ATCTTTCCCTTCTGTATCTTTGCGGTACTAGATCCA
161937 CCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTTGCGACTTAAAC
1 CCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTTGCGACTTAAAC
* * * * *
162002 CTTTCTCTTTTGTATCTTTGTTGTACTGGATCCACCATTGCGGCTTAGATCTTTCCCTTCATG
66 CTTTCCCTTTTGTATCTTTGTGGTACTGGATCCGCCGTCGCGGCTTAGATCTTT-CCTTCATG
162065 TTTTGTGGTA
Statistics
Matches: 387, Mismatches: 34, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
295 3 0.01
296 380 0.98
297 4 0.01
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.40
Consensus pattern (295 bp):
CCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTTGCGACTTAAAC
CTTTCCCTTTTGTATCTTTGTGGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCTTCATGCTT
CTAAGGTACAAGGTTCGCCGTTGCGACTTAAACCCTTCCCTTTGTGTCTTTGTGGTACTGGATCC
GCCGTTACGGCTTAGATCTTTCCCTTTATGTCTCTGTGGTACTAGATTCACCGTTACGGCTTAAA
TCTTTCCCTTCTGTATCTTTGCGGTACTAGATCCA
Found at i:162076 original size:197 final size:196
Alignment explanation
Indices: 161314--162060 Score: 910
Period size: 197 Copynumber: 3.8 Consensus size: 196
161304 ACTTAAATTC
* * * * ** * *
161314 TTCCCCTTATGTCTTCGCGATACTGGATTTGCCGTTGTGGCTTAAATCTTTCCCTTCATGTCTCT
1 TTCCCTTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCT
* * * * * *
161379 GAGGTACTAGGTTCGTCGTTGAGATTTAAATCTTTCCCTTTTGTATCTTTTTGGTATTGGATCCG
66 GAGGTACTAGGTTCGTCGTTGCGACTTAAACCTTT-CCTTTTGTATCTTTGTGGTACTGGATCCA
* * *
161444 TCGTCGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
130 CCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGCCGTTGCGACTTAAAC
*
161509 CC
195 CT
* * * *
161511 TTCCCTTTGTGTCTTTGTGGTACTGGATCCGCTGTTGCTGCTTAGATCTTTCCCTTTATGTCTCT
1 TTCCCTTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCT
* * * * *
161576 GTGGTACT-GGATTCGTCGTTACGGCTTAAATCTTTCCTTTCTGTATCTTTGTGGTACTAGATCC
66 GAGGTACTAGG-TTCGTCGTTGCGACTTAAACCTTTCCTTT-TGTATCTTTGTGGTACTGGATCC
*
161640 ACCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGTCGTTGCGACTTAAA
129 ACCGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGCCGTTGCGACTTAAA
161705 CCT
194 CCT
* **
161708 TTCCCTTTTGTATCTTTGCGGTACTGGATCCGCCGTCACGGCTTAGATCTTT-CCTATCATG-CT
1 TTCCC-TTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCT-TCATGTC-
* * * * * * * *
161771 TCTAAGGTACAATGTTCGCCGTTGCGACTTGAACCCTTCCCTTTGTGTCTTTGTGGTACTGGATC
63 TCTGAGGTACTAGGTTCGTCGTTGCGACTTAAACCTTTCCTTTTGTATCTTTGTGGTACTGGATC
* * * * * * * *
161836 CGCCGTTACGGCTTAGATCTTTCCTTTTATG-TCTCTGTGGTACTAGATTCACCGTTACGGCTTA
128 CACCGTTGCGGCTTAGATCTTTCCCTTTATGCT-TCTGAGGTACTAGGTTCGCCGTTGCGACTTA
*
161900 AATCT
192 AACCT
*
161905 TTCCCTTCTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTTATG-CTT
1 TTCCCTT-TGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTC-T
*
161969 CTGAGGTACTAGGTTCGTCGTTGCGACTTAAACCTTTCTCTTTTGTATCTTTGTTGTACTGGATC
64 CTGAGGTACTAGGTTCGTCGTTGCGACTTAAACCTTTC-CTTTTGTATCTTTGTGGTACTGGATC
*
162034 CACCATTGCGGCTTAGATCTTTCCCTT
128 CACCGTTGCGGCTTAGATCTTTCCCTT
162061 CATGTTTTGT
Statistics
Matches: 467, Mismatches: 73, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
196 10 0.02
197 333 0.71
198 123 0.26
199 1 0.00
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.41
Consensus pattern (196 bp):
TTCCCTTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCT
GAGGTACTAGGTTCGTCGTTGCGACTTAAACCTTTCCTTTTGTATCTTTGTGGTACTGGATCCAC
CGTTGCGGCTTAGATCTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGCCGTTGCGACTTAAACC
T
Found at i:172518 original size:6 final size:6
Alignment explanation
Indices: 172509--172584 Score: 81
Period size: 6 Copynumber: 13.0 Consensus size: 6
172499 ATTTTTATTT
172509 ATTTAA ATTTATA A--TAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTTAGA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A-TTTA-A
*
172558 A--TAA ATTTAA ATTTAA A-ATAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
172585 TCATAAAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
4 4 0.07
5 8 0.13
6 40 0.67
7 6 0.10
8 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:172531 original size:17 final size:17
Alignment explanation
Indices: 172509--172602 Score: 118
Period size: 17 Copynumber: 5.4 Consensus size: 17
172499 ATTTTTATTT
*
172509 ATTTAAATTTATAATAA
1 ATTTAAATTTAAAATAA
*
172526 ATTTAAATTTAAATTTAA
1 ATTTAAATTTAAA-ATAA
*
172544 ATTTAAATTTTAGAATAA
1 ATTTAAA-TTTAAAATAA
172562 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
*
172579 ATTT-AATCATAAAATAA
1 ATTTAAAT-TTAAAATAA
172596 ATTTAAA
1 ATTTAAA
172603 ATGAGTTGAG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
16 3 0.04
17 37 0.55
18 22 0.33
19 5 0.07
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:172590 original size:12 final size:11
Alignment explanation
Indices: 172512--172604 Score: 53
Period size: 12 Copynumber: 8.1 Consensus size: 11
172502 TTTATTTATT
*
172512 TAAATTTATAA
1 TAAATTTAAAA
*
172523 TAAATTTAAATT
1 TAAATTTAAA-A
*
172535 TAAATTTAAATT
1 TAAATTTAAA-A
*
172547 TAAATTTTAGAA
1 TAAA-TTTAAAA
*
172559 TAAATTTAAATT
1 TAAATTTAAA-A
* *
172571 TAAA-ATAAAT
1 TAAATTTAAAA
* *
172581 TTAATCATAAAA
1 TAAAT-TTAAAA
172593 TAAATTTAAAA
1 TAAATTTAAAA
172604 T
1 T
172605 GAGTTGAGTT
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
10 4 0.06
11 24 0.36
12 33 0.50
13 5 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:174438 original size:39 final size:37
Alignment explanation
Indices: 174352--174438 Score: 93
Period size: 39 Copynumber: 2.3 Consensus size: 37
174342 TGTATATTAA
** * *
174352 TTAAAATATATTATTTTGTAATTTTTATAATAAATTT
1 TTAAAATATATTATTTTAAAAATTTTAAAATAAATTT
* *
174389 TGAAATATATATTAGTTTTAAAAATTTTAAAATCAATTTT
1 TTAAA-ATATATTA-TTTTAAAAATTTTAAAAT-AAATTT
174429 TTAAAATATA
1 TTAAAATATA
174439 ATTAATTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
37 4 0.10
38 8 0.20
39 19 0.47
40 9 0.22
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (37 bp):
TTAAAATATATTATTTTAAAAATTTTAAAATAAATTT
Found at i:174459 original size:24 final size:24
Alignment explanation
Indices: 174431--174483 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
174421 TCAATTTTTT
*
174431 AAAATATAATT-AATTAAATCATAA
1 AAAATATAATTAAATTAAAT-ACAA
*
174455 AAAAT-TAATTAAATTTAATACAA
1 AAAATATAATTAAATTAAATACAA
174478 AAAATA
1 AAAATA
174484 ATTATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAATATAATTAAATTAAATACAA
Found at i:175083 original size:24 final size:24
Alignment explanation
Indices: 175033--175083 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
175023 TTTTGAGCAA
* *
