Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 98 of 120
Found at i:13381855 original size:49 final size:48
Alignment explanation
Indices: 13381719--13381869 Score: 185
Period size: 49 Copynumber: 3.1 Consensus size: 48
13381709 AAAAAAAATT
* * *
13381719 AAAAAGTTCCTCCAATCAGAGGCTCAATAACTTTAAAAATTTATTTTAA
1 AAAAAGCTCCTCTAATCAGAGGCTCAATAACTTTAAAAATTTATTTT-G
* * * *
13381768 AAAAAGCTCATCTAAGCAAAGGCTCAACAACTTTAAAAATTTATTTTG
1 AAAAAGCTCCTCTAATCAGAGGCTCAATAACTTTAAAAATTTATTTTG
* * * *
13381816 AAAAAGCTCCTCTAATTAGAGGTTCAATAACTTTAAAAAATTCATCTTG
1 AAAAAGCTCCTCTAATCAGAGGCTCAATAACTTT-AAAAATTTATTTTG
13381865 AAAAA
1 AAAAA
13381870 AACTATCCTA
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 28 0.33
49 58 0.67
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.30
Consensus pattern (48 bp):
AAAAAGCTCCTCTAATCAGAGGCTCAATAACTTTAAAAATTTATTTTG
Found at i:13382203 original size:99 final size:98
Alignment explanation
Indices: 13382028--13382205 Score: 241
Period size: 99 Copynumber: 1.8 Consensus size: 98
13382018 TAACATTTGG
* ** *
13382028 ATATCACCATCAAGAAAATGTAAATCAAATCTTAACACTTGGATATCACCACAGAGAATATGCAA
1 ATATCACCATCAAGAAAATGCAAATCAAATCTTAACACTCAGATATCACCACAGAGAATATGAAA
* *
13382093 TGACTTTGGATATCGCCATTGAAAGAAACTTGA
66 TAACTTCGGATATCGCCATTGAAAGAAACTTGA
* * * *
13382126 ATATCACCATCGAAGAATATGCAAATCAACTTTTAACACTCAGATATCACCACCGA-AATATGTA
1 ATATCACCATC-AAGAAAATGCAAATCAAATCTTAACACTCAGATATCACCACAGAGAATATG-A
13382190 AATAACTTCGGATATC
64 AATAACTTCGGATATC
13382206 ACCACTAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
98 17 0.25
99 51 0.75
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (98 bp):
ATATCACCATCAAGAAAATGCAAATCAAATCTTAACACTCAGATATCACCACAGAGAATATGAAA
TAACTTCGGATATCGCCATTGAAAGAAACTTGA
Found at i:13382336 original size:173 final size:173
Alignment explanation
Indices: 13382026--13382367 Score: 424
Period size: 173 Copynumber: 2.0 Consensus size: 173
13382016 TTTAACATTT
* * ** *
13382026 GGATATCACCATCAAGAAAATGTAAATCAAATCTTAACACTTGGATATCACCACAGAGAATATGC
1 GGATATCACCATCAAAAAAATGTAAATCAAACCTTAACACTCAGATATCACCACAGAGAATATGA
* * ** * *
13382091 AATGACTTTGGATATCGCCATTGAAAGAAACTTGAATATCACCATCGAAGAATATGCAAATCAAC
66 AATGACTTCGGATATCACCACCGAAAGAAACTCGAATATCACCATCGAAGAAAATGCAAATCAAC
* *
13382156 TTTTAACACTC-AGATATCACCACCGAAATATGTAAATAACTTC
131 TTTTAACACTCGA-ATATCACCACCAAAAAATGTAAATAACTTC
13382199 GGATATCACCA-CTAAAAAAATGTAAATCAAACCTTAACACTCAGATATCACCATC-GAGAATAT
1 GGATATCACCATC-AAAAAAATGTAAATCAAACCTTAACACTCAGATATCACCA-CAGAGAATAT
* * * * *
13382262 GTAAATGACTTCGGATATCATCACCGAAGGAAACTCGAATATCATCATCG-AGAAAATGCAATTG
64 G-AAATGACTTCGGATATCACCACCGAAAGAAACTCGAATATCACCATCGAAGAAAATGCAAATC
* *
13382326 AAGC-TTTAACACTCGAATATCATCATCAAAAAATGTAAATAA
128 AA-CTTTTAACACTCGAATATCACCACCAAAAAATGTAAATAA
13382368 AACCTTAACA
Statistics
Matches: 144, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
172 1 0.01
173 101 0.70
174 42 0.29
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.25
Consensus pattern (173 bp):
GGATATCACCATCAAAAAAATGTAAATCAAACCTTAACACTCAGATATCACCACAGAGAATATGA
AATGACTTCGGATATCACCACCGAAAGAAACTCGAATATCACCATCGAAGAAAATGCAAATCAAC
TTTTAACACTCGAATATCACCACCAAAAAATGTAAATAACTTC
Found at i:13382376 original size:41 final size:42
Alignment explanation
Indices: 13382294--13382388 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 42
13382284 ACCGAAGGAA
* * * * *
13382294 ACTCGAATATCATCATCGAGAAAATGCAATTGAAGCTTTAAC
1 ACTCGAATATCATCATCGAAAAAATGCAAATAAAACCTTAAC
*
13382336 ACTCGAATATCATCATC-AAAAAATGTAAATAAAACCTTAAC
1 ACTCGAATATCATCATCGAAAAAATGCAAATAAAACCTTAAC
13382377 ACTC-AGATATCA
1 ACTCGA-ATATCA
13382389 CCACTTAGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.02
41 28 0.61
42 17 0.37
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.25
Consensus pattern (42 bp):
ACTCGAATATCATCATCGAAAAAATGCAAATAAAACCTTAAC
Found at i:13382608 original size:99 final size:99
Alignment explanation
Indices: 13382336--13382615 Score: 307
Period size: 98 Copynumber: 2.8 Consensus size: 99
13382326 AAGCTTTAAC
* * * *
13382336 ACTC-GAATATCATCATCAAAAAATGTAAATAAAACCTTAACACTCAGATATCACCACTTAGAAT
1 ACTCAGAATATCATCATCAAAAAATATAAATAAAACCTTATCACTCAGATATCACCACTGAAAAT
* *
13382400 ATGCAAATGACTTTGGATATCGCCACCAAAGGAA
66 ATGCAAATGACTTCGGATAACGCCACCAAAGGAA
* * * * * * * *
13382434 ACTCA-AATATCACCATAAAAAAATATAATTTAAGCCTTAAT-ACTCGGATATCACTACTGAAGA
1 ACTCAGAATATCATCATCAAAAAATATAAATAAAACCTT-ATCACTCAGATATCACCACTGAAAA
* * *
13382497 TATGCAAATGACTTCGGATAACGTCATCGAAGGAA
65 TATGCAAATGACTTCGGATAACGCCACCAAAGGAA
* * * * *
13382532 ACT-AGAATATCATCATCAAGAAAATACAAATCAAATCTTATCACTCAGATATTACCACCGAAAA
1 ACTCAGAATATCATCATCAA-AAAATATAAATAAAACCTTATCACTCAGATATCACCACTGAAAA
*
13382596 TATGCAAATGACTTCAGATA
65 TATGCAAATGACTTCGGATA
13382616 TCACTAGCGA
Statistics
Matches: 147, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
97 1 0.01
98 95 0.65
99 51 0.35
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (99 bp):
ACTCAGAATATCATCATCAAAAAATATAAATAAAACCTTATCACTCAGATATCACCACTGAAAAT
ATGCAAATGACTTCGGATAACGCCACCAAAGGAA
Found at i:13382632 original size:99 final size:97
Alignment explanation
Indices: 13382340--13382652 Score: 292
Period size: 98 Copynumber: 3.2 Consensus size: 97
13382330 TTTAACACTC
* * * * *
13382340 GAATATCATCATCAAAAAATGTAAATAAAACCTTAACACTCAGATATCACCACTTAGAATATGCA
1 GAATATCACCATCAAAAAATATAAATAAAACCTTATCACTCAGATATCACCACTGAAAATATGCA
* * * *
13382405 AATGACTTTGGATATCGCCACCAAAGGAAACTCA
66 AATGACTTCGGATATCACTACGAAA-GAAACT-A
* * * * * * *
13382439 -AATATCACCATAAAAAAATATAATTTAAGCCTTAAT-ACTCGGATATCACTACTGAAGATATGC
1 GAATATCACCATCAAAAAATATAAATAAAACCTT-ATCACTCAGATATCACCACTGAAAATATGC
*
13382502 AAATGACTTCGGATA--ACGTCATCGAAGGAAACTA
65 AAATGACTTCGGATATCAC-T-A-CGAAAGAAACTA
* * * * * *
13382536 GAATATCATCATCAAGAAAATACAAATCAAATCTTATCACTCAGATATTACCACCGAAAATATGC
1 GAATATCACCATCAA-AAAATATAAATAAAACCTTATCACTCAGATATCACCACTGAAAATATGC
* *
13382601 AAATGACTTCAGATATCACTAGCGAAAGAAACTC
65 AAATGACTTCGGATATCACTA-CGAAAGAAACTA
*
13382635 GAATATCACCATCGAAAA
1 GAATATCACCATCAAAAA
13382653 CATGCAATTG
Statistics
Matches: 170, Mismatches: 35, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
96 1 0.01
97 1 0.01
98 87 0.51
99 78 0.46
100 1 0.01
101 2 0.01
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.24
Consensus pattern (97 bp):
GAATATCACCATCAAAAAATATAAATAAAACCTTATCACTCAGATATCACCACTGAAAATATGCA
AATGACTTCGGATATCACTACGAAAGAAACTA
Found at i:13383079 original size:24 final size:24
Alignment explanation
Indices: 13383008--13383072 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
13382998 ATGCACATGA
* *
13383008 AATGCAAGTGTCTTTTCTTAAAAC
1 AATGCAAATGTCTTTTCTTAAAAT
* * *
13383032 GATGAAAATGTCTTTTTTTAAAAT
1 AATGCAAATGTCTTTTCTTAAAAT
13383056 AATGCAAATGTCTTTTC
1 AATGCAAATGTCTTTTC
13383073 CAAAAATGTC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (24 bp):
AATGCAAATGTCTTTTCTTAAAAT
Found at i:13384324 original size:18 final size:19
Alignment explanation
Indices: 13384303--13384349 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
13384293 CTTTTTTTTC
*
13384303 TTTTTTTT-CTT-CTCTTT
1 TTTTTTTTGCTTCCACTTT
13384320 TTTTTTTTGCTTCCACTTT
1 TTTTTTTTGCTTCCACTTT
13384339 TTTTTTCTTGC
1 TTTTTT-TTGC
13384350 ATATGTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 8 0.31
18 3 0.12
19 11 0.42
20 4 0.15
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTTTTTGCTTCCACTTT
Found at i:13389125 original size:10 final size:10
Alignment explanation
Indices: 13389110--13389171 Score: 52
Period size: 10 Copynumber: 5.8 Consensus size: 10
13389100 ATAAAAAATT
*
13389110 TTTTTTCTTA
1 TTTTTTATTA
13389120 TTTTTTATTA
1 TTTTTTATTA
*
13389130 TTTTGTATTA
1 TTTTTTATTA
* *
13389140 TTATTAAGTTTA
1 TTTTTTA--TTA
13389152 TTTTTTATTTTA
1 TTTTTTA--TTA
13389164 TTTTTTAT
1 TTTTTTAT
13389172 AAAAATTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
10 23 0.55
12 19 0.45
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:13389163 original size:12 final size:12
Alignment explanation
Indices: 13389107--13389171 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
13389097 CGGATAAAAA
13389107 ATTTTTT-TTCTT
1 ATTTTTTATT-TT
13389119 ATTTTTTA--TT
1 ATTTTTTATTTT
*
13389129 ATTTTGTA--TT
1 ATTTTTTATTTT
* * *
13389139 ATTATTAAGTTT
1 ATTTTTTATTTT
13389151 ATTTTTTATTTT
1 ATTTTTTATTTT
13389163 ATTTTTTAT
1 ATTTTTTAT
13389172 AAAAATTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
10 16 0.37
12 27 0.63
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:13389927 original size:16 final size:16
Alignment explanation
Indices: 13389906--13389951 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
13389896 AAACAAGCTC
13389906 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAGG
13389922 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAGG
* *
13389938 ATATCAATTTTTAA
1 ATACCAATTGTTAA
13389952 AAATATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (16 bp):
ATACCAATTGTTAAGG
Found at i:13395678 original size:22 final size:22
Alignment explanation
Indices: 13395653--13395694 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13395643 ATAAATTAAC
*
13395653 GATACTCTAATAGCAAATTAGT
1 GATAATCTAATAGCAAATTAGT
* *
13395675 GATAATTTAATAGTAAATTA
1 GATAATCTAATAGCAAATTA
13395695 CTTTCACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (22 bp):
GATAATCTAATAGCAAATTAGT
Found at i:13395771 original size:22 final size:22
Alignment explanation
Indices: 13395724--13395771 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
13395714 TAATTGATAG
*
13395724 TAGTAAATAATAAATAACTTAG
1 TAGTAAATAATAAATAACTTAA
** *
13395746 TAGTAAATAATTGATAATTTAA
1 TAGTAAATAATAAATAACTTAA
13395768 TAGT
1 TAGT
13395772 TATTTATTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (22 bp):
TAGTAAATAATAAATAACTTAA
Found at i:13395871 original size:11 final size:11
Alignment explanation
Indices: 13395855--13395914 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
13395845 GATAACTTAA
