Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 32 of 141
Found at i:10754926 original size:27 final size:27
Alignment explanation
Indices: 10754869--10755282 Score: 456
Period size: 27 Copynumber: 15.4 Consensus size: 27
10754859 GGCAAAAATA
10754869 GTCA-TTTACCC-ATCA-GGGCATTACG
1 GTCATTTTACCCTA-CAGGGGCATTACG
*
10754894 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
10754921 GTCATTTTATCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
10754948 ATCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
10754975 GTTATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
10755002 GTCATTTTACCTTACAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
10755029 GCCTTTTTACCCTATAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
10755056 ATTATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
10755083 GTCATTTTATCCTACTGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
10755110 GTTATTTTACCTTACGGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
10755137 GTCCTTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
10755164 GTCATTTTACCTTATAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
10755191 ATCATTTTACCTTATAGGGGCATTAGG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
10755218 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
10755245 GTTATTTTACCCTACATGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
10755272 ATCATTTTACC
1 GTCATTTTACC
10755283 TATTTTAAGG
Statistics
Matches: 324, Mismatches: 62, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
25 4 0.01
26 9 0.03
27 311 0.96
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:10755283 original size:81 final size:81
Alignment explanation
Indices: 10754884--10755283 Score: 512
Period size: 81 Copynumber: 4.9 Consensus size: 81
10754874 TTACCCATCA
*
10754884 GGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTATCCTACAGGGGCATTACGA
1 GGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGA
*
10754949 TCATTTTACCCTATAG
66 TCATTTTACCTTATAG
* * * * *
10754965 GGGCATTACGGTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTACAGAGGCATTACGG
1 GGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGA
* * * *
10755030 CCTTTTTACCCTATAA
66 TCATTTTACCTTATAG
* * * * * * * *
10755046 GGGTATTACGATTATTTTACCCTACAAGGGTATTACGGTCATTTTATCCTACTGAGGCATTACGG
1 GGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGA
* **
10755111 TTATTTTACCTTACGG
66 TCATTTTACCTTATAG
* * * * * *
10755127 GGGCATTATGGTCCTTTTACCCTACAGGGGTATTACGGTCATTTTACCTTATAGGGGTATTACAA
1 GGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGA
10755192 TCATTTTACCTTATAG
66 TCATTTTACCTTATAG
* * * *
10755208 GGGCATTAGGGTCATTTTACCCTACAAGGGTATTACGGTTATTTTACCCTACATGGGCATTACGA
1 GGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGA
10755273 TCATTTTACCT
66 TCATTTTACCT
10755284 ATTTTAAGGT
Statistics
Matches: 270, Mismatches: 49, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 270 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (81 bp):
GGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGA
TCATTTTACCTTATAG
Found at i:10759698 original size:10 final size:10
Alignment explanation
Indices: 10759679--10759713 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
10759669 AAATCTGTCG
10759679 AAAA-TAATC
1 AAAATTAATC
10759688 AAAATTAATC
1 AAAATTAATC
*
10759698 AAAATTAATT
1 AAAATTAATC
10759708 AAAATT
1 AAAATT
10759714 CAACATGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTAATC
Found at i:10768264 original size:6 final size:6
Alignment explanation
Indices: 10768255--10768279 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10768245 ATGAAATGAA
10768255 ATTTAG ATTTAG ATTTAG ATTTAG A
1 ATTTAG ATTTAG ATTTAG ATTTAG A
10768280 AAGAAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTTAG
Found at i:10790102 original size:20 final size:20
Alignment explanation
Indices: 10790079--10790120 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
10790069 AAAAGGACAC
**
10790079 ATAATTATTCATTTAATATT
1 ATAATTATTCAAATAATATT
10790099 ATAATTATTCAAATAATATT
1 ATAATTATTCAAATAATATT
10790119 AT
1 AT
10790121 TCAGAATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAATTATTCAAATAATATT
Found at i:10801185 original size:25 final size:26
Alignment explanation
Indices: 10801135--10801204 Score: 97
Period size: 25 Copynumber: 2.7 Consensus size: 26
10801125 AACAATTAAT
* *
10801135 TAATTTTTAAAATTAAAAATATTTTA
1 TAATTTTTAAATTTTAAAATATTTTA
* *
10801161 TACTTTTTAATTTTTAAAATA-TTTA
1 TAATTTTTAAATTTTAAAATATTTTA
10801186 TAATTTTTAAATTTTAAAA
1 TAATTTTTAAATTTTAAAA
10801205 AAAAATTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
25 21 0.55
26 17 0.45
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (26 bp):
TAATTTTTAAATTTTAAAATATTTTA
Found at i:10801205 original size:26 final size:27
Alignment explanation
Indices: 10801135--10801205 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 27
10801125 AACAATTAAT
*
10801135 TAATTTTTAAA-ATTAAAAATATTTTA
1 TAATTTTTAAATTTTAAAAATATTTTA
* *
10801161 TACTTTTT-AATTTTTAAAATA-TTTA
1 TAATTTTTAAATTTTAAAAATATTTTA
10801186 TAATTTTTAAATTTTAAAAA
1 TAATTTTTAAATTTTAAAAA
10801206 AAAATTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 13 0.34
26 25 0.66
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (27 bp):
TAATTTTTAAATTTTAAAAATATTTTA
Found at i:10808053 original size:20 final size:20
Alignment explanation
Indices: 10808004--10808059 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
10807994 AGATTATGCT
* * *
10808004 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
10808024 AAGTAAATGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
10808044 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
10808060 TCATAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:10815013 original size:23 final size:23
Alignment explanation
Indices: 10814941--10815004 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
10814931 TTGGACAAAA
* *
10814941 GTGTAAAGCAGGGTCACACGCCC
1 GTGTAAAACAGGGTCACACGACC
*
10814964 GTGTAAAATAGGGTCACACGACC
1 GTGTAAAACAGGGTCACACGACC
*
10814987 GTGTAAACCAGGGTCACA
1 GTGTAAAACAGGGTCACA
10815005 TGGTCGTGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.31, C:0.25, G:0.28, T:0.16
Consensus pattern (23 bp):
GTGTAAAACAGGGTCACACGACC
Found at i:10816236 original size:22 final size:22
Alignment explanation
Indices: 10816151--10816236 Score: 100
Period size: 22 Copynumber: 3.9 Consensus size: 22
10816141 GCTTTAACAG
*
10816151 TAGGCACCGGAGTGCGAATCAA
1 TAGGCACCGGAGTGCAAATCAA
**
10816173 TAGATACCGGAGTGCAAATCAA
1 TAGGCACCGGAGTGCAAATCAA
* * *
10816195 TGGGCACCGTAGTGCGAATCAA
1 TAGGCACCGGAGTGCAAATCAA
* *
10816217 TAGGCACCGTAGTGAAAATC
1 TAGGCACCGGAGTGCAAATC
10816237 TCGTAAAAGT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (22 bp):
TAGGCACCGGAGTGCAAATCAA
Found at i:10816236 original size:44 final size:44
Alignment explanation
Indices: 10816153--10816236 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
10816143 TTTAACAGTA
* *
10816153 GGCACCGGAGTGCGAATCAATAGATACCGGAGTGCAAATCAATG
1 GGCACCGGAGTGCGAATCAATAGACACCGGAGTGAAAATCAATG
* * *
10816197 GGCACCGTAGTGCGAATCAATAGGCACCGTAGTGAAAATC
1 GGCACCGGAGTGCGAATCAATAGACACCGGAGTGAAAATC
10816237 TCGTAAAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (44 bp):
GGCACCGGAGTGCGAATCAATAGACACCGGAGTGAAAATCAATG
Found at i:10818549 original size:36 final size:35
Alignment explanation
Indices: 10818502--10818626 Score: 160
Period size: 37 Copynumber: 3.5 Consensus size: 35
10818492 CACACAGTGA
*
10818502 CATGCTTAACATGCGAATCAGAATCAGAAATAATGG
1 CATGCTTAACATGCGAATCAGAATCAG-AATAATAG
* * *
10818538 CATGCTTAACATGCGAGTCAAAATCAGATTAATAG
1 CATGCTTAACATGCGAATCAGAATCAGAATAATAG
* *
10818573 CATGATTAACATGCGAATCAGAATATCAGAATATTAG
1 CATGCTTAACATGCGAATCAG-A-ATCAGAATAATAG
*
10818610 CATGTTTAACATGCGAA
1 CATGCTTAACATGCGAA
10818627 CTAGAACATC
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
35 24 0.31
36 26 0.34
37 27 0.35
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (35 bp):
CATGCTTAACATGCGAATCAGAATCAGAATAATAG
Found at i:10818611 original size:37 final size:36
Alignment explanation
Indices: 10818502--10818626 Score: 164
Period size: 36 Copynumber: 3.5 Consensus size: 36
10818492 CACACAGTGA
*
10818502 CATGCTTAACATGCGAATCAG-AATCAGAAATAATGG
1 CATGCTTAACATGCGAATCAGAAATCAG-AATAATAG
* *
10818538 CATGCTTAACATGCGAGTCA-AAATCAGATTAATAG
1 CATGCTTAACATGCGAATCAGAAATCAGAATAATAG
* *
10818573 CATGATTAACATGCGAATCAGAATATCAGAATATTAG
1 CATGCTTAACATGCGAATCAGAA-ATCAGAATAATAG
*
10818610 CATGTTTAACATGCGAA
1 CATGCTTAACATGCGAA
10818627 CTAGAACATC
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
35 24 0.31
36 27 0.35
37 27 0.35
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (36 bp):
CATGCTTAACATGCGAATCAGAAATCAGAATAATAG
Found at i:10822573 original size:19 final size:19
Alignment explanation
Indices: 10822549--10822595 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
10822539 TGTTATCTTA
*
10822549 TTTAATCTTGCTTTTATTT
1 TTTAATCTTGCTTTTATTG
10822568 TTTAATCTTGCTTTTATTG
1 TTTAATCTTGCTTTTATTG
10822587 TTTAATCTT
1 TTTAATCTT
10822596 AGGGTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTAATCTTGCTTTTATTG
Found at i:10829709 original size:17 final size:17
Alignment explanation
Indices: 10829687--10829726 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
10829677 AGAAATAGCT
10829687 GACTGGGCTACAAGGCA
1 GACTGGGCTACAAGGCA
*
10829704 GACTGGGCTGCAAGGCA
1 GACTGGGCTACAAGGCA
10829721 GACTGG
1 GACTGG
10829727 AATCTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.25, C:0.23, G:0.40, T:0.12
Consensus pattern (17 bp):
GACTGGGCTACAAGGCA
Found at i:10831943 original size:66 final size:66
Alignment explanation
Indices: 10831866--10831990 Score: 162
Period size: 66 Copynumber: 1.9 Consensus size: 66
10831856 CTTATTGTAT
* * * * *
10831866 TAATGTAGCTGCATTAGTTAATTTCAGATTGC-GTCTAGAATTGTCGCTGTACCTGACAGATGTC
1 TAATGTAGCTGCATGAGTTAATTCCAAATTGCATTC-AGAATTGTCGCTGCACCTGACAGATGTC
10831930 TG
65 TG
* * *
10831932 TAATGTCGCTGCATGGGTTAATTCCAAATTTCATTCAGAATTGTCGCTGCACCTGACAG
1 TAATGTAGCTGCATGAGTTAATTCCAAATTGCATTCAGAATTGTCGCTGCACCTGACAG
10831991 CTATTCGGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
66 48 0.96
67 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (66 bp):
TAATGTAGCTGCATGAGTTAATTCCAAATTGCATTCAGAATTGTCGCTGCACCTGACAGATGTCT
G
Found at i:10834730 original size:35 final size:35
Alignment explanation
Indices: 10834691--10834815 Score: 135
Period size: 35 Copynumber: 3.6 Consensus size: 35
10834681 ATTGTTATTT
*
10834691 TGATTCGCATGTTAAACATGTTATTATTCTAATTA
1 TGATTCGCATGTTAAACATGCTATTATTCTAATTA
* * *
10834726 TGATTCGCATGTTAAGCATGCTATTTTTCTGATTA
1 TGATTCGCATGTTAAACATGCTATTATTCTAATTA
* * * * * *
