Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 11 of 84
Found at i:1928683 original size:52 final size:52
Alignment explanation
Indices: 1928576--1928733 Score: 176
Period size: 52 Copynumber: 3.0 Consensus size: 52
1928566 TATAACCATA
* * * * * *
1928576 CAAACCTGCCCATTAAGAATCCCCTCTCCTCTTAGAATT-TTTTTTCTGTAAGT
1 CAAACTTGCCTATTAAGAAT-CTCTTTCCTCTTAGAATTCTTCTTT-TGCAAGT
* *
1928629 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTTTTGCAAGT
* * *
1928681 CAAACTTACCTATTAAGAATCTTCTTT-CTCTTGGAATTCTTCTTTTACAAGT
1 CAAACTTGCCTATTAAGAATC-TCTTTCCTCTTAGAATTCTTCTTTTGCAAGT
1928733 C
1 C
1928734 TTCTTGTCCA
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
52 63 0.70
53 27 0.30
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTTTTGCAAGT
Found at i:1928776 original size:11 final size:11
Alignment explanation
Indices: 1928760--1928799 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
1928750 AATATCTGAT
1928760 AAATCTCAAAC
1 AAATCTCAAAC
*
1928771 AAATCTCTAAC
1 AAATCTCAAAC
1928782 AAATCTCAAAC
1 AAATCTCAAAC
1928793 AAATCTC
1 AAATCTC
1928800 TTATGAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:1929067 original size:26 final size:26
Alignment explanation
Indices: 1929026--1929080 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
1929016 AACCAAGCAC
*
1929026 TTCCCACATCTTAAACCTTTTAGCT-T
1 TTCCCACATCTTAAA-CTTTCAGCTCT
1929052 TTCCCACAT-TTCAAACTTTCAGCTCT
1 TTCCCACATCTT-AAACTTTCAGCTCT
1929078 TTC
1 TTC
1929081 ACGTCTCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.22, C:0.33, G:0.04, T:0.42
Consensus pattern (26 bp):
TTCCCACATCTTAAACTTTCAGCTCT
Found at i:1930294 original size:2 final size:2
Alignment explanation
Indices: 1930289--1930318 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1930279 ATAATTGAGT
1930289 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1930319 ATTGCTATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1935889 original size:22 final size:21
Alignment explanation
Indices: 1935827--1935889 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
1935817 TATCAATATA
*
1935827 AAAATATAA-TATA-TATTTT
1 AAAATTTAATTATATTATTTT
* * *
1935846 TAAATTTATTTATGATTTTTTT
1 AAAATTTAATTAT-ATTATTTT
1935868 AAAATTTAAATTATATTATTTT
1 AAAATTT-AATTATATTATTTT
1935890 TATATTTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
19 6 0.18
20 3 0.09
21 1 0.03
22 18 0.55
23 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
AAAATTTAATTATATTATTTT
Found at i:1935889 original size:23 final size:22
Alignment explanation
Indices: 1935827--1935891 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
1935817 TATCAATATA
*
1935827 AAAATATAA-TATA-TATTTTT
1 AAAATTTAATTATATTATTTTT
*
1935847 -AAATTTATTTATGATT-TTTTT
1 AAAATTTAATTAT-ATTATTTTT
1935868 AAAATTTAAATTATATTATTTTT
1 AAAATTT-AATTATATTATTTTT
1935891 A
1 A
1935892 TATTTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
19 6 0.17
20 3 0.08
21 6 0.17
22 10 0.28
23 11 0.31
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
AAAATTTAATTATATTATTTTT
Found at i:1935896 original size:22 final size:21
Alignment explanation
Indices: 1935835--1935896 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 21
1935825 TAAAAATATA
*
1935835 ATATATATTTTTAAATTTATTT
1 ATAT-TATTTTTAAATTTAATT
1935857 ATGATT-TTTTTAAAATTTAAATT
1 AT-ATTATTTTT-AAATTT-AATT
*
1935880 ATATTATTTTTATATTT
1 ATATTATTTTTAAATTT
1935897 TTATTCGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 5 0.15
22 17 0.50
23 12 0.35
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATATTATTTTTAAATTTAATT
Found at i:1937927 original size:221 final size:218
Alignment explanation
Indices: 1937543--1937984 Score: 586
Period size: 221 Copynumber: 2.0 Consensus size: 218
1937533 TCCCTTTTGC
* * *
1937543 TTCTTTTTAATCTTAAAATCTTATGAGCTACTGCAATGAATGCTGGGAAACCAAATGTCAACATA
1 TTCTTTTTAATCTTAAAATCTTACGAGCTACAGCAATGAATGCTGGGAAACCAAATATCAACATA
* *
1937608 GCCATAGAAGAAAGATGTGACTTAACATAGAAAGCCAATGTCAACAGGTGGAATGAAAGACCAAA
66 GCCAAAGAAGAAAGATGTGACTTAACAGAGAAAGCCAATGTCAACAGGTGGAATGAAAGACCAAA
* *
1937673 GAAGTCATAGACAGTAACCTTAAAAATGAACCTTAC-TCTAC-TGAGCCAATACAGGATATGGTA
131 GAAGTCATAGACAGTAACCATAAAAACGAACCTTACTTCTACAT-AGCCAATACAGGATAT-G-A
*
1937736 GTTAATAAAGCACAGTGGAAAGATATGA
193 --TAATAAAGCACAGTGAAAAGATATGA
* * *
1937764 TTCTTTTTAATCTTCAAATCTTACGAGCTACAGCAATGAATGCTGGGAAACTAAATATCAATAT-
1 TTCTTTTTAATCTTAAAATCTTACGAGCTACAGCAATGAATGCTGGGAAACCAAATATCAACATA
* ** * **
1937828 TCGCAAAGAAGAAAGATGTGACTTAATGGAGAAAGTCAATGTCAATGGGT-GAAGTGAAAGACCA
66 GC-CAAAGAAGAAAGATGTGACTTAACAGAGAAAGCCAATGTCAACAGGTGGAA-TGAAAGACCA
* * * *
1937892 AAGAAGTCATAGATAGTAACCATAAAAACGAACCTTACTTTTACATAGCTAATAGAGGATATGAT
129 AAGAAGTCATAGACAGTAACCATAAAAACGAACCTTACTTCTACATAGCCAATACAGGATATGAT
* *
1937957 AGTAAAGCACTGTGAAAAGATATGA
194 AATAAAGCACAGTGAAAAGATATGA
1937982 TTC
1 TTC
1937985 ATACAGTCAA
Statistics
Matches: 194, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
218 26 0.13
220 5 0.03
221 144 0.74
222 18 0.09
223 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (218 bp):
TTCTTTTTAATCTTAAAATCTTACGAGCTACAGCAATGAATGCTGGGAAACCAAATATCAACATA
GCCAAAGAAGAAAGATGTGACTTAACAGAGAAAGCCAATGTCAACAGGTGGAATGAAAGACCAAA
GAAGTCATAGACAGTAACCATAAAAACGAACCTTACTTCTACATAGCCAATACAGGATATGATAA
TAAAGCACAGTGAAAAGATATGA
Found at i:1945836 original size:12 final size:12
Alignment explanation
Indices: 1945819--1945845 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1945809 AGGTGTGAAT
1945819 ATATAGATTAAA
1 ATATAGATTAAA
1945831 ATATAGATTAAA
1 ATATAGATTAAA
1945843 ATA
1 ATA
1945846 AAATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
ATATAGATTAAA
Found at i:1945878 original size:4 final size:4
Alignment explanation
Indices: 1945871--1945898 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1945861 AGTTGAAATT
1945871 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1945899 TAGGCGTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:1945993 original size:5 final size:5
Alignment explanation
Indices: 1945973--1946007 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
1945963 CCACACGGAC
1945973 AAGGCA AAGTGA AAGGA AAGGA AAGGA AAGGA AAG
1 AAGG-A AAG-GA AAGGA AAGGA AAGGA AAGGA AAG
1946008 ATAGGAGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 20 0.71
6 7 0.25
7 1 0.04
ACGTcount: A:0.57, C:0.03, G:0.37, T:0.03
Consensus pattern (5 bp):
AAGGA
Found at i:1946744 original size:2 final size:2
Alignment explanation
Indices: 1946737--1946762 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1946727 CCAAATTAAA
1946737 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
1946763 GCGACCCCAA
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:1950224 original size:60 final size:59
Alignment explanation
Indices: 1950160--1950272 Score: 163
Period size: 60 Copynumber: 1.9 Consensus size: 59
1950150 ATTACTTGCT
* * * *
1950160 ATCATGATTGATTAAAATTATTATAATATATTTTTATTATAATTACAAAAATATTTTTTC
1 ATCATAATTGATCAAAATAATTATAATA-ATCTTTATTATAATTACAAAAATATTTTTTC
* *
1950220 ATCATAATTGATCAAAATAATTATAATACTCTTTATTATAATTATAAAAATAT
1 ATCATAATTGATCAAAATAATTATAATAATCTTTATTATAATTACAAAAATAT
1950273 CCTTATAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 22 0.47
60 25 0.53
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (59 bp):
ATCATAATTGATCAAAATAATTATAATAATCTTTATTATAATTACAAAAATATTTTTTC
Found at i:1957794 original size:23 final size:22
Alignment explanation
Indices: 1957768--1957853 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 22
1957758 TTTAATAAAA
*
1957768 TTATAAAATATATATTTTTTA-TT
1 TTATAAAAT-T-TATTTATTATTT
*
1957791 TTATTAAATTTATTTATTATTT
1 TTATAAAATTTATTTATTATTT
1957813 TTATTAAAATTTTAAATTATATTATTT
1 TTA-TAAAA-TTT--ATT-TATTATTT
*
1957840 TTATATAATATTAT
1 TTATAAAAT-TTAT
1957854 CGTATCATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
21 8 0.15
22 6 0.12
23 12 0.23
24 5 0.10
25 1 0.02
26 9 0.17
27 11 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATAAAATTTATTTATTATTT
Found at i:1957817 original size:22 final size:24
Alignment explanation
Indices: 1957771--1957843 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 24
1957761 AATAAAATTA
* *
1957771 TAAAATATATATTTTTTA-TTTTAT
1 TAAAAT-TTTATTTATTATTTTTAT
1957795 T-AAA-TTTATTTATTATTTTTAT
1 TAAAATTTTATTTATTATTTTTAT
1957817 TAAAATTTTAAATTATATTATTTTTAT
1 TAAAATTTT--ATT-TATTATTTTTAT
1957844 ATAATATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 9 0.22
22 7 0.17
23 6 0.15
24 4 0.10
26 3 0.07
27 12 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TAAAATTTTATTTATTATTTTTAT
Found at i:1959458 original size:419 final size:413
Alignment explanation
Indices: 1958625--1959459 Score: 1363
Period size: 419 Copynumber: 2.0 Consensus size: 413
1958615 ATGTTGTTGA
1958625 AATGTGGATGTCTCATTAAAATTAAAAAATTTTCTATTTATTGTTTGGCAAAAAAATTACTGAAA
1 AATGTGGATGTCTCATTAAAATTAAAAAATTTTCTATTTATTGTTTGGCAAAAAAATTACTGAAA
1958690 ATATTTAAGGGAAGGATTTTTTTAAGAATAAGGGAAGAATTATTATAATTATTATATTTTAAAAA
66 ATATTTAAGGGAAGGATTTTTTTAAGAATAAGGGAAGAATTATTATAATTATTATATTTTAAAAA
1958755 CTATGAGAATTAAATACTAGAAATGAGATCAATATAAAATTCCTTTAAGATGATTGGAAATAACC
131 CTATGAGAATTAAATACTAGAAATGAGATCAATATAAAATTCCTTTAAGATGATTGGAAATAACC
*
1958820 ATATATCCATTTTATCAATTTTTTTTTTGTAAAAAAAATTCAAAGGTAAATAGACTGTTCAATCT
196 ATATATCCATTTTATCAATTTTTTTTTTGTAAAAAAAATTCAAAGGTAAATAGACTGCTCAATCT
* *
1958885 TTCAGGTCAGAGTGATTGTAAGTTATGTATTTAAGATGATTCCAACAAATAATCATCGACAGAAT
261 TTCAGGTCAGAGTGATTGTAAGTCATGTATTTAAGATGACTCCAACAAATAATCATCGACAGAAT
* * * *
1958950 TTGAATTTAAGATCTCTTCGTCGAAAATGACAAATCTTAACCGATTAAACCAATCACTTATTGAT
326 TTGAATCTAAGACCTCTTCATCGAAAATAACAAATCTTAACCGATTAAACCAATCACTTATTGAT
*