13395855 TAGTAATAAAT
1 TAGTAATAAAT
*
13395866 TAGTAATAACT
1 TAGTAATAAAT
* *
13395877 TAGTAGTTAAT
1 TAGTAATAAAT
*
13395888 TCAAT-ATAAAT
1 T-AGTAATAAAT
* *
13395899 AAGTAATAACT
1 TAGTAATAAAT
13395910 TAGTA
1 TAGTA
13395915 GTGCATCATA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
10 2 0.06
11 32 0.89
12 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (11 bp):
TAGTAATAAAT
Found at i:13396194 original size:22 final size:22
Alignment explanation
Indices: 13396168--13396232 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
13396158 TAATTTTATA
*
13396168 ATAAATTATCAATAACTTAGTG
1 ATAAATTATCAATAACTTAATG
* *
13396190 GTAAATTATCAATAATTTAATG
1 ATAAATTATCAATAACTTAATG
13396212 ATAAATTATTC-ATAACTTAAT
1 ATAAATTA-TCAATAACTTAAT
13396233 ATCAAATCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 35 0.95
23 2 0.05
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (22 bp):
ATAAATTATCAATAACTTAATG
Found at i:13396239 original size:22 final size:22
Alignment explanation
Indices: 13396168--13396248 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
13396158 TAATTTTATA
*
13396168 ATAAATTA-TCAATAACTTAGTG
1 ATAAATTATTC-ATAACTTAATG
* *
13396190 GTAAATTA-TCAATAATTTAATG
1 ATAAATTATTC-ATAACTTAATG
13396212 ATAAATTATTCATAACTTAAT-
1 ATAAATTATTCATAACTTAATG
*
13396233 ATCAAATCATTCATAA
1 AT-AAATTATTCATAA
13396249 TAGCAAATCA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
21 2 0.04
22 47 0.92
23 2 0.04
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (22 bp):
ATAAATTATTCATAACTTAATG
Found at i:13396255 original size:17 final size:17
Alignment explanation
Indices: 13396229--13396265 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
13396219 ATTCATAACT
*
13396229 TAATATCAAATCATTCA
1 TAATAGCAAATCATTCA
13396246 TAATAGCAAATCATTCA
1 TAATAGCAAATCATTCA
13396263 TAA
1 TAA
13396266 ATTAGTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.32
Consensus pattern (17 bp):
TAATAGCAAATCATTCA
Found at i:13396651 original size:22 final size:22
Alignment explanation
Indices: 13396624--13396911 Score: 119
Period size: 22 Copynumber: 13.0 Consensus size: 22
13396614 AGTTAATAAT
13396624 TGATAACTTAATAATAAATCAA
1 TGATAACTTAATAATAAATCAA
* * * *
13396646 TAATAACTTAATAGTAAATTAG
1 TGATAACTTAATAATAAATCAA
* *
13396668 TCATAACTTAATAGTAAATCAA
1 TGATAACTTAATAATAAATCAA
* * * *
13396690 TTATAATTTAAT-ATTAATTAA
1 TGATAACTTAATAATAAATCAA
* *
13396711 TTGATAAACTTAGTAGTAAATC-A
1 -TGAT-AACTTAATAATAAATCAA
*
13396734 TAAATAACTTAATAGCA-AAATCAA
1 T-GATAACTTAATA--ATAAATCAA
* * * * *
13396758 TGATAATTTATTAATTAATTAT
1 TGATAACTTAATAATAAATCAA
*
13396780 TGATAATTTAA-AAGTAAATCAA
1 TGATAACTTAATAA-TAAATCAA
* * *
13396802 T-ATAACTTAGTAGTAGTTAAT-GA
1 TGATAACTTA--A-TAATAAATCAA
* * * *
13396825 TCAATAACTTAATAGTTAATTAA
1 T-GATAACTTAATAATAAATCAA
*
13396848 TGATAACTTAA-AAGTAAAT-TA
1 TGATAACTTAATAA-TAAATCAA
* *
13396869 TGGATAATTTAAT-ATAAA-CTAG
1 T-GATAACTTAATAATAAATC-AA
*
13396891 TGATAACTTAATAATGAATCA
1 TGATAACTTAATAATAAATCA
13396912 TGGTTAATTT
Statistics
Matches: 198, Mismatches: 45, Indels: 46
0.69 0.16 0.16
Matches are distributed among these distances:
21 33 0.17
22 116 0.59
23 30 0.15
24 10 0.05
25 9 0.05
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.37
Consensus pattern (22 bp):
TGATAACTTAATAATAAATCAA
Found at i:13396654 original size:44 final size:44
Alignment explanation
Indices: 13396578--13396748 Score: 154
Period size: 44 Copynumber: 3.9 Consensus size: 44
13396568 ATTAGTAAAT
* * **
13396578 TAATT-ATAAGTTAATAA-AAAT-AAGTGATAACTTGGTAGTTAA
1 TAATTGATAACTTAATAATAAATCAA-TAATAACTTAATAGTTAA
*
13396620 TAATTGATAACTTAATAATAAATCAATAATAACTTAATAGTAAA
1 TAATTGATAACTTAATAATAAATCAATAATAACTTAATAGTTAA
* * * * * *
13396664 TTAGTCATAACTTAATAGTAAATCAATTATAATTTAATA-TTAA
1 TAATTGATAACTTAATAATAAATCAATAATAACTTAATAGTTAA
* *
13396707 TTAATTGATAAACTTAGTAGTAAATC-ATAAATAACTTAATAG
1 -TAATTGAT-AACTTAATAATAAATCAAT-AATAACTTAATAG
13396749 CAAAATCAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
42 5 0.05
43 14 0.13
44 58 0.56
45 27 0.26
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (44 bp):
TAATTGATAACTTAATAATAAATCAATAATAACTTAATAGTTAA
Found at i:13396658 original size:11 final size:11
Alignment explanation
Indices: 13396626--13396711 Score: 57
Period size: 11 Copynumber: 7.9 Consensus size: 11
13396616 TTAATAATTG
*
13396626 ATAACTTAATA
1 ATAAATTAATA
*
13396637 ATAAATCAATA
1 ATAAATTAATA
*
13396648 ATAACTTAATA
1 ATAAATTAATA
* * *
13396659 GTAAATTAGTC
1 ATAAATTAATA
*
13396670 ATAACTTAATA
1 ATAAATTAATA
* * *
13396681 GTAAATCAATT
1 ATAAATTAATA
*
13396692 ATAATTTAAT-
1 ATAAATTAATA
*
13396702 ATTAATTAAT
1 ATAAATTAAT
13396712 TGATAAACTT
Statistics
Matches: 54, Mismatches: 21, Indels: 1
0.71 0.28 0.01
Matches are distributed among these distances:
10 8 0.15
11 46 0.85
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.38
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:13396730 original size:67 final size:68
Alignment explanation
Indices: 13396624--13396810 Score: 188
Period size: 67 Copynumber: 2.8 Consensus size: 68
13396614 AGTTAATAAT
* * * * * * * *
13396624 TGATAACTTAATAATAAATCAATAAT-AACTTAATAGTAAATTAGT-CATAACTTAATAG-TAAA
1 TGATAATTTAATAATTAATTATTGATAAACTTAATAGTAAATCA-TAAATAACTTAATAGCAAAA
13396686 TCAA
65 TCAA
* *
13396690 TTATAATTTAAT-ATTAATTAATTGATAAACTTAGTAGTAAATCATAAATAACTTAATAGCAAAA
1 TGATAATTTAATAATTAATT-ATTGATAAACTTAATAGTAAATCATAAATAACTTAATAGCAAAA
13396754 TCAA
65 TCAA
* * * *
13396758 TGATAATTTATTAATTAATTATTGAT-AATTTAAAAGTAAATCA-ATATAACTTA
1 TGATAATTTAATAATTAATTATTGATAAACTTAATAGTAAATCATAAATAACTTA
13396811 GTAGTAGTTA
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
65 5 0.05
66 24 0.24
67 41 0.41
68 23 0.23
69 7 0.07
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (68 bp):
TGATAATTTAATAATTAATTATTGATAAACTTAATAGTAAATCATAAATAACTTAATAGCAAAAT
CAA
Found at i:13396834 original size:25 final size:26
Alignment explanation
Indices: 13396803--13396851 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
13396793 GTAAATCAAT
* *
13396803 ATAACTTAGTAG-TAGTTAATGATCA
1 ATAACTTAATAGTTAATTAATGATCA
13396828 ATAACTTAATAGTTAATTAATGAT
1 ATAACTTAATAGTTAATTAATGAT
13396852 AACTTAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (26 bp):
ATAACTTAATAGTTAATTAATGATCA
Found at i:13396920 original size:43 final size:44
Alignment explanation
Indices: 13396848--13396938 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 44
13396838 AGTTAATTAA
*
13396848 TGATAACTTAAAAGTAAATTATGGATAATTTAAT-ATAAA-CTAG
1 TGATAACTTAAAAGTAAATCATGGATAATTTAATAATAAATCT-G
* * *
13396891 TGATAACTTAATAA-TGAATCATGGTTAATTTTATAATAAATCTG
1 TGATAACTTAA-AAGTAAATCATGGATAATTTAATAATAAATCTG
13396935 TGAT
1 TGAT
13396939 GATTTGTAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 27 0.66
44 12 0.29
45 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.38
Consensus pattern (44 bp):
TGATAACTTAAAAGTAAATCATGGATAATTTAATAATAAATCTG
Found at i:13396990 original size:22 final size:22
Alignment explanation
Indices: 13396965--13397105 Score: 99
Period size: 22 Copynumber: 6.5 Consensus size: 22
13396955 TCAAAAATTG
*
13396965 AGTAGTAAATCAATGATAACAT
1 AGTAGTAAATCAATGATAACTT
* *
13396987 AGTAGTAAAT-ACATAATAACAT
1 AGTAGTAAATCA-ATGATAACTT
* * *
13397009 AATAGTAAATC-ATTATAATTT
1 AGTAGTAAATCAATGATAACTT
* * *
13397030 A-AATGTAAATTATTGATAACTT
1 AGTA-GTAAATCAATGATAACTT
* * * *
13397052 AGTAGTAACTTAATAATAATTT
1 AGTAGTAAATCAATGATAACTT
* * *
13397074 AGTTGTAAATAAATGATAATTT
1 AGTAGTAAATCAATGATAACTT
13397096 AGTAGTAAAT
1 AGTAGTAAAT
13397106 TAGTTAAACA
Statistics
Matches: 94, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.01
21 15 0.16
22 77 0.82
23 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (22 bp):
AGTAGTAAATCAATGATAACTT
Found at i:13397241 original size:22 final size:22
Alignment explanation
Indices: 13397110--13397281 Score: 104
Period size: 22 Copynumber: 7.9 Consensus size: 22
13397100 GTAAATTAGT
*
13397110 TAAA-CATTTATAACTTT-GTAG
1 TAAATCATTCATAA-TTTAGTAG
* * *
13397131 TAAATCATTGATAAATTAATAG
1 TAAATCATTCATAATTTAGTAG
*
13397153 TAAATCAGTT-ATAACTTTA-TAA
1 TAAATCA-TTCATAA-TTTAGTAG
* * *
13397175 CAAATCA-TCATTAACTTAGTAA
1 TAAATCATTCA-TAATTTAGTAG
* * * *
13397197 TAAATTA-TCAAGAATTCAATAG
1 TAAATCATTC-ATAATTTAGTAG
*
13397219 TAAATCATTCATAAGTTAGTAG
1 TAAATCATTCATAATTTAGTAG
* * **
13397241 TAAATTAATGTTAATTTAGTAG
1 TAAATCATTCATAATTTAGTAG
13397263 TAAATCATTCATAATTTAG
1 TAAATCATTCATAATTTAG
13397282 CAATATATCA
Statistics
Matches: 114, Mismatches: 28, Indels: 17
0.72 0.18 0.11
Matches are distributed among these distances:
20 1 0.01
21 10 0.09
22 95 0.83
23 8 0.07
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (22 bp):
TAAATCATTCATAATTTAGTAG
Found at i:13397291 original size:22 final size:22
Alignment explanation
Indices: 13397219--13397293 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
13397209 AATTCAATAG
* * *
13397219 TAAATCATTCATAAGTTAGTAG
1 TAAATCATTCATAATTTAGCAA
* * ** * *
13397241 TAAATTAATGTTAATTTAGTAG
1 TAAATCATTCATAATTTAGCAA
13397263 TAAATCATTCATAATTTAGCAA
1 TAAATCATTCATAATTTAGCAA
*
13397285 TATATCATT
1 TAAATCATT
13397294 AATAGCTTAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (22 bp):
TAAATCATTCATAATTTAGCAA
Found at i:13401187 original size:14 final size:14
Alignment explanation
Indices: 13401157--13401185 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13401147 TATTTAAATT
13401157 AATTATAAAAATAA
1 AATTATAAAAATAA
13401171 AATTA-AAAAATAA
1 AATTATAAAAATAA
13401184 AA
1 AA
13401186 ATGAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AATTATAAAAATAA
Found at i:13402335 original size:112 final size:112
Alignment explanation
Indices: 13402140--13402344 Score: 279
Period size: 112 Copynumber: 1.8 Consensus size: 112
13402130 AAAGCTTATT
* * ** **
13402140 TAATCAAAGTCATTGAAACTTTAAAATTTAAACATTCTGTGTGGAGGTCTTACGAATTGTTTGAG
1 TAATCAAAGTCATTGAAACTTTAAAATTTAAACATTCTGTCTGGAGGTCTTACAAATCATTCAAG