175033 TTTAATTTTTTTCTTTTATGTTTT
1 TTTAATTTCTTTCTTTTATGTTAT
*
175057 TTTAACTTTCTTTCTTTTCT-TTAT
1 TTTAA-TTTCTTTCTTTTATGTTAT
175081 TTT
1 TTT
175084 CCATTCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTAATTTCTTTCTTTTATGTTAT
Found at i:175202 original size:17 final size:16
Alignment explanation
Indices: 175180--175213 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
175170 AAAGTGGAAG
175180 AAAAAAAGGAAAATGAA
1 AAAAAAAGGAAAA-GAA
175197 AAAAAAAGGAAAAGAA
1 AAAAAAAGGAAAAGAA
175213 A
1 A
175214 TTAAATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (16 bp):
AAAAAAAGGAAAAGAA
Found at i:180104 original size:10 final size:10
Alignment explanation
Indices: 180089--180115 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
180079 AAAATACGCT
180089 CTCTCTCTTG
1 CTCTCTCTTG
180099 CTCTCTCTTG
1 CTCTCTCTTG
180109 CTCTCTC
1 CTCTCTC
180116 ATTTTCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.44, G:0.07, T:0.48
Consensus pattern (10 bp):
CTCTCTCTTG
Found at i:180936 original size:15 final size:15
Alignment explanation
Indices: 180911--180957 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
180901 AAATATATAT
180911 TTTTATTTTTTCTTCA
1 TTTT-TTTTTTCTTCA
*
180927 TTTTTTTTTTCTTTA
1 TTTTTTTTTTCTTCA
*
180942 TTTTTTTTTTTTTCA
1 TTTTTTTTTTCTTCA
180957 T
1 T
180958 CTTCCTCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 24 0.86
16 4 0.14
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTCTTCA
Found at i:181547 original size:13 final size:13
Alignment explanation
Indices: 181529--181593 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
181519 AGTTTAGTAT
*
181529 TATTTTTGAAAAG
1 TATTTTTAAAAAG
181542 TATTTTTAAAAAG
1 TATTTTTAAAAAG
* * * *
181555 TGTTGTGAAAAAA
1 TATTTTTAAAAAG
181568 TATTTCTTAAAAA-
1 TATTT-TTAAAAAG
*
181581 TACTTTTGAAAAA
1 TA-TTTTTAAAAA
181594 TTTGATTTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
13 32 0.78
14 9 0.22
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (13 bp):
TATTTTTAAAAAG
Found at i:182480 original size:19 final size:19
Alignment explanation
Indices: 182456--182496 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
182446 TAGAAAAAAC
182456 TTAATATTTAAGAGTGTTT
1 TTAATATTTAAGAGTGTTT
182475 TTAATATTTAAGAGTGTTT
1 TTAATATTTAAGAGTGTTT
182494 TTA
1 TTA
182497 TGACCCACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
TTAATATTTAAGAGTGTTT
Found at i:187430 original size:60 final size:60
Alignment explanation
Indices: 187355--187474 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
187345 TAAGCAAACA
* *
187355 TCAGTAGTTCCTCGTAAGTATCTCAAAATCCACTGAACTGCTTTCCAGTGTTCTTTATCG
1 TCAGTAGTTCCTCGTAAGTATCTCAAAATCCACTGAACTACTTTCCAGCGTTCTTTATCG
*
187415 TCAGTAGTTCCTCGTAAGTATCTCAAAATCCACTGAACTACTTTCTAGCGTTCTTTATCG
1 TCAGTAGTTCCTCGTAAGTATCTCAAAATCCACTGAACTACTTTCCAGCGTTCTTTATCG
187475 GGATTCGCCA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (60 bp):
TCAGTAGTTCCTCGTAAGTATCTCAAAATCCACTGAACTACTTTCCAGCGTTCTTTATCG
Found at i:188936 original size:29 final size:29
Alignment explanation
Indices: 188894--188952 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
188884 AAGCAAGACA
188894 CCTAAAAATCTTTATATCAGAATAATCAG
1 CCTAAAAATCTTTATATCAGAATAATCAG
188923 CCTAAAAATCTTTATATCAGAATAATCAG