10834761 TGATTTGCATGTTAAGCATGCCATTATACTTATTT
1 TGATTCGCATGTTAAACATGCTATTATTCTAATTA
*
10834796 TGATTTGCATG-TAAAGCATG
1 TGATTCGCATGTTAAA-CATG
10834816 TCACTATGTT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
34 3 0.04
35 75 0.96
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (35 bp):
TGATTCGCATGTTAAACATGCTATTATTCTAATTA
Found at i:10834990 original size:31 final size:31
Alignment explanation
Indices: 10834955--10835036 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
10834945 ATATTAGTAA
* *
10834955 GTCATCATTGTCGGGCAACTCGAGGTGGCAG
1 GTCATTATTGTCGGGCAACCCGAGGTGGCAG
* * ** *
10834986 GTCATTGTTGCCGAACAACCCGAGGTGGCGG
1 GTCATTATTGTCGGGCAACCCGAGGTGGCAG
10835017 GTCATTATTGTCGGGCAACC
1 GTCATTATTGTCGGGCAACC
10835037 TAGGATGACT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (31 bp):
GTCATTATTGTCGGGCAACCCGAGGTGGCAG
Found at i:10839202 original size:6 final size:6
Alignment explanation
Indices: 10839191--10839223 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
10839181 AAACCCCAAA
10839191 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTT
10839224 CTTTCTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:10839232 original size:18 final size:18
Alignment explanation
Indices: 10839193--10839233 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10839183 ACCCCAAATT
*
10839193 TTTCTTTTTCTTTTTCTT
1 TTTCTTTTTCTTTTTCTC
10839211 TTTCTTTTTCTTTCTT-TC
1 TTTCTTTTTCTTT-TTCTC
10839229 TTTCT
1 TTTCT
10839234 CCCCTGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTCTTTTTCTTTTTCTC
Found at i:10845364 original size:25 final size:25
Alignment explanation
Indices: 10845336--10845385 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
10845326 CTCGTGATAG
** *
10845336 AAATGCTCACATGAGCTGTGAATAT
1 AAATGCTCACACAAACTGTGAATAT
10845361 AAATGCTCACACAAACTGTGAATAT
1 AAATGCTCACACAAACTGTGAATAT
10845386 GGCCCTACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (25 bp):
AAATGCTCACACAAACTGTGAATAT
Found at i:10847859 original size:11 final size:11
Alignment explanation
Indices: 10847843--10847876 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
10847833 TGGCCCCAAG
10847843 TTGAATTAATT
1 TTGAATTAATT
*
10847854 TTGAATTCATT
1 TTGAATTAATT
10847865 TATGAATTAATT
1 T-TGAATTAATT
10847877 CACTTGTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (11 bp):
TTGAATTAATT
Found at i:10852178 original size:16 final size:18
Alignment explanation
Indices: 10852151--10852198 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
10852141 ATACAATTTT
*
10852151 TTTTTAAATTTTT-AA-A
1 TTTTTATATTTTTGAACA
10852167 TTTTT-TATTTTTGAACA
1 TTTTTATATTTTTGAACA
10852184 TTTTTATATTATTTG
1 TTTTTATATT-TTTG
10852199 TTATTATGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.22
16 7 0.26
17 6 0.22
18 4 0.15
19 4 0.15
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTTTATATTTTTGAACA
Found at i:10864375 original size:31 final size:31
Alignment explanation
Indices: 10864337--10864397 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
10864327 NTTTTTTTAA
10864337 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAA-ATTTTTAAAATAC
*
10864368 TTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAAATTTTTAAAATA
10864398 AAAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAAATTTTTAAAATAC
Found at i:10866893 original size:14 final size:14
Alignment explanation
Indices: 10866874--10866902 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10866864 ATCGAGGATG
10866874 ATGTCATTAAGGTA
1 ATGTCATTAAGGTA
10866888 ATGTCATTAAGGTA
1 ATGTCATTAAGGTA
10866902 A
1 A
10866903 ACACTACTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (14 bp):
ATGTCATTAAGGTA
Found at i:10869481 original size:19 final size:19
Alignment explanation
Indices: 10869457--10869494 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10869447 GGTGTATGTT
10869457 TGACTGTATCAAAATACAC
1 TGACTGTATCAAAATACAC
10869476 TGACTGTATCAAAATACAC
1 TGACTGTATCAAAATACAC
10869495 AACTCACGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (19 bp):
TGACTGTATCAAAATACAC
Found at i:10877378 original size:40 final size:41
Alignment explanation
Indices: 10877314--10877393 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 41
10877304 CTATGAAAGT
*
10877314 GATTAGACGTGATGTTTCATTATGTTTGTTATATGAGTCATA
1 GATTAGACGTGATG-TTCACTATGTTTGTTATATGAGTCATA
* * *
10877356 GATTAGATGTGATG-TCACTATGTTTTTTATATTAGTCA
1 GATTAGACGTGATGTTCACTATGTTTGTTATATGAGTCA
10877394 AAAAAGTAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 21 0.62
42 13 0.38
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.46
Consensus pattern (41 bp):
GATTAGACGTGATGTTCACTATGTTTGTTATATGAGTCATA
Found at i:10877436 original size:14 final size:14
Alignment explanation
Indices: 10877417--10877465 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 14
10877407 GTCTCTTACA
10877417 AAAAAGTATAAGTC
1 AAAAAGTATAAGTC
10877431 AAAAAG--TAAGT-
1 AAAAAGTATAAGTC
*
10877442 ATAAAAGTATGAGTC
1 A-AAAAGTATAAGTC
10877457 -AAAAGTATA
1 AAAAAGTATA
10877466 TTAATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
11 1 0.03
12 10 0.34
13 8 0.28
14 10 0.34
ACGTcount: A:0.57, C:0.04, G:0.16, T:0.22
Consensus pattern (14 bp):
AAAAAGTATAAGTC
Found at i:10877628 original size:11 final size:11
Alignment explanation
Indices: 10877612--10877645 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
10877602 TCTCTTGTAA
10877612 TCAATCGAAGT
1 TCAATCGAAGT
10877623 TCAATCGAAGT
1 TCAATCGAAGT
10877634 TCAATCGAAGT
1 TCAATCGAAGT
10877645 T
1 T
10877646 TTCTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (11 bp):
TCAATCGAAGT
Found at i:10880928 original size:22 final size:22
Alignment explanation
Indices: 10880903--10880945 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10880893 CTCCTAAACA
*
10880903 TGTCCTC-AAGATCACGTGACCT
1 TGTCCTCGAAGA-CAAGTGACCT
10880925 TGTCCTCGAAGACAAGTGACC
1 TGTCCTCGAAGACAAGTGACC
10880946 AACATAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (22 bp):
TGTCCTCGAAGACAAGTGACCT
Found at i:10890418 original size:12 final size:12
Alignment explanation
Indices: 10890401--10890431 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10890391 TCAGTAGCTT
10890401 CACACGGCCTAG
1 CACACGGCCTAG
*
10890413 CACACGGCCTGG
1 CACACGGCCTAG
10890425 CACACGG
1 CACACGG
10890432 GTGTGTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:10891894 original size:11 final size:11
Alignment explanation
Indices: 10891878--10891918 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
10891868 TTTAAACCCT
10891878 TTTATTTATTA
1 TTTATTTATTA
10891889 TTTATTTATTA
1 TTTATTTATTA
* *
10891900 TTTATCTCTTA
1 TTTATTTATTA
*
10891911 TTAATTTA
1 TTTATTTA
10891919 ATTAATTTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:10892030 original size:52 final size:50
Alignment explanation
Indices: 10891898--10892022 Score: 123
Period size: 51 Copynumber: 2.5 Consensus size: 50
10891888 ATTTATTTAT
* *
10891898 TATTTATCTCTT-ATTAATTTAATTAATTTAGAGATAAAATAATAATTTAA
1 TATTTATCTCTTAATTAATTTAATTAA-TTAGAGATAAAATAAAAAATTAA
* * *
10891948 TA-TTATCAT-TTAATTATTTTATTTTTAATTAGTGA-AAATATAAAAAATTAA
1 TATTTATC-TCTTAATTAATTTA--ATTAATTAGAGATAAA-ATAAAAAATTAA
*
10891999 TATTTATCTCTTAATTAAATTAAT
1 TATTTATCTCTTAATTAATTTAAT
10892023 AATAATTATG
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
49 7 0.12
50 15 0.25
51 19 0.32
52 19 0.32
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (50 bp):
TATTTATCTCTTAATTAATTTAATTAATTAGAGATAAAATAAAAAATTAA
Found at i:10894819 original size:23 final size:23
Alignment explanation
Indices: 10894793--10894842 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
10894783 ATTTATGCCA
10894793 CTCTGATTCATCAAACGTAACAT
1 CTCTGATTCATCAAACGTAACAT
10894816 CTCTGATTCATCAAACGTAACAT
1 CTCTGATTCATCAAACGTAACAT
10894839 CTCT
1 CTCT
10894843 ACTAACAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (23 bp):
CTCTGATTCATCAAACGTAACAT
Found at i:10897748 original size:46 final size:46
Alignment explanation
Indices: 10897689--10897786 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 46
10897679 AGCTCGTCAA
* *
10897689 CCCTTCATATTTGAAATAAC-AGCATCGATATTACATTTCAGCTTGC
1 CCCTACATATTTGAAATAACTA-CATCGACATTACATTTCAGCTTGC
** *
10897735 CCCTACATATTTGAAATCGCTACATCGACATTACATTTTAGCTTGC
1 CCCTACATATTTGAAATAACTACATCGACATTACATTTCAGCTTGC
10897781 CCCTAC
1 CCCTAC
10897787 GTAGATTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 45 0.98
47 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (46 bp):
CCCTACATATTTGAAATAACTACATCGACATTACATTTCAGCTTGC
Found at i:10898734 original size:24 final size:24
Alignment explanation
Indices: 10898707--10898758 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
10898697 TTTCTAGAAG
* *
10898707 ATTTAATATTTATTAGTATAATAT
1 ATTTAACATTTATTAGCATAATAT
* *
10898731 ATTTAGCATTTATTAGCATAATTT
1 ATTTAACATTTATTAGCATAATAT
10898755 ATTT
1 ATTT
10898759 GAGTTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
ATTTAACATTTATTAGCATAATAT
Found at i:10900583 original size:9 final size:9
Alignment explanation
Indices: 10900569--10900604 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
10900559 CATGCAAATT
10900569 AGAAAAGAA
1 AGAAAAGAA
10900578 AGAAAAGGAA
1 AGAAAA-GAA
10900588 AG-AAAGAA
1 AGAAAAGAA
10900596 AGAAAAGAA
1 AGAAAAGAA
10900605 GGAGAGAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 5 0.20
9 15 0.60
10 5 0.20
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
AGAAAAGAA
Found at i:10900612 original size:13 final size:13
Alignment explanation
Indices: 10900569--10900604 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
10900559 CATGCAAATT
10900569 AGAAAAGAAAGAAA
1 AGAAAAGAAAG-AA
*
10900583 AGGAAAGAAAGAA
1 AGAAAAGAAAGAA
10900596 AGAAAAGAA
1 AGAAAAGAA
10900605 GGAGAGAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAGAA
Found at i:10901322 original size:25 final size:25
Alignment explanation
Indices: 10901274--10901322 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10901264 CATAATTGAA
* * *
10901274 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
10901299 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
10901323 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:10901747 original size:25 final size:25
Alignment explanation
Indices: 10901719--10901790 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
10901709 GTGATTGATT
*
10901719 TTGAAATGGCTAAGATGAGAAAATA
1 TTGAAATGGCAAAGATGAGAAAATA
*
10901744 TTGAAATGGAAAAGATGAGAAAATA
1 TTGAAATGGCAAAGATGAGAAAATA
* *
10901769 TTGAAATGACAAAGAAGAGAAA
1 TTGAAATGGCAAAGATGAGAAA
10901791 TGAATGTGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.54, C:0.03, G:0.24, T:0.19
Consensus pattern (25 bp):
TTGAAATGGCAAAGATGAGAAAATA
Found at i:10901821 original size:19 final size:20