*** *
13402205 TCTTTGCTTGAAGGTCTTATAAATCTTGATATTTATGAAAACTCCTC
66 TCTTTGCCCAAAGCTCTTATAAATCTTGATATTTATGAAAACTCCTC
*
13402252 TAATCAAAGAT-ATTGAAACTTTAAAATTTAAACATTTTGTCTGGAGGTCTTACAAATCATTCAA
1 TAATCAAAG-TCATTGAAACTTTAAAATTTAAACATTCTGTCTGGAGGTCTTACAAATCATTCAA
13402316 GT-TTTAGCCCAAAGCTCTTATAAATCTTG
65 GTCTTT-GCCCAAAGCTCTTATAAATCTTG
13402345 CGGAGCTCTT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
111 3 0.04
112 76 0.95
113 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (112 bp):
TAATCAAAGTCATTGAAACTTTAAAATTTAAACATTCTGTCTGGAGGTCTTACAAATCATTCAAG
TCTTTGCCCAAAGCTCTTATAAATCTTGATATTTATGAAAACTCCTC
Found at i:13402467 original size:132 final size:132
Alignment explanation
Indices: 13402219--13402476 Score: 340
Period size: 132 Copynumber: 2.0 Consensus size: 132
13402209 TGCTTGAAGG
* * *
13402219 TCTTATAAATCTTGATATTTATGAAAACTCCTCTAATCAAAGATATTGAAACTTTAAAATTTAAA
1 TCTTATAAATCTTGACATTTATGAAAACTCATCTAATCAAAGAGATTGAAACTTTAAAATTTAAA
** **
13402284 CATTTTGTCTGGAGGTCTTACAAATCATTCAAGTTTTAGCCCAAAGCTCTTATAAATCTTGCGGA
66 CATTTACTCTAAAGGTCTTACAAATCATTCAAGTTTTAGCCCAAAGCTCTTATAAATCTTGCGGA
13402349 GC
131 GC
* * *
13402351 TCTTATAAATCTTGACATTTATGAAAACTCATCTAATCAGAGGGATTGAAACTTTATAATTTAAA
1 TCTTATAAATCTTGACATTTATGAAAACTCATCTAATCAAAGAGATTGAAACTTTAAAATTTAAA
** * * * *
13402416 CATTCTACTC-AAAGGTCTTATGAATCGTTCTAATTTTTATCCGAAAG-TCTTATAAATCTTG
66 CATT-TACTCTAAAGGTCTTACAAATCATTC-AAGTTTTAGCCCAAAGCTCTTATAAATCTTG
13402477 ACATTTACGA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
132 92 0.85
133 16 0.15
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (132 bp):
TCTTATAAATCTTGACATTTATGAAAACTCATCTAATCAAAGAGATTGAAACTTTAAAATTTAAA
CATTTACTCTAAAGGTCTTACAAATCATTCAAGTTTTAGCCCAAAGCTCTTATAAATCTTGCGGA
GC
Found at i:13402548 original size:112 final size:112
Alignment explanation
Indices: 13402351--13402664 Score: 371
Period size: 112 Copynumber: 2.8 Consensus size: 112
13402341 CTTGCGGAGC
* * *
13402351 TCTTATAAATCTTGACATTTATGAAAACTCATCTAATCAGAGGGATTGAAACTTTATAATTTAAA
1 TCTTATAAATCTTGACATTTATGAAAGCTCATCTAATCAGAGGCATTGAAACTTTAAAATTTAAA
* * * * * * * * *
13402416 CATTCTACTCAAAGGTCTTATGAATCGTTCTAATTTTTA-TCCGAAA
66 TATTTTGCTCGAAGGTCTTATGAATCATTCAAATATTCACTCAGAAA
* ** * *
13402462 GTCTTATAAATCTTGACATTTACGAAAGCTTTTCTAATCATAGGCATTGAAACTTTAAAATTAAA
1 -TCTTATAAATCTTGACATTTATGAAAGCTCATCTAATCAGAGGCATTGAAACTTTAAAATTTAA
* *
13402527 ATATTTTGC-CTGAAGGTCTTATAAATCATTCAAATATTCACTCAGAGA
65 ATATTTTGCTC-GAAGGTCTTATGAATCATTCAAATATTCACTCAGAAA
* * * *
13402575 TCTTATATATCTTAACATTTATGAAAGCTCCTCTAATCAGAGGTATTGAAACTTTAAAATTTAAA
1 TCTTATAAATCTTGACATTTATGAAAGCTCATCTAATCAGAGGCATTGAAACTTTAAAATTTAAA
* *
13402640 TATTTTGCTCGAAGTTCTTACGAAT
66 TATTTTGCTCGAAGGTCTTATGAAT
13402665 TGTTTGAGTT
Statistics
Matches: 169, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
111 1 0.01
112 162 0.96
113 6 0.04
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (112 bp):
TCTTATAAATCTTGACATTTATGAAAGCTCATCTAATCAGAGGCATTGAAACTTTAAAATTTAAA
TATTTTGCTCGAAGGTCTTATGAATCATTCAAATATTCACTCAGAAA
Found at i:13402736 original size:40 final size:40
Alignment explanation
Indices: 13402692--13402780 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
13402682 GTTGGTATCG
* *
13402692 GAAAATCATTTAAAAATATAAGATTTTACTTGGAGGCCTC
1 GAAAATCATTCAAAAATATAAGATTTTACTCGGAGGCCTC
* * * *
13402732 GAAAATCATTCAAAAATTTAAGATTTTTCTCGGAGGTCTT
1 GAAAATCATTCAAAAATATAAGATTTTACTCGGAGGCCTC
13402772 GAAAATCAT
1 GAAAATCAT
13402781 GTAGTCATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (40 bp):
GAAAATCATTCAAAAATATAAGATTTTACTCGGAGGCCTC
Found at i:13404351 original size:19 final size:19
Alignment explanation
Indices: 13404309--13404353 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
13404299 CATAATCATT
*
13404309 TTTTTTTCTTTTTTTCTAA
1 TTTTTTTCTCTTTTTCTAA
* *
13404328 ATTTTTTCTCTTTTTCTTA
1 TTTTTTTCTCTTTTTCTAA
13404347 TTTTTTT
1 TTTTTTT
13404354 TATTATTACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTCTCTTTTTCTAA
Found at i:13404752 original size:9 final size:9
Alignment explanation
Indices: 13404740--13404824 Score: 65
Period size: 9 Copynumber: 9.8 Consensus size: 9
13404730 TTCTTTCCCA
13404740 TTTTTTCAT
1 TTTTTTCAT
*
13404749 TTTTTTCCTT
1 TTTTTT-CAT
13404759 TTTTTTCAT
1 TTTTTTCAT
13404768 TTTTTTC--
1 TTTTTTCAT
*
13404775 --CTTTCAT
1 TTTTTTCAT
13404782 TTTTTTC-T
1 TTTTTTCAT
*
13404790 TTATTCTCAT
1 TT-TTTTCAT
13404800 TCTTTTTC-T
1 T-TTTTTCAT
*
13404809 TTTTCTCAT
1 TTTTTTCAT
13404818 TTTTTTC
1 TTTTTTC
13404825 TTACTTTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
5 4 0.07
8 8 0.14
9 32 0.54
10 14 0.24
11 1 0.02
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:13404763 original size:18 final size:17
Alignment explanation
Indices: 13404740--13404860 Score: 97
Period size: 19 Copynumber: 6.9 Consensus size: 17
13404730 TTCTTTCCCA
13404740 TTTTTTCATTTTTTTCCTT
1 TTTTTTCATTTTTTT-C-T
13404759 TTTTTTCATTTTTTTC-
1 TTTTTTCATTTTTTTCT
*
13404775 --CTTTCATTTTTTTCT
1 TTTTTTCATTTTTTTCT
*
13404790 TTATTCTCATTCTTTTTCT
1 TT-TTTTCATT-TTTTTCT
*
13404809 TTTTCTCATTTTTTTCT
1 TTTTTTCATTTTTTTCT
*
13404826 TACTTTT-ATTTTTTTTCT
1 T-TTTTTCA-TTTTTTTCT
*
13404844 TTTCTTTTACTTTTTTT
1 TTT-TTTCA-TTTTTTT
13404861 TTTCCTTTGA
Statistics
Matches: 86, Mismatches: 7, Indels: 18
0.77 0.06 0.16
Matches are distributed among these distances:
14 13 0.15
17 10 0.12
18 31 0.36
19 32 0.37
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTCATTTTTTTCT
Found at i:13404781 original size:14 final size:14
Alignment explanation
Indices: 13404762--13404788 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13404752 TTTCCTTTTT
13404762 TTTCATTTTTTTCC
1 TTTCATTTTTTTCC
13404776 TTTCATTTTTTTC
1 TTTCATTTTTTTC
13404789 TTTATTCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCATTTTTTTCC
Found at i:13404846 original size:35 final size:36
Alignment explanation
Indices: 13404740--13404826 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 36
13404730 TTCTTTCCCA
* *
13404740 TTTTT-TCATTTTTTTCCTTTTTTTTCATT-TTTTTC
1 TTTTTCTCATTTTTTT-CTTTATTCTCATTCTTTTTC
*
13404775 --CTT-TCATTTTTTTCTTTATTCTCATTCTTTTTC
1 TTTTTCTCATTTTTTTCTTTATTCTCATTCTTTTTC
13404808 TTTTTCTCATTTTTTTCTT
1 TTTTTCTCATTTTTTTCTT
13404827 ACTTTTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
32 11 0.25
33 18 0.41
35 2 0.05
36 13 0.30
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (36 bp):
TTTTTCTCATTTTTTTCTTTATTCTCATTCTTTTTC
Found at i:13404868 original size:18 final size:18
Alignment explanation
Indices: 13404817--13404868 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
13404807 CTTTTTCTCA
* *
13404817 TTTTTTTCTTACTTTTAT
1 TTTTTTTTTTACTTTTAC
*
13404835 TTTTTTTCTTTTCTTTTAC
1 TTTTTTT-TTTACTTTTAC
*
13404854 TTTTTTTTTTCCTTT
1 TTTTTTTTTTACTTT
13404869 GAAAACCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTTTTACTTTTAC
Found at i:13405304 original size:17 final size:18
Alignment explanation
Indices: 13405274--13405307 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13405264 TAATTAAATA
*
13405274 TTTTTTTCTTTTTTTCTT
1 TTTTTTTCTATTTTTCTT
13405292 TTTTTTTC-ATTTTTCT
1 TTTTTTTCTATTTTTCT
13405308 ATGCTTGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTTCTATTTTTCTT
Found at i:13410487 original size:20 final size:20
Alignment explanation
Indices: 13410459--13410497 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13410449 GAATTCAAGA
13410459 AAAACTTTTATTTTTGTTTG
1 AAAACTTTTATTTTTGTTTG
* *
13410479 AAAATTTTTGTTTTTGTTT
1 AAAACTTTTATTTTTGTTT
13410498 TCTTGGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
AAAACTTTTATTTTTGTTTG
Found at i:13411056 original size:13 final size:13
Alignment explanation
Indices: 13411040--13411074 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
13411030 CTAATGCATG
13411040 ATATGAATGTACC
1 ATATGAATGTACC
13411053 ATATGAATGTACC
1 ATATGAATGTACC
13411066 ATATGAATG
1 ATATGAATG
13411075 AGGGAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (13 bp):
ATATGAATGTACC
Found at i:13414712 original size:14 final size:14
Alignment explanation
Indices: 13414693--13414722 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13414683 GTCTAAAAAT
13414693 AAAAATAAAAATAA
1 AAAAATAAAAATAA
*
13414707 AAAAATAAGAATAA
1 AAAAATAAAAATAA
13414721 AA
1 AA
13414723 TTGGGCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:13415033 original size:21 final size:21
Alignment explanation
Indices: 13414995--13415040 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
13414985 AAATAATTAT
* * *
13414995 CAAAATTATTTTATAAGTTAA
1 CAAAATTATATGAAAAGTTAA
*
13415016 CAAAATTATATGAAAAGTTAT
1 CAAAATTATATGAAAAGTTAA
13415037 CAAA
1 CAAA
13415041 TTTTACTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (21 bp):
CAAAATTATATGAAAAGTTAA
Found at i:13421131 original size:3 final size:3
Alignment explanation
Indices: 13421118--13421147 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
13421108 CTCAAAAATG
13421118 ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13421148 CAAATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:13427279 original size:17 final size:17
Alignment explanation
Indices: 13427257--13427293 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
13427247 TTCTGCACCT
13427257 ATTGACCATCAAGAAAA
1 ATTGACCATCAAGAAAA
*
13427274 ATTGACCATCAAGAGAA
1 ATTGACCATCAAGAAAA
13427291 ATT
1 ATT
13427294 TAGGATCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.22
Consensus pattern (17 bp):
ATTGACCATCAAGAAAA
Found at i:13434459 original size:19 final size:19
Alignment explanation
Indices: 13434435--13434478 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
13434425 AATTCCTTTT
13434435 AATATTGCTAGAGTATTGG
1 AATATTGCTAGAGTATTGG
13434454 AATATTGCTAGAGTATTGG
1 AATATTGCTAGAGTATTGG
13434473 AATATT
1 AATATT
13434479 TTAATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (19 bp):
AATATTGCTAGAGTATTGG
Found at i:13435709 original size:133 final size:132
Alignment explanation
Indices: 13435452--13435699 Score: 360