1959015 TATTTTATCAATTTAACTTATGT
391 TATTTTATCAATTTAACCTATGT
*
1959038 AATGTGGATGTCTTATTAAAATTAAAAAATTTTCTATTTATT-TTTGGCAAAAAAATTACTGAAA
1 AATGTGGATGTCTCATTAAAATTAAAAAATTTTCTATTTATTGTTTGGCAAAAAAATTACTGAAA
*
1959102 ATATTTAAGGGAAGGATTTTTTTTAAGAATAAGGGAAGAATTATTATACTTATTATATTTTAAAA
66 ATATTTAAGGGAAGGA-TTTTTTTAAGAATAAGGGAAGAATTATTATAATTATTATATTTTAAAA
1959167 GA-TATGAGAATTAAATACTAGAAATGAGATCAATATAAAATTCCTTTAAGATGATTGGAAATAA
130 -ACTATGAGAATTAAATACTAGAAATGAGATCAATATAAAATTCCTTTAAGATGATTGGAAATAA
* *
1959231 CCATATATCCATTTTATCAAGTTTTTTTTTTTTTTTGTAAAAAAAATT-TAAGGTTAGATATG-C
194 CCATATATCCATTTTATCAA------TTTTTTTTTTGTAAAAAAAATTCAAAGG-TAAATA-GAC
* * * *
1959294 TGCTCAGTCTTTCAGGTCAGAGTGATTGTAAGTCGTGTATTTGAGATGACTCCAACAAATGATCA
251 TGCTCAATCTTTCAGGTCAGAGTGATTGTAAGTCATGTATTTAAGATGACTCCAACAAATAATCA
* * *
1959359 TCGGCAGAATTTGAATCTAAGACCTCTTCATCGAAAATAACGAATCTTAACCGATTAAACTAATC
316 TCGACAGAATTTGAATCTAAGACCTCTTCATCGAAAATAACAAATCTTAACCGATTAAACCAATC
* *
1959424 ATTTGTTGATTATTTTATCAATTTAACCTATGT
381 ACTTATTGATTATTTTATCAATTTAACCTATGT
1959457 AAT
1 AAT
1959460 TTTTTTTTTA
Statistics
Matches: 391, Mismatches: 21, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
412 38 0.10
413 170 0.43
414 1 0.00
418 4 0.01
419 177 0.45
420 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (413 bp):
AATGTGGATGTCTCATTAAAATTAAAAAATTTTCTATTTATTGTTTGGCAAAAAAATTACTGAAA
ATATTTAAGGGAAGGATTTTTTTAAGAATAAGGGAAGAATTATTATAATTATTATATTTTAAAAA
CTATGAGAATTAAATACTAGAAATGAGATCAATATAAAATTCCTTTAAGATGATTGGAAATAACC
ATATATCCATTTTATCAATTTTTTTTTTGTAAAAAAAATTCAAAGGTAAATAGACTGCTCAATCT
TTCAGGTCAGAGTGATTGTAAGTCATGTATTTAAGATGACTCCAACAAATAATCATCGACAGAAT
TTGAATCTAAGACCTCTTCATCGAAAATAACAAATCTTAACCGATTAAACCAATCACTTATTGAT
TATTTTATCAATTTAACCTATGT
Found at i:1959597 original size:15 final size:15
Alignment explanation
Indices: 1959577--1959607 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1959567 CTTTTTTTTT
1959577 TTTAATTTACATAAA
1 TTTAATTTACATAAA
1959592 TTTAATTTACATAAA
1 TTTAATTTACATAAA
1959607 T
1 T
1959608 AAAGATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAATTTACATAAA
Found at i:1960907 original size:26 final size:24
Alignment explanation
Indices: 1960831--1960920 Score: 65
Period size: 26 Copynumber: 3.5 Consensus size: 24
1960821 ATAACTATTA
*
1960831 AATTATATCATACAAATATTATCATG
1 AATTATATCATA-AAA-ATAATCATG
* * *
1960857 TAAATATATTATAAAATTAAATCATG
1 -AATTATATCATAAAAAT-AATCATG
*
1960883 CAATTATATCATAAAAATCACTCATG
1 -AATTATATCATAAAAAT-AATCATG
*
1960909 TATTATA-CATAA
1 AATTATATCATAA
1960921 TTATGCAATA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
24 5 0.10
25 7 0.14
26 29 0.57
27 10 0.20
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (24 bp):
AATTATATCATAAAAATAATCATG
Found at i:1961018 original size:20 final size:20
Alignment explanation
Indices: 1960972--1961010 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1960962 AATATATTAT
* *
1960972 AATATAAAATGCCATTCAAC
1 AATATAAAATACCATGCAAC
1960992 AATATAAAATACCATGCAA
1 AATATAAAATACCATGCAA
1961011 ATATATAATC
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:0.54, C:0.18, G:0.05, T:0.23
Consensus pattern (20 bp):
AATATAAAATACCATGCAAC
Found at i:1961281 original size:21 final size:21
Alignment explanation
Indices: 1961231--1961400 Score: 131
Period size: 21 Copynumber: 8.3 Consensus size: 21
1961221 GCAAATACAG
1961231 ATGCAATT-A-AATATATAATC
1 ATGCAATTAACAATATA-AATC
** * *
1961251 ACACAATTAACAATGTAAAAC
1 ATGCAATTAACAATATAAATC
* *
1961272 ATGTAATT-A-AATATCTAATC
1 ATGCAATTAACAATAT-AAATC
** *
1961292 ATGCAATTAACAACGTAAAAC
1 ATGCAATTAACAATATAAATC
*
1961313 ATGCAAAT-A-AATATATAATC
1 ATGCAATTAACAATATA-AATC
1961333 ATGCAATTAACAATATAAATC
1 ATGCAATTAACAATATAAATC
1961354 ATGCAATT-A-AATATATAATC
1 ATGCAATTAACAATATA-AATC
* * *
1961374 GTGCAATTAACACTATAAACC
1 ATGCAATTAACAATATAAATC
1961395 ATGCAA
1 ATGCAA
1961401 ATAAATATGC
Statistics
Matches: 115, Mismatches: 24, Indels: 21
0.72 0.15 0.13
Matches are distributed among these distances:
19 14 0.12
20 40 0.35
21 42 0.37
22 19 0.17
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (21 bp):
ATGCAATTAACAATATAAATC
Found at i:1961281 original size:41 final size:41
Alignment explanation
Indices: 1961231--1961408 Score: 239
Period size: 41 Copynumber: 4.3 Consensus size: 41
1961221 GCAAATACAG
**
1961231 ATGCAATTAAATATATAATCACACAATTAACAATGTAAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAATGTAAAAC
* * *
1961272 ATGTAATTAAATATCTAATCATGCAATTAACAACGTAAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAATGTAAAAC
* * *
1961313 ATGCAAATAAATATATAATCATGCAATTAACAATATAAATC
1 ATGCAATTAAATATATAATCATGCAATTAACAATGTAAAAC
* * * *
1961354 ATGCAATTAAATATATAATCGTGCAATTAACACTATAAACC
1 ATGCAATTAAATATATAATCATGCAATTAACAATGTAAAAC
*
1961395 ATGCAAATAAATAT
1 ATGCAATTAAATAT
1961409 GCAATTAAAT
Statistics
Matches: 121, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 121 1.00
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (41 bp):
ATGCAATTAAATATATAATCATGCAATTAACAATGTAAAAC
Found at i:1961299 original size:20 final size:20
Alignment explanation
Indices: 1961231--1961433 Score: 144
Period size: 20 Copynumber: 10.3 Consensus size: 20
1961221 GCAAATACAG
1961231 ATGCAATTAAATATATAATC
1 ATGCAATTAAATATATAATC
** * *
1961251 ACACAATTAACA-ATGTAAAAC
1 ATGCAATTAA-ATATAT-AATC
* *
1961272 ATGTAATTAAATATCTAATC
1 ATGCAATTAAATATATAATC
*
1961292 ATGCAATTAACA-ACGTA-AAAC
1 ATGCAATTAA-ATA--TATAATC
*
1961313 ATGCAAATAAATATATAATC
1 ATGCAATTAAATATATAATC
1961333 ATGCAATTAACA-ATATAAATC
1 ATGCAATTAA-ATATAT-AATC
1961354 ATGCAATTAAATATATAATC
1 ATGCAATTAAATATATAATC
* *
1961374 GTGCAATTAACACTATA-AACC
1 ATGCAATTAA-A-TATATAATC
1961395 ATGC-----AA-ATA-AAT-
1 ATGCAATTAAATATATAATC
1961407 ATGCAATTAAATATATAATC
1 ATGCAATTAAATATATAATC
1961427 ATGCAAT
1 ATGCAAT
1961434 CAAACAAATA
Statistics
Matches: 143, Mismatches: 19, Indels: 42
0.70 0.09 0.21
Matches are distributed among these distances:
12 4 0.03
13 5 0.03
15 1 0.01
16 1 0.01
17 2 0.01
18 3 0.02
19 5 0.03
20 63 0.44
21 54 0.38
22 5 0.03
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (20 bp):
ATGCAATTAAATATATAATC
Found at i:1961450 original size:32 final size:33
Alignment explanation
Indices: 1961414--1961569 Score: 106
Period size: 32 Copynumber: 4.6 Consensus size: 33
1961404 AATATGCAAT
1961414 TAAATAT-ATAATCATGCAATCAAACAAATAAA
1 TAAATATAATAATCATGCAATCAAACAAATAAA
* * * *** *
1961446 TAAAT-TAATAATCATACAATTAGACATGCAAT
1 TAAATATAATAATCATGCAATCAAACAAATAAA
*
1961478 TAAATAT-ATAATTATGCAAAT-AAACATGTAATGAAATA
1 TAAATATAATAATCATGC-AATCAAACA---AAT--AA-A
*
1961516 TATAATAATAATAATCATGCAATCACACAAATAAA
1 TA-AAT-ATAATAATCATGCAATCAAACAAATAAA
*
1961551 TAAAT-TGATAATCATGCAA
1 TAAATATAATAATCATGCAA
1961570 ATAAATTAAT
Statistics
Matches: 94, Mismatches: 17, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
31 1 0.01
32 53 0.56
33 4 0.04
34 3 0.03
35 3 0.03
36 2 0.02
37 2 0.02
38 5 0.05
39 3 0.03
40 5 0.05
41 13 0.14
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (33 bp):
TAAATATAATAATCATGCAATCAAACAAATAAA
Found at i:1961509 original size:20 final size:20
Alignment explanation
Indices: 1961471--1961509 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1961461 ACAATTAGAC
* *
1961471 ATGCAATTAAATATATAATT
1 ATGCAAATAAACATATAATT
*
1961491 ATGCAAATAAACATGTAAT
1 ATGCAAATAAACATATAAT
1961510 GAAATATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (20 bp):
ATGCAAATAAACATATAATT
Found at i:1961573 original size:20 final size:20
Alignment explanation
Indices: 1961548--1961640 Score: 96
Period size: 20 Copynumber: 4.6 Consensus size: 20
1961538 TCACACAAAT
*
1961548 AAATAAATTGATAATCATGC
1 AAATAAATTAATAATCATGC
1961568 AAATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGC
* ** *
1961588 AAACATGTTAATAGTCATGC
1 AAATAAATTAATAATCATGC
* **
1961608 AAATATATTAATAAATCACAC
1 AAATAAATTAAT-AATCATGC
*
1961629 AAATATATTAAT
1 AAATAAATTAAT
1961641 CATGTAAACA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
20 45 0.73
21 17 0.27
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:1961675 original size:32 final size:33
Alignment explanation
Indices: 1961629--1961691 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
1961619 TAAATCACAC
* *
1961629 AAATATATTAATCATGTAAACAAAATATTAGGT
1 AAATAAATTAATCATGCAAACAAAATATTAGGT
* *
1961662 AAATAAATT-ATCATGCAAATATAATATTAG
1 AAATAAATTAATCATGCAAACAAAATATTAG
1961692 TCATACAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.33
Consensus pattern (33 bp):
AAATAAATTAATCATGCAAACAAAATATTAGGT
Found at i:1962731 original size:42 final size:43
Alignment explanation
Indices: 1962629--1963187 Score: 643
Period size: 43 Copynumber: 13.1 Consensus size: 43
1962619 TTTTTTTTGA
** *
1962629 AAAATGCTTTCCCACAACTGAGGCTTTGAAATTTTTGAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
** * *
1962672 AAAATGCTCATCCACAACTGAGGCTTAGGAACTTTTG-AAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
* * * *
1962714 AAAATGCTCCCCTACAACTAAAGCTTTGGAACTTTTGAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
* * *
1962757 AAAATGCTCCCCCATAATTGAGGCTTTGGAACTTTTGAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
* * *
1962800 AAAATGATCCCCCACAACTGAGGCCTTGGAA-TTTTGAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
* *
1962842 AAAATGTTCCCCCACAACTGAGGTTTTGAAACTTTTG-AAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
***
1962884 AAAATGCTCATTCACAACTGAGGCTTTGAAAC-TTTGAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
* * *
1962926 AAAATGTTCCCCCATAATTGAGGCTTTGAAACTTTTG-AAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
** * * *
1962968 AAAATGCTCTTCCACAACTAAGGCTTTGGAACTTTTAAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