Alignment explanation
Indices: 10901787--10901831 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
10901777 ACAAAGAAGA
*
10901787 GAAATG-AATGTGAAATGAT
1 GAAATGAAATATGAAATGAT
10901806 -AAATGAAATATGAAATGAT
1 GAAATGAAATATGAAATGAT
10901825 GAAATGA
1 GAAATGA
10901832 GATGTGAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 12 0.52
20 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.24
Consensus pattern (20 bp):
GAAATGAAATATGAAATGAT
Found at i:10905905 original size:113 final size:113
Alignment explanation
Indices: 10905736--10906005 Score: 260
Period size: 113 Copynumber: 2.4 Consensus size: 113
10905726 TTCTATGCTT
* *
10905736 CTTTCATTTCTTTAGTGGCGCTTTTAAAAAAAACGCCGCAATAGAACATGATTTAGCGGCGC-AA
1 CTTTCATTTCTTTAGTGGCGC-TTTAAAAAAAACGCCGCAATAGAACAGGATTTAGCAGCGCTAA
* * * * *
10905800 CATAGAAAACGCTGTAAAAGAATTTGAGCTAA-ACGACTTTGTTTTTTTTC
65 CATAG-AAACGCCGCAAAAGAATTTCAG-TAATACGACTTCGTTTTATTTC
* * * * ** * *
10905850 CTTTTATTTCTTTAGTGGCGCTTTAATAAAATCGCTGCAATAG-ATGGGCCTTTAGCAGCGCTTA
1 CTTTCATTTCTTTAGTGGCGCTTTAAAAAAAACGCCGCAATAGAACAGG-ATTTAGCAGCGCTAA
** *
10905914 TGTAGAAACGCCGCAAAATAATTTCAGTAATACGACTTCGTTTTATTTC
65 CATAGAAACGCCGCAAAAGAATTTCAGTAATACGACTTCGTTTTATTTC
* * * *
10905963 CATTTGATTTCTTTTGTGGCGC-TTACTAACAAACGCCGCAATA
1 C-TTTCATTTCTTTAGTGGCGCTTTA-AAAAAAACGCCGCAATA
10906006 TAACGCTCTT
Statistics
Matches: 126, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
112 5 0.04
113 67 0.53
114 54 0.43
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (113 bp):
CTTTCATTTCTTTAGTGGCGCTTTAAAAAAAACGCCGCAATAGAACAGGATTTAGCAGCGCTAAC
ATAGAAACGCCGCAAAAGAATTTCAGTAATACGACTTCGTTTTATTTC
Found at i:10906454 original size:7 final size:7
Alignment explanation
Indices: 10906444--10906527 Score: 55
Period size: 7 Copynumber: 12.0 Consensus size: 7
10906434 AGAGTTTTGA
10906444 GTTTAGG
1 GTTTAGG
*
10906451 GTTTATG
1 GTTTAGG
* *
10906458 ATGTA-G
1 GTTTAGG
*
10906464 GTTTAGT
1 GTTTAGG
*
10906471 GTTTTGG
1 GTTTAGG
10906478 GTTTAGG
1 GTTTAGG
*
10906485 GTTTGAGA
1 GTTT-AGG
*
10906493 GTTTAAG
1 GTTTAGG
*
10906500 GTTTAAG
1 GTTTAGG
*
10906507 GTTTGGG
1 GTTTAGG
10906514 GTTT-GG
1 GTTTAGG
10906520 GATTTAGG
1 G-TTTAGG
10906528 CCACTTTAGT
Statistics
Matches: 59, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
6 7 0.12
7 44 0.75
8 8 0.14
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:10906467 original size:27 final size:27
Alignment explanation
Indices: 10906429--10906482 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
10906419 TATTATTTTC
*
10906429 TGATTAGAGTTTTGAGTTTAGGGTTTA
1 TGATTAGAGTTTAGAGTTTAGGGTTTA
* *
10906456 TGATGTAG-GTTTAGTGTTTTGGGTTTA
1 TGAT-TAGAGTTTAGAGTTTAGGGTTTA
10906483 GGGTTTGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (27 bp):
TGATTAGAGTTTAGAGTTTAGGGTTTA
Found at i:10906620 original size:14 final size:14
Alignment explanation
Indices: 10906601--10906633 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10906591 GATGCTTGTG
*
10906601 GTTTACGGTTTGCA
1 GTTTACGCTTTGCA
10906615 GTTTACGCTTTGCA
1 GTTTACGCTTTGCA
10906629 GTTTA
1 GTTTA
10906634 TAATTTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.45
Consensus pattern (14 bp):
GTTTACGCTTTGCA
Found at i:10908578 original size:16 final size:16
Alignment explanation
Indices: 10908557--10908614 Score: 80
Period size: 16 Copynumber: 3.4 Consensus size: 16
10908547 ATGTTAAGCT
10908557 ATGTTAAACATTTTGA
1 ATGTTAAACATTTTGA
*
10908573 ATGTTAAGCTATGTTTTGA
1 ATGTTAAAC-A--TTTTGA
10908592 ATGTTAAACATTTTGA
1 ATGTTAAACATTTTGA
10908608 ATGTTAA
1 ATGTTAA
10908615 GCAGATGAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
16 21 0.57
17 1 0.03
18 1 0.03
19 14 0.38
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (16 bp):
ATGTTAAACATTTTGA
Found at i:10909861 original size:9 final size:9
Alignment explanation
Indices: 10909847--10910193 Score: 166
Period size: 9 Copynumber: 40.4 Consensus size: 9
10909837 ACTATCACAT
10909847 CTTACATAA
1 CTTACATAA
*
10909856 CTTACATAG
1 CTTACATAA
*
10909865 CTTA-ATTA
1 CTTACATAA
*
10909873 --TACTTAA
1 CTTACATAA
10909880 CTTACATAA
1 CTTACATAA
*
10909889 CTTACATTA
1 CTTACATAA
*
10909898 --TACACAA
1 CTTACATAA
10909905 CTTACATAA
1 CTTACATAA
*
10909914 CTTTCATTATACA
1 C-TT-A-CATA-A
*
10909927 CATACATAA
1 CTTACATAA
10909936 CTTACATATA
1 CTTACATA-A
* **
10909946 -ATACCCAA
1 CTTACATAA
*
10909954 CATACATAA
1 CTTACATAA
10909963 CTTACATAA
1 CTTACATAA
* *
10909972 TTTTCAT-A
1 CTTACATAA
*
10909980 -GTACATAA
1 CTTACATAA
10909988 CTTACATAA
1 CTTACATAA
*
10909997 --TA-TTGAA
1 CTTACAT-AA
10910004 CTTACATAA
1 CTTACATAA
* *
10910013 TTTTCATAA
1 CTTACATAA
10910022 --TACATAA
1 CTTACATAA
* *
10910029 GTTACTTAA
1 CTTACATAA
* *
10910038 TTTTCATAA
1 CTTACATAA
* *
10910047 --TAAAAAA
1 CTTACATAA
10910054 CTTACATAA
1 CTTACATAA
10910063 CTTACATAA
1 CTTACATAA
* *
10910072 TTTTCATAA
1 CTTACATAA
10910081 CTTACATAA
1 CTTACATAA
10910090 CTT--AT-A
1 CTTACATAA
* *
10910096 CAGTACACAA
1 C-TTACATAA
10910106 CTTACATAA
1 CTTACATAA
* *
10910115 TTTTCATAA
1 CTTACATAA
10910124 --TACATAA
1 CTTACATAA
10910131 CTTACATAA
1 CTTACATAA
* *
10910140 TTTTCATAA
1 CTTACATAA
*
10910149 --TAAATAA
1 CTTACATAA
10910156 CTTACATAA
1 CTTACATAA
10910165 --TACATAA
1 CTTACATAA
10910172 CTTACATAA
1 CTTACATAA
*
10910181 CTTACATAG
1 CTTACATAA
10910190 CTTA
1 CTTA
10910194 ATTATACTTA
Statistics
Matches: 251, Mismatches: 56, Indels: 62
0.68 0.15 0.17
Matches are distributed among these distances:
6 5 0.02
7 46 0.18
8 5 0.02
9 178 0.71
10 9 0.04
11 2 0.01
12 4 0.02
13 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (9 bp):
CTTACATAA
Found at i:10909906 original size:25 final size:25
Alignment explanation
Indices: 10909849--10910193 Score: 249
Period size: 25 Copynumber: 13.8 Consensus size: 25
10909839 TATCACATCT
* *
10909849 TACATAACTTACATAGCTTA-ATTA
1 TACATAACTTACATAACTTACATAA
* *
10909873 TACTTAACTTACATAACTTACATTA
1 TACATAACTTACATAACTTACATAA
* * *
10909898 TACACAACTTACATAACTTTCATTA
1 TACATAACTTACATAACTTACATAA
*
10909923 TAC---ACATACATAACTTACATATAA
1 TACATAACTTACATAACTTAC--ATAA
** *
10909947 TACCCAACATACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
10909972 TTTTCAT-A-GTACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
* * *
10909997 TA-TTGAACTTACATAATTTTCATAA
1 TACAT-AACTTACATAACTTACATAA
* * * *
10910022 TACATAAGTTACTTAATTTTCATAA
1 TACATAACTTACATAACTTACATAA
* *
10910047 TAAAAAACTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * * *
10910072 TTTTCATAACTTACATAACTTATACAG
1 --TACATAACTTACATAACTTACATAA
* * *
10910099 TACACAACTTACATAATTTTCATAA
1 TACATAACTTACATAACTTACATAA
* *
10910124 TACATAACTTACATAATTTTCATAA
1 TACATAACTTACATAACTTACATAA
*
10910149 TAAATAACTTACATAA--TACATAA
1 TACATAACTTACATAACTTACATAA
*
10910172 CTTACATAACTTACATAGCTTA
1 --TACATAACTTACATAACTTA
10910194 ATTATACTTA
Statistics
Matches: 259, Mismatches: 44, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
22 14 0.05
23 7 0.03
24 25 0.10
25 173 0.67
26 2 0.01
27 38 0.15
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:10909996 original size:34 final size:34
Alignment explanation
Indices: 10909956--10910149 Score: 146
Period size: 34 Copynumber: 5.5 Consensus size: 34
10909946 ATACCCAACA
*
10909956 TACATAACTTACATAATTTTCATAGTACATAACT
1 TACATAACTTACATAATTTTCATAATACATAACT
* * * *
10909990 TACATAA--TA-TTGAACTTACATAATTTTCATAA--
1 TACATAACTTACAT-AATTTTCATAA--TACATAACT
* * * *
10910022 TACATAAGTTACTTAATTTTCATAATAAAAAACT
1 TACATAACTTACATAATTTTCATAATACATAACT
10910056 TACATAACTTACATAATTTTCATAACTTACATAACTT
1 TACATAACTTACATAATTTTCATAA--TACATAAC-T
10910093 ATACAGTACACAACTTACATAATTTTCATAATACATAACT
1 -TACA-T----AACTTACATAATTTTCATAATACATAACT
* *
10910133 TACATAATTTTCATAAT
1 TACATAACTTACATAAT
10910150 AAATAACTTA
Statistics
Matches: 127, Mismatches: 16, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
31 1 0.01
32 21 0.17
34 57 0.45
35 2 0.02
36 6 0.05
37 1 0.01
38 5 0.04
39 5 0.04
40 1 0.01
41 8 0.06
43 20 0.16
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.39
Consensus pattern (34 bp):
TACATAACTTACATAATTTTCATAATACATAACT
Found at i:10910007 original size:41 final size:41
Alignment explanation
Indices: 10909961--10910038 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
10909951 CAACATACAT
*
10909961 AACTTACATAATTTTCATAGTACATAACTTACATAATATTG
1 AACTTACATAATTTTCATAATACATAACTTACATAATATTG
* *
10910002 AACTTACATAATTTTCATAATACATAAGTTACTTAAT
1 AACTTACATAATTTTCATAATACATAACTTACATAAT
10910039 TTTCATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (41 bp):
AACTTACATAATTTTCATAATACATAACTTACATAATATTG
Found at i:10910089 original size:43 final size:41
Alignment explanation
Indices: 10910042--10910132 Score: 103
Period size: 43 Copynumber: 2.2 Consensus size: 41
10910032 ACTTAATTTT
* *
10910042 CATAA-TAAAAAACTTACATAACTTACATAATTTTCATAACTTA
1 CATAACTAAAAAA-GTACACAACTTACATAATTTTCATAA--TA
* * *
10910085 CATAACTTATACAGTACACAACTTACATAATTTTCATAATA
1 CATAACTAAAAAAGTACACAACTTACATAATTTTCATAATA
10910126 CATAACT
1 CATAACT
10910133 TACATAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 9 0.21
43 29 0.69
44 4 0.10
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (41 bp):
CATAACTAAAAAAGTACACAACTTACATAATTTTCATAATA
Found at i:10910172 original size:16 final size:16
Alignment explanation
Indices: 10909882--10910180 Score: 119
Period size: 16 Copynumber: 18.0 Consensus size: 16
10909872 ATACTTAACT
*
10909882 TACATAACTTACATTA
1 TACATAACTTACATAA
*
10909898 TACACAACTTACATAA
1 TACATAACTTACATAA
* * *
10909914 CTTTCATTA--TACA-CA
1 --TACATAACTTACATAA
10909929 TACATAACTTACATATAA
1 TACATAACTTAC--ATAA
** *
10909947 TACCCAACATACATAA
1 TACATAACTTACATAA
* * *
10909963 CTTACATAATTTTCATAG
1 --TACATAACTTACATAA
10909981 TACATAACTTACATAA
1 TACATAACTTACATAA
*
10909997 TA-TTGAACTTACATAA
1 TACAT-AACTTACATAA
*
10910013 TTTTCATAA--TACATAA
1 --TACATAACTTACATAA
* * *
10910029 GTTACTTAATTTTCATAA
1 --TACATAACTTACATAA
* *
10910047 TAAAAAACTTACATAA
1 TACATAACTTACATAA
* *
10910063 CTTACATAATTTTCATAA
1 --TACATAACTTACATAA
* * *
10910081 CTTACATAACTTATACAG
1 --TACATAACTTACATAA
*
10910099 TACACAACTTACATAA
1 TACATAACTTACATAA
*
10910115 TTTTCATAA--TACATAA
1 --TACATAACTTACATAA
* *
10910131 CTTACATAATTTTCATAA
1 --TACATAACTTACATAA
*
10910149 TAAATAACTTACATAA
1 TACATAACTTACATAA
10910165 TACATAACTTACATAA
1 TACATAACTTACATAA
10910181 CTTACATAGC
Statistics
Matches: 207, Mismatches: 55, Indels: 42
0.68 0.18 0.14
Matches are distributed among these distances:
13 5 0.02
15 5 0.02
16 126 0.61
17 1 0.00
18 69 0.33
19 1 0.00
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:10912320 original size:42 final size:43
Alignment explanation
Indices: 10912168--10912406 Score: 216
Period size: 42 Copynumber: 5.6 Consensus size: 43
10912158 TGAAAAAAAT
* * * *