Period size: 132 Copynumber: 1.9 Consensus size: 132
13435442 ATATATTTAG
* * * *
13435452 ATATATTTTGAATAATTAATATGATTTAATGATTTAGTTTGAAAGTTTTTTATTATTGATTATTT
1 ATATATTTTAAATAATTAATATAATTTAATAATTTAATTTGAAAGTTTTTTATTATTGATTATTT
* * *
13435517 TGAATAGTATATAATTGGATTTAGATATATCTTGATTAAAAGAAGAATTTAAATATAAATCAACA
66 TGAATAATATATAATTGGATGTAGATATATCTTGA-TAAAACAAGAATTTAAATATAAATCAACA
13435582 TTT
130 TTT
* *
13435585 ATATATTTTAAATATTTAATTTAATTTAATAATTTAATTTGAAAG-TTTTTATTATTGATTATTT
1 ATATATTTTAAATAATTAATATAATTTAATAATTTAATTTGAAAGTTTTTTATTATTGATTATTT
*
13435649 TGAATAATATATAATTGGATGTAGAT-TAT-TTGA-AAAACAATGGATTTAAAT
66 TGAATAATATATAATTGGATGTAGATATATCTTGATAAAACAA-GAATTTAAAT
13435700 TCAAATAAAT
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
128 6 0.06
129 9 0.09
130 4 0.04
131 3 0.03
132 43 0.41
133 39 0.38
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (132 bp):
ATATATTTTAAATAATTAATATAATTTAATAATTTAATTTGAAAGTTTTTTATTATTGATTATTT
TGAATAATATATAATTGGATGTAGATATATCTTGATAAAACAAGAATTTAAATATAAATCAACAT
TT
Found at i:13435805 original size:26 final size:25
Alignment explanation
Indices: 13435776--13435824 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
13435766 TAAGCTTATT
13435776 AAATTATATTTGAAAA-TAAATTATAA
1 AAATTAT-TTTGAAAAGT-AATTATAA
*
13435802 AAATTATTTTTAAAAGTAATTAT
1 AAATTATTTTGAAAAGTAATTAT
13435825 CCTTCATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
AAATTATTTTGAAAAGTAATTATAA
Found at i:13436776 original size:26 final size:26
Alignment explanation
Indices: 13436719--13436769 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
13436709 AAATTTATGT
13436719 TATAA-TTTACTATTTATTTTAAATA
1 TATAATTTTACTATTTATTTTAAATA
13436744 TATAATTTTATCTATTTATTTTAAAT
1 TATAATTTTA-CTATTTATTTTAAAT
13436770 CTAAATTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 5 0.21
26 4 0.17
27 15 0.62
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (26 bp):
TATAATTTTACTATTTATTTTAAATA
Found at i:13437346 original size:23 final size:25
Alignment explanation
Indices: 13437312--13437370 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
13437302 TTCAAAATTA
13437312 ATAAAA-AATATTTTTAA-A-AAAT
1 ATAAAATAATATTTTTAATATAAAT
*
13437334 ATAAAATATTATTTTTAATATAAAT
1 ATAAAATAATATTTTTAATATAAAT
*
13437359 ATAAAATTATAT
1 ATAAAATAATAT
13437371 AAATATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.19
23 10 0.32
24 1 0.03
25 14 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAAAATAATATTTTTAATATAAAT
Found at i:13437377 original size:8 final size:8
Alignment explanation
Indices: 13437351--13437432 Score: 55
Period size: 8 Copynumber: 10.1 Consensus size: 8
13437341 ATTATTTTTA
13437351 ATATAAAT
1 ATATAAAT
13437359 ATA-AAATT
1 ATATAAA-T
13437367 ATATAAAT
1 ATATAAAT
13437375 ATATAAAT
1 ATATAAAT
*
13437383 A-AAAAAT
1 ATATAAAT
13437390 -TAATTAAA-
1 AT-A-TAAAT
*
13437398 AAATAATAT
1 ATATAA-AT
*
13437407 ATATATAT
1 ATATAAAT
*
13437415 ATATATAT
1 ATATAAAT
13437423 ATATGAAAT
1 ATAT-AAAT
13437432 A
1 A
13437433 AACTCAATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
7 11 0.19
8 34 0.58
9 14 0.24
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (8 bp):
ATATAAAT
Found at i:13437403 original size:23 final size:23
Alignment explanation
Indices: 13437297--13437403 Score: 60
Period size: 24 Copynumber: 4.7 Consensus size: 23
13437287 TATAAGTTGT
* *
13437297 ATTAATT-CAAAATTAATAAAAA
1 ATTAATTAAAAAATAAATAAAAA
** *
13437319 ATATTTTTAAAAAAT--ATAAAAT
1 AT-TAATTAAAAAATAAATAAAAA
* ** * *
13437341 ATTATTTTTAATATAAATATAAA
1 ATTAATTAAAAAATAAATAAAAA
*
13437364 ATT-ATATAAATATATAAATAAAAA
1 ATTAAT-TAAA-AAATAAATAAAAA
13437388 ATTAATTAAAAAATAA
1 ATTAATTAAAAAATAA
13437404 TATATATATA
Statistics
Matches: 63, Mismatches: 15, Indels: 13
0.69 0.16 0.14
Matches are distributed among these distances:
21 8 0.13
22 11 0.17
23 18 0.29
24 24 0.38
25 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTAATTAAAAAATAAATAAAAA
Found at i:13440034 original size:23 final size:23
Alignment explanation
Indices: 13439983--13440035 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
13439973 GAATGATTTT
13439983 TTAT-TTTTTTAATATTTAAAAC
1 TTATATTTTTTAATATTTAAAAC
13440005 TCT-TATTTTTTAATATTCTAAAA-
1 T-TATATTTTTTAATATT-TAAAAC
13440028 TTATATTT
1 TTATATTT
13440036 AATGATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 3 0.11
23 19 0.70
24 5 0.19
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATATTTTTTAATATTTAAAAC
Found at i:13440098 original size:26 final size:29
Alignment explanation
Indices: 13440051--13440106 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 29
13440041 TTTTTTTATT
13440051 TTTTGATATAAAAAATCATAAAACTTTAA
1 TTTTGATATAAAAAATCATAAAACTTTAA
* *
13440080 TTTT-ATA-AAAAAAT-TTAAAATTTTAA
1 TTTTGATATAAAAAATCATAAAACTTTAA
13440106 T
1 T
13440107 ATTAAATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.44
27 7 0.28
28 3 0.12
29 4 0.16
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (29 bp):
TTTTGATATAAAAAATCATAAAACTTTAA
Found at i:13447535 original size:26 final size:25
Alignment explanation
Indices: 13447502--13447550 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
13447492 GATTTGTATA
13447502 CGATGGATTCTTATTTGTTTTGATC
1 CGATGGATTCTTATTTGTTTTGATC
* * *
13447527 CGATAGGATTTTTTTTTTTTTTGA
1 CGAT-GGATTCTTATTTGTTTTGA
13447551 AAATAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.16, C:0.08, G:0.18, T:0.57
Consensus pattern (25 bp):
CGATGGATTCTTATTTGTTTTGATC
Found at i:13447769 original size:43 final size:41
Alignment explanation
Indices: 13447678--13447782 Score: 101
Period size: 41 Copynumber: 2.5 Consensus size: 41
13447668 TTATTTATAC
* * *
13447678 TATATTAATAAAATTATTATTTAATATATTAATTCAAGAGAT
1 TATATTAATAAAA-TATTATTTAATATATTAATTAAAAAAAT
*
13447720 TA-ATTAATAAAATATTATATTTATATA-TAATTAAAAATAATT
1 TATATTAATAAAATATTAT-TTAATATATTAATTAAAAA-AA-T
13447762 TATATTAA-AATAATATT-TTTA
1 TATATTAATAA-AATATTATTTA
13447783 TAAATTTATA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
40 14 0.26
41 20 0.38
42 8 0.15
43 11 0.21
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (41 bp):
TATATTAATAAAATATTATTTAATATATTAATTAAAAAAAT
Found at i:13447774 original size:25 final size:27
Alignment explanation
Indices: 13447720--13447775 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
13447710 TTCAAGAGAT
* *
13447720 TAATTAATAAAATATTATATTTATATA
1 TAATTAAAAAAATATTATATTTATAAA
13447747 TAATTAAAAATAAT-TTATA-TTA-AAA
1 TAATTAAAAA-AATATTATATTTATAAA
13447772 TAAT
1 TAAT
13447776 ATTTTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 6 0.23
26 3 0.12
27 14 0.54
28 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TAATTAAAAAAATATTATATTTATAAA
Found at i:13456772 original size:21 final size:21
Alignment explanation
Indices: 13456731--13456772 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13456721 TTTCATATGG
* *
13456731 CAACCCATAGCTTTTCTTTTC
1 CAACCCATAGCTTCTCCTTTC
*
13456752 CAACCCTTAGCTTCTCCTTTC
1 CAACCCATAGCTTCTCCTTTC
13456773 AACTCTCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.38, G:0.05, T:0.40
Consensus pattern (21 bp):
CAACCCATAGCTTCTCCTTTC
Found at i:13456799 original size:41 final size:43
Alignment explanation
Indices: 13456741--13456840 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 43
13456731 CAACCCATAG
*
13456741 CTTTTCTTTTCCAACCCTTAGCTTCT-CCTTTCA-ACTCTCAAT
1 CTTTTCTTTT-CAACCCTTAACTTCTACCTTTCATACTCTCAAT
* **
13456783 -TTTTCATTTTCAACCCTTAACTTCTATCTTTCATACTCTCTTT
1 CTTTTC-TTTTCAACCCTTAACTTCTACCTTTCATACTCTCAAT
13456826 CTTTTCCTTTTCAAC
1 CTTTT-CTTTTCAAC
13456841 ACCCAAGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
41 19 0.39
42 10 0.20
43 7 0.14
44 12 0.24
45 1 0.02
ACGTcount: A:0.17, C:0.32, G:0.01, T:0.50
Consensus pattern (43 bp):
CTTTTCTTTTCAACCCTTAACTTCTACCTTTCATACTCTCAAT
Found at i:13459020 original size:48 final size:48
Alignment explanation
Indices: 13458959--13459056 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
13458949 TTTCATAATA
* *
13458959 AATTAAAATAAAAACTCCTCTCA-TCAGAAACTCTACAACTTTAAAAAT
1 AATTAAAACAAAAACTACTCTCACT-AGAAACTCTACAACTTTAAAAAT
* * * *
13459007 AATTGAAACAAAAACTACTCTTACTAGAAGCTTTACAACTTTAAAAAT
1 AATTAAAACAAAAACTACTCTCACTAGAAACTCTACAACTTTAAAAAT
13459055 AA
1 AA
13459057 ATTTAAATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 42 0.98
49 1 0.02
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.28
Consensus pattern (48 bp):
AATTAAAACAAAAACTACTCTCACTAGAAACTCTACAACTTTAAAAAT
Found at i:13465043 original size:23 final size:21
Alignment explanation
Indices: 13465013--13465060 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
13465003 TTCTTTAGTG
13465013 ATTT-AGTTTGAATGGTATGTGA
1 ATTTGAGTTTGAATGG-AT-TGA
* *
13465035 ATTTGAGTTTTATTGGATTGA
1 ATTTGAGTTTGAATGGATTGA
13465056 ATTTG
1 ATTTG
13465061 TAGCTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 6 0.26
23 9 0.39
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (21 bp):
ATTTGAGTTTGAATGGATTGA
Found at i:13469731 original size:3 final size:3
Alignment explanation
Indices: 13469725--13469755 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13469715 GATGATAATG
13469725 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13469756 CAAATGATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13469810 original size:75 final size:75
Alignment explanation
Indices: 13469680--13469830 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
13469670 AATAAAATGA
* *
13469680 ACAAATGACGTAATTGAAAGTGAAATGCAAATGATGATGATAATGATTATTATTATTATTATTAT
1 ACAAATGACGTAATTGAAAGTGAAATGCAAATGATGATGATAATGATAATGATTATTATTATTAT
13469745 TATTATTATT
66 TATTATTATT
* *
13469755 ACAAATGATGTAATTGAAAGTGAAATGCAAATGATGATGATGATGATAATGATTATTATTATTAT
1 ACAAATGACGTAATTGAAAGTGAAATGCAAATGATGATGATAATGATAATGATTATTATTATTAT
13469820 TATTATTATT
66 TATTATTATT
13469830 A
1 A
13469831 TTCAAAGAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (75 bp):
ACAAATGACGTAATTGAAAGTGAAATGCAAATGATGATGATAATGATAATGATTATTATTATTAT