* *
1963011 AAAATGCTCCCCTACAACTGAGGCATTGAAACTTTTCG--AAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTT-GAAAAAT
* * *
1963053 AAAATGCTCCCCCATAACTGAGGTTTTAAAAC-TTTGAAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTG-AAAAAT
* * *
1963096 GAAATGCTCCCTCACAATTGAGGCTTTGAAAC-TTTGAAAAAGT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAA-T
** *
1963139 AAAATGCTCCTTCACAA-TCGAGGTTTTGAAACTTTTGAAAAAT
1 AAAATGCTCCCCCACAACT-GAGGCTTTGAAACTTTTGAAAAAT
1963182 AAAATG
1 AAAATG
1963188 AGATCATTCT
Statistics
Matches: 439, Mismatches: 65, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.00
41 7 0.02
42 208 0.47
43 214 0.49
44 9 0.02
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (43 bp):
AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
Found at i:1962732 original size:85 final size:85
Alignment explanation
Indices: 1962629--1963187 Score: 616
Period size: 85 Copynumber: 6.6 Consensus size: 85
1962619 TTTTTTTTGA
* * **
1962629 AAAATGCTTTCCC-ACAACTGAGGCTTTGAAATTTTTGAAAAATAAAATGCTCATCCACAACTGA
1 AAAATGC-TCCCCTACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGA
* *
1962693 GGCTTAGGAACTTTTGAAAAT
65 GGCTTTGAAACTTTTGAAAAT
* * * * *
1962714 AAAATGCTCCCCTACAACTAAAGCTTTGGAACTTTTGAAAAATAAAATGCTCCCCCATAATTGAG
1 AAAATGCTCCCCTACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGAG
*
1962779 GCTTTGGAACTTTTGAAAAAT
66 GCTTTGAAACTTTTG-AAAAT
* * * * *
1962800 AAAATGATCCCCCACAACTGAGGCCTTGGAA-TTTTGAAAAATAAAATGTTCCCCCACAACTGAG
1 AAAATGCTCCCCTACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGAG
*
1962864 GTTTTGAAACTTTTGAAAAT
66 GCTTTGAAACTTTTGAAAAT
** * * *
1962884 AAAATGCT-CATTCACAACTGAGGCTTTGAAAC-TTTGAAAAATAAAATGTTCCCCCATAATTGA
1 AAAATGCTCCCCT-ACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGA
1962947 GGCTTTGAAACTTTTGAAAAT
65 GGCTTTGAAACTTTTGAAAAT
* * * * *
1962968 AAAATGCTCTTCC-ACAACTAAGGCTTTGGAACTTTTAAAAAATAAAATGCTCCCCTACAACTGA
1 AAAATGCTC-CCCTACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGA
*
1963032 GGCATTGAAACTTTTCG-AAAT
65 GGCTTTGAAACTTTT-GAAAAT
* * * * * * *
1963053 AAAATGCTCCCCCATAACTGAGGTTTTAAAAC-TTTGAAAAAATGAAATGCTCCCTCACAATTGA
1 AAAATGCTCCCCTACAACTGAGGCTTTGAAACTTTTG-AAAAATAAAATGCTCCCCCACAACTGA
1963117 GGCTTTGAAAC-TTTGAAAAAGT
65 GGCTTTGAAACTTTTG-AAAA-T
* *
1963139 AAAATGCT-CCTTCACAA-TCGAGGTTTTGAAACTTTTGAAAAATAAAATG
1 AAAATGCTCCCCT-ACAACT-GAGGCTTTGAAACTTTTGAAAAATAAAATG
1963188 AGATCATTCT
Statistics
Matches: 401, Mismatches: 57, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
83 2 0.00
84 114 0.28
85 214 0.53
86 67 0.17
87 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (85 bp):
AAAATGCTCCCCTACAACTGAGGCTTTGAAACTTTTGAAAAATAAAATGCTCCCCCACAACTGAG
GCTTTGAAACTTTTGAAAAT
Found at i:1967850 original size:16 final size:16
Alignment explanation
Indices: 1967816--1967850 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1967806 ATTCAAGCTC
**
1967816 ATACCAATTGTTATGG
1 ATACCAATTGTTAAAG
1967832 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
1967848 ATA
1 ATA
1967851 TGTTATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:1970866 original size:92 final size:92
Alignment explanation
Indices: 1970709--1970894 Score: 309
Period size: 92 Copynumber: 2.0 Consensus size: 92
1970699 TATGTATAGT
*
1970709 ATAACCATGAAAATTATAAAAATTATATTTAATCATATTAGTACTTAATGAACTCTTTAAAAGCT
1 ATAACCATGAAAATTATAAAAATTACATTTAATCATATTAGTACTTAATGAACTCTTTAAAAGCT
* *
1970774 TTTGTTTTTCATTTATCAATTCATCAA
66 TTTGTTTTTCATTAATCAATTAATCAA
* * *
1970801 ATAACCATGAAAATTATAAAAATTGCATTTATTCATTTTAGTACTTAATGAACTCTTTAAAAGCT
1 ATAACCATGAAAATTATAAAAATTACATTTAATCATATTAGTACTTAATGAACTCTTTAAAAGCT
*
1970866 TTTGTTTTTCATTAATTAATTAATCAA
66 TTTGTTTTTCATTAATCAATTAATCAA
1970893 AT
1 AT
1970895 TTCTTTTTCA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (92 bp):
ATAACCATGAAAATTATAAAAATTACATTTAATCATATTAGTACTTAATGAACTCTTTAAAAGCT
TTTGTTTTTCATTAATCAATTAATCAA
Found at i:1978186 original size:26 final size:26
Alignment explanation
Indices: 1978139--1978200 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
1978129 TATCATACAA
*
1978139 ATATATTATAAAATTATATCATGCAATC
1 ATATA-TA-AAAATCATATCATGCAATC
* *
1978167 ATATCATAAAAATCAT-TCATGTAATT
1 ATAT-ATAAAAATCATATCATGCAATC
1978193 ATATATAA
1 ATATATAA
1978201 TTATGCAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 4 0.13
26 12 0.40
27 7 0.23
28 6 0.20
29 1 0.03
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (26 bp):
ATATATAAAAATCATATCATGCAATC
Found at i:1978235 original size:21 final size:22
Alignment explanation
Indices: 1978211--1978258 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
1978201 TTATGCAAGA
*
1978211 ATAATAATCATATAAATATA-T
1 ATAATAATCATACAAATATATT
*
1978232 ATAAT-ATCATGCAAATATATT
1 ATAATAATCATACAAATATATT
1978253 ATAATA
1 ATAATA
1978259 TAAAATGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (22 bp):
ATAATAATCATACAAATATATT
Found at i:1978301 original size:20 final size:20
Alignment explanation
Indices: 1978255--1978293 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1978245 AATATATTAT
*
1978255 AATATAAAATGCCATGCAAC
1 AATATAAAATACCATGCAAC
1978275 AATATAAAATACCATGCAA
1 AATATAAAATACCATGCAA
1978294 ATATATAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.18, G:0.08, T:0.21
Consensus pattern (20 bp):
AATATAAAATACCATGCAAC
Found at i:1978606 original size:21 final size:21
Alignment explanation
Indices: 1978581--1978669 Score: 103
Period size: 20 Copynumber: 4.3 Consensus size: 21
1978571 ATATCTAATA
1978581 ATGCAATTAAAAATATAAATC
1 ATGCAATTAAAAATATAAATC
* * *
1978602 ATGCAAATAAATATAT-AATA
1 ATGCAATTAAAAATATAAATC
* *
1978622 ATGCAATTAACAATATAAACC
1 ATGCAATTAAAAATATAAATC
1978643 ATGCAATT--AAATATACAATC
1 ATGCAATTAAAAATATA-AATC
1978663 ATGCAAT
1 ATGCAAT
1978670 CACACAAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.11
20 26 0.46
21 24 0.43
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (21 bp):
ATGCAATTAAAAATATAAATC
Found at i:1978627 original size:20 final size:20
Alignment explanation
Indices: 1978570--1978669 Score: 96
Period size: 21 Copynumber: 4.9 Consensus size: 20
1978560 TTAACAATGT
*
1978570 AATATCTAATAATGCAATTA
1 AATATATAATAATGCAATTA
* * *
1978590 AAAATATAAATCATGCAAATA
1 AATATAT-AATAATGCAATTA
1978611 AATATATAATAATGCAATTA
1 AATATATAATAATGCAATTA
1978631 ACA-ATATAA-ACCATGCAATTA
1 A-ATATATAATA--ATGCAATTA
* *
1978652 AATATACAATCATGCAAT
1 AATATATAATAATGCAAT
1978670 CACACAAATA
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.02
20 31 0.48
21 33 0.51
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (20 bp):
AATATATAATAATGCAATTA
Found at i:1978627 original size:41 final size:41
Alignment explanation
Indices: 1978570--1978669 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
1978560 TTAACAATGT
* *
1978570 AATATCTAATAATGCAATTAAAAATATAAATCATGCAAATA
1 AATATATAATAATGCAATTAAAAATATAAACCATGCAAATA
* *
1978611 AATATATAATAATGCAATTAACAATATAAACCATGCAATTA
1 AATATATAATAATGCAATTAAAAATATAAACCATGCAAATA
* *
1978652 AATATACAATCATGCAAT
1 AATATATAATAATGCAAT
1978670 CACACAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (41 bp):
AATATATAATAATGCAATTAAAAATATAAACCATGCAAATA
Found at i:1978681 original size:41 final size:41
Alignment explanation
Indices: 1978577--1978681 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
1978567 TGTAATATCT
* * * *
1978577 AATAATGCAATTAAAAATATAAATCATGCAAATAAATATAT
1 AATAATGCAATCAACAATATAAACCATGCAAATAAATATAC
* *
1978618 AATAATGCAATTAACAATATAAACCATGCAATTAAATATAC
1 AATAATGCAATCAACAATATAAACCATGCAAATAAATATAC
*
1978659 AATCATGCAATCACACAA-ATAAA
1 AATAATGCAATCA-ACAATATAAA
1978682 TAAATTAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 53 0.93
42 4 0.07
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (41 bp):
AATAATGCAATCAACAATATAAACCATGCAAATAAATATAC
Found at i:1978791 original size:41 final size:43
Alignment explanation
Indices: 1978706--1978801 Score: 142
Period size: 44 Copynumber: 2.3 Consensus size: 43
1978696 TGCAATTAGA
* *
1978706 ATGCAATTAAATATATAATCATACAAATAATAATATTAATAATC
1 ATGCAATTAAATATATAATAATACAAATAATAATATT-ACAATC
1978750 ATGCAATTAAATATATAATAATACAAATAATAATA-T-CAATC
1 ATGCAATTAAATATATAATAATACAAATAATAATATTACAATC
*
1978791 ATGCAAATAAA
1 ATGCAATTAAA
1978802 CATGCAATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
41 14 0.29
43 1 0.02
44 34 0.69
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (43 bp):
ATGCAATTAAATATATAATAATACAAATAATAATATTACAATC
Found at i:1978870 original size:20 final size:20
Alignment explanation
Indices: 1978845--1978949 Score: 99
Period size: 20 Copynumber: 5.3 Consensus size: 20
1978835 TCACACAAAT
*
1978845 AAATAAATTGATAATCATGC
1 AAATAAATTAATAATCATGC
1978865 AAATAAATTAATAATCATGC
1 AAATAAATTAATAATCATGC
* ** *
1978885 AAACATGTTAATAGTCATGC
1 AAATAAATTAATAATCATGC
*
1978905 AAATATATTAATAA--AT-C
1 AAATAAATTAATAATCATGC
* * *
1978922 ACATAAATATATTAATCATGT
1 AAATAAAT-TAATAATCATGC
1978943 AAATAAA
1 AAATAAA
1978950 ATATTAGGCA
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
17 7 0.10
18 7 0.10
20 48 0.71
21 6 0.09
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:1978964 original size:16 final size:16
Alignment explanation
Indices: 1978943--1978988 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
1978933 TTAATCATGT
1978943 AAATAAAATATTAGGC
1 AAATAAAATATTAGGC
* * *
1978959 AAATAAATTATCATGC
1 AAATAAAATATTAGGC
*
1978975 AAATATAATATTAG
1 AAATAAAATATTAG
1978989 TCATGCAAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (16 bp):
AAATAAAATATTAGGC
Found at i:1978973 original size:32 final size:33
Alignment explanation