10912168 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGAAAAAAA
1 CGCCGCTAAAGAACATTACCTTTAGCGGCGTTTGTTG-AGAAAG
* * *
10912212 TGCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTGGAGAAAG
1 CGCCGCTAAAGAACATTACCTTTAGCGGCGTTTGTTGAGAAAG
* ** * * *
10912255 CACCGCTAAAGGTCATGT-TCTTTAGCGGCGTTTGTTG-GTATG
1 CGCCGCTAAAGAACAT-TACCTTTAGCGGCGTTTGTTGAGAAAG
* * *
10912297 CGCTGCTAAAGAACATTACCTTTAGCGGCGTTT-CTGAGGAAG
1 CGCCGCTAAAGAACATTACCTTTAGCGGCGTTTGTTGAGAAAG
* ** * * **
10912339 CGCCGCTAAAGAACATGACCTTTAGCAACATTTTTTTTG-AAG
1 CGCCGCTAAAGAACATTACCTTTAGCGGCGTTTGTTGAGAAAG
*
10912381 CGCCGCTAAAGAACATGACCTTTAGC
1 CGCCGCTAAAGAACATTACCTTTAGC
10912407 AGCTTTTATT
Statistics
Matches: 161, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
41 3 0.02
42 89 0.55
43 34 0.21
44 35 0.22
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
CGCCGCTAAAGAACATTACCTTTAGCGGCGTTTGTTGAGAAAG
Found at i:10916884 original size:6 final size:6
Alignment explanation
Indices: 10916869--10916898 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10916859 GAAACTAGTT
10916869 AAAG-A AAAGAA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A
10916899 GCCATATTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:10917817 original size:43 final size:44
Alignment explanation
Indices: 10917712--10917826 Score: 157
Period size: 44 Copynumber: 2.6 Consensus size: 44
10917702 TGTGTTGTCG
* *
10917712 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTACG
1 TGTAAGACCACGTCTGGGACGATGGCATCGACTTGTGATTTACA
10917756 TGTAAGACC-CTGTCTGGGAC-AGTGGCATCGA-TATGTGA-TTACA
1 TGTAAGACCAC-GTCTGGGACGA-TGGCATCGACT-TGTGATTTACA
10917799 TGTAAGACCACGTCTGGGACGATGGCAT
1 TGTAAGACCACGTCTGGGACGATGGCAT
10917827 TGTATGAAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
43 30 0.47
44 34 0.53
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGATGGCATCGACTTGTGATTTACA
Found at i:10922417 original size:50 final size:50
Alignment explanation
Indices: 10922313--10922500 Score: 216
Period size: 50 Copynumber: 3.6 Consensus size: 50
10922303 GGGAATGAGA
*
10922313 TCCCATGTAAGACCATGTATGAGACATGGCATTGACATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGAGACATGGCATTGACA-C--TGAG---ATGAGAGG
* * *
10922369 TCCCATGTAAAACCATGTTTGAGACATGGCATTGACACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGAGACATGGCATTGACACTGAGATGAGAGG
* * * *
10922419 TCCCATGTAAGACCATGCCTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGAGACATGGCATTGACACTGAGATGAGAGG
**
10922469 TCCCCCGTAAGACCATGTCT-AGGACATGGCAT
1 TCCCATGTAAGACCATGTCTGA-GACATGGCAT
10922501 GGGCACCAAC
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
50 77 0.66
53 3 0.03
55 1 0.01
56 35 0.30
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGAGACATGGCATTGACACTGAGATGAGAGG
Found at i:10922506 original size:50 final size:50
Alignment explanation
Indices: 10922361--10922555 Score: 194
Period size: 50 Copynumber: 3.9 Consensus size: 50
10922351 CATTGAGATT
* * *
10922361 ATGAGAGGTCCCATGTAAAACCATGT-TTGAGACATGGCATTGACACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAG-GACATGGCATTGGCACCGAG
* * * *
10922411 ATGAGAGGTCCCATGTAAGACCATGCCTGGGACATGGCGTTGGCACTGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
** * * *
10922461 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCAAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
** * * * * * *
10922511 ATGAGAACTCCCGTGTACGACCATATCTGGGATATGACATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
10922556 GTACAGAAAA
Statistics
Matches: 119, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
50 117 0.98
51 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
Found at i:10922541 original size:100 final size:100
Alignment explanation
Indices: 10922361--10922542 Score: 222
Period size: 100 Copynumber: 1.8 Consensus size: 100
10922351 CATTGAGATT
* * * * * **
10922361 ATGAGAGGTCCCATGTAAAACCATGTTTGAGACATGGCATTGACACCGAGATGAGAGGTCCCATG
1 ATGAGAGGTCCCACGTAAAACCATGTTAGAGACATGGCATGGACACCAACATGAGAACTCCCATG
*
10922426 TAAGACCATGCCTGGGACATGGCGTTGGCACTGAG
66 TAAGACCATACCTGGGACATGGCGTTGGCACTGAG
* * * *
10922461 ATGAGAGGTCCCCCGTAAGACCATGTCTAG-GACATGGCATGGGCACCAACATGAGAACTCCCGT
1 ATGAGAGGTCCCACGTAAAACCATGT-TAGAGACATGGCATGGACACCAACATGAGAACTCCCAT
* *
10922525 GTACGACCATATCTGGGA
65 GTAAGACCATACCTGGGA
10922543 TATGACATTG
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
100 65 0.97
101 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.29, T:0.20
Consensus pattern (100 bp):
ATGAGAGGTCCCACGTAAAACCATGTTAGAGACATGGCATGGACACCAACATGAGAACTCCCATG
TAAGACCATACCTGGGACATGGCGTTGGCACTGAG
Found at i:10928539 original size:43 final size:44
Alignment explanation
Indices: 10928432--10928539 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
10928422 TATGTGTTGT
* * *
10928432 CATGTAAGACCACATTTGGGACGTTGGCATCGACTTGTGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGAATTGTGATTTA
*
10928476 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATC-AATATGTGA-TTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAAT-TGTGATTTA
10928519 CATGTAAGACCACGTCTGGGA
1 CATGTAAGACCACGTCTGGGA
10928540 TGATGGCGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
43 24 0.44
44 30 0.55
45 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (44 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGAATTGTGATTTA
Found at i:10932838 original size:9 final size:9
Alignment explanation
Indices: 10932824--10932848 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10932814 GCAAGCCCTA
10932824 TATTTCATT
1 TATTTCATT
10932833 TATTTCATT
1 TATTTCATT
10932842 TATTTCA
1 TATTTCA
10932849 CAATTTCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
TATTTCATT
Found at i:10935134 original size:54 final size:54
Alignment explanation
Indices: 10935062--10935272 Score: 233
Period size: 54 Copynumber: 3.9 Consensus size: 54
10935052 TACCCTTGCA
* * *
10935062 GGGTAAAATTATTGAAATACCCTCGATAGGTAAATTTACCAAAATACCCCTAAT
1 GGGTAAAATTACTAAAATACCCTCGATAGGTAAAATTACCAAAATACCCCTAAT
* * * * * * *
10935116 GGGTAAAATTACCAAAATACCCTCAATATGTAAAATTACCGAAATGCCCCCATT
1 GGGTAAAATTACTAAAATACCCTCGATAGGTAAAATTACCAAAATACCCCTAAT
* * * ** * *
10935170 GGGTTAAATTACTGAAATACCCCCTTTGGGTAAAATTACCAAAATACCCCTGAT
1 GGGTAAAATTACTAAAATACCCTCGATAGGTAAAATTACCAAAATACCCCTAAT
* * * *
10935224 AGGTAAAATTACAAAAATACCCTCGATGGGTGAAATTACCAAAATACCC
1 GGGTAAAATTACTAAAATACCCTCGATAGGTAAAATTACCAAAATACCC
10935273 TTGTAGGATA
Statistics
Matches: 126, Mismatches: 31, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 126 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (54 bp):
GGGTAAAATTACTAAAATACCCTCGATAGGTAAAATTACCAAAATACCCCTAAT
Found at i:10935254 original size:81 final size:82
Alignment explanation
Indices: 10935076--10935272 Score: 233
Period size: 81 Copynumber: 2.4 Consensus size: 82
10935066 AAAATTATTG
*
10935076 AAATACCCTCGATAGG-TAAATTTACCAAAATA-CCCCTAATGGGTAAAATTACCAAAATACCCT
1 AAATACCCTCGATGGGTTAAA-TTACCAAAATACCCCCTAATGGGTAAAATTACCAAAATACCCT
* **
10935139 CAATATGTAAAATTACCG
65 CAATAGGTAAAATTACAA
* * ** *
10935157 AAATGCCC-CCATTGGGTTAAATTACTGAAATACCCCCT-TTGGGTAAAATTACCAAAATACCC-
1 AAATACCCTCGA-TGGGTTAAATTACCAAAATACCCCCTAATGGGTAAAATTACCAAAATACCCT
*
10935219 CTGATAGGTAAAATTACAA
65 C-AATAGGTAAAATTACAA
*
10935238 AAATACCCTCGATGGGTGAAATTACCAAAATACCC
1 AAATACCCTCGATGGGTTAAATTACCAAAATACCC
10935273 TTGTAGGATA
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
80 3 0.03
81 82 0.85
82 11 0.11
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.24
Consensus pattern (82 bp):
AAATACCCTCGATGGGTTAAATTACCAAAATACCCCCTAATGGGTAAAATTACCAAAATACCCTC
AATAGGTAAAATTACAA
Found at i:10935273 original size:27 final size:27
Alignment explanation
Indices: 10935049--10935273 Score: 188
Period size: 27 Copynumber: 8.3 Consensus size: 27
10935039 GCAAATATCG
* ***
10935049 AAATACCCTTGCA-GGGTAAAATTATTG
1 AAATACCCTCG-ATGGGTAAAATTACCA
* *
10935076 AAATACCCTCGATAGGTAAATTTACCA
1 AAATACCCTCGATGGGTAAAATTACCA
*
10935103 AAATACCC-CTAATGGGTAAAATTACCA
1 AAATACCCTC-GATGGGTAAAATTACCA
* ** *
10935130 AAATACCCTCAATATGTAAAATTACCG
1 AAATACCCTCGATGGGTAAAATTACCA
* * * **
10935157 AAATGCCC-CCATTGGGTTAAATTACTG
1 AAATACCCTCGA-TGGGTAAAATTACCA
* **
10935184 AAATACCCCCTTTGGGTAAAATTACCA
1 AAATACCCTCGATGGGTAAAATTACCA
* *
10935211 AAATACCC-CTGATAGGTAAAATTACAA
1 AAATACCCTC-GATGGGTAAAATTACCA
*
10935238 AAATACCCTCGATGGGTGAAATTACCA
1 AAATACCCTCGATGGGTAAAATTACCA
10935265 AAATACCCT
1 AAATACCCT
10935274 TGTAGGATAA
Statistics
Matches: 160, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.03
27 152 0.95
28 3 0.02
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (27 bp):
AAATACCCTCGATGGGTAAAATTACCA
Found at i:10935285 original size:54 final size:54
Alignment explanation
Indices: 10935049--10935286 Score: 219
Period size: 54 Copynumber: 4.4 Consensus size: 54
10935039 GCAAATATCG
* * * * *
10935049 AAATACCCTTGCAGGGTAAAATTATTGAAATACCCTCGATAGGTAAATTTACCA
1 AAATACCCCTGTAGGGTAAAATTACTAAAATACCCTCGATAGGTAAAATTACCA
* * * * *
10935103 AAATACCCCT-AATGGGTAAAATTACCAAAATACCCTCAATATGTAAAATTACCG
1 AAATACCCCTGTA-GGGTAAAATTACTAAAATACCCTCGATAGGTAAAATTACCA
* ** * * * * ** *
10935157 AAATGCCCCCATTGGGTTAAATTACTGAAATACCCCCTTTGGGTAAAATTACCA
1 AAATACCCCTGTAGGGTAAAATTACTAAAATACCCTCGATAGGTAAAATTACCA
* * *
10935211 AAATACCCCTGATA-GGTAAAATTACAAAAATACCCTCGATGGGTGAAATTACCA
1 AAATACCCCTG-TAGGGTAAAATTACTAAAATACCCTCGATAGGTAAAATTACCA
* *
10935265 AAATACCCTTGTAGGATAAAAT
1 AAATACCCCTGTAGGGTAAAAT
10935287 GACCGTGATG
Statistics
Matches: 145, Mismatches: 35, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
53 3 0.02
54 141 0.97
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAAAATTACTAAAATACCCTCGATAGGTAAAATTACCA
Found at i:10935333 original size:27 final size:26
Alignment explanation
Indices: 10935266--10935343 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
10935256 AAATTACCAA
*
10935266 AATACCCTTGTAGGATAAAATGACCGT
1 AATACCCCTGTAGGA-AAAATGACCGT
* * *
10935293 GATGCCCCTGTAGGAAAAATGACTGT
1 AATACCCCTGTAGGAAAAATGACCGT
* * *
10935319 AATACCTCTGTTAGGTAAATTGACC
1 AATACCCCTG-TAGGAAAAATGACC
10935344 AATATATCCC
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 17 0.43
27 23 0.57
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (26 bp):
AATACCCCTGTAGGAAAAATGACCGT
Found at i:10935494 original size:24 final size:24
Alignment explanation
Indices: 10935457--10935518 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
10935447 TGTTATGGCC
10935457 TTATG-TTATGTATGACTGATTTGT
1 TTATGATT-TGTATGACTGATTTGT
*
10935481 TTATGATTTTTATGACTGATTTGT
1 TTATGATTTGTATGACTGATTTGT
*
10935505 TTGTGATTTGTATG
1 TTATGATTTGTATG
10935519 GCCAATTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 32 0.94
25 2 0.06
ACGTcount: A:0.19, C:0.03, G:0.21, T:0.56
Consensus pattern (24 bp):
