Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 80 of 109
Found at i:16153603 original size:35 final size:33
Alignment explanation
Indices: 16153536--16153600 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
16153526 TATCATAATT
*
16153536 ATATCACAA-TTTTACATATTATTTTAATTATA
1 ATATCATAATTTTTACATATTATTTTAATTATA
*
16153568 ATATCATAATTTTTA-ATATTATGTTTGATTATA
1 ATATCATAATTTTTACATATTAT-TTTAATTATA
16153601 TAATTACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (33 bp):
ATATCATAATTTTTACATATTATTTTAATTATA
Found at i:16155311 original size:17 final size:17
Alignment explanation
Indices: 16155289--16155323 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
16155279 TTCAACATGA
*
16155289 TATCGAAAATATAAACT
1 TATCGAAAATAGAAACT
16155306 TATCGAAAATAGAAACT
1 TATCGAAAATAGAAACT
16155323 T
1 T
16155324 TTATTAGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (17 bp):
TATCGAAAATAGAAACT
Found at i:16155480 original size:30 final size:30
Alignment explanation
Indices: 16155446--16155508 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
16155436 TATTTTCACA
16155446 CTTCAAATGCTCCAAAACCGTTTGAATTTC
1 CTTCAAATGCTCCAAAACCGTTTGAATTTC
* *
16155476 CTTCAAATGCTCTAAAATCGTTTGAATTTC
1 CTTCAAATGCTCCAAAACCGTTTGAATTTC
16155506 CTT
1 CTT
16155509 TTATGATCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (30 bp):
CTTCAAATGCTCCAAAACCGTTTGAATTTC
Found at i:16155867 original size:5 final size:5
Alignment explanation
Indices: 16155857--16155886 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
16155847 GCATCATTTG
*
16155857 TAAAA TAAAA TAAAA TAAAA TAAAA CAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
16155887 AAAGAGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:16156307 original size:19 final size:18
Alignment explanation
Indices: 16156260--16156309 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
16156250 ATTAAGTTTT
*
16156260 AAATTGGAAAGAAAAAAGA
1 AAATT-GAAAAAAAAAAGA
*
16156279 AAATGAGAAAAAAAAAAGAA
1 AAAT-TGAAAAAAAAAAG-A
16156299 AAATTGAAAAA
1 AAATTGAAAAA
16156310 GTTAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (18 bp):
AAATTGAAAAAAAAAAGA
Found at i:16156308 original size:27 final size:26
Alignment explanation
Indices: 16156267--16156324 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
16156257 TTTAAATTGG
*
16156267 AAAGAAAAAAGAAAATGAGAAAAAAA
1 AAAGAAAAAAGAAAAAGAGAAAAAAA
* **
16156293 AAAGAAAAATTGAAAAAGTTAAAAAAA
1 AAAGAAAAA-AGAAAAAGAGAAAAAAA
16156320 AAAGA
1 AAAGA
16156325 GACGTAAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.09
Consensus pattern (26 bp):
AAAGAAAAAAGAAAAAGAGAAAAAAA
Found at i:16156901 original size:62 final size:62
Alignment explanation
Indices: 16156804--16156920 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 62
16156794 ATGAAAGATC
* * *
16156804 TTTGAGAGATCAATACCGATTGAAGACCTTACTTCT-TTCAAAAGATTGAAAACTTGAAATCT
1 TTTGAGAAATCAATACAGATTGAAAACCTTACTTCTCTT-AAAAGATTGAAAACTTGAAATCT
*
16156866 TTTGAGAAATCAATACTAG-TTGAAAACTTTACTTCTCTTAAAAGATTGAAAACTT
1 TTTGAGAAATCAATAC-AGATTGAAAACCTTACTTCTCTTAAAAGATTGAAAACTT
16156921 TACTTCTCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
62 46 0.94
63 3 0.06
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (62 bp):
TTTGAGAAATCAATACAGATTGAAAACCTTACTTCTCTTAAAAGATTGAAAACTTGAAATCT
Found at i:16156918 original size:26 final size:26
Alignment explanation
Indices: 16156885--16156946 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