TATTATTATT
Found at i:13469812 original size:3 final size:3
Alignment explanation
Indices: 13469806--13469832 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13469796 GATGATAATG
13469806 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
13469833 CAAAGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13471839 original size:20 final size:20
Alignment explanation
Indices: 13471796--13471858 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
13471786 TTAATAAAAT
**
13471796 ATTTTTTAATATAAA-ATTTT
1 ATTTTTTAATATAAATA-TAA
13471816 ATTTTTTAATATAAATATAA
1 ATTTTTTAATATAAATATAA
* * *
13471836 ATTTATATAAAATATATATAA
1 ATTT-TTTAATATAAATATAA
13471857 AT
1 AT
13471859 AAAAAATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 20 0.56
21 16 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTTTAATATAAATATAA
Found at i:13474284 original size:18 final size:18
Alignment explanation
Indices: 13474261--13474302 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
13474251 TCTCTCATTT
*
13474261 TTTATTATTTA-TTCTTAA
1 TTTATTAATTACTTCTT-A
13474279 TTTATTAATTACTTCTTA
1 TTTATTAATTACTTCTTA
13474297 TTTATT
1 TTTATT
13474303 TTTTTATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTAATTACTTCTTA
Found at i:13474509 original size:20 final size:21
Alignment explanation
Indices: 13474486--13474525 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13474476 TATTTTGGTA
*
13474486 TTATTATT-AAGTTTATTTTT
1 TTATTATTAAAGTTCATTTTT
*
13474506 TTATTTTTAAAGTTCATTTT
1 TTATTATTAAAGTTCATTTT
13474526 AAAAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (21 bp):
TTATTATTAAAGTTCATTTTT
Found at i:13475706 original size:23 final size:23
Alignment explanation
Indices: 13475675--13475728 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
13475665 ACCGGTCTTC
13475675 ATTTTTTTTTT-TT-TGTTTTAT
1 ATTTTTTTTTTATTGTGTTTTAT
* *
13475696 TTTTTTTTTTTATTGTGTTTTGT
1 ATTTTTTTTTTATTGTGTTTTAT
13475719 ATTTTTTTTT
1 ATTTTTTTTT
13475729 AATTTTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.36
22 2 0.07
23 16 0.57
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (23 bp):
ATTTTTTTTTTATTGTGTTTTAT
Found at i:13475729 original size:22 final size:23
Alignment explanation
Indices: 13475675--13475729 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
13475665 ACCGGTCTTC
* *
13475675 ATTTTTTTTT-TTTTGTTTTATT
1 ATTTTTTTTTATTGTGTTTTAGT
*
13475697 TTTTTTTTTTATTGTGTTTT-GT
1 ATTTTTTTTTATTGTGTTTTAGT
13475719 ATTTTTTTTTA
1 ATTTTTTTTTA
13475730 ATTTTGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (23 bp):
ATTTTTTTTTATTGTGTTTTAGT
Found at i:13475746 original size:3 final size:3
Alignment explanation
Indices: 13475740--13475783 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
13475730 ATTTTGTATT
* *
13475740 TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA CAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13475784 TTATTATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:13475788 original size:3 final size:3
Alignment explanation
Indices: 13475782--13475812 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
13475772 ATAATAATAA
*
13475782 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13475813 GCAGGACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13476090 original size:48 final size:49
Alignment explanation
Indices: 13476053--13476369 Score: 417
Period size: 48 Copynumber: 6.5 Consensus size: 49
13476043 GTATAGGTTG
* *
13476053 AACAACTTTAAAAAT-TCATATTGAAAAAGCTCATCTCAGCAGAGGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
* * *
13476101 AACAACTTT-AAAATCTCATCTTGGAAAAGTTCCTTTCAGCAGAGGCACATTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGG--C--TC
* ** *
13476153 AACAACTTTAAAAATCTTATCTTGAAAAAGCTTATCTCAGCAGAAGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
* * *
13476202 AACAAC-TTAAAAATCTCATATTGGAAAAGCTCCTCTCAGTAGAGGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
* *
13476250 AACAACTTTAAAAATCTCATCTTGGAAAAGCTCCTCTTAGCAGAGGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
* **
13476299 AACAACTTT-AAAATTTCATCTTGAAAAAGCTCCTCTCAATAGAGGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
13476347 AACAACTTTAAAAATCTCATCTT
1 AACAACTTTAAAAATCTCATCTT
13476370 TTCTCAAAAC
Statistics
Matches: 233, Mismatches: 28, Indels: 15
0.84 0.10 0.05
Matches are distributed among these distances:
47 5 0.02
48 118 0.51
49 68 0.29
50 1 0.00
51 1 0.00
52 11 0.05
53 29 0.12
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (49 bp):
AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
Found at i:13476299 original size:97 final size:97
Alignment explanation
Indices: 13476037--13476369 Score: 461
Period size: 97 Copynumber: 3.4 Consensus size: 97
13476027 AAAAAAACTT
* * * *
13476037 CTCTCAGTATAGGTTGAACAACTTTAAAAAT-TCATATTGAAAAAGCTCATCTCAGCAGAGGCTC
1 CTCTCAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTC
*
13476101 AACAACTTTAAAATCTCATCTTGGAAAAGTTC
66 AACAACTTTAAAATCTCATCTTGGAAAAGCTC
* * * * *
13476133 CTTTCAGCAGAGGCACATTCAACAACTTTAAAAATCTTATCTTGAAAAAGCTTATCTCAGCAGAA
1 CTCTCAGTAGAGG--C--TCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAGCAGAG
* *
13476198 GCTCAACAACTTAAAAATCTCATATTGGAAAAGCTC
62 GCTCAACAACTTTAAAATCTCATCTTGGAAAAGCTC
* * *
13476234 CTCTCAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTGGAAAAGCTCCTCTTAGCAGAGGCTC
1 CTCTCAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTC
* *
13476299 AACAACTTTAAAATTTCATCTTGAAAAAGCTC
66 AACAACTTTAAAATCTCATCTTGGAAAAGCTC
*
13476331 CTCTCAATAGAGGCTCAACAACTTTAAAAATCTCATCTT
1 CTCTCAGTAGAGGCTCAACAACTTTAAAAATCTCATCTT
13476370 TTCTCAAAAC
Statistics
Matches: 207, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
96 10 0.05
97 111 0.54
99 1 0.00
100 16 0.08
101 69 0.33
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.28
Consensus pattern (97 bp):
CTCTCAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTC
AACAACTTTAAAATCTCATCTTGGAAAAGCTC
Found at i:13488177 original size:9 final size:9
Alignment explanation
Indices: 13488163--13488215 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
13488153 GATGCACACA
13488163 TTTTATTTT
1 TTTTATTTT
13488172 TTTTATTTT
1 TTTTATTTT
13488181 TTTTATTTT
1 TTTTATTTT
* *
13488190 ATTAATTTT
1 TTTTATTTT
* *
13488199 TATTATTAT
1 TTTTATTTT
*
13488208 TCTTATTT
1 TTTTATTT
13488216 AAAAGAAATG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTATTTT
Found at i:13488412 original size:18 final size:18
Alignment explanation
Indices: 13488389--13488434 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
13488379 TCTCTCATTT
13488389 TTTATTATTTA-TTCTTAA
1 TTTATTATTTAGTTCTT-A
*
13488407 TTTATTAATTAGTTCTTA
1 TTTATTATTTAGTTCTTA
13488425 TTTATTATTT
1 TTTATTATTT
13488435 TTTTATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTATTATTTAGTTCTTA
Found at i:13488642 original size:19 final size:20
Alignment explanation
Indices: 13488614--13488652 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13488604 TATTTTGGTA
*
13488614 TTATTATT-AAGTTTATTTT
1 TTATTATTAAAGTTCATTTT
*
13488633 TTATTTTTAAAGTTCATTTT
1 TTATTATTAAAGTTCATTTT
13488653 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TTATTATTAAAGTTCATTTT
Found at i:13491704 original size:21 final size:22
Alignment explanation
Indices: 13491666--13491718 Score: 81
Period size: 21 Copynumber: 2.4 Consensus size: 22
13491656 CTTGAAATTA
*
13491666 ATAAAGTATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
13491688 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
13491709 ATAAATATAT
1 ATAAA-ATAT
13491719 AATTATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:13503935 original size:2 final size:2
Alignment explanation
Indices: 13503928--13503953 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13503918 TCATAGTTGA
13503928 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13503954 GCATATCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13504437 original size:3 final size:3
Alignment explanation
Indices: 13504429--13504477 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
13504419 CTATGACACT
13504429 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13504477 A
1 A
13504478 AGCTTAGCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13504819 original size:22 final size:22
Alignment explanation
Indices: 13504794--13504849 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
13504784 TTAATTGAAC
13504794 AAAAATAATTATTAATTTTTTT
1 AAAAATAATTATTAATTTTTTT
13504816 AAAAATAATTATTAATTTTTTT
1 AAAAATAATTATTAATTTTTTT
*
13504838 AAAAAAAATTAT
1 AAAAATAATTAT
13504850 ACTCTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAAATAATTATTAATTTTTTT
Found at i:13505173 original size:8 final size:8
Alignment explanation
Indices: 13505142--13505192 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
13505132 CATGAGTTTG
13505142 ATTATTTA
1 ATTATTTA
13505150 ATTATATT-
1 ATTAT-TTA
*
13505158 -TTAATTA
1 ATTATTTA
13505165 ATTATTTA
1 ATTATTTA
13505173 ATTATTTA
1 ATTATTTA
*
13505181 ATAATTATA
1 ATTATT-TA
13505190 ATT
1 ATT
13505193 TAATTATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
6 2 0.06
7 3 0.09
8 24 0.69
9 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTATTTA
Found at i:13505201 original size:11 final size:11
Alignment explanation
Indices: 13505145--13505201 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
13505135 GAGTTTGATT
13505145 ATTTAATTATA
1 ATTTAATTATA
* *
13505156 TTTTAATTAATT
1 ATTTAATT-ATA
13505168 ATTTAATTAT-
1 ATTTAATTATA
13505178 -TTAATAATTATA
1 ATT--TAATTATA
13505190 ATTTAATTATA
1 ATTTAATTATA
13505201 A
1 A
13505202 AACAATAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
9 2 0.05
11 25 0.66
12 9 0.24
13 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTAATTATA
Found at i:13508205 original size:16 final size:17
Alignment explanation
Indices: 13508184--13508218 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
13508174 AATTTTAAAA
*