TTATGATTTGTATGACTGATTTGT
Found at i:10935502 original size:13 final size:14
Alignment explanation
Indices: 10935467--10935505 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 14
10935457 TTATGTTATG
10935467 TATGACTGATTTGT
1 TATGACTGATTTGT
10935481 T-T-A-TGATTT-T
1 TATGACTGATTTGT
10935491 TATGACTGATTTGT
1 TATGACTGATTTGT
10935505 T
1 T
10935506 TGTGATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 8
0.72 0.00 0.28
Matches are distributed among these distances:
10 2 0.10
11 7 0.33
12 2 0.10
13 7 0.33
14 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.18, T:0.56
Consensus pattern (14 bp):
TATGACTGATTTGT
Found at i:10935670 original size:26 final size:26
Alignment explanation
Indices: 10935641--10935694 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
10935631 TTGGCCACAT
*
10935641 ATACTGTTACTAGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGATTTGCTGCG
* * *
10935667 ATACTGTTGCTGGCAGATTTTCTGCG
1 ATACTGTTACTAGCAGATTTGCTGCG
10935693 AT
1 AT
10935695 GCTACTGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (26 bp):
ATACTGTTACTAGCAGATTTGCTGCG
Found at i:10935735 original size:32 final size:32
Alignment explanation
Indices: 10935694--10935778 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
10935684 TTTTCTGCGA
**
10935694 TGCTACTGATGGCTGTGTGCTGATCATATCAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
* * *
10935726 TGCTACTGATGACTTTGTGCCAATCATATTAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
*
10935758 TG-TACTTATGGCT-TGTAGCCA
1 TGCTACTGATGGCTGTGT-GCCA
10935779 TTCTGTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 3 0.07
31 13 0.29
32 29 0.64
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (32 bp):
TGCTACTGATGGCTGTGTGCCAATCATATCAC
Found at i:10940571 original size:32 final size:32
Alignment explanation
Indices: 10940533--10940593 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
10940523 TTAAAAGTCG
*
10940533 TCATCTCCTAATCTAGCAGTTTAAAATATTCA
1 TCATCTCCTAATCTACCAGTTTAAAATATTCA
10940565 TCATCTCCTAATCTACCAGTTTAAAATAT
1 TCATCTCCTAATCTACCAGTTTAAAATAT
10940594 ACAAGGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (32 bp):
TCATCTCCTAATCTACCAGTTTAAAATATTCA
Found at i:10940916 original size:30 final size:30
Alignment explanation
Indices: 10940880--10940937 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
10940870 GCGGTATAGT
* *
10940880 GTGGGCCTTAGCTCATTACAGTAACAGTAG
1 GTGGGCCTTAGCCCAATACAGTAACAGTAG
10940910 GTGGGCCTTAGCCCAATACAGTAACAGT
1 GTGGGCCTTAGCCCAATACAGTAACAGT
10940938 GTAATGCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (30 bp):
GTGGGCCTTAGCCCAATACAGTAACAGTAG
Found at i:10941338 original size:27 final size:27
Alignment explanation
Indices: 10941292--10941568 Score: 296
Period size: 27 Copynumber: 10.3 Consensus size: 27
10941282 GGGGTATGAT
*
10941292 AGTCATTTTACCCTAT-GAGGGTATTTC
1 AGTCATTTTACCCT-TCGAGGGTAATTC
*
10941319 AGTCATTTTACCTTTCGAGGGTAATTC
1 AGTCATTTTACCCTTCGAGGGTAATTC
*
10941346 -GATCATTTTACCCTTCGGGGGTAATTC
1 AG-TCATTTTACCCTTCGAGGGTAATTC
* * *
10941373 AATTATTTTACCCTTCGGGGGTAATTC
1 AGTCATTTTACCCTTCGAGGGTAATTC
* *
10941400 AATCATTTTACCCTTCGGGGGTAATTC
1 AGTCATTTTACCCTTCGAGGGTAATTC
*
10941427 -GATCATTTTACCTTTCGAGGGTAATTC
1 AG-TCATTTTACCCTTCGAGGGTAATTC
* * *
10941454 GGTCATTTTACCTTTTGAGGGTAATTC
1 AGTCATTTTACCCTTCGAGGGTAATTC
10941481 -GATCATTTTACCCTTCG-GGGTAATT-
1 AG-TCATTTTACCCTTCGAGGGTAATTC
* *
10941506 AGGTTATTTTACCCTTCGGGGGTAATTC
1 A-GTCATTTTACCCTTCGAGGGTAATTC
* * * *
10941534 GGTCATTTTTCCTTTCAAGGGTAATTC
1 AGTCATTTTACCCTTCGAGGGTAATTC
*
10941561 GGTCATTT
1 AGTCATTT
10941569 GCCCATGATT
Statistics
Matches: 220, Mismatches: 20, Indels: 20
0.85 0.08 0.08
Matches are distributed among these distances:
26 25 0.11
27 194 0.88
28 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (27 bp):
AGTCATTTTACCCTTCGAGGGTAATTC
Found at i:10941368 original size:54 final size:53
Alignment explanation
Indices: 10941293--10941568 Score: 331
Period size: 54 Copynumber: 5.1 Consensus size: 53
10941283 GGGTATGATA
* *
10941293 GTCATTTTACCCTAT-GAGGGTATTTCAGTCATTTTACCTTTCGAGGGTAATTCG
1 GTCATTTTACCCT-TCGGGGGTAATTC-GTCATTTTACCTTTCGAGGGTAATTCG
* * * * * *
10941347 ATCATTTTACCCTTCGGGGGTAATTCAATTATTTTACCCTTCGGGGGTAATTCA
1 GTCATTTTACCCTTCGGGGGTAATTC-GTCATTTTACCTTTCGAGGGTAATTCG
*
10941401 ATCATTTTACCCTTCGGGGGTAATTCGATCATTTTACCTTTCGAGGGTAATTCG
1 GTCATTTTACCCTTCGGGGGTAATTCG-TCATTTTACCTTTCGAGGGTAATTCG
* * * * *
10941455 GTCATTTTACCTTTTGAGGGTAATTCGATCATTTTACCCTTCG-GGGTAATTAG
1 GTCATTTTACCCTTCGGGGGTAATTCG-TCATTTTACCTTTCGAGGGTAATTCG
* * *
10941508 GTTATTTTACCCTTCGGGGGTAATTCGGTCATTTTTCCTTTCAAGGGTAATTCG
1 GTCATTTTACCCTTCGGGGGTAATTC-GTCATTTTACCTTTCGAGGGTAATTCG
10941562 GTCATTT
1 GTCATTT
10941569 GCCCATGATT
Statistics
Matches: 190, Mismatches: 28, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
53 44 0.23
54 146 0.77
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (53 bp):
GTCATTTTACCCTTCGGGGGTAATTCGTCATTTTACCTTTCGAGGGTAATTCG
Found at i:10946900 original size:30 final size:30
Alignment explanation
Indices: 10946864--10946949 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 30
10946854 TAGCAGTATA
* * *
10946864 GTGTGGGCCTTAGTCCATTACAGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAATAACAGT
10946894 GTGTGGGCCTTAGCCCAATACAATAACA--
1 GTGTGGGCCTTAGCCCAATACAATAACAGT
* * *
10946922 GTGTGGGCCGTATCCCAATACAGTAACA
1 GTGTGGGCCTTAGCCCAATACAATAACA
10946950 ATGCAATGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 25 0.50
30 25 0.50
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAATAACAGT
Found at i:10947367 original size:54 final size:53
Alignment explanation
Indices: 10947309--10947467 Score: 158
Period size: 54 Copynumber: 2.9 Consensus size: 53
10947299 GGTATAACAG
* * *
10947309 TCATTTTACCC-TATAGGGGAGTTTCGGTTATTTTACCCTTCGGGGGTAATTAGA
1 TCATTTTACCCTTA-AGGGGAATTT-GGTCATTTTACCCTTCGAGGGTAATTAGA
* * * *
10947363 TCATTTTACACTTCAAGGGTAATTTGGTCATTTTACCTTTCGAGGGTAATTCGA
1 TCATTTTACCCTT-AAGGGGAATTTGGTCATTTTACCCTTCGAGGGTAATTAGA
** ** * *
10947417 TCATTTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTTCAAAGGTAATT
1 TCATTTTACCCTTAAGGGG-AATTTGGTCATTTTACCCTTCGAGGGTAATT
10947468 TGGTTATTTT
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
53 3 0.03
54 73 0.85
55 9 0.10
56 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (53 bp):
TCATTTTACCCTTAAGGGGAATTTGGTCATTTTACCCTTCGAGGGTAATTAGA
Found at i:10947476 original size:27 final size:27
Alignment explanation
Indices: 10947331--10947477 Score: 159
Period size: 27 Copynumber: 5.4 Consensus size: 27
10947321 ATAGGGGAGT
* *
10947331 TTCGGTTATTTTACCCTTCGGGGGTAA
1 TTCGGTCATTTTACCCTTCGAGGGTAA
* * * *
10947358 TTAGATCATTTTACACTTCAAGGGTAA
1 TTCGGTCATTTTACCCTTCGAGGGTAA
* *
10947385 TTTGGTCATTTTACCTTTCGAGGGTAA
1 TTCGGTCATTTTACCCTTCGAGGGTAA
* *
10947412 TTCGATCATTTTACCCTTCGGGGGTAA
1 TTCGGTCATTTTACCCTTCGAGGGTAA
* * *
10947439 TTCAGTCATTTTACCCTTCAAAGGTAA
1 TTCGGTCATTTTACCCTTCGAGGGTAA
* *
10947466 TTTGGTTATTTT
1 TTCGGTCATTTT
10947478 CCCATGATTC
Statistics
Matches: 97, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
TTCGGTCATTTTACCCTTCGAGGGTAA
Found at i:10952092 original size:6 final size:6
Alignment explanation
Indices: 10952081--10952122 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
10952071 CATTCTTCTC
*
10952081 CCCTTT CCCTTT -CCTCTT CCCTTT CCCCTTT CCCTTC CCCTT
1 CCCTTT CCCTTT CCCT-TT CCCTTT -CCCTTT CCCTTT CCCTT
10952123 GGGTTGCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 3 0.09
6 20 0.62
7 9 0.28
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (6 bp):
CCCTTT
Found at i:10952102 original size:12 final size:13
Alignment explanation
Indices: 10952079--10952122 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
10952069 CGCATTCTTC
10952079 TCCCCTTTCCCTT
1 TCCCCTTTCCCTT
*
10952092 TCCTC-TTCCCTT
1 TCCCCTTTCCCTT
10952104 TCCCCTTTCCC-T
1 TCCCCTTTCCCTT
10952116 TCCCCTT
1 TCCCCTT
10952123 GGGTTGCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (13 bp):
TCCCCTTTCCCTT
Found at i:10952104 original size:18 final size:18
Alignment explanation
Indices: 10952081--10952119 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10952071 CATTCTTCTC
10952081 CCCTTT-CCCTTTCCTCTT
1 CCCTTTCCCCTTTCC-CTT
10952099 CCCTTTCCCCTTTCCCTT
1 CCCTTTCCCCTTTCCCTT
10952117 CCC
1 CCC
10952120 CTTGGGTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (18 bp):
CCCTTTCCCCTTTCCCTT
Found at i:10952121 original size:19 final size:19
Alignment explanation
Indices: 10952079--10952122 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
10952069 CGCATTCTTC
10952079 TCCCCTTTCCCTTTCCTCT
1 TCCCCTTTCCCTTTCCTCT
10952098 T-CCCTTTCCCCTTTCC-CT
1 TCCCCTTT-CCCTTTCCTCT
10952116 TCCCCTT
1 TCCCCTT
10952123 GGGTTGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (19 bp):
TCCCCTTTCCCTTTCCTCT
Found at i:10952210 original size:25 final size:25
Alignment explanation
Indices: 10952182--10952232 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
10952172 CAGGTAAGGC
10952182 TCCTTCTCCTTCTT-TCGTTCTTCAT
1 TCCTTCTCCTTCTTCT-GTTCTTCAT
* *
10952207 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTCCTTCTTCTGTTCTTCAT
10952232 T
1 T
10952233 TTCTCTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.04, C:0.31, G:0.04, T:0.61
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCTGTTCTTCAT
Found at i:10954740 original size:20 final size:20
Alignment explanation
Indices: 10954715--10954754 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10954705 AAATATTTTC
10954715 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
10954735 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
10954755 TCATTTTACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:10954757 original size:14 final size:14
Alignment explanation
Indices: 10954738--10954777 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
10954728 CCAGAAAAGT
*
10954738 AAATCATTTTCCAG
1 AAATCATTTTACAG
*
10954752 AAATCATTTTACGG
1 AAATCATTTTACAG
*
10954766 AAAACATTTTAC
1 AAATCATTTTAC
10954778 TGCCAAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (14 bp):
AAATCATTTTACAG
Found at i:10954769 original size:34 final size:33
Alignment explanation
Indices: 10954705--10954769 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
10954695 AAACACCAGA
*
10954705 AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
1 AAATATTTTCAGTAAATCATTTTACAGAAAAGT
*
10954738 AAATCATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAT-ATTTT-CAGTAAATCATTTTACAGAAAA
10954770 CATTTTACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 21 0.75
35 3 0.11
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (33 bp):
AAATATTTTCAGTAAATCATTTTACAGAAAAGT
Found at i:10958439 original size:3 final size:3