Indices: 1978926--1978988 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1978916 TAAATCACAT
* *
1978926 AAATATATTAATCATGTAAATAAAATATTAGGC
1 AAATAAATTAATCATGCAAATAAAATATTAGGC
*
1978959 AAATAAATT-ATCATGCAAATATAATATTAG
1 AAATAAATTAATCATGCAAATAAAATATTAG
1978989 TCATGCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.33
Consensus pattern (33 bp):
AAATAAATTAATCATGCAAATAAAATATTAGGC
Found at i:1978994 original size:20 final size:18
Alignment explanation
Indices: 1978959--1979004 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 18
1978949 AATATTAGGC
1978959 AAATAAATTATCATGCAA
1 AAATAAATTATCATGCAA
*
1978977 ATATAATATTAGTCATGCAA
1 AAATAA-ATTA-TCATGCAA
1978997 AAATAAAT
1 AAATAAAT
1979005 ACTATGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 6 0.25
20 13 0.54
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (18 bp):
AAATAAATTATCATGCAA
Found at i:1984984 original size:15 final size:15
Alignment explanation
Indices: 1984960--1984990 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1984950 AAAAAGGCCC
*
1984960 AACAATGAAAAATGG
1 AACAAGGAAAAATGG
1984975 AACAAGGAAAAATGG
1 AACAAGGAAAAATGG
1984990 A
1 A
1984991 CAGTTAACTG
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:0.61, C:0.06, G:0.23, T:0.10
Consensus pattern (15 bp):
AACAAGGAAAAATGG
Found at i:1988594 original size:14 final size:15
Alignment explanation
Indices: 1988561--1988598 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
1988551 TTATTAATTT
1988561 AAAATAAAAGTATAA
1 AAAATAAAAGTATAA
1988576 AAAATAAAA-TA-AA
1 AAAATAAAAGTATAA
1988589 ACAAATAAAA
1 A-AAATAAAA
1988599 AATTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 10 0.45
15 9 0.41
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (15 bp):
AAAATAAAAGTATAA
Found at i:1992685 original size:16 final size:16
Alignment explanation
Indices: 1992664--1992719 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
1992654 AGGTTTTGAT
1992664 ATTTTTGGGATTTTAA
1 ATTTTTGGGATTTTAA
** *
1992680 ATTTTTAAGATTTTGA
1 ATTTTTGGGATTTTAA
*
1992696 ATTTTAGGG-TTTTGAA
1 ATTTTTGGGATTTT-AA
1992712 ATTTTTGG
1 ATTTTTGG
1992720 TTTAGGTTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
15 4 0.13
16 27 0.87
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (16 bp):
ATTTTTGGGATTTTAA
Found at i:1992721 original size:15 final size:16
Alignment explanation
Indices: 1992654--1992722 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
1992644 TTGGCTTTGA
*
1992654 AGGTTTTGATATTTTT
1 AGGTTTTGAAATTTTT
*
1992670 GGGATTTT-AAATTTTT
1 AGG-TTTTGAAATTTTT
*
1992686 AAGATTTTG-AA-TTTT
1 -AGGTTTTGAAATTTTT
1992701 AGGGTTTTGAAATTTTT
1 A-GGTTTTGAAATTTTT
1992718 -GGTTT
1 AGGTTT
1992723 AGGTTAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
14 1 0.02
15 15 0.36
16 17 0.40
17 9 0.21
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (16 bp):
AGGTTTTGAAATTTTT
Found at i:1992758 original size:15 final size:14
Alignment explanation
Indices: 1992738--1992772 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
1992728 AAATTTAGGG
*
1992738 TTTGGATTTTAAGGT
1 TTTGGA-TTTAAGGA
1992753 TTTGGATTTAAGGA
1 TTTGGATTTAAGGA
1992767 TTTGGA
1 TTTGGA
1992773 AGTTTAGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTTGGATTTAAGGA
Found at i:1992771 original size:29 final size:28
Alignment explanation
Indices: 1992730--1992798 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
1992720 TTTAGGTTAA
* *
1992730 ATTTAGGGTTTGG-ATTTTA-AGGTTTTGG
1 ATTTAGGATTTGGAAGTTTAGA-GTTTT-G
1992758 ATTTAAGGATTTGGAAGTTTAGAGTTTTG
1 ATTT-AGGATTTGGAAGTTTAGAGTTTTG
1992787 ATTTTAGGATTT
1 A-TTTAGGATTT
1992799 TAGGTTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 4 0.11
29 17 0.49
30 13 0.37
31 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (28 bp):
ATTTAGGATTTGGAAGTTTAGAGTTTTG
Found at i:1992808 original size:15 final size:14
Alignment explanation
Indices: 1992731--1992809 Score: 63
Period size: 15 Copynumber: 5.4 Consensus size: 14
1992721 TTAGGTTAAA
*
1992731 TTTAGGGTTTGGAT
1 TTTAGGTTTTGGAT
1992745 TTTAAGGTTTTGGAT
1 TTT-AGGTTTTGGAT
* * *
1992760 TTAAGGATTTGGAAG
1 TTTAGGTTTTGG-AT
1992775 TTTAGAGTTTT-GAT
1 TTTAG-GTTTTGGAT
1992789 TTTAGGATTTTAGG-T
1 TTTAGG-TTTT-GGAT
1992804 TTTAGG
1 TTTAGG
1992810 GTTTAAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
13 1 0.02
14 21 0.40
15 25 0.48
16 5 0.10
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTTAGGTTTTGGAT
Found at i:1992980 original size:20 final size:19
Alignment explanation
Indices: 1992955--1993013 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
1992945 TAATATCTAT
1992955 TTATTTTTATTATTGTTTTA
1 TTATTTTTATTATT-TTTTA
*
1992975 TTATTTATTA-TCTTTTTTA
1 TTATTT-TTATTATTTTTTA
*
1992994 TATATTTTTATAATTTTTTA
1 T-TATTTTTATTATTTTTTA
1993014 ACATCTAAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 9 0.27
20 21 0.64
21 3 0.09
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTATTTTTATTATTTTTTA
Found at i:1993148 original size:32 final size:33
Alignment explanation
Indices: 1993099--1993162 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
1993089 CTTATTATCA
1993099 TTATTATCATTTTTTTATATAT-ATATTTTTTG
1 TTATTATCATTTTTTTATATATAATATTTTTTG
* * *
1993131 TTATTCTC-TTTTATTTATTTTTAATATTTTTT
1 TTATTATCATTTT-TTTATATATAATATTTTTT
1993163 AATATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 4 0.15
32 14 0.52
33 9 0.33
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (33 bp):
TTATTATCATTTTTTTATATATAATATTTTTTG
Found at i:1994564 original size:4 final size:4
Alignment explanation
Indices: 1994555--1994580 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1994545 TATTATTATT
1994555 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
1994581 ATTATCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:1995387 original size:22 final size:22
Alignment explanation
Indices: 1995333--1995387 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
1995323 ATTCGAAAGA
*
1995333 CTTAAAGCTTATGCCTGGAGGT
1 CTTAAAGATTATGCCTGGAGGT
1995355 CTTAGAA-ATTATGCCTGGAGGT
1 CTTA-AAGATTATGCCTGGAGGT
*
1995377 TTTAAAGATTA
1 CTTAAAGATTA
1995388 CGCTCAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 2 0.07
22 25 0.86
23 2 0.07
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.35
Consensus pattern (22 bp):
CTTAAAGATTATGCCTGGAGGT
Found at i:1995655 original size:22 final size:22
Alignment explanation
Indices: 1995625--1995679 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
1995615 ATATTTTACC
1995625 CAGAGGTCTTGAAA-ATTATGCA
1 CAGAGGTCTT-AAAGATTATGCA
* *
1995647 CAGATGTCTTAAAGATTATGCT
1 CAGAGGTCTTAAAGATTATGCA
*
1995669 CAGAGATCTTA
1 CAGAGGTCTTA
1995680 TAAATCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (22 bp):
CAGAGGTCTTAAAGATTATGCA
Found at i:1996491 original size:86 final size:86
Alignment explanation
Indices: 1996356--1996543 Score: 218
Period size: 86 Copynumber: 2.2 Consensus size: 86
1996346 TAAGCAATGT
* * * * * * *
1996356 AAATGCAAATAT-TTTTTTTGTGATGTAGATATGAATGCAAATGTCTTTCTTATGATGCACATGT
1 AAATGCAAATGTCTTTTTTTGTAATGCAGATATGAACGCAAATATCTTTCTCATGATGCACATGC
* *
1996420 AAGTGCGAATG-CAAGTGATGC
66 AAATGCAAATGTCAA-TGATGC
* * *
1996441 AAATGCAAATGTCTTTTTTTGTAATGCAGCTGTGAACGCAATTATCTTTCTCATGATGCACATGC
1 AAATGCAAATGTCTTTTTTTGTAATGCAGATATGAACGCAAATATCTTTCTCATGATGCACATGC
*
1996506 AAATGCAAATGTGAATGATGC
66 AAATGCAAATGTCAATGATGC
* *
1996527 AGATGCTAATGTCTTTT
1 AAATGCAAATGTCTTTT
1996544 ATTTTTATTT
Statistics
Matches: 86, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
85 11 0.13
86 73 0.85
87 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (86 bp):
AAATGCAAATGTCTTTTTTTGTAATGCAGATATGAACGCAAATATCTTTCTCATGATGCACATGC
AAATGCAAATGTCAATGATGC
Found at i:2000560 original size:72 final size:72
Alignment explanation
Indices: 2000439--2000586 Score: 176
Period size: 72 Copynumber: 2.1 Consensus size: 72
2000429 TCGATTGATG
* *
2000439 CCTTCCATGAAGGAATCGATTGGTTCATGTTTAGTGCTATTTACACCTTTGAAAAT-CATAACCT
1 CCTTCCATGAAGGAATCGATTGGTTCATATTTAGTGCTAGTTACACCTTTGAAAATGCAT-ACCT
*
2000503 GATCGATC
65 GATCAATC
* * ** *
2000511 CCTTCCATG-AGGGATCGATTGGTTCATATTTTG-GAACTAGTTATGCCTTTGAAAATGCCTACC
1 CCTTCCATGAAGGAATCGATTGGTTCATATTTAGTG--CTAGTTACACCTTTGAAAATGCATACC
2000574 TGATCAATC
64 TGATCAATC
2000583 CCTT
1 CCTT
2000587 AAGTGAGAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
70 1 0.02
71 21 0.32
72 41 0.63
73 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (72 bp):
CCTTCCATGAAGGAATCGATTGGTTCATATTTAGTGCTAGTTACACCTTTGAAAATGCATACCTG
ATCAATC
Found at i:2001834 original size:21 final size:22
Alignment explanation
Indices: 2001795--2001835 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2001785 TTTTGTTCAT
2001795 GCTCTTTATACCAAATGTTAAA
1 GCTCTTTATACCAAATGTTAAA
* *
2001817 GCTC-TTATATCAATTGTTA
1 GCTCTTTATACCAAATGTTA
2001836 TAAGTATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (22 bp):
GCTCTTTATACCAAATGTTAAA
Found at i:2007066 original size:22 final size:22
Alignment explanation
Indices: 2007038--2007082 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2007028 AGGCTTAAGA
*
2007038 TAGAAACTTTGTACTTTATACT
1 TAGAAACTTTATACTTTATACT
2007060 TAGAAACTTTATACTTTATACT
1 TAGAAACTTTATACTTTATACT
2007082 T
1 T
2007083 TTTAGGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (22 bp):
TAGAAACTTTATACTTTATACT
Found at i:2007628 original size:72 final size:71
Alignment explanation
Indices: 2007476--2007661 Score: 209
Period size: 72 Copynumber: 2.6 Consensus size: 71
2007466 TATTCCAAGG
* * * * *
2007476 CATACTCGATTGATTCTTTCCATG-AGAGGATCAACTGGTTCATGTTTAGTGCCATTTACGCCTT
1 CATACTTGATTGATCCCTTCCATGAAG-GGATCAATTGGTTCATGTTTAGTGCCAATTACGCCTT
2007540 TGAAAAT
65 TGAAAAT
* *