13508184 TATTATTATAA-TATTT
1 TATTATAATAATTATTT
13508200 TATTATAATAATTATTT
1 TATTATAATAATTATTT
13508217 TA
1 TA
13508219 ATAATTAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTATAATAATTATTT
Found at i:13508220 original size:12 final size:12
Alignment explanation
Indices: 13508173--13508225 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
13508163 TTATTTAAAT
*
13508173 TAATT-TTAAAA
1 TAATTATTATAA
13508184 T-ATTATTATAA
1 TAATTATTATAA
*
13508195 TATTTTATTATAA
1 TA-ATTATTATAA
*
13508208 TAATTATTTTAA
1 TAATTATTATAA
13508220 TAATTA
1 TAATTA
13508226 ACGTCTAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 3 0.09
11 7 0.20
12 14 0.40
13 11 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TAATTATTATAA
Found at i:13509348 original size:6 final size:6
Alignment explanation
Indices: 13509337--13509365 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13509327 GGCAAAAATA
13509337 TTTATT TTTATT TTTATT TTTATT TTTAT
1 TTTATT TTTATT TTTATT TTTATT TTTAT
13509366 AATACTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:13512921 original size:24 final size:25
Alignment explanation
Indices: 13512884--13512932 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
13512874 TAATTTGATC
13512884 AATCTAAAAAATC-AATTATAATTAA
1 AATCTAAAAAATCAAATTA-AATTAA
*
13512909 AATC-AAACAATCAAATTAAATTAA
1 AATCTAAAAAATCAAATTAAATTAA
13512933 CTGAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (25 bp):
AATCTAAAAAATCAAATTAAATTAA
Found at i:13515559 original size:22 final size:22
Alignment explanation
Indices: 13515521--13515562 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13515511 TAACAAGTAA
*
13515521 GTATATATGTGATTATATTCGT
1 GTATATATATGATTATATTCGT
13515543 GTATATATAT-ATATATATTC
1 GTATATATATGAT-TATATTC
13515563 AATAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (22 bp):
GTATATATATGATTATATTCGT
Found at i:13515759 original size:2 final size:2
Alignment explanation
Indices: 13515754--13515782 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13515744 TATGTTCATG
13515754 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13515783 GTATCTTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13523180 original size:59 final size:57
Alignment explanation
Indices: 13523111--13523499 Score: 385
Period size: 59 Copynumber: 6.7 Consensus size: 57
13523101 TTTTGTACAG
* * *
13523111 GAAAAATTGATACTTTCAACTTCTCCCCAAAATATTTTTTTAGAAAACTTTAATTTCGAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTT-GAAAA-TTT-ATTTCTAA
* * *
13523171 -AAAAATTGATACTTTTAACTTTTCTCCAAAAATATTTTTTTGAAAACTTTAATTTCGAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA-ATTTTTTTGAAAA-TTT-ATTTCTAA
* ** *
13523230 G-AAAATTGATACTTTCAACTTTTCCTC-AAAGCTTTTTTT-AAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTTGAAAATTTATTTCTAA
* * * * * *
13523284 GGAAATTTGATACTTTCAACTTTTTCTCAAAAAAAATTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAAC-TTTTCCCCAAAAAATTTTTTTGAAAATTTATTTCTAA
* * * *
13523342 GAAAAAATGATACTTTTAACTTTTCGCC-AAAAATATTTTGTGAAAACTTTAATTTCTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAAAT-TTTTTTGAAAA-TTT-ATTTCTAA
* * * *
13523401 G-AAAGTTCATACTTTCAACTTTTCCTCATAAAAACTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCA-AAAAA-TTTTTTTGAAAATTTATTTCTAA
* * *
13523459 GAAAAATTAATATTTTCAACTTTTCTCCAAAAAATTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTT
13523500 TACGGTTCCT
Statistics
Matches: 276, Mismatches: 40, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
54 7 0.03
55 20 0.07
56 14 0.05
57 39 0.14
58 70 0.25
59 102 0.37
60 23 0.08
61 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.44
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTTGAAAATTTATTTCTAA
Found at i:13526532 original size:44 final size:45
Alignment explanation
Indices: 13526440--13526560 Score: 181
Period size: 44 Copynumber: 2.7 Consensus size: 45
13526430 GTTCAATGAC
* * * * *
13526440 AGAGACTCAACAACTTTAAAAAAATAAACAAAGGCTCCTTTAAGT
1 AGAGGCTCAACAACTTTGAAAAAATAAATAAAGGCTCCTCTAAAT
*
13526485 AGAGGCTCAATAACTTTGAAAAAATAAATAAA-GCTCCTCTAAAT
1 AGAGGCTCAACAACTTTGAAAAAATAAATAAAGGCTCCTCTAAAT
13526529 AGAGGCTCAACAACTTTGAAAAAATAAATAAA
1 AGAGGCTCAACAACTTTGAAAAAATAAATAAA
13526561 TTCTCTAAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 41 0.59
45 28 0.41
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (45 bp):
AGAGGCTCAACAACTTTGAAAAAATAAATAAAGGCTCCTCTAAAT
Found at i:13526646 original size:41 final size:41
Alignment explanation
Indices: 13526517--13526854 Score: 311
Period size: 42 Copynumber: 8.1 Consensus size: 41
13526507 AATAAATAAA
* * * * *
13526517 GCTCCTCTAAATAGAGGCTCAACAACTTTGAAAAAATAAATA
1 GCTCCTCTAAACAGAGGCACCACAACTTTG-AAAAGTAAATT
** * * ** ** * *
13526559 AATTCTCTAAGCAGAAACACCATGAC-TTCAAAAATAAA-T
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
*
13526598 GCTCCTCTAAACAGAGGCACCACAATTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
**
13526639 GCTCCTCTAAACAGAGGCACCGTAACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAAC-TTTGAAAAGTAAATT
* * *
13526681 GCTCCTCTAAATAGAGGTAACCATAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-CACCACAACTTTGAAAAGTAAATT
* ** *
13526723 GCTCCTCTAAACAGAAGCACTTCAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
* *
13526764 GCTCCTCTAAACAGAGGCATTTCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--CCACAACTTTGAAAAGTAAATT
* * * * *
13526807 GCTTCTCTAAATAGAGGTAACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGG-CACCACAACTTTGAAAAGTAAATT
*
13526849 ACTCCT
1 GCTCCT
13526855 TAACAATTAT
Statistics
Matches: 239, Mismatches: 50, Indels: 14
0.79 0.17 0.05
Matches are distributed among these distances:
39 17 0.07
40 19 0.08
41 63 0.26
42 100 0.42
43 39 0.16
44 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
Found at i:13528687 original size:20 final size:18
Alignment explanation
Indices: 13528664--13528753 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 18
13528654 TCAATTTGAA
13528664 TCTCTTTTTTTTTTTCATTT
1 TCTCTTTTTTTTTTT--TTT
13528684 TCTCTTTTTTTTTCTTTCTT
1 TCTCTTTTTTTTT-TTT-TT
*
13528704 TCTTTTTTTTTTATTTTTTTT
1 TC--TCTTTTTT-TTTTTTTT
*
13528725 TCATCTTCTTTTTTTTTTT
1 TC-TCTTTTTTTTTTTTTT
13528744 TCTCATTTTT
1 TCTC-TTTTT
13528754 AATCCATTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.03
19 15 0.25
20 23 0.39
21 6 0.10
22 10 0.17
23 3 0.05
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.81
Consensus pattern (18 bp):
TCTCTTTTTTTTTTTTTT
Found at i:13528691 original size:18 final size:18
Alignment explanation
Indices: 13528670--13528720 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
13528660 TGAATCTCTT
13528670 TTTTTTTTTCATTTTCTC
1 TTTTTTTTTCATTTTCTC
*
13528688 TTTTTTTTTC-TTTCTTTC
1 TTTTTTTTTCATTT-TCTC
*
13528706 TTTTTTTTTTATTTT
1 TTTTTTTTTCATTTT
13528721 TTTTTCATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.10
18 23 0.79
19 3 0.10
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTCATTTTCTC
Found at i:13528693 original size:16 final size:14
Alignment explanation
Indices: 13528681--13528753 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 14
13528671 TTTTTTTTCA
13528681 TTTTCTCTTTTTTT
1 TTTTCTCTTTTTTT
13528695 TTCTT-TCTTTCTTTT
1 TT-TTCTCTTT-TTTT
* *
13528710 TTTTTTATTTTTTT
1 TTTTCTCTTTTTTT
*
13528724 TTCATCTTCTTTTTTTT
1 TT-TTC-TC-TTTTTTT
13528741 TTTTCTCATTTTT
1 TTTTCTC-TTTTT
13528754 AATCCATTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
14 15 0.32
15 20 0.43
16 3 0.06
17 9 0.19
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTCTCTTTTTTT
Found at i:13528720 original size:27 final size:27
Alignment explanation
Indices: 13528688--13528742 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
13528678 TCATTTTCTC
*
13528688 TTTTTTTTTCTTTCTTTCTTTTTTTTTTA
1 TTTTTTTTTC-ATC-TTCTTTTTTTTTTA
13528717 TTTTTTTTTCATCTTCTTTTTTTTTT
1 TTTTTTTTTCATCTTCTTTTTTTTTT
13528743 TTCTCATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 13 0.52
28 2 0.08
29 10 0.40
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (27 bp):
TTTTTTTTTCATCTTCTTTTTTTTTTA
Found at i:13528721 original size:28 final size:32
Alignment explanation
Indices: 13528666--13528753 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 32
13528656 AATTTGAATC
*
13528666 TCTTTTTTTTTTTCATTTTCTC-TTTTTTTTTC-
1 TCTTCTTTTTTTT--TTTTCTCATTTTTTTTTCA
13528698 T-TTCTTTCTTTTTTTTT-T-ATTTTTTTTTCA
1 TCTTCTTT-TTTTTTTTTCTCATTTTTTTTTCA
13528728 TCTTCTTTTTTTTTTTTCTCATTTTT
1 TCTTCTTTTTTTTTTTTCTCATTTTT
13528754 AATCCATTGT
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
29 11 0.22
30 14 0.29
31 12 0.24
32 12 0.24
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (32 bp):
TCTTCTTTTTTTTTTTTCTCATTTTTTTTTCA
Found at i:13528740 original size:18 final size:16
Alignment explanation
Indices: 13528666--13528743 Score: 79
Period size: 16 Copynumber: 4.8 Consensus size: 16
13528656 AATTTGAATC
13528666 TCTTTTTTTTTTTCATTT
1 TCTTTTTTTTTTTC--TT
*
13528684 TCTCTTTTTTTTTCTT
1 TCTTTTTTTTTTTCTT
*
13528700 TCTTTCTTTTTTT-TT
1 TCTTTTTTTTTTTCTT
* *
13528715 TATTTTTTTTTCATC-T
1 TCTTTTTTTTT-TTCTT
13528731 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
13528744 TCTCATTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
15 12 0.24
16 25 0.50
18 13 0.26
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (16 bp):
TCTTTTTTTTTTTCTT
Found at i:13528743 original size:21 final size:21
Alignment explanation
Indices: 13528668--13528749 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 21
13528658 TTTGAATCTC
*
13528668 TTTTTTTTTTTCATTTTCTCTT
1 TTTTTTTTTTTCATCTTCT-TT
* * *
13528690 TTTTTTTCTTTCTTTCTTTTTTTT
1 TTTTTTTTTTTC-ATC--TTCTTT
13528714 TTATTTTTTTTTCATCTTCTTT
1 TT-TTTTTTTTTCATCTTCTTT
*
13528736 TTTTTTTTTCTCAT
1 TTTTTTTTTTTCAT
13528750 TTTTAATCCA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
21 11 0.23
22 18 0.38
23 1 0.02
24 6 0.12
25 12 0.25
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTTTTTTCATCTTCTTT
Found at i:13533489 original size:59 final size:58