Alignment explanation
Indices: 10958431--10958481 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
10958421 AAAAGACCCA
10958431 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10958479 TAT
1 TAT
10958482 CATCACTACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10959170 original size:150 final size:150
Alignment explanation
Indices: 10958772--10959181 Score: 529
Period size: 150 Copynumber: 2.7 Consensus size: 150
10958762 AGTTTTGATT
* * * *
10958772 TTTTTTAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATATATATTTTTAGTTATTTTAAAG
1 TTTTTAAAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAGTTATTTTAAAG
* * * ** ** *
10958837 GAAAATTTAAAATTGTAAAACAAAGTTTTGATTTTTTTTTCAACTATTTCAACGTAAAAGCTTTA
66 GAAAGTTTAAAATTTTAAAACAAAATTTTGA-TTTTTTTTCAACTATTTCAAAATAAAAAATGTA
*
10958902 ATCTTTAAGAAAAATAGTGTTTTTC
130 ATCTTTAAGAAAAATAATG----TC
* *
10958927 TTTTTAAAAAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATTTGTTCTTTTTTAGTTATTTTA
1 TTTTT-AAAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATG-T-TTTTTTAGTTATTTTA
10958992 AAGGAAAGTTTAAAATTTTAAAGA-AAAATTTTGATTTTTTTTCAACTATTTCAAAATAAAAAAT
63 AAGGAAAGTTTAAAATTTTAAA-ACAAAATTTTGATTTTTTTTCAACTATTTCAAAATAAAAAAT
*
10959056 GTAATCTTTAAGAAAAATAATG-G
127 GTAATCTTTAAGAAAAATAATGTC
* *
10959079 TTTTTAAAAAAAGAGAGAGTTTAGATTTTGAAAAA-ACAAATATGTTTTTTTAAAGTTATTTTAA
1 TTTTTAAAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTT--AGTTATTTTAA
*
10959143 AGGAAAGTTTAAAATTTTAAAACAAAATTTTGAATTTTT
64 AGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTT
10959182 AACTATTTTG
Statistics
Matches: 227, Mismatches: 21, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
148 6 0.03
149 2 0.01
150 54 0.24
151 28 0.12
152 5 0.02
155 5 0.02
156 35 0.15
157 47 0.21
158 44 0.19
159 1 0.00
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (150 bp):
TTTTTAAAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTTAGTTATTTTAAAG
GAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTTCAACTATTTCAAAATAAAAAATGTAA
TCTTTAAGAAAAATAATGTC
Found at i:10959736 original size:25 final size:24
Alignment explanation
Indices: 10959708--10959754 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
10959698 TCACTTGCAT
10959708 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
10959733 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
10959755 TTATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:10961812 original size:21 final size:21
Alignment explanation
Indices: 10961788--10961827 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10961778 TTTCTAAAAA
*
10961788 TATTT-TCATTTTTTGAAATAT
1 TATTTATCAATTTTT-AAATAT
10961809 TATTTATCAATTTTTAAAT
1 TATTTATCAATTTTTAAAT
10961828 GAAATTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
TATTTATCAATTTTTAAATAT
Found at i:10971533 original size:95 final size:95
Alignment explanation
Indices: 10971368--10971547 Score: 218
Period size: 95 Copynumber: 1.9 Consensus size: 95
10971358 GTTTCAAATC
* **
10971368 GGGACATTAACCATTACATGATGCTGCTCAAACAAGCTATCAAGAATCCGTAACACATGCAGAAT
1 GGGACATTAACCATTACACGATGCTGCTCAAACAAGCTATCAAGAATCCACAACACATGCAGAAT
*
10971433 CTTAGCCATCGATAAGGTATTTAGTAAGTT
66 ATTAGCCATCGATAAGGTATTTAGTAAGTT
* * * * * * * *
10971463 GGGACATTAACCGTTACACGATGCTGCTCATACGAGCTAT-AGAGAATTCACAATATATGTAGGA
1 GGGACATTAACCATTACACGATGCTGCTCAAACAAGCTATCA-AGAATCCACAACACATGCAGAA
* *
10971527 TATTAGCCATTGGTAAGGTAT
65 TATTAGCCATCGATAAGGTAT
10971548 CCACCACTAG
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
94 1 0.01
95 69 0.99
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (95 bp):
GGGACATTAACCATTACACGATGCTGCTCAAACAAGCTATCAAGAATCCACAACACATGCAGAAT
ATTAGCCATCGATAAGGTATTTAGTAAGTT
Found at i:10974045 original size:52 final size:52
Alignment explanation
Indices: 10973960--10974063 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
10973950 CTCTGAAGTA
* **
10973960 CAAGTCTTCATTTTAGTTCTCTAGTATGTTGAAAATAGATTTTTCATAATTC
1 CAAGTCTTCATTTTAGTTCTCTAGTATGCTGAAAATAGATTCGTCATAATTC
*
10974012 CAAGTCTTCATTTTAGTTCTCTAGTTTGCTGAAAATAGATTCGTCATAATTC
1 CAAGTCTTCATTTTAGTTCTCTAGTATGCTGAAAATAGATTCGTCATAATTC
10974064 TGAATCAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.44
Consensus pattern (52 bp):
CAAGTCTTCATTTTAGTTCTCTAGTATGCTGAAAATAGATTCGTCATAATTC
Found at i:10975102 original size:27 final size:27
Alignment explanation
Indices: 10975072--10975130 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
10975062 AATTCATCGA
10975072 GAGCTA-AGCTTCGCCAAAATGTTTGGT
1 GAGCTATAG-TTCGCCAAAATGTTTGGT
* **
10975099 GAGCTATAGTTTGCCAATGTGTTTGGT
1 GAGCTATAGTTCGCCAAAATGTTTGGT
10975126 GAGCT
1 GAGCT
10975131 GGGGGTTCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (27 bp):
GAGCTATAGTTCGCCAAAATGTTTGGT
Found at i:10980272 original size:12 final size:11
Alignment explanation
Indices: 10980239--10980272 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
10980229 TGGACCCAAG
10980239 TTGAATTAATT
1 TTGAATTAATT
*
10980250 TTGAATCAATT
1 TTGAATTAATT
10980261 TGTGAATTAATT
1 T-TGAATTAATT
10980273 CACTTGTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (11 bp):
TTGAATTAATT
Found at i:10981576 original size:20 final size:19
Alignment explanation
Indices: 10981551--10981603 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
10981541 TGATAGTATT
10981551 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
10981570 GTTATT-ATCTTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
10981590 -T-TTAATTTAATATT
1 TTATTAATTTAATATT
10981604 TATCTTATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.32
18 3 0.10
19 2 0.06
20 16 0.52
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:10985964 original size:29 final size:28
Alignment explanation
Indices: 10985927--10986031 Score: 113
Period size: 29 Copynumber: 3.6 Consensus size: 28
10985917 TCAGTAGTCA
*
10985927 TCACAATCCCTTTTCATAGTTGATGGTCG
1 TCACCATCCCTTTTCATA-TTGATGGTCG
* * *
10985956 TCACCATCCCTTTTCATAATCGATAGCCG
1 TCACCATCCCTTTTCAT-ATTGATGGTCG
* *
10985985 -AAGCTATCCCTTTTCATATTCGATGGTCG
1 TCA-CCATCCCTTTTCATATT-GATGGTCG
10986014 TCACCATCCCTTTTCATA
1 TCACCATCCCTTTTCATA
10986032 ATCAATAGCC
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 3 0.05
29 56 0.92
30 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (28 bp):
TCACCATCCCTTTTCATATTGATGGTCG
Found at i:10986010 original size:58 final size:58
Alignment explanation
Indices: 10985871--10986066 Score: 245
Period size: 58 Copynumber: 3.4 Consensus size: 58
10985861 ATGGTTGTAA
* * ** ** * *
10985871 CTATCCATTTTCATATTCAATGGTCGAAACCATCATTTTTCATTAATCAGTAGTC-ATCA-
1 CTATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCA-TAATCAATAGCCGA--AG
* *
10985930 CAATCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAG
1 CTATCCCTTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATAATCAATAGCCGAAG
10985988 CTATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCAATAGCCGAAG
1 CTATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCAATAGCCGAAG
10986046 CTATCCCTTTTCATATTCGAT
1 CTATCCCTTTTCATATTCGAT
10986067 AGCCGAAGCT
Statistics
Matches: 121, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
57 3 0.02
58 83 0.69
59 33 0.27
60 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.37
Consensus pattern (58 bp):
CTATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCAATAGCCGAAG
Found at i:10986051 original size:29 final size:29
Alignment explanation
Indices: 10985961--10986175 Score: 236
Period size: 29 Copynumber: 7.4 Consensus size: 29
10985951 GGTCGTCACC
10985961 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * *
10985990 ATCCCTTTTCATATTCGATGGTCGTCA-CC
1 ATCCCTTTTCATAATCGATAGCCG-AAGCT
*
10986019 ATCCCTTTTCATAATCAATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
*
10986048 ATCCCTTTTCATATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * *
10986077 ATCCCTTTTCATACTCGATGGTCGTCA-CA
1 ATCCCTTTTCATAATCGATAGCCG-AAGCT
* *
10986106 ATCCCATTTCATAATCGATAGCTGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * *
10986135 ATCGCTTTTCATATTCGATAGTCGAACCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
10986164 ATCCCTTTTCAT
1 ATCCCTTTTCAT
10986176 TGGTCAATGA
Statistics
Matches: 150, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
28 2 0.01
29 146 0.97
30 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.35
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:10986052 original size:87 final size:87
Alignment explanation
Indices: 10985961--10986175 Score: 349
Period size: 87 Copynumber: 2.5 Consensus size: 87
10985951 GGTCGTCACC
* * * *
10985961 ATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCGTCACCATCCCTT
1 ATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATACTCGATGGTCGTCACAATCCCAT
10986026 TTCATAATCAATAGCCGAAGCT
66 TTCATAATCAATAGCCGAAGCT
10986048 ATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATACTCGATGGTCGTCACAATCCCAT
1 ATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATACTCGATGGTCGTCACAATCCCAT
* *
10986113 TTCATAATCGATAGCTGAAGCT
66 TTCATAATCAATAGCCGAAGCT
* * *
10986135 ATCGCTTTTCATATTCGATAGTCGAACCTATCCCTTTTCAT
1 ATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCAT
10986176 TGGTCAATGA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 119 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.35
Consensus pattern (87 bp):
ATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATACTCGATGGTCGTCACAATCCCAT
TTCATAATCAATAGCCGAAGCT
Found at i:10989630 original size:14 final size:15
Alignment explanation
Indices: 10989599--10989632 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10989589 ATCTATGCTT
10989599 ATAAAACACAAGAAA
1 ATAAAACACAAGAAA
*
10989614 ATAAATCACAA-AAA
1 ATAAAACACAAGAAA
10989628 ATAAA
1 ATAAA
10989633 GAATAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.74, C:0.12, G:0.03, T:0.12
Consensus pattern (15 bp):
ATAAAACACAAGAAA
Found at i:10990837 original size:35 final size:35
Alignment explanation
Indices: 10990793--10991645 Score: 409
Period size: 37 Copynumber: 23.5 Consensus size: 35
10990783 TAAGACAAGA
* * * * *
10990793 TCTATCCCAATCTTTTCAAGTTTGTCTTAGAC-AGG
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGA-G
*
10990828 TCTACCCCAACCTTATT-AGGTTGCCTTAGACGAG
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGAG
* * *
10990862 TCTACCCTAACCTTTTTAGGGTTGCCTTAGACGTG
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGAG
* * * * * *
10990897 TCTATCCCAAACTTTTTAAGTTTACCTTTA-ATGGG
1 TCTACCCCAACCTTTTTAAGGTTGCC-TTAGACGAG
* * * *
10990932 TCTATCCCAACCATTTTTAAAGTTTTCCTTAGACGGG
1 TCTACCCCAACC-TTTTT-AAGGTTGCCTTAGACGAG
* ** * *
10990969 TCTATCCCAACCATTTTTCAAGGTTGTTTTAGCCAAGG
1 TCTACCCCAACC-TTTTT-AAGGTTGCCTTAGACGA-G
* * * * *
10991007 TTTATCCCAACATTTTCAAGGTTGCCTTATACG-G