2007547 CATGACTTGATTGATCCCTTCCATGAAGGGATCAATTGGTTCATGTTTTG-GAACCAATTATGCC
1 CAT-ACTTGATTGATCCCTTCCATGAAGGGATCAATTGGTTCATGTTTAGTG--CCAATTACGCC
2007611 TTTGAAAAT
63 TTTGAAAAT
* *
2007620 GCCT-CTTGATTGATCCCTT-AAGTGAAGGGATCAATTGGTTCA
1 -CATACTTGATTGATCCCTTCCA-TGAAGGGATCAATTGGTTCA
2007662 AGGAGGTGAT
Statistics
Matches: 100, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
71 5 0.05
72 73 0.73
73 20 0.20
74 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (71 bp):
CATACTTGATTGATCCCTTCCATGAAGGGATCAATTGGTTCATGTTTAGTGCCAATTACGCCTTT
GAAAAT
Found at i:2013781 original size:16 final size:16
Alignment explanation
Indices: 2013731--2013813 Score: 91
Period size: 15 Copynumber: 5.2 Consensus size: 16
2013721 CAATTTTTGA
*
2013731 TTTAAGGTTTTG-GTT
1 TTTAAGGTTTTGAATT
*
2013746 TTGAAGGTTTTGAGATT
1 TTTAAGGTTTTGA-ATT
*
2013763 TTT-GGGATTTTGAATT
1 TTTAAGG-TTTTGAATT
2013779 TTTAAGGTTTTG-ATT
1 TTTAAGGTTTTGAATT
2013794 TTTAAGGTTTTGAAATT
1 TTTAAGGTTTTG-AATT
2013811 TTT
1 TTT
2013814 GGTTTAGGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
15 26 0.46
16 13 0.23
17 18 0.32
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (16 bp):
TTTAAGGTTTTGAATT
Found at i:2013785 original size:48 final size:47
Alignment explanation
Indices: 2013731--2013911 Score: 170
Period size: 48 Copynumber: 3.8 Consensus size: 47
2013721 CAATTTTTGA
*
2013731 TTTAAGGTTTTGGTTTTGAAGGTTTTGAGATTTTTGGGATTTTGAATT
1 TTTAAGGTTTTGGTTTTGAAGGTTTTGAAATTTTTGGGATTTTGAA-T
* * * *
2013779 TTTAAGGTTTTGATTTTTAAGGTTTTGAAATTTTT-GG-TTTAGGTTAAA
1 TTTAAGGTTTTGGTTTTGAAGGTTTTGAAATTTTTGGGATTT---TGAAT
* * * * * *
2013827 TTTAGGGTTTTGGATTTGAGGGTTTGGAAGTTTTTTGGATTTTGAACT
1 TTTAAGGTTTTGGTTTTGAAGGTTTTGAAATTTTTGGGATTTTGAA-T
* *
2013875 TTAAAGGTTTTGGATTTT-AGGGTTTTGAAATTTTTGG
1 TTTAAGGTTTTGG-TTTTGAAGGTTTTGAAATTTTTGG
2013912 TTTAGGTTTT
Statistics
Matches: 106, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
46 3 0.03
47 5 0.05
48 87 0.82
49 8 0.08
50 3 0.03
ACGTcount: A:0.20, C:0.01, G:0.27, T:0.52
Consensus pattern (47 bp):
TTTAAGGTTTTGGTTTTGAAGGTTTTGAAATTTTTGGGATTTTGAAT
Found at i:2013830 original size:96 final size:96
Alignment explanation
Indices: 2013730--2013919 Score: 276
Period size: 96 Copynumber: 2.0 Consensus size: 96
2013720 TCAATTTTTG
* * * *
2013730 ATTTAAGGTTTTGGTTTTGAAGGTTTTG-AGATTTTTGGGATTTTGAATTTTTAAGGTTTT-GAT
1 ATTTAAGGTTTTGGATTTGAAGGTTTGGAAG-TTTTTGGGATTTTGAACTTTAAAGGTTTTGGA-
2013793 TTTTAAGGTTTTGAAATTTTTGGTTTAGGTTAA
64 TTTTAAGGTTTTGAAATTTTTGGTTTAGGTTAA
* * *
2013826 ATTTAGGGTTTTGGATTTGAGGGTTTGGAAGTTTTTTGGATTTTGAACTTTAAAGGTTTTGGATT
1 ATTTAAGGTTTTGGATTTGAAGGTTTGGAAGTTTTTGGGATTTTGAACTTTAAAGGTTTTGGATT
*
2013891 TTAGGGTTTTGAAATTTTTGGTTTAGGTT
66 TTAAGGTTTTGAAATTTTTGGTTTAGGTT
2013920 TTGAAGGTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
96 80 0.95
97 4 0.05
ACGTcount: A:0.21, C:0.01, G:0.26, T:0.53
Consensus pattern (96 bp):
ATTTAAGGTTTTGGATTTGAAGGTTTGGAAGTTTTTGGGATTTTGAACTTTAAAGGTTTTGGATT
TTAAGGTTTTGAAATTTTTGGTTTAGGTTAA
Found at i:2013930 original size:21 final size:23
Alignment explanation
Indices: 2013832--2013958 Score: 91
Period size: 24 Copynumber: 5.5 Consensus size: 23
2013822 TTAAATTTAG
*
2013832 GGTTTTGGATTTGAGGGTTTGGAA
1 GGTTTTGGATTT-AGGGTTTTGAA
* * *** *
2013856 GTTTTTTGGATTTTGAACTTTAAA
1 G-GTTTTGGATTTAGGGTTTTGAA
2013880 GGTTTTGGATTTTAGGGTTTTGAA
1 GGTTTTGGA-TTTAGGGTTTTGAA
**
2013904 ATTTTTGG-TTTA-GGTTTTGAA
1 GGTTTTGGATTTAGGGTTTTGAA
* *
2013925 GGTTTTGGAGTTT-GGATTTT-AG
1 GGTTTTGGA-TTTAGGGTTTTGAA
2013947 GGTTTTGGATTT
1 GGTTTTGGATTT
2013959 TAAGGTTCGG
Statistics
Matches: 79, Mismatches: 19, Indels: 13
0.71 0.17 0.12
Matches are distributed among these distances:
21 18 0.23
22 14 0.18
23 15 0.19
24 22 0.28
25 10 0.13
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.51
Consensus pattern (23 bp):
GGTTTTGGATTTAGGGTTTTGAA
Found at i:2013955 original size:15 final size:15
Alignment explanation
Indices: 2013935--2013965 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2013925 GGTTTTGGAG
*
2013935 TTTGGATTTTAGGGT
1 TTTGGATTTTAAGGT
2013950 TTTGGATTTTAAGGT
1 TTTGGATTTTAAGGT
2013965 T
1 T
2013966 CGGAAGTTTA
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:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (15 bp):
TTTGGATTTTAAGGT
Found at i:2013987 original size:29 final size:29
Alignment explanation
Indices: 2013949--2014023 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
2013939 GATTTTAGGG
*
2013949 TTTTGGATTTTAAGGTTCGGAAGTTTAGAA
1 TTTT-GATTTTAAGGTTCAGAAGTTTAGAA
* *
2013979 TTTTGATTTT-AGGATTCAGAGGTTTAGGA
1 TTTTGATTTTAAGG-TTCAGAAGTTTAGAA
2014008 TTTTGATTTTAAGGTT
1 TTTTGATTTTAAGGTT
2014024 TCAGGTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 3 0.08
29 30 0.75
30 7 0.17
ACGTcount: A:0.24, C:0.03, G:0.25, T:0.48
Consensus pattern (29 bp):
TTTTGATTTTAAGGTTCAGAAGTTTAGAA
Found at i:2014033 original size:29 final size:28
Alignment explanation
Indices: 2013942--2014035 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 28
2013932 GAGTTTGGAT
*
2013942 TTTAGGGTTTTGGATTTTAAGGTTC-GGAAG
1 TTTAGGATTTT-GATTTTAAGGTTCAGG--G
*
2013972 TTTAGAATTTTGATTTT-AGGATTCAGAGG
1 TTTAGGATTTTGATTTTAAGG-TTCAG-GG
*
2014001 TTTAGGATTTTGATTTTAAGGTTTCAGGT
1 TTTAGGATTTTGATTTTAAGG-TTCAGGG
2014030 TTTAGG
1 TTTAGG
2014036 GTTTAAAGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
28 3 0.05
29 33 0.60
30 18 0.33
31 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.47
Consensus pattern (28 bp):
TTTAGGATTTTGATTTTAAGGTTCAGGG
Found at i:2014202 original size:18 final size:19
Alignment explanation
Indices: 2014157--2014222 Score: 70
Period size: 17 Copynumber: 3.7 Consensus size: 19
2014147 TGAAAAATTA
*
2014157 TTATTA-TTAATATCTG-T
1 TTATTATTTATTATCTGTT
2014174 TTATT-TTTATTAT-TGTT
1 TTATTATTTATTATCTGTT
*
2014191 TTATTATTTATTATCTTTT
1 TTATTATTTATTATCTGTT
*
2014210 TTA-TATTTTTTAT
1 TTATTATTTATTAT
2014223 AATTCTCCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
16 2 0.05
17 17 0.40
18 17 0.40
19 6 0.14
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (19 bp):
TTATTATTTATTATCTGTT
Found at i:2014347 original size:12 final size:11
Alignment explanation
Indices: 2014325--2014355 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
2014315 CATTATTTTA
2014325 ATTTTTTTAGC
1 ATTTTTTTAGC
2014336 ATTTTCTTTAGC
1 ATTTT-TTTAGC
2014348 ATTTTTTT
1 ATTTTTTT
2014356 GTTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (11 bp):
ATTTTTTTAGC
Found at i:2014574 original size:10 final size:10
Alignment explanation
Indices: 2014548--2014581 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2014538 CATTTAGATT
*
2014548 TTATTTATTA
1 TTATTTATTG
2014558 TTA-TTATTG
1 TTATTTATTG
2014567 TTATTTATTG
1 TTATTTATTG
2014577 TTATT
1 TTATT
2014582 ATTAGTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (10 bp):
TTATTTATTG
Found at i:2014590 original size:19 final size:19
Alignment explanation
Indices: 2014548--2014584 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2014538 CATTTAGATT
2014548 TTATTTATTATTATTATTG
1 TTATTTATTATTATTATTG
*
2014567 TTATTTATTGTTATTATT
1 TTATTTATTATTATTATT
2014585 AGTATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTATTTATTATTATTATTG
Found at i:2017215 original size:10 final size:11
Alignment explanation
Indices: 2017193--2017225 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
2017183 AATAAAAATT
2017193 TATATACTAAA
1 TATATACTAAA
2017204 TATATA-TAAA
1 TATATACTAAA
2017214 TATATACGTAAA
1 TATATAC-TAAA
2017226 GTACGAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 6 0.30
12 4 0.20
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (11 bp):
TATATACTAAA
Found at i:2019598 original size:131 final size:131
Alignment explanation
Indices: 2019348--2019587 Score: 306
Period size: 130 Copynumber: 1.8 Consensus size: 131
2019338 ACTTACAATT
*
2019348 TTATGATTAATAGCTGTATACTCTAACCAATTAAGCTACTCTAGTGTTTAAATAATGAAAAGGTA
1 TTATGATTAATAGCTGTATACTCTAACCAATTAAGCTACTCTAATGTTTAAATAATGAAAAGGTA
* * *
2019413 TTATTTAAACTAAGAATAATCCCTTCCAAGAGGAGATTATTTAAGACATTTTTGGCACCTATGAT
66 TTATTTAAACTAAGAATAATCACTTCCAAGAGGAGATCATTCAAGACATTTTTGGCACCTATGAT
2019478 C
131 C
* * * * ** * * *
2019479 TTATGGTTAATAGTTGTATATTCTAACCAATTGAGCTACTCTAAT-TTTTTATAATTAAAATGTG
1 TTATGATTAATAGCTGTATACTCTAACCAATTAAGCTACTCTAATGTTTAAATAATGAAAAGGTA
* *
2019543 TTATTTGAACTAAGAATAATTCAC-T-CACAGAGGGGATCATTCAAG
66 TTATTTAAACTAAGAATAA-TCACTTCCA-AGAGGAGATCATTCAAG
2019588 GCGTTTTTTG
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
129 2 0.02
130 47 0.51
131 43 0.47
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (131 bp):
TTATGATTAATAGCTGTATACTCTAACCAATTAAGCTACTCTAATGTTTAAATAATGAAAAGGTA
TTATTTAAACTAAGAATAATCACTTCCAAGAGGAGATCATTCAAGACATTTTTGGCACCTATGAT
C
Found at i:2021629 original size:72 final size:71
Alignment explanation
Indices: 2021481--2021658 Score: 193
Period size: 72 Copynumber: 2.5 Consensus size: 71
2021471 GGCATACTCG
* * * *
2021481 ATTGATTCTTTCCATG-AGAGGATCAACTGGTTCATGTTTAGTGCCATTTACGCCTTTGAAAATC
1 ATTGATCCCTTCCATGAAG-GGATCAATTGGTTCATGTTTAGTGCCAATTACGCCTTTGAAAATC
*
2021545 ATGACTTG
65 AT-ACTTA
* *
2021553 ATTGATCCCTTCCATGAAGGGATCAATTGGTTCATGTTTTG-GAACCAATTATGCCTTTGAAAAT
1 ATTGATCCCTTCCATGAAGGGATCAATTGGTTCATGTTTAGTG--CCAATTACGCCTTTGAAAAT
*
2021617 GCCT-CTTA
64 -CATACTTA
*
2021625 ATTGATCCCTT-AAGTGAAGGGATCAATTGGTTCA
1 ATTGATCCCTTCCA-TGAAGGGATCAATTGGTTCA
2021659 AGGAGGTGAT
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
71 2 0.02
72 68 0.74
73 20 0.22
74 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (71 bp):
ATTGATCCCTTCCATGAAGGGATCAATTGGTTCATGTTTAGTGCCAATTACGCCTTTGAAAATCA
TACTTA