Alignment explanation
Indices: 13533425--13533665 Score: 310
Period size: 59 Copynumber: 4.2 Consensus size: 58
13533415 TTGTACAGGG
*
13533425 AAAATTGATACTTTCAACTTCTCCCCAAAATATTTTTTTAGAAAACTTTAATTTCGAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTT-GAAAACTTTAATTTCGAAA
* **
13533484 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAAC-TTTTCCCCAAAATATTTTTTTGAAAACTTTAATTTCGAAA
* * ** * * **
13533543 AAAATTGATACTTTCAACTTTTTCTC-AAAGCTTTTTATGAAAA-TTTATTTTTTAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTGAAAACTTTAATTTCGAAA
*
13533599 AAAATTGATACTTTCAACTTTTCCCCAAAA-ATATTTTTTGAAAACTTTAATTTCG-AG
1 AAAATTGATACTTTCAACTTTTCCCCAAAATAT-TTTTTTGAAAACTTTAATTTCGAAA
13533656 AAAATTGATA
1 AAAATTGATA
13533666 ATGTAATTTC
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
56 33 0.21
57 38 0.25
58 12 0.08
59 53 0.34
60 19 0.12
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.42
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTGAAAACTTTAATTTCGAAA
Found at i:13533503 original size:31 final size:31
Alignment explanation
Indices: 13533468--13533563 Score: 76
Period size: 31 Copynumber: 3.2 Consensus size: 31
13533458 TTTTTTAGAA
13533468 AACTTTAATTTCGAAAAAAATTGATACTTTC
1 AACTTTAATTTCGAAAAAAATTGATACTTTC
* * * * *
13533499 AACTTT--TTCCCAAAAATATT--T-TTTTGAA
1 AACTTTAATTTCGAAAAAAATTGATACTTT--C
**
13533527 AACTTTAATTTCGAGGAAAATTGATACTTTC
1 AACTTTAATTTCGAAAAAAATTGATACTTTC
13533558 AACTTT
1 AACTTT
13533564 TTCTCAAAGC
Statistics
Matches: 46, Mismatches: 12, Indels: 14
0.64 0.17 0.19
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 6 0.13
29 11 0.24
30 9 0.20
31 12 0.26
32 1 0.02
33 3 0.07
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.42
Consensus pattern (31 bp):
AACTTTAATTTCGAAAAAAATTGATACTTTC
Found at i:13533606 original size:115 final size:117
Alignment explanation
Indices: 13533423--13533665 Score: 359
Period size: 115 Copynumber: 2.1 Consensus size: 117
13533413 TTTTGTACAG
* *
13533423 GGAAAATTGATACTTTCAACTTCTCCCCAAAATATTTTTTTAGAAAACTTTAATTTCGAAAAAAA
1 GGAAAATTGATACTTTCAACTTCTCCCCAAAAGATTTTTATAGAAAACTTTAATTTCGAAAAAAA
*
13533488 TTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAACTTTAATTTCGA
66 TTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAACTTTAATTTCGA
* * * * * **
13533541 GGAAAATTGATACTTTCAACTTTTTCTC-AAAGCTTTTTAT-GAAAA-TTTATTTTTTAAAAAAA
1 GGAAAATTGATACTTTCAACTTCTCCCCAAAAGATTTTTATAGAAAACTTTAATTTCGAAAAAAA
13533603 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGA
66 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGA
13533655 -GAAAATTGATA
1 GGAAAATTGATA
13533666 ATGTAATTTC
Statistics
Matches: 115, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
113 11 0.10
114 23 0.20
115 42 0.37
116 5 0.04
117 9 0.08
118 25 0.22
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTCTCCCCAAAAGATTTTTATAGAAAACTTTAATTTCGAAAAAAA
TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGA
Found at i:13533675 original size:196 final size:194
Alignment explanation
Indices: 13533473--13533861 Score: 543
Period size: 196 Copynumber: 2.0 Consensus size: 194
13533463 TAGAAAACTT
* *
13533473 TAATTTCGAAAAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGAAAACTTTAATT
1 TAATTTCGAAAAAAATTGATACTTTCAAC-TTTTCCTC--AAAGATTTTTTT-AAAAATTTAATT
* * ** *
13533537 TCGAGGAAAATTGATACTTTCAACTTTTTCTC-AAAGCTTTTTATGAAAATTTATTTTTTAA-AA
62 TCAAGAAAAATTGATACTTTCAACTTTCCCTCAAAAACTTTTTATGAAAATTTA-TTTTTAAGAA
13533600 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGA-GAAAATTGA
126 AAATTGATACTTT-AACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGGAAAATTGA
13533664 TAATG
190 TAATG
* * * * *
13533669 TAATTTCGAGAAAAATTGATACTTTTAACTTTTCCTCAAAGCTTTTTTTAAAAATTTATTTTTAA
1 TAATTTCGAAAAAAATTGATACTTTCAACTTTTCCTCAAAGATTTTTTTAAAAATTTAATTTCAA
*
13533734 GAAAAATTGATACTTTCAACTTTCCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGAAAAA
66 GAAAAATTGATACTTTCAACTTTCCCTC--AAAAACTTTTTATGAAAATTTATTTTTAAGAAAAA
* *
13533799 TTGATACTTTAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCTAGGAAAATTGATA
129 TTGATACTTTAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGGAAAATTGATA
13533862 CTTTCAACTT
Statistics
Matches: 172, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
193 37 0.22
194 10 0.06
195 52 0.30
196 73 0.42
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (194 bp):
TAATTTCGAAAAAAATTGATACTTTCAACTTTTCCTCAAAGATTTTTTTAAAAATTTAATTTCAA
GAAAAATTGATACTTTCAACTTTCCCTCAAAAACTTTTTATGAAAATTTATTTTTAAGAAAAATT
GATACTTTAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGGAAAATTGATAATG
Found at i:13533691 original size:137 final size:138
Alignment explanation
Indices: 13533532--13533804 Score: 401
Period size: 137 Copynumber: 2.0 Consensus size: 138
13533522 TTGAAAACTT
* * *
13533532 TAATTTCGAGGAAAATTGATACTTTCAACTTTTTCTCAAAGCTTTTTATGAAAATTTATTTTTTA
1 TAATTTCGAGAAAAATTGATACTTTCAACTTTTCCTCAAAGCTTTTTATAAAAATTTA-TTTTTA
* *
13533597 A-AAAAATTGATACTTTCAACTTTTCCC-CAAAAATA-TTTTTTGAAAACTTTAATTTCGAG-AA
65 AGAAAAATTGATACTTTCAAC-TTTCCCTCAAAAAAACTTTTTTGAAAA-TTTAATTTCAAGAAA
13533658 AATTGATAATG
128 AATTGATAATG
* *
13533669 TAATTTCGAGAAAAATTGATACTTTTAACTTTTCCTCAAAGCTTTTTTTAAAAATTTATTTTTAA
1 TAATTTCGAGAAAAATTGATACTTTCAACTTTTCCTCAAAGCTTTTTATAAAAATTTATTTTTAA
* *
13533734 GAAAAATTGATACTTTCAACTTTCCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGAAAAA
66 GAAAAATTGATACTTTCAACTTTCCCTCAAAAAAAC-TTTTTTGAAAATTTAATTTCAAGAAAAA
13533799 TTGATA
130 TTGATA
13533805 CTTTAACTTT
Statistics
Matches: 122, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
136 13 0.11
137 79 0.65
138 9 0.07
139 21 0.17
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (138 bp):
TAATTTCGAGAAAAATTGATACTTTCAACTTTTCCTCAAAGCTTTTTATAAAAATTTATTTTTAA
GAAAAATTGATACTTTCAACTTTCCCTCAAAAAAACTTTTTTGAAAATTTAATTTCAAGAAAAAT
TGATAATG
Found at i:13533884 original size:116 final size:114
Alignment explanation
Indices: 13533677--13533948 Score: 377
Period size: 116 Copynumber: 2.4 Consensus size: 114
13533667 TGTAATTTCG
** *
13533677 AGAAAAATTGATACTTTTAAC-TTTTCCTCAAAGCTTTTTTTAAAAATTTATTTTTAAGAAAAAT
1 AGAAAAATTGATAC-TTTAACTTTTTCC-CAAAAATTTTTTTAAAAATTTATTTCTAAGAAAAAT
*
13533741 TGATACTTTCAACTTTCCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTA
64 TGATACTTTCAACTTTCCCTCAAAAAAACTTTTTTTAAAAATTTATTTTTA
* *
13533792 AGAAAAATTGATACTTTAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCT-AGGAAAA
1 AGAAAAATTGATACTTTAACTTTTTCCCAAAAAT-TTTTTT-AAAAATTT-ATTTCTAAGAAAAA
* *
13533856 TTGATACTTTCAACTTTTCCTCATAAAAACTTTTTTTAAAAATTTATTTTTA
63 TTGATACTTTCAACTTTCCCTCAAAAAAACTTTTTTTAAAAATTTATTTTTA
* **
13533908 AAAAAAATTGATACTTTCAACTTTTTTTCAAAAATTTTTTT
1 AGAAAAATTGATACTTT-AACTTTTTCCCAAAAATTTTTTT
13533949 TTACGGTTCC
Statistics
Matches: 141, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
114 11 0.08
115 26 0.18
116 84 0.60
117 20 0.14
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.46
Consensus pattern (114 bp):
AGAAAAATTGATACTTTAACTTTTTCCCAAAAATTTTTTTAAAAATTTATTTCTAAGAAAAATTG
ATACTTTCAACTTTCCCTCAAAAAAACTTTTTTTAAAAATTTATTTTTA
Found at i:13533897 original size:13 final size:14
Alignment explanation
Indices: 13533879--13533911 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13533869 CTTTTCCTCA
13533879 TAAAAACTT-TTTT
1 TAAAAACTTATTTT
*
13533892 TAAAAATTTATTTT
1 TAAAAACTTATTTT
13533906 TAAAAA
1 TAAAAA
13533912 AAATTGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAAAACTTATTTT
Found at i:13533949 original size:59 final size:58
Alignment explanation
Indices: 13533677--13533951 Score: 346
Period size: 59 Copynumber: 4.8 Consensus size: 58
13533667 TGTAATTTCG
* *
13533677 AGAAAAATTGATACTTTTAACTTTTCCTC--AAAGCTTTTTTTAAAAATTTATTTTTA
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTTAAAAATTTATTTTTA
* *
13533733 AGAAAAATTGATACTTTCAACTTTCCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTA
1 AGAAAAATTGATACTTTCAACTTTTCCTC-AAAAAACTTTTTTTAAAAATTTATTTTTA
* * *
13533792 AGAAAAATTGATACTTT-AACTTTTTCC-CAAAAATA-TTTTTTGAAAACTTTAATTTCT-
1 AGAAAAATTGATACTTTCAAC-TTTTCCTCAAAAA-ACTTTTTTTAAAAATTT-ATTTTTA
*
13533849 AGGAAAATTGATACTTTCAACTTTTCCTCATAAAAACTTTTTTTAAAAATTTATTTTTA
1 AGAAAAATTGATACTTTCAACTTTTCCTCA-AAAAACTTTTTTTAAAAATTTATTTTTA
* ** **
13533908 AAAAAAATTGATACTTTCAACTTTTTTTCAAAAATTTTTTTTTA
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTTA
13533952 CGGTTCCTAT
Statistics
Matches: 189, Mismatches: 19, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
56 27 0.14
57 39 0.21
58 33 0.17
59 90 0.48
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.46
Consensus pattern (58 bp):
AGAAAAATTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTTAAAAATTTATTTTTA
Found at i:13536630 original size:16 final size:15
Alignment explanation
Indices: 13536587--13536637 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
13536577 ATAGACCATA
*
13536587 AAAAAAATAT-ATAT
1 AAAAAAATATAAAAT
*
13536601 ATAATAAATATAAAAAT
1 A-AAAAAATAT-AAAAT
*
13536618 AAAAAAATCTAAAAT
1 AAAAAAATATAAAAT
13536633 AAAAA
1 AAAAA
13536638 TTCTTACACC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.03
15 18 0.60
16 7 0.23
17 4 0.13
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAAAATATAAAAT
Found at i:13536708 original size:30 final size:30
Alignment explanation
Indices: 13536667--13536725 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
13536657 CTCGATTAAT
*
13536667 AAAAAATACCGAATAAAATAAAATATTTAC
1 AAAAAACACCGAATAAAATAAAATATTTAC
13536697 AAAAAACACCGAATAAAATAAAATATTTA
1 AAAAAACACCGAATAAAATAAAATATTTA
13536726 TATATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.22
Consensus pattern (30 bp):
AAAAAACACCGAATAAAATAAAATATTTAC
Found at i:13536731 original size:2 final size:2
Alignment explanation
Indices: 13536719--13536748 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13536709 ATAAAATAAA
*
13536719 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13536749 GTGTGTTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:13544918 original size:141 final size:141