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGAG
* *
10991041 ATCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
1 -TCTACCCCAACC-TTTTT-AAGGTTGCCTTAGACGA-G
* * * * * *
10991080 TCTATCCTAATCTTTTTAAGGTTGCCTTAAATGGG
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGAG
* * * * *
10991115 TATATCCCAACCTTTTTTATAGTTTTCCTTAGACAAGG
1 TCTACCCCAACC-TTTTTA-AGGTTGCCTTAGACGA-G
* * * *
10991153 TCTATCCCATCCTTTTTAAGGTTACCTTAGACGGG
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGAG
* * ** *
10991188 TCTATCCCAACATTTTTTAAAGGTTG--TTTTA-TA-
1 TCTACCCCAAC-CTTTTT-AAGGTTGCCTTAGACGAG
* * *
10991221 T-T---CCAACCTTTTTAAGGTTTCCTTAAAGGAGG
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGA-G
* ** * *
10991253 TCTATCGTAACCTTTTCAATGGTTGCCTTAGACAAGG
1 TCTACCCCAACCTTTTTAA-GGTTGCCTTAGACGA-G
* * **
10991290 TCTATCCCAACCTTTTTGAGGTTGCCTTAGATAAGG
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGA-G
* * **
10991326 TCTATCCTAACCTTTTTAAAGGTTGCCTTAGATAAGG
1 TCTACCCCAACCTTTTT-AAGGTTGCCTTAGACGA-G
* * *
10991363 TCTATCCCAACCTTTTTGAGGTTGCCTTAGACAAGG
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGA-G
* * *
10991399 TCTATCCCAACCTTTTTTAAAGGTTGTCTTAGATAAGAAGG
1 TCTACCCCAACC-TTTTT-AAGGTTGCCTTAG--ACG-A-G
* * *
10991440 TTTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGG
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGA-G
* * *
10991476 TCTATCCCAACCTTTTTTAAAGGTTGTCTTAGATAAGAAGG
1 TCTACCCCAACC-TTTTT-AAGGTTGCCTTAG--ACG-A-G
* * *
10991517 TTTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGG
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGA-G
* * *
10991553 TCTATCCCAACCTTTTTTAAAGGTTACCTTAGATAACAAGG
1 TCTACCCCAACC-TTTTT-AAGGTTGCCTTAG---ACGA-G
* * *
10991594 TTTATCCAAACCTTTTTAAGGTTGCCTTAGAC-AG
1 TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGAG
**
10991628 CTCTGTCCCAACCTTTTT
1 -TCTACCCCAACCTTTTT
10991646 TAAAGGTCGG
Statistics
Matches: 658, Mismatches: 116, Indels: 88
0.76 0.13 0.10
Matches are distributed among these distances:
27 6 0.01
28 5 0.01
29 8 0.01
30 1 0.00
32 2 0.00
33 2 0.00
34 30 0.05
35 112 0.17
36 163 0.25
37 164 0.25
38 67 0.10
39 37 0.06
40 17 0.03
41 44 0.07
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (35 bp):
TCTACCCCAACCTTTTTAAGGTTGCCTTAGACGAG
Found at i:10991046 original size:73 final size:72
Alignment explanation
Indices: 10990785--10991652 Score: 745
Period size: 73 Copynumber: 11.9 Consensus size: 72
10990775 ATGGGACCTA
* * * * * * *
10990785 AGACAAGATCTATCCCAATCTTTTCAAGTTTGTCTTAGACAGGTCTACCCCAACC-TTATT--AG
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-GGTCTATCCCAACCTTTTTTAAAG
*
10990847 GTTGCCTT
65 GTTGTCTT
* * *
10990855 AGACGA-GTCTA-CCCTAACCTTTTTAGGGTTGCCTTAGACGTGTCTATCCCAAAC-TTTTT-AA
1 AGACAAGGTCTATCCC-AACCTTTTTAAGGTTGCCTTAGACG-GTCTATCCCAACCTTTTTTAAA
* **
10990916 GTTTACCTTT
64 GGTTGTC-TT
** * * * *
10990926 A-A-TGGGTCTATCCCAACCATTTTTAAAGTTTTCCTTAGACGGGTCTATCCCAACCATTTTTCA
1 AGACAAGGTCTATCCCAACC-TTTTT-AAGGTTGCCTTAGAC-GGTCTATCCCAACCTTTTTTAA
*
10990989 AGGTTGTTTT
63 AGGTTGTCTT
* * * * *
10990999 AGCCAAGGTTTATCCCAACATTTTCAAGGTTGCCTTATACGGATCTATCCCAACCTTTTTTAAAG
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGG-TCTATCCCAACCTTTTTTAAAG
*
10991064 GTTGCCTT
65 GTTGTCTT
* * * * * *
10991072 AGACAAGGTCTATCCTAATCTTTTTAAGGTTGCCTTAAATGGGTATATCCCAACCTTTTTTATA-
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGA-CGGTCTATCCCAACCTTTTTTAAAG
*
10991136 GTTTTCCTT
65 GTTGT-CTT
* * *
10991145 AGACAAGGTCTATCCCATCCTTTTTAAGGTTACCTTAGACGGGTCTATCCCAACATTTTTTAAAG
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-GGTCTATCCCAACCTTTTTTAAAG
10991210 GTTGT-TT
65 GTTGTCTT
* * * ** *
10991217 --------TATATTCCAACCTTTTTAAGGTTTCCTTAAAGGA-GGTCTATCGTAACC-TTTTCAA
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT--A-GACGGTCTATCCCAACCTTTTTTAA
* *
10991272 TGGTTGCCTT
63 AGGTTGTCTT
* * *
10991282 AGACAAGGTCTATCCCAACCTTTTTGAGGTTGCCTTAGATAAGGTCTATCCTAACC-TTTTTAAA
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAG--ACGGTCTATCCCAACCTTTTTTAAA
*
10991346 GGTTGCCTT
64 GGTTGTCTT
* *
10991355 AGATAAGGTCTATCCCAACCTTTTTGAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAA
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGAC--GGTCTATCCCAACCTTTTTTAAA
10991420 GGTTGTCTT
64 GGTTGTCTT
* *
10991429 AGATAAGAAGGTTTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTT
1 AG---ACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGAC--GGTCTATCCCAACCTTTTTT
10991494 AAAGGTTGTCTT
61 AAAGGTTGTCTT
* *
10991506 AGATAAGAAGGTTTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTT
1 AG---ACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGAC--GGTCTATCCCAACCTTTTTT
**
10991571 AAAGGTTACCTT
61 AAAGGTTGTCTT
* * * *
10991583 AGATAACAAGGTTTATCCAAACCTTTTTAAGGTTGCCTTAGACAGCTCTGTCCCAACCTTTTTTA
1 AG---ACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-GGTCTATCCCAACCTTTTTTA
10991648 AAGGT
62 AAGGT
10991653 CGGCCTTGAC
Statistics
Matches: 672, Mismatches: 87, Indels: 72
0.81 0.10 0.09
Matches are distributed among these distances:
64 35 0.05
65 13 0.02
66 1 0.00
67 2 0.00
68 4 0.01
69 38 0.06
70 22 0.03
71 13 0.02
72 32 0.05
73 257 0.38
74 33 0.05
75 12 0.02
76 25 0.04
77 185 0.28
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (72 bp):
AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGTCTATCCCAACCTTTTTTAAAGG
TTGTCTT
Found at i:10991108 original size:36 final size:36
Alignment explanation
Indices: 10990785--10991645 Score: 726
Period size: 36 Copynumber: 23.7 Consensus size: 36
10990775 ATGGGACCTA
* * * * *
10990785 AGACAAGATCTATCCCAATCTTTTCAAGTTTGTCTT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
* *
10990821 AGAC-AGGTCTACCCCAACCTTATT-AGGTTGCCTT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
* *
10990855 AGACGA-GTCTA-CCCTAACCTTTTTAGGGTTGCCTT
1 AGACAAGGTCTATCCC-AACCTTTTTAAGGTTGCCTT
* * *
10990890 AGAC--GTGTCTATCCCAAACTTTTTAAGTTTACCTTT
1 AGACAAG-GTCTATCCCAACCTTTTTAAGGTTGCC-TT
** * *
10990926 A-A-TGGGTCTATCCCAACCATTTTTAAAGTTTTCCTT
1 AGACAAGGTCTATCCCAACC-TTTTT-AAGGTTGCCTT
* **
10990962 AGAC-GGGTCTATCCCAACCATTTTTCAAGGTTGTTTT
1 AGACAAGGTCTATCCCAACC-TTTTT-AAGGTTGCCTT
* * * *
10990999 AGCCAAGGTTTATCCCAACATTTTCAAGGTTGCCTT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
*
10991035 ATAC--GGATCTATCCCAACCTTTTTTAAAGGTTGCCTT
1 AGACAAGG-TCTATCCCAACC-TTTTT-AAGGTTGCCTT
* *
10991072 AGACAAGGTCTATCCTAATCTTTTTAAGGTTGCCTT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
* * * *
10991108 A-A-ATGGGTATATCCCAACCTTTTTTATAGTTTTCCTT
1 AGACA-AGGTCTATCCCAACC-TTTTTA-AGGTTGCCTT
* *
10991145 AGACAAGGTCTATCCCATCCTTTTTAAGGTTACCTT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
* *
10991181 AGAC-GGGTCTATCCCAACATTTTTTAAAGGTTG--TT
1 AGACAAGGTCTATCCCAAC-CTTTTT-AAGGTTGCCTT
* * * *
10991216 -------TTATATTCCAACCTTTTTAAGGTTTCCTT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
* ** ** *
10991245 AAAGGAGGTCTATCGTAACCTTTTCAATGGTTGCCTT
1 AGACAAGGTCTATCCCAACCTTTTTAA-GGTTGCCTT
*
10991282 AGACAAGGTCTATCCCAACCTTTTTGAGGTTGCCTT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
* *
10991318 AGATAAGGTCTATCCTAACCTTTTTAAAGGTTGCCTT
1 AGACAAGGTCTATCCCAACCTTTTT-AAGGTTGCCTT
* *
10991355 AGATAAGGTCTATCCCAACCTTTTTGAGGTTGCCTT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
*
10991391 AGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGTCTT
1 AGACAAGGTCTATCCCAACC-TTTTT-AAGGTTGCCTT
* *
10991429 AGATAAGAAGGTTTATCCCAACCTTTTTAAGGTTGCCTT
1 AG---ACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
*
10991468 AGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGTCTT
1 AGACAAGGTCTATCCCAACC-TTTTT-AAGGTTGCCTT
* *
10991506 AGATAAGAAGGTTTATCCCAACCTTTTTAAGGTTGCCTT
1 AG---ACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
*
10991545 AGACAAGGTCTATCCCAACCTTTTTTAAAGGTTACCTT
1 AGACAAGGTCTATCCCAACC-TTTTT-AAGGTTGCCTT
* *
10991583 AGATAACAAGGTTTATCCAAACCTTTTTAAGGTTGCCTT
1 AG---ACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
* *
10991622 AGAC-AGCTCTGTCCCAACCTTTTT
1 AGACAAGGTCTATCCCAACCTTTTT
10991646 TAAAGGTCGG
Statistics
Matches: 677, Mismatches: 96, Indels: 105
0.77 0.11 0.12
Matches are distributed among these distances:
27 6 0.01
28 5 0.01
29 11 0.02
33 3 0.00
34 28 0.04
35 113 0.17
36 178 0.26
37 161 0.24
38 70 0.10
39 39 0.06
40 15 0.02
41 48 0.07
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (36 bp):
AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
Found at i:10991462 original size:77 final size:77
Alignment explanation
Indices: 10991223--10991652 Score: 599
Period size: 77 Copynumber: 5.7 Consensus size: 77
10991213 GTTTTATATT
* * ** ** * *
10991223 CCAACCTTTTTAAGGTTTCCTTAAAGGAGGTCTATCGTAACC-TTTTCAATGGTTGCCTTAG---
1 CCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGATA
*
10991284 ACAAGGTCTATC
66 ACAAGGTTTATC
* * *
10991296 CCAACCTTTTTGAGGTTGCCTTAGATAAGGTCTATCCTAACC-TTTTTAAAGGTTGCCTTAGAT-
1 CCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGATA
*
10991359 --AAGGTCTATC
66 ACAAGGTTTATC
* *
10991369 CCAACCTTTTTGAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGTCTTAGATA
1 CCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGATA
*
10991434 AGAAGGTTTATC
66 ACAAGGTTTATC
*
10991446 CCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGTCTTAGATA
1 CCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGATA
*
10991511 AGAAGGTTTATC
66 ACAAGGTTTATC
*
10991523 CCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTACCTTAGATA
1 CCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGATA
10991588 ACAAGGTTTATC
66 ACAAGGTTTATC
* * *
10991600 CAAACCTTTTTAAGGTTGCCTTAGAC-AGCTCTGTCCCAACCTTTTTTAAAGGT
1 CCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGT
10991653 CGGCCTTGAC
Statistics
Matches: 332, Mismatches: 19, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
73 103 0.31
74 20 0.06
76 25 0.08
77 184 0.55
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (77 bp):
CCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGATA
ACAAGGTTTATC
Found at i:11001738 original size:15 final size:17
Alignment explanation
Indices: 11001713--11001750 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
11001703 TCTCTTATTC
11001713 AAAAATAGATAG-AGAG
1 AAAAATAGATAGTAGAG
*
11001729 AAAAAT-GATAGTTGAG
1 AAAAATAGATAGTAGAG
11001745 AAAAAT
1 AAAAAT
11001751 TTGGAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (17 bp):
AAAAATAGATAGTAGAG
Found at i:11002444 original size:30 final size:30
Alignment explanation
Indices: 11002405--11002467 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11002395 CCAGACAGGT
* * *
11002405 AACCTTGATATAATGTTAGCTTGTGTGAGC
1 AACCCTGATATAATGTCAACTTGTGTGAGC
11002435 AACCCTGATATAATGTCAACTTGTGTGAGC
1 AACCCTGATATAATGTCAACTTGTGTGAGC