Found at i:2027766 original size:15 final size:16
Alignment explanation
Indices: 2027709--2027789 Score: 73
Period size: 14 Copynumber: 5.2 Consensus size: 16
2027699 CAATTTTTGA
*
2027709 TTTAAGGTTTTG--GT
1 TTTAAGGTTTTGAATT
*
2027723 TTGAAGGTTTTGAGATT
1 TTTAAGGTTTTGA-ATT
*
2027740 TTT-GGGATTTTGAATT
1 TTTAAGG-TTTTGAATT
2027756 TTTAAGG-TTTG-ATT
1 TTTAAGGTTTTGAATT
2027770 TTTAAGGTTTTGAAATT
1 TTTAAGGTTTTG-AATT
2027787 TTT
1 TTT
2027790 GGTTTAGGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
14 21 0.39
15 8 0.15
16 8 0.15
17 17 0.31
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.56
Consensus pattern (16 bp):
TTTAAGGTTTTGAATT
Found at i:2027793 original size:15 final size:15
Alignment explanation
Indices: 2027727--2027794 Score: 61
Period size: 17 Copynumber: 4.4 Consensus size: 15
2027717 TTTGGTTTGA
2027727 AGGTTTTGAGATTTTT
1 AGGTTTTGA-ATTTTT
*
2027743 GGGATTTTGAATTTTT
1 AGG-TTTTGAATTTTT
2027759 AAGG-TTTG-ATTTTT
1 -AGGTTTTGAATTTTT
2027773 AAGGTTTTGAAATTTTT
1 -AGGTTTTG-AATTTTT
2027790 -GGTTT
1 AGGTTT
2027795 AGGTTAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
14 10 0.22
15 13 0.29
16 8 0.18
17 14 0.31
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.56
Consensus pattern (15 bp):
AGGTTTTGAATTTTT
Found at i:2027884 original size:94 final size:93
Alignment explanation
Indices: 2027714--2027893 Score: 242
Period size: 94 Copynumber: 1.9 Consensus size: 93
2027704 TTTGATTTAA
* * *
2027714 GGTTTTGGTTTGAAGGTTTTGAGATTTTTGGGATTTTGAATTTTTAAGGTTTGATTTTTAAGGTT
1 GGTTTTGGTTTGAAGGTTTGGAGATTTTTGGGATTTTGAACTTTAAAGGTTTGATTTTTAAGGTT
2027779 TTGAAATTTTTGGTTTAGGTTAAATTAG
66 TTGAAATTTTTGGTTTAGGTTAAATTAG
*
2027807 GGTTTTGGATTTG-AGTGTTTGGA-AGTTTTTTGGATTTTGAACTTTAAAGGTTTTGGA-TTTTA
1 GGTTTTGG-TTTGAAG-GTTTGGAGA-TTTTTGGGATTTTGAACTTTAAAGG-TTT-GATTTTTA
*
2027869 GGGTTTTGAAA-TTTTGGTTTAGGTT
61 AGGTTTTGAAATTTTTGGTTTAGGTT
2027894 TGAAGGTTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
93 11 0.14
94 46 0.60
95 18 0.23
96 2 0.03
ACGTcount: A:0.20, C:0.01, G:0.27, T:0.52
Consensus pattern (93 bp):
GGTTTTGGTTTGAAGGTTTGGAGATTTTTGGGATTTTGAACTTTAAAGGTTTGATTTTTAAGGTT
TTGAAATTTTTGGTTTAGGTTAAATTAG
Found at i:2027974 original size:29 final size:29
Alignment explanation
Indices: 2027920--2027994 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
2027910 GGATTTAGGG
*
2027920 TTTTGGATTTTAAGGTTCGGAAGTTTAGAA
1 TTTT-GATTTTAAGGTTCAGAAGTTTAGAA
* *
2027950 TTTTGATTTT-AGGATTCAGAGGTTTAGGA
1 TTTTGATTTTAAGG-TTCAGAAGTTTAGAA
2027979 TTTTGATTTTAAGGTT
1 TTTTGATTTTAAGGTT
2027995 TCAGTTTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 3 0.08
29 30 0.75
30 7 0.17
ACGTcount: A:0.24, C:0.03, G:0.25, T:0.48
Consensus pattern (29 bp):
TTTTGATTTTAAGGTTCAGAAGTTTAGAA
Found at i:2028172 original size:18 final size:18
Alignment explanation
Indices: 2028127--2028191 Score: 66
Period size: 17 Copynumber: 3.8 Consensus size: 18
2028117 TGAAAAATTA
* *
2028127 TTATTA-TTAATATCTGT
1 TTATTATTTATTATCTTT
2028144 TTATT-TTTATTAT-TGTT
1 TTATTATTTATTATCT-TT
2028161 TTATTATTTATTATCTTT
1 TTATTATTTATTATCTTT
*
2028179 TTA-TATTTTTTAT
1 TTATTATTTATTAT
2028192 AATTCTCCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.02
17 26 0.63
18 13 0.32
19 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (18 bp):
TTATTATTTATTATCTTT
Found at i:2028324 original size:12 final size:11
Alignment explanation
Indices: 2028302--2028332 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
2028292 CATTATTTTA
2028302 ATTTTTTTAGC
1 ATTTTTTTAGC
2028313 ATTTTCTTTAGC
1 ATTTT-TTTAGC
2028325 ATTTTTTT
1 ATTTTTTT
2028333 GTTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (11 bp):
ATTTTTTTAGC
Found at i:2028551 original size:10 final size:10
Alignment explanation
Indices: 2028525--2028558 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2028515 CATTTAGATT
*
2028525 TTATTTATTA
1 TTATTTATTG
2028535 TTA-TTATTG
1 TTATTTATTG
2028544 TTATTTATTG
1 TTATTTATTG
2028554 TTATT
1 TTATT
2028559 ATTAGTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (10 bp):
TTATTTATTG
Found at i:2028567 original size:19 final size:19
Alignment explanation
Indices: 2028525--2028561 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2028515 CATTTAGATT
2028525 TTATTTATTATTATTATTG
1 TTATTTATTATTATTATTG
*
2028544 TTATTTATTGTTATTATT
1 TTATTTATTATTATTATT
2028562 AGTATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTATTTATTATTATTATTG
Found at i:2031183 original size:10 final size:11
Alignment explanation
Indices: 2031161--2031193 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
2031151 AATAAAAATT
2031161 TATATACTAAA
1 TATATACTAAA
2031172 TATATA-TAAA
1 TATATACTAAA
2031182 TATATACGTAAA
1 TATATAC-TAAA
2031194 GTACGAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 6 0.30
12 4 0.20
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (11 bp):
TATATACTAAA
Found at i:2033561 original size:131 final size:131
Alignment explanation
Indices: 2033320--2033564 Score: 307
Period size: 131 Copynumber: 1.9 Consensus size: 131
2033310 ACAATTTTAA
* * *
2033320 GGTTAATAGCTGTATACTCTAACCGATTAAGCTATTCTAGTGTTTAAATAATGAAAATGTATTAT
1 GGTTAATAGCTGTATACTCTAACCGATTAAGCTACTCTAATGTTTAAATAATGAAAAGGTATTAT
* * * *
2033385 TTAAACTAAGAATAATCCCTTCTAAGAGGAGATTATTTAATGCGTTTTTAGCACCTATGACCTTA
66 TTAAACTAAGAATAATCACTTCTAAGAGGAGATCATTCAAGGCGTTTTTAGCACCTATGACCTTA
2033450 T
131 T
* * * ** *
2033451 GGTTAATAGTTGTAT-CTTCTAACCGATTGAGCTACTCTAATTTTTTTATAATTAAAAGGTATTA
1 GGTTAATAGCTGTATAC-TCTAACCGATTAAGCTACTCTAATGTTTAAATAATGAAAAGGTATTA
* *
2033515 TTTGAACTAAGAATAATTCAC-TC-ACAGAGGGGATCATTCAAGGCGTTTTT
65 TTTAAACTAAGAATAA-TCACTTCTA-AGAGGAGATCATTCAAGGCGTTTTT
2033565 GGTAAAAAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
130 2 0.02
131 91 0.95
132 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (131 bp):
GGTTAATAGCTGTATACTCTAACCGATTAAGCTACTCTAATGTTTAAATAATGAAAAGGTATTAT
TTAAACTAAGAATAATCACTTCTAAGAGGAGATCATTCAAGGCGTTTTTAGCACCTATGACCTTA
T
Found at i:2036392 original size:13 final size:13
Alignment explanation
Indices: 2036374--2036399 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2036364 ATTTTAATGA
2036374 AATTAAAAATAAT
1 AATTAAAAATAAT
2036387 AATTAAAAATAAT
1 AATTAAAAATAAT
2036400 GATAGATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAAAAATAAT
Found at i:2036434 original size:21 final size:21
Alignment explanation
Indices: 2036408--2036463 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
2036398 ATGATAGATG
* *
2036408 TAAAATTAATTATTATAATGA
1 TAAAATTAAATATTATAATAA
2036429 TAAAATTAAATATTATAATAA
1 TAAAATTAAATATTATAATAA
2036450 TAAAATTAAA-ATTA
1 TAAAATTAAATATTA
2036464 GTGACTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAAATTAAATATTATAATAA
Found at i:2036553 original size:20 final size:19
Alignment explanation
Indices: 2036528--2036565 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2036518 TATTAGAAAA
2036528 AAAATCATTATAAATAATTG
1 AAAATCATTATAAA-AATTG
*
2036548 AAAATCTTTATAAAAATT
1 AAAATCATTATAAAAATT
2036566 TTTGAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAATCATTATAAAAATTG
Found at i:2036806 original size:25 final size:24
Alignment explanation
Indices: 2036775--2036830 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
2036765 AATATGTAAT
*
2036775 AAAAATTATTGTAATTGT-TATTAA
1 AAAAATTATTATAATT-TCTATTAA
*
2036799 AAGAAATTATTATAGTTTCTATTAA
1 AA-AAATTATTATAATTTCTATTAA
2036824 AAAAATT
1 AAAAATT
2036831 TTGGATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (24 bp):
AAAAATTATTATAATTTCTATTAA
Found at i:2041402 original size:2 final size:2
Alignment explanation
Indices: 2041395--2041429 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2041385 TAATAACTGG
*
2041395 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2041430 ACCGCCTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2043641 original size:4 final size:4
Alignment explanation
Indices: 2043634--2043665 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
2043624 TATATATATA
2043634 TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
2043666 CATGGTACGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:2044440 original size:14 final size:14
Alignment explanation
Indices: 2044421--2044455 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
2044411 ACTTGTTAGT
2044421 TAACAAGAAGTGAG
1 TAACAAGAAGTGAG
2044435 TAACAAGAAGTGAG
1 TAACAAGAAGTGAG
2044449 TCAACAA
1 T-AACAA
2044456 AGCTGTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.14
Consensus pattern (14 bp):
TAACAAGAAGTGAG
Found at i:2044794 original size:13 final size:13
Alignment explanation
Indices: 2044776--2044809 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
2044766 TGTTTAATAA
*
2044776 TAATTAAAAAAAT
1 TAATTAAAAAAAC
2044789 TAATTAAAAAAAC
1 TAATTAAAAAAAC
2044802 TAATTAAA
1 TAATTAAA
2044810 TTAAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
TAATTAAAAAAAC
Found at i:2044989 original size:20 final size:20
Alignment explanation
Indices: 2044947--2044989 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2044937 ACTAGGCCAG
* * *
2044947 CCTAGCCATCATGCCACTAC
1 CCTAACCATCATACCACCAC
*
2044967 CCTAACCATCATACCACCCC
1 CCTAACCATCATACCACCAC
2044987 CCT
1 CCT
2044990 CATCCAATCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.19
Consensus pattern (20 bp):
CCTAACCATCATACCACCAC
Found at i:2047749 original size:19 final size:21
Alignment explanation
Indices: 2047725--2047764 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
2047715 ATTAATTATA
2047725 TAAAAAA-ACAAA-AAAAAAT
1 TAAAAAAGACAAACAAAAAAT
*
2047744 TAAAAAAGAGAAACAAAAAAT
1 TAAAAAAGACAAACAAAAAAT
2047765 GGTAGAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (21 bp):