Alignment explanation
Indices: 13544740--13545023 Score: 453
Period size: 141 Copynumber: 2.0 Consensus size: 141
13544730 ACCGTTCAAA
* * *
13544740 ACTTTTCTTTTCATCTTTTAAAAAATATTTTTGCTTTTATCAAGCATAATTTCTACGGGTGTATA
1 ACTTTTCTTTTCATCTTTTAAAAAATATTTCTACTTTTATCAAGCATAATTTCTACGGGTATATA
* ** *
13544805 AAATGGTCAAAACATTTTTATTACATCTATTTTACTATATACCGTCTTTTTGATACCTTTCAAAG
66 AAATGGTCAAAACATTTTTATTACATCAATTTTACTATATACAATCTTTTGGATACCTTTCAAAG
13544870 AGAAAGATTTT
131 AGAAAGATTTT
* *
13544881 ACTTTTCTTTTCATCTTTTAAAAAAT-TTTCCTACTTTTATTAAGCATCATTTCTACGGGTATAT
1 ACTTTTCTTTTCATCTTTTAAAAAATATTT-CTACTTTTATCAAGCATAATTTCTACGGGTATAT
* *
13544945 AAAATGGTCAAAACATTTTTATTACATCAATTTTACTATATATAATCTTTTGGGTACCTTTCAAA
65 AAAATGGTCAAAACATTTTTATTACATCAATTTTACTATATACAATCTTTTGGATACCTTTCAAA
13545010 GAGAAAGATTTT
130 GAGAAAGATTTT
13545022 AC
1 AC
13545024 CAACCTTATC
Statistics
Matches: 131, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
140 3 0.02
141 128 0.98
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (141 bp):
ACTTTTCTTTTCATCTTTTAAAAAATATTTCTACTTTTATCAAGCATAATTTCTACGGGTATATA
AAATGGTCAAAACATTTTTATTACATCAATTTTACTATATACAATCTTTTGGATACCTTTCAAAG
AGAAAGATTTT
Found at i:13554824 original size:22 final size:22
Alignment explanation
Indices: 13554799--13554842 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13554789 ATTTTTTGTC
*
13554799 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
13554821 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
13554843 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:13558562 original size:26 final size:26
Alignment explanation
Indices: 13558499--13558554 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
13558489 TTCGGCAATA
*
13558499 AAGGCCTAAAATAGAAGTCAGTAATG
1 AAGGCCTAAAATAGAAATCAGTAATG
13558525 AAGGCCTAAAATAGAAATCAGTAATG
1 AAGGCCTAAAATAGAAATCAGTAATG
13558551 AAGG
1 AAGG
13558555 GTGAAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.48, C:0.11, G:0.23, T:0.18
Consensus pattern (26 bp):
AAGGCCTAAAATAGAAATCAGTAATG
Found at i:13565708 original size:18 final size:19
Alignment explanation
Indices: 13565681--13565719 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
13565671 ATACTTATTA
13565681 TTTTATATTTATTTT-TAAT
1 TTTTATATTT-TTTTATAAT
13565700 TTTTA-ATTTTTTTATAAT
1 TTTTATATTTTTTTATAAT
13565718 TT
1 TT
13565720 GAAAAATAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 10 0.53
19 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATATTTTTTTATAAT
Found at i:13575585 original size:198 final size:198
Alignment explanation
Indices: 13575239--13575633 Score: 682
Period size: 198 Copynumber: 2.0 Consensus size: 198
13575229 AGGTTGATGT
*
13575239 TATAGTTAGTTCTATGCTCTTGTAAGTGAAAAGCATGTGCTTTTCACTCTAGACTTTCATCGATT
1 TATAGTTAGTTCTATGCTCTTGTAAGTGAAAAGCATGTGCTTTTCACTCTAGACCTTCATCGATT
* * *
13575304 ATTCTAGCTGATTATGATATTTTATAATATCTTTAGGACAATGTGTTTGTTAATGTGGCTGCTTC
66 ATTCCAGCTAATTATGATATTTTATAATATCTTTAGGACAATGTGTTTGTTAATGTGGCTACTTC
* * * *
13575369 AATTCAGTATCGAGCCTTAGCTAATAAGGCTCAATATGTTTTCTATAAGCTTAGCAATACCAGTT
131 AATTCAGTACCAAGCCTTAGCTAATAAGGCTCAAGATGTTTTCTATAAGCTTAACAATACCAGTT
13575434 TTC
196 TTC
* *
13575437 TATAGTTGGTTCTATGCTCTTTTAAGTGAAAAGCATGTGCTTTTCACTCTAGACCTTCATCGATT
1 TATAGTTAGTTCTATGCTCTTGTAAGTGAAAAGCATGTGCTTTTCACTCTAGACCTTCATCGATT
*
13575502 ATTCCAGCTAATTCTGATATTTTATAATATCTTTAGGACAATGTGTTTGTTAATGTGGCTACTTC
66 ATTCCAGCTAATTATGATATTTTATAATATCTTTAGGACAATGTGTTTGTTAATGTGGCTACTTC
*
13575567 AATTCAGTACCAAGCCTTAGCTAATAAGGCTCAAGATGTTTTTTATAAGCTTAACAATACCAGTT
131 AATTCAGTACCAAGCCTTAGCTAATAAGGCTCAAGATGTTTTCTATAAGCTTAACAATACCAGTT
13575632 TT
196 TT
13575634 GTTTAAATTT
Statistics
Matches: 185, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
198 185 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (198 bp):
TATAGTTAGTTCTATGCTCTTGTAAGTGAAAAGCATGTGCTTTTCACTCTAGACCTTCATCGATT
ATTCCAGCTAATTATGATATTTTATAATATCTTTAGGACAATGTGTTTGTTAATGTGGCTACTTC
AATTCAGTACCAAGCCTTAGCTAATAAGGCTCAAGATGTTTTCTATAAGCTTAACAATACCAGTT
TTC
Found at i:13588756 original size:23 final size:23
Alignment explanation
Indices: 13588730--13588782 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
13588720 TTAATGTTAT
*
13588730 GAACTTTTATTTTATTATAATTA
1 GAACTTTAATTTTATTATAATTA
13588753 GAACTTTAATTTTATTATAATTA
1 GAACTTTAATTTTATTATAATTA
13588776 GAACTTT
1 GAACTTT
13588783 GATGGTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (23 bp):
GAACTTTAATTTTATTATAATTA
Found at i:13590211 original size:6 final size:7
Alignment explanation
Indices: 13590195--13590219 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13590185 TTTGCAAGGC
13590195 AAAAATA
1 AAAAATA
13590202 AAAAATA
1 AAAAATA
13590209 AAAAATA
1 AAAAATA
13590216 AAAA
1 AAAA
13590220 CAATAACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:13594995 original size:2 final size:2
Alignment explanation
Indices: 13594988--13595022 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
13594978 TCAATGTCTA
13594988 TC TC TC TC T- TAC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC T-C TC TC TC TC TC TC TC TC TC TC TC T
13595023 TTGGGTAGCG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.94
3 1 0.03
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:13601043 original size:21 final size:21
Alignment explanation
Indices: 13601011--13601131 Score: 99
Period size: 21 Copynumber: 5.9 Consensus size: 21
13601001 TATTGGTTTA
13601011 ATATT-ATTTAATATTATTAT
1 ATATTAATTTAATATTATTAT
* *
13601031 ATATTAATATAATAGTATTAT
1 ATATTAATTTAATATTATTAT
* *
13601052 ATCATT-A--TAATATCATTAA
1 AT-ATTAATTTAATATTATTAT
* *
13601071 ATATTAATTTATTATAATTA-
1 ATATTAATTTAATATTATTAT
* * *
13601091 ATTATGACTTTAATATTATTAA
1 A-TATTAATTTAATATTATTAT
*
13601113 ATATGAATTTAATATTATT
1 ATATTAATTTAATATTATT
13601132 TAATTTAATA
Statistics
Matches: 82, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
18 3 0.04
19 12 0.15
20 6 0.07
21 57 0.70
22 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATTAATTTAATATTATTAT
Found at i:13601044 original size:31 final size:31
Alignment explanation
Indices: 13600984--13601088 Score: 88
Period size: 31 Copynumber: 3.3 Consensus size: 31
13600974 ATAAATTAAA
* ** *
13600984 TATTTAATAATATTATATATTGGTTTAATAT
1 TATTTAATATTATTATATATTAATATAATAT
*
13601015 TATTTAATATTATTATATATTAATATAATAG
1 TATTTAATATTATTATATATTAATATAATAT
*
13601046 TA-TTATATCATTATAATATCATTAAATATTAAT-T
1 TATTTA-AT-ATTATTATAT-ATT-AATA-TAATAT
13601080 TATTATAAT
1 TATT-TAAT
13601089 TAATTATGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
30 3 0.05
31 30 0.50
32 9 0.15
33 3 0.05
34 6 0.10
35 7 0.12
36 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (31 bp):
TATTTAATATTATTATATATTAATATAATAT
Found at i:13601112 original size:42 final size:39
Alignment explanation
Indices: 13601011--13601146 Score: 118
Period size: 42 Copynumber: 3.5 Consensus size: 39
13601001 TATTGGTTTA
* * *
13601011 ATATTATTTAATATTATTATATATTAATATAATAGTATT
1 ATATCATTTAATATTATTAAATATTAATTTAATAGTATT
* *
13601050 ATATCATTATAATATCATTAAATATTAATTTATTA-TAATT
1 ATATCATT-TAATATTATTAAATATTAATTTAATAGT-ATT
* * *
13601090 AATTATGACTTTAATATTATTAAATATGAATTTAATATTATT
1 -A-TATCA-TTTAATATTATTAAATATTAATTTAATAGTATT
*
13601132 -TA--ATTTAATAATATT
1 ATATCATTTAATATTATT
13601147 TAATTAATTG
Statistics
Matches: 81, Mismatches: 10, Indels: 15
0.76 0.09 0.14
Matches are distributed among these distances:
36 11 0.14
37 1 0.01
39 10 0.12
40 25 0.31
41 1 0.01
42 30 0.37
43 3 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (39 bp):
ATATCATTTAATATTATTAAATATTAATTTAATAGTATT
Found at i:13601132 original size:10 final size:10
Alignment explanation
Indices: 13600984--13601486 Score: 105
Period size: 10 Copynumber: 49.1 Consensus size: 10
13600974 ATAAATTAAA
*
13600984 TATTTAATAA
1 TATTTAATAT
13600994 TA-TTATATAT
1 TATTTA-ATAT
*
13601004 TGGTTTAATAT
1 T-ATTTAATAT
13601015 TATTTAATAT
1 TATTTAATAT
13601025 TA-TTATATAT
1 TATTTA-ATAT
* *
13601035 TAATATAATAG
1 T-ATTTAATAT
13601046 TA-TT-ATAT
1 TATTTAATAT
*
13601054 CATTATAATAT
1 TATT-TAATAT
* *
13601065 CATTAAATAT
1 TATTTAATAT
*
13601075 TAATTTATTA-
1 T-ATTTAATAT
*
13601085 TAATTAATTAT
1 TATTTAA-TAT
*
13601096 GACTTTAATAT
1 TA-TTTAATAT
*
13601107 TATTAAATAT
1 TATTTAATAT
*
13601117 GAATTTAATAT
1 -TATTTAATAT
13601128 TA-TT--TA-
1 TATTTAATAT
*
13601134 -ATTTAATAA
1 TATTTAATAT
13601143 TATTTAAT-T
1 TATTTAATAT
*
13601152 AATTGTAATAT
1 TATT-TAATAT
*
13601163 TATTCAAATAT
1 TATT-TAATAT
*
13601174 TATTTAGT-T
1 TATTTAATAT
*
13601183 AATTTAATAT
1 TATTTAATAT
**
13601193 TAGTTTCTTAT
1 TA-TTTAATAT
*
13601204 TAAATT-ATAT
1 T-ATTTAATAT
**
13601214 TAAATAATAT
1 TATTTAATAT
* *
13601224 TATTAAATAC
1 TATTTAATAT
13601234 TATTTAA-AT
1 TATTTAATAT
*
13601243 TATATTGAATAA
1 TAT-TT-AATAT
13601255 TATTGTTAAATAT
1 TA-T-TT-AATAT
*
13601268 TAATTCAATA-
1 T-ATTTAATAT
13601278 TATTCAATAATAT
1 TATT---TAATAT
*
13601291 TATTAAATAT
1 TATTTAATAT
* *
13601301 CAATTCAATA-
1 -TATTTAATAT
13601311 TATTCAATAATAT
1 TATT---TAATAT
*
13601324 TATTAAATAT
1 TATTTAATAT
13601334 TAATTT-A-AT
1 T-ATTTAATAT
**
13601343 TAAATAATAT
1 TATTTAATAT
* *
13601353 TGTTTAACAT
1 TATTTAATAT
*
13601363 TATTAAATAT
1 TATTTAATAT
*
13601373 TGTTTTAATAT
1 T-ATTTAATAT
* *
13601384 TAAATTAAAGTAA
1 T--ATTTAA-TAT
*
13601397 TATTTAATAA
1 TATTTAATAT
*
13601407 TATTCAATAAT
1 TATTTAAT-AT
* * *
13601418 AATATAA-AA
1 TATTTAATAT
* *
13601427 CA-TTAACAT
1 TATTTAATAT
13601436 TATTTAAT-T
1 TATTTAATAT
* *
13601445 TATTTAACAA
1 TATTTAATAT
13601455 TATTTTAATAT
1 TA-TTTAATAT
* *
13601466 GATTTAACTAA
1 TATTTAA-TAT
13601477 T-TTTAATAT
1 TATTTAATAT
13601486 T
1 T
13601487 GTTTTATTAA
Statistics
Matches: 352, Mismatches: 90, Indels: 103
0.65 0.17 0.19
Matches are distributed among these distances:
5 1 0.00
6 2 0.01
7 2 0.01
8 11 0.03
9 56 0.16
10 131 0.37
11 102 0.29
12 26 0.07
13 20 0.06
14 1 0.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (10 bp):
TATTTAATAT
Done.