16156875 TCAATACTAG
16156885 TTGAAAACTTTACTTCTCTTAAAAGA
1 TTGAAAACTTTACTTCTCTTAAAAGA
16156911 TTGAAAACTTTACTTCTCTTAAAAGA
1 TTGAAAACTTTACTTCTCTTAAAAGA
16156937 TTGAAAACTT
1 TTGAAAACTT
16156947 GGAATCCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.39
Consensus pattern (26 bp):
TTGAAAACTTTACTTCTCTTAAAAGA
Found at i:16158181 original size:86 final size:88
Alignment explanation
Indices: 16158034--16158209 Score: 302
Period size: 86 Copynumber: 2.0 Consensus size: 88
16158024 GAATGAAAAT
*
16158034 AGTTCTTTTGAAAACAAAATAAAAAAAAAAAAGAAAAATGTTTAAGAATTTTTGGAAAGAATGAA
1 AGTTCTTTTGAAAACAAAATAAAAAAAAAAAAGAAAAATGTTTAAGAATTTTTAGAAAGAATGAA
16158099 TTTTTTAAGATTTATTCAATATA
66 TTTTTTAAGATTTATTCAATATA
* * *
16158122 AGTTCTTTTGAAAACAAAA-AAAAAAAGAAGA-AAAAATGTTTAAGAATTTTTAGAAAGAATGAC
1 AGTTCTTTTGAAAACAAAATAAAAAAAAAAAAGAAAAATGTTTAAGAATTTTTAGAAAGAATGAA
16158185 TTTTTTAAGATTTATTCAATATA
66 TTTTTTAAGATTTATTCAATATA
16158208 AG
1 AG
16158210 ATTTTAATTC
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
86 55 0.65
87 10 0.12
88 19 0.23
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.34
Consensus pattern (88 bp):
AGTTCTTTTGAAAACAAAATAAAAAAAAAAAAGAAAAATGTTTAAGAATTTTTAGAAAGAATGAA
TTTTTTAAGATTTATTCAATATA
Found at i:16160238 original size:22 final size:22
Alignment explanation
Indices: 16160188--16160252 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
16160178 TTATTATTCA
**
16160188 TTTAATTTTATAATAATTTAATAT
1 TTTAATTTTA-AA-AAAATAATAT
*
16160212 CTTAATTTTAAAAAAATAATAT
1 TTTAATTTTAAAAAAATAATAT
**
16160234 TTTAAACTTAACAAAAATA
1 TTTAATTTTAA-AAAAATA
16160253 TCTACATAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 16 0.47
23 9 0.26
24 9 0.26
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTAATTTTAAAAAAATAATAT
Found at i:16167015 original size:17 final size:17
Alignment explanation
Indices: 16166993--16167026 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16166983 AATTGTAAAA
16166993 TTTTGAGAAAATATAAT
1 TTTTGAGAAAATATAAT
16167010 TTTTGAGAAAATATAAT
1 TTTTGAGAAAATATAAT
16167027 ATCCGAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
TTTTGAGAAAATATAAT
Found at i:16174663 original size:7 final size:7
Alignment explanation
Indices: 16174651--16174683 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
16174641 AGTTAGCAAA
16174651 ATATAAT
1 ATATAAT
16174658 ATATAAT
1 ATATAAT
16174665 ATATAAT
1 ATATAAT
16174672 ATATAAT
1 ATATAAT
16174679 ATATA
1 ATATA
16174684 TTTGTAACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:16179697 original size:30 final size:30
Alignment explanation
Indices: 16179663--16179728 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
16179653 ATTATCAAGG
16179663 AGAAAGTCTATCAAGAAAA-AGAAAAAAAAA
1 AGAAAGTCTATCAA-AAAAGAGAAAAAAAAA
* * *
16179693 AGAAAGTTTGTCAAAAAAGAGAAAAGAAAA
1 AGAAAGTCTATCAAAAAAGAGAAAAAAAAA
16179723 AGAAAG
1 AGAAAG
16179729 GAAAATAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.67, C:0.05, G:0.18, T:0.11
Consensus pattern (30 bp):
AGAAAGTCTATCAAAAAAGAGAAAAAAAAA
Found at i:16179961 original size:27 final size:27
Alignment explanation
Indices: 16179930--16179981 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
16179920 TTAAATCTAG
16179930 TTTAGTTGGCACT-TAAATTTTAAGCAA
1 TTTAGTTGGCA-TATAAATTTTAAGCAA
*
16179957 TTTAGTTGGCATATAGATTTTAAGC
1 TTTAGTTGGCATATAAATTTTAAGC
16179982 CTAGCTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (27 bp):
TTTAGTTGGCATATAAATTTTAAGCAA