TAAAAAAGACAAACAAAAAAT
Found at i:2049264 original size:32 final size:31
Alignment explanation
Indices: 2049189--2049306 Score: 105
Period size: 32 Copynumber: 3.7 Consensus size: 31
2049179 TAGGTTTCTA
* *
2049189 AAACTCCTAAAATCCAAAAT--CTAAAATCTG
1 AAACCCCTAAAATCCAAAATCCCTAAAATC-C
*
2049219 AAACCCCTAAAAATCCAAAATCCCTTAAATCC
1 AAACCCCT-AAAATCCAAAATCCCTAAAATCC
** *
2049251 AAACCCCATAAAATCTGAAACCCCTAAAATCC
1 AAACCCC-TAAAATCCAAAATCCCTAAAATCC
* *
2049283 AAAACCCCCTAAAATGCGAAATCC
1 -AAA-CCCCTAAAATCCAAAATCC
2049307 AAAACCTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
30 7 0.10
31 12 0.17
32 26 0.36
33 23 0.32
34 4 0.06
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.18
Consensus pattern (31 bp):
AAACCCCTAAAATCCAAAATCCCTAAAATCC
Found at i:2049291 original size:17 final size:16
Alignment explanation
Indices: 2049188--2049297 Score: 100
Period size: 17 Copynumber: 6.9 Consensus size: 16
2049178 CTAGGTTTCT
*
2049188 AAAACTCCTAAAATCC
1 AAAACCCCTAAAATCC
* *
2049204 AAAA--TCTAAAATCT
1 AAAACCCCTAAAATCC
*
2049218 GAAACCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
* *
2049235 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
*
2049251 -AAACCCCATAAAATCT
1 AAAACCCC-TAAAATCC
*
2049267 GAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
2049283 AAAACCCCCTAAAAT
1 AAAA-CCCCTAAAAT
2049298 GCGAAATCCA
Statistics
Matches: 75, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
14 11 0.15
15 6 0.08
16 28 0.37
17 30 0.40
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:2049386 original size:15 final size:15
Alignment explanation
Indices: 2049366--2049414 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
2049356 CGTTTAAATC
2049366 AAAACCCCAAACCTA
1 AAAACCCCAAACCTA
2049381 AAAA-CCCAAACCCTA
1 AAAACCCCAAA-CCTA
* *
2049396 AAATCTCCAAACTCTA
1 AAAACCCCAAAC-CTA
2049412 AAA
1 AAA
2049415 TCAAAACCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 6 0.21
15 12 0.41
16 11 0.38
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAACCCCAAACCTA
Found at i:2049407 original size:16 final size:15
Alignment explanation
Indices: 2049366--2049427 Score: 65
Period size: 14 Copynumber: 4.2 Consensus size: 15
2049356 CGTTTAAATC
*
2049366 AAAACCCCAAA-CCT
1 AAAATCCCAAACCCT
*
2049380 AAAAACCCAAACCCT
1 AAAATCCCAAACCCT
*
2049395 AAAATCTCCAAACTCT
1 AAAATC-CCAAACCCT
*
2049411 AAAAT-CAAAACCCT
1 AAAATCCCAAACCCT
2049425 AAA
1 AAA
2049428 CCTTCCATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 20 0.49
15 8 0.20
16 13 0.32
ACGTcount: A:0.53, C:0.34, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAATCCCAAACCCT
Found at i:2060551 original size:19 final size:17
Alignment explanation
Indices: 2060529--2060576 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 17
2060519 ATATTTTGCT
2060529 TAAAAAAATAAAAAATACA
1 TAAAAAAATAAAAAAT--A
*
2060548 TAAAAATATAAAAAATA
1 TAAAAAAATAAAAAATA
2060565 TAAAAAAATAAA
1 TAAAAAAATAAA
2060577 CACAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 12 0.44
19 15 0.56
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (17 bp):
TAAAAAAATAAAAAATA
Found at i:2060552 original size:10 final size:9
Alignment explanation
Indices: 2060529--2060576 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
2060519 ATATTTTGCT
2060529 TAAAAAA-A
1 TAAAAAATA
2060537 TAAAAAATA
1 TAAAAAATA
*
2060546 CATAAAAATA
1 TA-AAAAATA
2060556 TAAAAAATA
1 TAAAAAATA
2060565 TAAAAAA-A
1 TAAAAAATA
2060573 TAAA
1 TAAA
2060577 CACAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 12 0.33
9 16 0.44
10 8 0.22
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (9 bp):
TAAAAAATA
Found at i:2060660 original size:20 final size:19
Alignment explanation
Indices: 2060617--2060653 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2060607 ATTGAAAACC
2060617 CAAAAAGGGCGATTTAAGT
1 CAAAAAGGGCGATTTAAGT
2060636 CAAAAAGGGTC-ATTTAAG
1 CAAAAAGGG-CGATTTAAG
2060654 CTGAAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (19 bp):
CAAAAAGGGCGATTTAAGT
Found at i:2061688 original size:35 final size:35
Alignment explanation
Indices: 2061638--2061732 Score: 100
Period size: 37 Copynumber: 2.7 Consensus size: 35
2061628 CCTTGGCTTG
* *
2061638 CGGTTCAATCCCAGTCTTTTTTAATATTTGGCTCA
1 CGGTTTAATCCCAGTCTTTTTTAATATTTGACTCA
* * * * **
2061673 TGGTTTAATCTCAGTCATTTCTTTATTTTTTGACTTG
1 CGGTTTAATCCCAGTC-TTT-TTTAATATTTGACTCA
2061710 CGGTTTAATCCCAGTCTTTTTTA
1 CGGTTTAATCCCAGTCTTTTTTA
2061733 TCTCTCTAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
35 17 0.35
36 6 0.12
37 25 0.52
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (35 bp):
CGGTTTAATCCCAGTCTTTTTTAATATTTGACTCA
Found at i:2061715 original size:37 final size:36
Alignment explanation
Indices: 2061674--2061761 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
2061664 TTTGGCTCAT
* * * *
2061674 GGTTTAATCTCAGTCATTTCTTTAT-TTTTTGACTTGC
1 GGTTTAATCCCAGTC-TTT-TTTATCTCTCTAACTTGC
2061711 GGTTTAATCCCAGTCTTTTTTATCTCTCTAACTTGC
1 GGTTTAATCCCAGTCTTTTTTATCTCTCTAACTTGC
*
2061747 GGTTCAATCCCAGTC
1 GGTTTAATCCCAGTC
2061762 GTCATCAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 5 0.11
36 26 0.58
37 14 0.31
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.47
Consensus pattern (36 bp):
GGTTTAATCCCAGTCTTTTTTATCTCTCTAACTTGC
Found at i:2062024 original size:171 final size:171
Alignment explanation
Indices: 2061804--2062536 Score: 947
Period size: 171 Copynumber: 4.3 Consensus size: 171
2061794 ATCATTTCAG
* * *
2061804 TTTT-TGACTCGCGATTTAATTCTGATCTTTTTA-TCAT-TCGATTCACGGTTCAATCTCGATCT
1 TTTTCTGACTCGCGGTTTAATTCTGATCTCTTTATTC-TCT-GATTCACGGTTCAATCCCGATCT
*** * *
2061866 CTTTAATTTAAAATTGTAGTTTAATCTCGATTGTTGTTAACCTCTAACTCATGGTTTATTCTCGA
64 CTTTAATTTAAAATCACAATTTAATCTCGATTGTTGTTAACCTCTGACTCATGGTTTATTCTCGA
2061931 TCTTTTTATTTTCTGACTTGTGATTCAATCCAAGTTAACGTCA
129 TCTTTTTATTTTCTGACTTGTGATTCAATCCAAGTTAACGTCA
* *
2061974 TTTTCTGACTCGTGGTTTAATTCTGATCTCTTTATTCTCTAATTCACGGTTCAATCCCGATCTCT
1 TTTTCTGACTCGCGGTTTAATTCTGATCTCTTTATTCTCTGATTCACGGTTCAATCCCGATCTCT
*** * * *
2062039 TTAATTTAAAATTGTAGTTTAATCTCAATTGTTGTTAACCTCTGACTCGTGGTTTATTCTCGATC
66 TTAATTTAAAATCACAATTTAATCTCGATTGTTGTTAACCTCTGACTCATGGTTTATTCTCGATC
*
2062104 TTTTTATTTTCTGACTTGTGATTCAATCCAAGTTAATGTCA
131 TTTTTATTTTCTGACTTGTGATTCAATCCAAGTTAACGTCA
* * ** * *
2062145 TTTTCTGACTCGCAGTTTAA-TCTCGATTTCTTTATTCTCCAATTCATGGTTCAATCCCGATCTT
1 TTTTCTGACTCGCGGTTTAATTCT-GATCTCTTTATTCTCTGATTCACGGTTCAATCCCGATCTC
* *
2062209 TTTAATTTAAAATCACAATTTAATCTCGATTGTAGTTAACCTTTGACTCATGGTTTATTCTCGAT
65 TTTAATTTAAAATCACAATTTAATCTCGATTGTTGTTAACCTCTGACTCATGGTTTATTCTCGAT
* *
2062274 CTTTTTATTTTTTGACTTGTGATTCAATCCAAGTTATCGTCA
130 CTTTTTATTTTCTGACTTGTGATTCAATCCAAGTTAACGTCA
* * * * * * *
2062316 TTTTTTTTATTCGTGGTTTAATCCTGGTCTCTTTATTCTCTGATTTACGGTTCAATCCCGAT-TG
1 -TTTTCTGACTCGCGGTTTAATTCTGATCTCTTTATTCTCTGATTCACGGTTCAATCCCGATCT-
* * *
2062380 CTTTAATTTAAAATCACAATTTAATCTTGATTGTTGTTGTTAACCTCTGACTCATTGTTTATTTT
64 CTTTAATTTAAAATCACAATTTAATCTCGA---TTGTTGTTAACCTCTGACTCATGGTTTATTCT
* * *
2062445 CGATCTTCTTATTTTTTGACTTGTGATTCAATCCAAGTTAACATCA
126 CGATCTTTTTATTTTCTGACTTGTGATTCAATCCAAGTTAACGTCA
* * **
2062491 TTTTTTGATTCGCGACTTAATT-TCGATCTCTTTATTCTCTGATTCA
1 TTTTCTGACTCGCGGTTTAATTCT-GATCTCTTTATTCTCTGATTCA
2062537 TGATTTAATC
Statistics
Matches: 498, Mismatches: 54, Indels: 18
0.87 0.09 0.03
Matches are distributed among these distances:
170 7 0.01
171 303 0.61
172 77 0.15
173 3 0.01
174 37 0.07
175 71 0.14
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.47
Consensus pattern (171 bp):
TTTTCTGACTCGCGGTTTAATTCTGATCTCTTTATTCTCTGATTCACGGTTCAATCCCGATCTCT
TTAATTTAAAATCACAATTTAATCTCGATTGTTGTTAACCTCTGACTCATGGTTTATTCTCGATC
TTTTTATTTTCTGACTTGTGATTCAATCCAAGTTAACGTCA
Found at i:2062545 original size:34 final size:34
Alignment explanation
Indices: 2062507--2062580 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
2062497 GATTCGCGAC
* *
2062507 TTAATTTCGATCTCTTTATTCTCTGATTCATGAT
1 TTAATCTCAATCTCTTTATTCTCTGATTCATGAT
* * *
2062541 TTAATCTCAATTTTTTTATTCTCTGATTCGTGAT
1 TTAATCTCAATCTCTTTATTCTCTGATTCATGAT
2062575 TTAATC
1 TTAATC
2062581 CTGATCCTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (34 bp):
TTAATCTCAATCTCTTTATTCTCTGATTCATGAT
Found at i:2062836 original size:87 final size:87
Alignment explanation
Indices: 2062690--2062853 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 87
2062680 ATTCATGGTA
* * ** *
2062690 TTATCCCGATCGATTCTTTAATTTTGACTTACGGTGTTGTTTCGATCAATTTTGTAAGACCTCCG
1 TTATCCCAATCGATTCTTTAATTTTGACTTACGGTGTTATCCCGATCAATTCTGTAAGACCTCCG
2062755 GGCATAATTTTTATTCGCGATG
66 GGCATAATTTTTATTCGCGATG
* * * **
2062777 TTATCCCAATCGATTTTTTAATTTTGACTTGCGGTGTTATCCC-AGTCGATTCTGTAAGACCTTT
1 TTATCCCAATCGATTCTTTAATTTTGACTTACGGTGTTATCCCGA-TCAATTCTGTAAGACCTCC
*
2062841 GGGCATGATTTTT
65 GGGCATAATTTTT
2062854 GTAAGACCTT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
86 1 0.02
87 64 0.98
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (87 bp):
TTATCCCAATCGATTCTTTAATTTTGACTTACGGTGTTATCCCGATCAATTCTGTAAGACCTCCG
GGCATAATTTTTATTCGCGATG
Found at i:2062856 original size:24 final size:23
Alignment explanation
Indices: 2062824--2062921 Score: 119
Period size: 22 Copynumber: 4.3 Consensus size: 23
2062814 TATCCCAGTC
* *
2062824 GATTCTGTAAGACCTTTGGGCAT
1 GATTTTGTAAGACCTTCGGGCAT
*
2062847 GATTTTTGTAAGACCTTCGGACAT
1 GA-TTTTGTAAGACCTTCGGGCAT
2062871 GATTTT-TAAGACCTTCGGGCAT
1 GATTTTGTAAGACCTTCGGGCAT
* *
2062893 GA-TTTCTAAGACCTTTGGGCAT
1 GATTTTGTAAGACCTTCGGGCAT
*
2062915 AATTTTG
1 GATTTTG
2062922 ATTCATGATA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
21 3 0.05
22 33 0.51
23 9 0.14
24 20 0.31