11002465 AAC
1 AAC
11002468 TTATTCCCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (30 bp):
AACCCTGATATAATGTCAACTTGTGTGAGC
Found at i:11005232 original size:21 final size:21
Alignment explanation
Indices: 11005206--11005276 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
11005196 GTTTTTAGGG
11005206 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
* *** ***
11005227 TTAGGGTTATGTTTGTAGGGT
1 TTAGGGTTTTGTTAAAATAAT
* *
11005248 TTAAGATTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
11005269 TTAGGGTT
1 TTAGGGTT
11005277 CTGGGTTTTA
Statistics
Matches: 32, Mismatches: 18, Indels: 0
0.64 0.36 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (21 bp):
TTAGGGTTTTGTTAAAATAAT
Found at i:11005377 original size:34 final size:34
Alignment explanation
Indices: 11005328--11005418 Score: 130
Period size: 34 Copynumber: 2.7 Consensus size: 34
11005318 TTCTTTTTTA
11005328 AAAATTAATTAAATTAGGGTTTAGGGGTTTTAA-
1 AAAATTAATTAAATTAGGGTTTAGGGGTTTTAAG
* * * *
11005361 ATAAATAAATTAAATTAGAGTTTAGTGTTTTTAAG
1 A-AAATTAATTAAATTAGGGTTTAGGGGTTTTAAG
11005396 AAAATTAATTAAATTAGGGTTTA
1 AAAATTAATTAAATTAGGGTTTA
11005419 TTTTTTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
33 1 0.02
34 48 0.96
35 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (34 bp):
AAAATTAATTAAATTAGGGTTTAGGGGTTTTAAG
Found at i:11005428 original size:29 final size:32
Alignment explanation
Indices: 11005322--11005430 Score: 123
Period size: 34 Copynumber: 3.3 Consensus size: 32
11005312 TTAGTGTTCT
* *
11005322 TTTTTAAAAATTAATTAAATTAGGGTTTAGGGG
1 TTTTTAAAAATTAATTAAATTAGAGTTTA-GTG
* *
11005355 TTTTAAATAAATAAATTAAATTAGAGTTTAGTG
1 TTTTTAA-AAATTAATTAAATTAGAGTTTAGTG
*
11005388 TTTTTAAGAAAATTAATTAAATTAGGGTTTA-T-
1 TTTTT-A-AAAATTAATTAAATTAGAGTTTAGTG
11005420 TTTTTAAAAAT
1 TTTTTAAAAAT
11005431 AATATTGTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
30 5 0.08
31 1 0.02
32 5 0.08
33 13 0.20
34 41 0.62
35 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (32 bp):
TTTTTAAAAATTAATTAAATTAGAGTTTAGTG
Found at i:11009270 original size:18 final size:18
Alignment explanation
Indices: 11009244--11009286 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11009234 GACTGGGAAA
* *
11009244 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
11009262 AGGATACATATAATGGCT
1 AGGATACATATAAGGGCT
11009280 AGGATAC
1 AGGATAC
11009287 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:11009372 original size:30 final size:30
Alignment explanation
Indices: 11009338--11009407 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
11009328 TGGTTGAGGC
11009338 GTTGGGCCCGATGATTGTGTGGGCACTGTT
1 GTTGGGCCCGATGATTGTGTGGGCACTGTT
* * *
11009368 GTTGGGCCTGATGATTGTGTTGGCGCTGTT
1 GTTGGGCCCGATGATTGTGTGGGCACTGTT
*
11009398 GATGGGCCCG
1 GTTGGGCCCG
11009408 TCCTATCATC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.09, C:0.17, G:0.41, T:0.33
Consensus pattern (30 bp):
GTTGGGCCCGATGATTGTGTGGGCACTGTT
Found at i:11013454 original size:22 final size:22
Alignment explanation
Indices: 11013426--11013471 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11013416 TTACAATACT
11013426 AAAATTTA-TATAAATT-TATAAA
1 AAAATTTACTA-AAATTCT-TAAA
11013448 AAAATTTACTAAAATTCTTAAA
1 AAAATTTACTAAAATTCTTAAA
11013470 AA
1 AA
11013472 CTTATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATTTACTAAAATTCTTAAA
Found at i:11014131 original size:21 final size:20
Alignment explanation
Indices: 11014107--11014167 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
11014097 AGTTTATTAG
11014107 AAATCTTTATAAGTTTTTATA
1 AAAT-TTTATAAGTTTTTATA
*
11014128 AAATTTTA-ATGATTTTTA-A
1 AAATTTTATAAG-TTTTTATA
*
11014147 TAAATTTTATAA-TTTTAATA
1 -AAATTTTATAAGTTTTTATA
11014167 A
1 A
11014168 GTTTATATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
19 9 0.27
20 19 0.58
21 5 0.15
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (20 bp):
AAATTTTATAAGTTTTTATA
Found at i:11014153 original size:11 final size:11
Alignment explanation
Indices: 11014115--11014218 Score: 59
Period size: 10 Copynumber: 10.5 Consensus size: 11
11014105 AGAAATCTTT
*
11014115 ATAAGTTTTT-
1 ATAAATTTTTA
*
11014125 ATAAAATTTTA
1 ATAAATTTTTA
*
11014136 AT-GATTTTTA
1 ATAAATTTTTA
11014146 ATAAA-TTTT-
1 ATAAATTTTTA
11014155 AT-AA-TTTTA
1 ATAAATTTTTA
* *
11014164 ATAAGTTTAT-
1 ATAAATTTTTA
*
11014174 ATCAA-TTTTA
1 ATAAATTTTTA
*
11014184 CT--ATTTTTA
1 ATAAATTTTTA
*
11014193 ATAATTTTTTA
1 ATAAATTTTTA
11014204 AT-AATTTTTA
1 ATAAATTTTTA
11014214 ATAAA
1 ATAAA
11014219 AATATAAAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 19
0.68 0.14 0.18
Matches are distributed among these distances:
8 7 0.10
9 13 0.19
10 34 0.49
11 16 0.23
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (11 bp):
ATAAATTTTTA
Found at i:11014201 original size:10 final size:10
Alignment explanation
Indices: 11014131--11014217 Score: 76
Period size: 10 Copynumber: 8.9 Consensus size: 10
11014121 TTTTATAAAA
*
11014131 TTTTAATGAT
1 TTTTAATAAT
*
11014141 TTTTAATAAA
1 TTTTAATAAT
11014151 TTTT-ATAA-
1 TTTTAATAAT
11014159 TTTTAATAA-
1 TTTTAATAAT
*
11014168 GTTTATATCAA-
1 TTTTA-AT-AAT
*
11014179 TTTTACT-AT
1 TTTTAATAAT
11014188 TTTTAATAATT
1 TTTTAATAA-T
11014199 TTTTAATAAT
1 TTTTAATAAT
11014209 TTTTAATAA
1 TTTTAATAA
11014218 AAATATAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
8 5 0.08
9 18 0.28
10 26 0.40
11 16 0.25
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:11014209 original size:29 final size:28
Alignment explanation
Indices: 11014129--11014213 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
11014119 GTTTTTATAA
*
11014129 AATTTTAATGATTTTTAATAAATTTTAT
1 AATTTTAATAATTTTTAATAAATTTTAT
* *
11014157 AATTTTAATAA-GTTTATATCAATTTTACT
1 AATTTTAATAATTTTTA-ATAAATTTTA-T
* *
11014186 ATTTTTAATAATTTTTTAATAATTTTTA
1 AATTTTAATAA-TTTTTAATAAATTTTA
11014214 ATAAAAATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 4 0.09
28 19 0.41
29 11 0.24
30 8 0.17
31 4 0.09
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (28 bp):
AATTTTAATAATTTTTAATAAATTTTAT
Found at i:11015368 original size:20 final size:20
Alignment explanation
Indices: 11015340--11015381 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
11015330 GGGTATAGGG
11015340 TTTTTTATACT-TTTAAATT
1 TTTTTTATACTCTTTAAATT
*
11015359 TTTTTATATACTCTTTAGATT
1 TTTTT-TATACTCTTTAAATT
11015380 TT
1 TT
11015382 GTATAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 9 0.45
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTTATACTCTTTAAATT
Found at i:11015386 original size:20 final size:20
Alignment explanation
Indices: 11015345--11015386 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
11015335 TAGGGTTTTT
*
11015345 TATACTTTTAAATTTTTTTA
1 TATACTTTTAAATTTTTGTA
*
11015365 TATACTCTTTAGA-TTTTGTA
1 TATACT-TTTAAATTTTTGTA
11015385 TA
1 TA
11015387 ATTTTTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.60
Consensus pattern (20 bp):
TATACTTTTAAATTTTTGTA
Found at i:11015502 original size:15 final size:15
Alignment explanation
Indices: 11015482--11015512 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11015472 ACCAAAAGGA
11015482 TATTTACAACAATCG
1 TATTTACAACAATCG
*
11015497 TATTTACACCAATCG
1 TATTTACAACAATCG
11015512 T
1 T
11015513 TTACTTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (15 bp):
TATTTACAACAATCG
Found at i:11023999 original size:128 final size:128
Alignment explanation
Indices: 11023845--11024356 Score: 997
Period size: 128 Copynumber: 4.0 Consensus size: 128
11023835 ACAATGATAA
*
11023845 CCAATTCTGATTCAAAAAGAATATTTATTTAAAAATATTTCATATCCAATATCGATACAATCTTA
1 CCAATTCTGATTCAAAAAGAATATTTATTTAAAAACATTTCATATCCAATATCGATACAATCTTA
11023910 TCGACTATAACTTAGCTAAACAATTAAGATTTACATAAGAGTACAAAAAAATCATTCATATTG
66 TCGACTATAACTTAGCTAAACAATTAAGATTTACATAAGAGTACAAAAAAATCATTCATATTG
11023973 CCAATTCTGATTCAAAAAGAATATTTATTTAAAAACATTTCATATCCAATATCGATACAATCTTA
1 CCAATTCTGATTCAAAAAGAATATTTATTTAAAAACATTTCATATCCAATATCGATACAATCTTA
11024038 TCGACTATAACTTAGCTAAACAATTAAGATTTACATAAGAGTACAAAAAAATCATTCATATTG
66 TCGACTATAACTTAGCTAAACAATTAAGATTTACATAAGAGTACAAAAAAATCATTCATATTG
11024101 CCAATTCTGATTCAAAAAGAATATTTATTTAAAAACATTTCATATCCAATATCGATACAATCTTA
1 CCAATTCTGATTCAAAAAGAATATTTATTTAAAAACATTTCATATCCAATATCGATACAATCTTA
*
11024166 TCGACTATAACTTAGCTAAACAATTAAGATTTACATAAGAGGACAAAAAAATCATTCATATTG
66 TCGACTATAACTTAGCTAAACAATTAAGATTTACATAAGAGTACAAAAAAATCATTCATATTG
11024229 CCAATTCTGATTCAAAAAGAATATTTATTTAAAAACATTTCATATCCAATATCGATACAATCTTA
1 CCAATTCTGATTCAAAAAGAATATTTATTTAAAAACATTTCATATCCAATATCGATACAATCTTA
*
11024294 TCGACTATAACTTAGCTAAACAATTAAGATTTACATAAGAGTACAAAAAAATCATTCCTATTG
66 TCGACTATAACTTAGCTAAACAATTAAGATTTACATAAGAGTACAAAAAAATCATTCATATTG
11024357 TCGAGCAGAA
Statistics
Matches: 380, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 380 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (128 bp):
CCAATTCTGATTCAAAAAGAATATTTATTTAAAAACATTTCATATCCAATATCGATACAATCTTA
TCGACTATAACTTAGCTAAACAATTAAGATTTACATAAGAGTACAAAAAAATCATTCATATTG
Found at i:11027116 original size:20 final size:20
Alignment explanation
Indices: 11027093--11027175 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
11027083 ACTTTGGTGT
11027093 CTCTATTTGCACTTCAGTGC
1 CTCTATTTGCACTTCAGTGC
* *
11027113 CTCTATTTGCATTTCGGT-C
1 CTCTATTTGCACTTCAGTGC
* *
11027132 CACTGA-TTGCACAATC-GTGC
1 CTCT-ATTTGCAC-TTCAGTGC
*
11027152 CTCTATCTGCACTTCAGTGC
1 CTCTATTTGCACTTCAGTGC
11027172 CTCT
1 CTCT
11027176 GTTACGCATC
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
19 14 0.28
20 36 0.72
ACGTcount: A:0.16, C:0.31, G:0.16, T:0.37
Consensus pattern (20 bp):
CTCTATTTGCACTTCAGTGC
Found at i:11032703 original size:69 final size:68
Alignment explanation
Indices: 11032590--11032833 Score: 314
Period size: 69 Copynumber: 3.6 Consensus size: 68
11032580 TTTCGCTTAA
* * *
11032590 AATATTACAGTTGGGAGATTTGCTCTCGCTAACTATTTTAGAGGTTGCGGCTCTTCGCCTATGAA
1 AATATGACAATTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGTTGCGGCTCTTC-CCTATGAA
*
11032655 CTTT
65 CCTT
**
11032659 AATATGACAATTGGGAGCTTTGCTCTCGCTAACTAGTTTT-GAGGTTGTAGCTCATTCCCTA--A
1 AATATGACAATTGGGAGCTTTGCTCTCGCTAACTA-TTTTAGAGGTTGCGGCTC-TTCCCTATGA
11032721 ACCTT
64 ACCTT
* * * * *
11032726 AGTATGACAACTGGGAGCTTTGTTCTCGCTAACTATTTTAGAGGTTGCGGCTCTTTTCCTGTGAA
1 AATATGACAATTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGTTGCGGCTC-TTCCCTATGAA
11032791 CCTT
65 CCTT
* *
11032795 AATATGACAGTTGAGAGCTTTGCTCTCGCTAACTATTTT
1 AATATGACAATTGGGAGCTTTGCTCTCGCTAACTATTTT
11032834 GAGTCACACG
Statistics
Matches: 151, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
66 4 0.03
67 53 0.35
69 87 0.58
70 7 0.05
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (68 bp):
AATATGACAATTGGGAGCTTTGCTCTCGCTAACTATTTTAGAGGTTGCGGCTCTTCCCTATGAAC
CTT
Done.