Found at i:16180033 original size:56 final size:56
Alignment explanation
Indices: 16179926--16180034 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 56
16179916 AGATTTAAAT
* * * * * *
16179926 CTAGTTTAGTTGGCACTTAAATTTTAAGCAATTTAGTTGGCATATAGATTTTAAGC
1 CTAGCTTAGTTGACACTCAAATTTTAAGCAATTTAGCTGGCATACAAATTTTAAGC
* *
16179982 CTAGCTTAGTTGACACTCAAA-TTTAAGTCAGTTTAGCTGGTATACAAATTTTA
1 CTAGCTTAGTTGACACTCAAATTTTAAG-CAATTTAGCTGGCATACAAATTTTA
16180035 GCTCCGTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
55 6 0.14
56 38 0.86
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (56 bp):
CTAGCTTAGTTGACACTCAAATTTTAAGCAATTTAGCTGGCATACAAATTTTAAGC
Found at i:16180251 original size:3 final size:3
Alignment explanation
Indices: 16180243--16180380 Score: 158
Period size: 3 Copynumber: 44.7 Consensus size: 3
16180233 TGGGTCCATT
16180243 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA
*
16180290 TTA -TA TTA TTA TTA TTTA TTA TTTA TTT TTA TTA TT- TGCTA TTA -TA
1 TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA T--TA TTA TTA
*
16180336 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTT TTA TTGA TT- TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT
16180381 TTTTGTTGAT
Statistics
Matches: 120, Mismatches: 4, Indels: 22
0.82 0.03 0.15
Matches are distributed among these distances:
2 7 0.06
3 92 0.77
4 20 0.17
5 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16180595 original size:25 final size:25
Alignment explanation
Indices: 16180558--16180609 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
16180548 ATAGATGTTG
16180558 AAACAGAACGAAAA-AAATAGCAAAA
1 AAACAGAACGAAAATAAA-AGCAAAA
*
16180583 AAACAGAGA-GAAAATAGAAGCAAAA
1 AAACAGA-ACGAAAATAAAAGCAAAA
16180608 AA
1 AA
16180610 TTTCGAAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.04
Consensus pattern (25 bp):
AAACAGAACGAAAATAAAAGCAAAA
Found at i:16181360 original size:61 final size:57
Alignment explanation
Indices: 16181287--16181440 Score: 193
Period size: 58 Copynumber: 2.6 Consensus size: 57
16181277 AAATTTGGGG
* *
16181287 AAAGTTAAAAGTATCAA-TTTCCTTTAAGAATAAAAGTGTTATAAAAAATATTTTTGAGGAA
1 AAAGTTGAAAGTATCAATTTTCCTTGAA-AATAAAAGTG-T-TAAAAAATA-TTTTGAGG-A
* * *
16181348 AAAGTTGAAAGTATCAATTTTTTCTTGAAAATAAAATTGTTAAAAAGTATTTTGAGGA
1 AAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAAAGTGTTAAAAAATATTTTGAGGA
*
16181406 AAAGTTGAAAGTATCAATTTTCCTTGAAAAAAAAA
1 AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA
16181441 TTTCTAAAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
57 16 0.19
58 18 0.21
59 8 0.10
60 8 0.10
61 17 0.20
62 9 0.11
63 8 0.10
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (57 bp):
AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTGTTAAAAAATATTTTGAGGA
Found at i:16181421 original size:58 final size:61
Alignment explanation
Indices: 16181287--16181442 Score: 205
Period size: 57 Copynumber: 2.6 Consensus size: 61
16181277 AAATTTGGGG
* * *
16181287 AAAGTTAAAAGTATCAA-TTTCCTTTAAGAATAAAAGTGTTATAAAAAATATTTTTGAGGAA
1 AAAGTTGAAAGTATCAATTTTCCTTGAA-AATAAAATTGTTATAAAAAATATTTTTGAGGAA
* *
16181348 AAAGTTGAAAGTATCAATTTTTTCTTGAAAATAAAATTG-T-TAAAAAGTA-TTTTGAGG-A
1 AAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAAATTGTTATAAAAAATATTTTTGAGGAA
*
16181406 AAAGTTGAAAGTATCAATTTTCCTTGAAAAAAAAATT
1 AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATT
16181443 TCTAAAATAA
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