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.38
Consensus pattern (23 bp):
GATTTTGTAAGACCTTCGGGCAT
Found at i:2063027 original size:155 final size:155
Alignment explanation
Indices: 2062744--2063037 Score: 428
Period size: 155 Copynumber: 1.9 Consensus size: 155
2062734 ATCAATTTTG
* * * * *
2062744 TAAGACCTCCGGGCATAATTTTTATTCGCGATGTTATCCCAATCGATTTTTTAATTTTGACTTGC
1 TAAGACCTCCGGGCATAATTTTGATTCACGATATTATCCCAATCGATTCTTTAATTTCGACTTGC
* * *
2062809 GGTGTTATCCCAGTCGATTCTGTAAGACCTTTGGGCATGATTTTTGTAAGACCTTCGGACATGAT
66 GATGTTATCCCAGTCGATTCTGTAAAACCTTTGGGCATGATTTTTGTAAGACCTCCGGACATGAT
*
2062874 TTTTAAGACCTTCGGGCATGATTTC
131 TTCTAAGACCTTCGGGCATGATTTC
** * * *
2062899 TAAGACCTTTGGGCATAATTTTGATTCATGATATTATCTCGATCGATTCTTTAATTTCGACTTGC
1 TAAGACCTCCGGGCATAATTTTGATTCACGATATTATCCCAATCGATTCTTTAATTTCGACTTGC
* *
2062964 TATGTTATCCCAGTCGATTTTGTAAAACCTTTGGGCATGATTTTTGTAAGACCTCC-GAGCATGA
66 GATGTTATCCCAGTCGATTCTGTAAAACCTTTGGGCATGATTTTTGTAAGACCTCCGGA-CATGA
2063028 TTTCTAAGAC
130 TTTCTAAGAC
2063038 TTCTTGACAT
Statistics
Matches: 122, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
154 2 0.02
155 120 0.98
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (155 bp):
TAAGACCTCCGGGCATAATTTTGATTCACGATATTATCCCAATCGATTCTTTAATTTCGACTTGC
GATGTTATCCCAGTCGATTCTGTAAAACCTTTGGGCATGATTTTTGTAAGACCTCCGGACATGAT
TTCTAAGACCTTCGGGCATGATTTC
Found at i:2063227 original size:35 final size:34
Alignment explanation
Indices: 2063165--2063232 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
2063155 TTACTTATTG
*
2063165 ACTTACGATTTAATCTCGATCGCTTTTACTTTCTA
1 ACTTACGATTTAATCCCGATCGCTTTTA-TTTCTA
* *
2063200 ACTTACGGTTTAATCCC-AGTCGTTTTTATTTCT
1 ACTTACGATTTAATCCCGA-TCGCTTTTATTTCT
2063233 CTGACTTGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 6 0.21
35 23 0.79
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.47
Consensus pattern (34 bp):
ACTTACGATTTAATCCCGATCGCTTTTATTTCTA
Found at i:2063462 original size:15 final size:15
Alignment explanation
Indices: 2063442--2063471 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2063432 CGGGTCTACA
2063442 TTTTTTAATAATAAT
1 TTTTTTAATAATAAT
2063457 TTTTTTAATAATAAT
1 TTTTTTAATAATAAT
2063472 AATATTGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTTAATAATAAT
Found at i:2063485 original size:20 final size:18
Alignment explanation
Indices: 2063447--2063491 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
2063437 CTACATTTTT
*
2063447 TAATAATAATTTTTTTAA
1 TAATAATAATTTGTTTAA
2063465 TAATAATAATATTGGTTTAA
1 TAATAATAAT-TT-GTTTAA
*
2063485 TCATAAT
1 TAATAAT
2063492 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 2 0.09
20 11 0.48
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (18 bp):
TAATAATAATTTGTTTAA
Found at i:2063539 original size:17 final size:15
Alignment explanation
Indices: 2063489--2063539 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 15
2063479 GTTTAATCAT
2063489 AATTAAAAAAAATT-
1 AATTAAAAAAAATTA
2063503 AATTAAAAAAACTATTTA
1 AATTAAAAAAA--A-TTA
2063521 AATTAAAAATAAATATA
1 AATTAAAAA-AAAT-TA
2063538 AA
1 AA
2063540 AAAAAAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
14 11 0.35
16 2 0.06
17 7 0.23
18 9 0.29
19 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
AATTAAAAAAAATTA
Found at i:2075151 original size:3 final size:3
Alignment explanation
Indices: 2075145--2075194 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
2075135 GTTCTTTTTT
* *
2075145 TTA TTA TTA TTA -TA TAA TT- TTGT TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
2075189 TTA TTA
1 TTA TTA
2075195 ATCTTTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.85
4 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2082505 original size:40 final size:40
Alignment explanation
Indices: 2082429--2082505 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
2082419 TCAGATTTTA
* * *
2082429 ATTTAAAGTTTATTGCCTTTGGTAAAAGTAGCTTTTTAAT
1 ATTTAAAGTTTATTGCCTCTAGTAAAAGGAGCTTTTTAAT
* * * *
2082469 ATTTAAAGTTTGTTGCCTCTAGTCAGAGGAGTTTTTT
1 ATTTAAAGTTTATTGCCTCTAGTAAAAGGAGCTTTTT
2082506 TTAATTTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (40 bp):
ATTTAAAGTTTATTGCCTCTAGTAAAAGGAGCTTTTTAAT
Found at i:2082783 original size:39 final size:40
Alignment explanation
Indices: 2082634--2082809 Score: 152
Period size: 39 Copynumber: 4.5 Consensus size: 40
2082624 TAAAAGAGCC
** * * *
2082634 ATTTAAAGTTCATTGCCTC-TGGTCAGAAGAG-TCTTTTAA
1 ATTTAAAGTTTGTTGCCTCTTGGTAAGAGGAGCT-TTTTGA
* * *
2082673 CATTTATAGTTTGTTGCC-ATTGGTTAA-AGGAGCTTTTAG-
1 -ATTTAAAGTTTGTTGCCTCTTGG-TAAGAGGAGCTTTTTGA
*
2082712 ATTTAAAGTTTGTTG-CTCCTGGTAAGAGGAGCTTTTTGA
1 ATTTAAAGTTTGTTGCCTCTTGGTAAGAGGAGCTTTTTGA
* * *
2082751 ATTTAAAGTTTTTTGCCTCTT-GTGAA-ATGAGCTTTCTGA
1 ATTTAAAGTTTGTTGCCTCTTGGT-AAGAGGAGCTTTTTGA
2082790 ATTTAAAGTTTGTTGCCTCT
1 ATTTAAAGTTTGTTGCCTCT
2082810 GGTCATAAAA
Statistics
Matches: 111, Mismatches: 17, Indels: 17
0.77 0.12 0.12
Matches are distributed among these distances:
37 4 0.04
38 28 0.25
39 46 0.41
40 30 0.27
41 3 0.03
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.43
Consensus pattern (40 bp):
ATTTAAAGTTTGTTGCCTCTTGGTAAGAGGAGCTTTTTGA
Found at i:2083053 original size:39 final size:39
Alignment explanation
Indices: 2082957--2083124 Score: 196
Period size: 39 Copynumber: 4.3 Consensus size: 39
2082947 TAAATAAGAC
* * * * *
2082957 ATTTAAAGTTTGTTACCTCTGGTCAGAGGAGCATTTTAA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCATTTTGA
* *
2082996 CATTAAAAGTTTGTTGCCTTTGGTTAAATGAGC-TTTTGAA
1 -ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCATTTTG-A
* * *
2083036 ATTTAAAGTTTGTTGCCTCTT-GTGAGAGGAGCCTTTTGA
1 ATTTAAAGTTTGTTGCCT-TTGGTTAAAGGAGCATTTTGA
*
2083075 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTTGA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCATTTTGA
2083114 ATTTAAAGTTT
1 ATTTAAAGTTT
2083125 TATAGCCTCT
Statistics
Matches: 110, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 74 0.67
40 34 0.31
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (39 bp):
ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCATTTTGA
Found at i:2083120 original size:78 final size:79
Alignment explanation
Indices: 2082957--2083124 Score: 250
Period size: 78 Copynumber: 2.1 Consensus size: 79
2082947 TAAATAAGAC
2082957 ATTTAAAGTTTGTTACCTCTGGTCAGAGGAGCATTTTAACATTAAAAGTTTGTTGCCTTTGGTTA
1 ATTTAAAGTTTGTTACCTCTGGTCAGAGGAGCATTTTAACATTAAAAGTTTGTTGCCTTTGGTTA
*
2083022 AATGAGCTTTTGAA
66 AAGGAGCTTTTGAA
* * * * * *
2083036 ATTTAAAGTTTGTTGCCTCTTGTGAGAGGAGCCTTTTGA-ATTTAAAGTTTGTTGCCTTTGGTTA
1 ATTTAAAGTTTGTTACCTCTGGTCAGAGGAGCATTTTAACATTAAAAGTTTGTTGCCTTTGGTTA
2083100 AAGGAGCTTTTTG-A
66 AAGGAGC-TTTTGAA
2083114 ATTTAAAGTTT
1 ATTTAAAGTTT
2083125 TATAGCCTCT
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
78 42 0.52
79 39 0.48
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (79 bp):
ATTTAAAGTTTGTTACCTCTGGTCAGAGGAGCATTTTAACATTAAAAGTTTGTTGCCTTTGGTTA
AAGGAGCTTTTGAA
Found at i:2083133 original size:79 final size:80
Alignment explanation
Indices: 2082957--2083135 Score: 251
Period size: 79 Copynumber: 2.3 Consensus size: 80
2082947 TAAATAAGAC
2082957 ATTTAAAGTTTGTTA-CCTCTGGTCAGAGGAGCATTTTAACATTAAAAGTTTGTTGCCTTTGGTT
1 ATTTAAAGTTTGTTAGCCTCTGGTCAGAGGAGCATTTTAACATTAAAAGTTTGTTGCCTTTGGTT
*
2083021 AAATGAGCTTTTGAA
66 AAAGGAGCTTTTGAA
* * * * *
2083036 ATTTAAAGTTTGTT-GCCTCTTGTGAGAGGAGCCTTTTGA-ATTTAAAGTTTGTTGCCTTTGGTT
1 ATTTAAAGTTTGTTAGCCTCTGGTCAGAGGAGCATTTTAACATTAAAAGTTTGTTGCCTTTGGTT
2083099 AAAGGAGCTTTTTG-A
66 AAAGGAGC-TTTTGAA
2083114 ATTTAAAGTTT-TATAGCCTCTG
1 ATTTAAAGTTTGT-TAGCCTCTG
2083136 TTTAGAAGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
77 1 0.01
78 43 0.48
79 45 0.51
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.42
Consensus pattern (80 bp):
ATTTAAAGTTTGTTAGCCTCTGGTCAGAGGAGCATTTTAACATTAAAAGTTTGTTGCCTTTGGTT
AAAGGAGCTTTTGAA
Found at i:2083157 original size:79 final size:79
Alignment explanation
Indices: 2082957--2083157 Score: 250
Period size: 79 Copynumber: 2.6 Consensus size: 79
2082947 TAAATAAGAC
* * *
2082957 ATTTAAAGTTTGTTA-CCTCTGGTCAGAGGAGCATTTTAACATTAAAAGTTTGTTGCCTTTGGTT
1 ATTTAAAGTTTGTTAGCCTCTGTTCAGAGGAGCCTTTTAA-ATTTAAAGTTTGTTGCCTTTGGTT
*
2083021 AAATGAGCTTTTGAA
65 AAAGGAGCTTTTGAA
* *
2083036 ATTTAAAGTTTGTT-GCCTCT-TGTGAGAGGAGCCTTTTGAATTTAAAGTTTGTTGCCTTTGGTT
1 ATTTAAAGTTTGTTAGCCTCTGT-TCAGAGGAGCCTTTTAAATTTAAAGTTTGTTGCCTTTGGTT
2083099 AAAGGAGCTTTTTG-A
65 AAAGGAGC-TTTTGAA
* * *
2083114 ATTTAAAGTTT-TATAGCCTCTGTTTAGAAGAGCCTTTCAAATTT
1 ATTTAAAGTTTGT-TAGCCTCTGTTCAGAGGAGCCTTTTAAATTT
2083158 TCTTTCAAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
77 1 0.01
78 43 0.41
79 61 0.58
80 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.42
Consensus pattern (79 bp):
ATTTAAAGTTTGTTAGCCTCTGTTCAGAGGAGCCTTTTAAATTTAAAGTTTGTTGCCTTTGGTTA
AAGGAGCTTTTGAA
Found at i:2083316 original size:3 final size:3
Alignment explanation
Indices: 2083308--2083355 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
2083298 TTCTTTTTTC
* *
2083308 TAT TAT TAT T-T AAT T-T TGT TTAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
2083352 TAT T
1 TAT T
2083356 CTTTAAAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
2 3 0.08
3 34 0.87
4 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:2084193 original size:3 final size:3
Alignment explanation
Indices: 2084185--2084233 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
2084175 GATTTTTATG
*
2084185 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TT- TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2084231 TTA
1 TTA
2084234 CTGGTAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Done.