1 CCTAAAAATCTTTATATCAGAATAATCAG
188952 C
1 C
188953 AGGCTTACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (29 bp):
CCTAAAAATCTTTATATCAGAATAATCAG
Found at i:190806 original size:17 final size:18
Alignment explanation
Indices: 190780--190816 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
190770 TTTCCACTAA
*
190780 AAAAAGAATTTAACATTT
1 AAAAAGAATTTAAAATTT
190798 AAAAA-AATTTAAAATTT
1 AAAAAGAATTTAAAATTT
190815 AA
1 AA
190817 TTTAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAAAGAATTTAAAATTT
Found at i:196099 original size:25 final size:23
Alignment explanation
Indices: 196070--196144 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
196060 CGCTATCTGT
196070 TTAGCAC-GTCTCGTGCTCTTTGTTA
1 TTAGCACTGTCT-GTGCTCTTTG--A
*
196095 TTAGCACTGTGTGTGCTCTTTGA
1 TTAGCACTGTCTGTGCTCTTTGA
* * *
196118 TTAGCACTTTGTGTGCTCTCTGA
1 TTAGCACTGTCTGTGCTCTTTGA
196141 TTAG
1 TTAG
196145 TACTTTGTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
23 26 0.57
25 17 0.37
26 3 0.07
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.44
Consensus pattern (23 bp):
TTAGCACTGTCTGTGCTCTTTGA
Found at i:196124 original size:23 final size:23
Alignment explanation
Indices: 196082--196182 Score: 105
Period size: 23 Copynumber: 4.3 Consensus size: 23
196072 AGCACGTCTC
196082 GTGCTCTTTGTTATTAGCACTGTGT
1 GTGCTCTTTG--ATTAGCACTGTGT
*
196107 GTGCTCTTTGATTAGCACTTTGT
1 GTGCTCTTTGATTAGCACTGTGT
* * *
196130 GTGCTCTCTGATTAGTACTTTGT
1 GTGCTCTTTGATTAGCACTGTGT
* * *
196153 GTACTCTATG-TTCAGCACTGCGT
1 GTGCTCTTTGATT-AGCACTGTGT
196176 GTGCTCT
1 GTGCTCT
196183 CTGTTGCCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
22 2 0.03
23 54 0.82
25 10 0.15
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.45
Consensus pattern (23 bp):
GTGCTCTTTGATTAGCACTGTGT
Found at i:201264 original size:59 final size:59
Alignment explanation
Indices: 201173--201342 Score: 204
Period size: 59 Copynumber: 2.8 Consensus size: 59
201163 TTTTTCTAAT
*
201173 ATTATATATTATGATTTTTATT-AATTCATATTTTAATAATAATTATATTAAAAATATTATTAA
1 ATTATATA-T-TGA-TTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAAATATAATTAA
* *
201236 ATTATATATT-ATTTTATTAAATTGTATTTAATAATAATTATGTT-AAAATATAATTAA
1 ATTATATATTGATTTTATTAAATTATATTTAATAATAATTATATTAAAAATATAATTAA
* *
201293 ATTATTTATTGTTATTTATTAAATTATATTTAATAATAATCT-TATTAAAA
1 ATTATATATTGAT-TTTATTAAATTATATTTAATAATAAT-TATATTAAAA
201343 TTTAATAATA
Statistics
Matches: 95, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
57 21 0.22
58 18 0.19
59 37 0.39
60 9 0.09
61 1 0.01
62 1 0.01
63 8 0.08
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (59 bp):
ATTATATATTGATTTTATTAAATTATATTTAATAATAATTATATTAAAAATATAATTAA
Found at i:201369 original size:28 final size:26
Alignment explanation
Indices: 201323--201379 Score: 62
Period size: 29 Copynumber: 2.1 Consensus size: 26
201313 AAATTATATT
*
201323 TAATAATAATCTTA-TTAAAATTTAA
1 TAATAATAATCTTACTAAAAATTTAA
*
201348 TAATAATAATCATCTACCTAAAAATTTGA
1 TAATAATAATC-T-TA-CTAAAAATTTAA
201377 TAA
1 TAA
201380 AAANNNNNNN
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 11 0.42
26 1 0.04
27 2 0.08
29 12 0.46
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.39
Consensus pattern (26 bp):
TAATAATAATCTTACTAAAAATTTAA
Done.