57 18 0.21
58 18 0.21
59 8 0.09
60 8 0.09
61 17 0.20
62 9 0.10
63 8 0.09
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.35
Consensus pattern (61 bp):
AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTGTTATAAAAAATATTTTTGAGGAA
Found at i:16181613 original size:15 final size:15
Alignment explanation
Indices: 16181580--16181612 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16181570 TTTTTTAATG
16181580 TTTTATTTTATTTCT
1 TTTTATTTTATTTCT
*
16181595 TTTTA-TTTCTTTCT
1 TTTTATTTTATTTCT
16181609 TTTT
1 TTTT
16181613 TCTTGTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTATTTCT
Found at i:16184758 original size:15 final size:15
Alignment explanation
Indices: 16184738--16184768 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16184728 TTTGTATACA
*
16184738 TGCATTTTCATTCAT
1 TGCATTCTCATTCAT
16184753 TGCATTCTCATTCAT
1 TGCATTCTCATTCAT
16184768 T
1 T
16184769 ATATTTAAAA
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:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (15 bp):
TGCATTCTCATTCAT
Found at i:16193088 original size:43 final size:43
Alignment explanation
Indices: 16193041--16193498 Score: 441
Period size: 43 Copynumber: 10.5 Consensus size: 43
16193031 AAGTTGTGAT
* * * *
16193041 GCCTCTGTTTAAAAGAACTTTATTTATTTTTCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
* * * * *
16193084 GCCTCTATTTAGAAGAGCTTTGTTTATTTGTCCAAAGTTGTTAA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTT-TTCAAAGTCGTTGA
* * ** * * *
16193128 ACCTTTACTTAGAGGAGTTTTGTTTATTTTTTAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
* * *
16193171 GCTTCTATCTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
*
16193214 GCCTCTGTTTAGAGGAGCTTTGTTTA-TTTTCTAAAGTTGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTC-AAAGTCGTTGA
* ** * * ** *
16193257 GCCTCTGCTTAGAGGATTTTTATTTATTTGTCTAAAGTTATTAA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTC-AAAGTCGTTGA
* *
16193301 GCCTCTATTTAGAGGAGCTTTGTTTATTTTCCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
* * * *
16193344 GTCTCTGTTTAGAGGAGCATTATTTATTTTTCAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
* * *
16193387 GCCTCTGTTTAGAGGAGCTTTGTTTATCTTTCCAAAGTCATTAA
1 GCCTCTGTTTAGAGGAGCTTTGTTTAT-TTTTCAAAGTCGTTGA
* * ** * * *
16193431 GCATTTACTTAGAGGAGCCTTATTTATTTTTCTAAAAGGTCATTGA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTC--AAA-GTCGTTGA
*
16193477 GCCTCTGATTAGAGGAGCTTTG
1 GCCTCTGTTTAGAGGAGCTTTG
16193499 ATCAAGGTTT
Statistics
Matches: 337, Mismatches: 71, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
42 5 0.01
43 197 0.58
44 109 0.32
45 3 0.01
46 23 0.07
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.44
Consensus pattern (43 bp):
GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
Found at i:16193293 original size:130 final size:129
Alignment explanation
Indices: 16193058--16193498 Score: 528
Period size: 130 Copynumber: 3.4 Consensus size: 129
16193048 TTTAAAAGAA
* * *
16193058 CTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGCTTTGTTTATTTGTCCAAAGTT
1 CTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTT-TCTAAAGTT
* * * * * *
16193123 GTTAAACCTTTACTTAGAGGAGTTTTGTTTATTTTTTAAAGTCATTGAGCTTCTATCTAGAGGAG
65 GTTGAGCCTCTGCTTAGAGGAGTTTTGTTTATTTTCTAAAGTCATTAAGCTTCTATCTAGAGGAG
*
16193188 CTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTCTAAAGTTG
1 CTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTCTAAAGTTG
* * * * *
16193253 TTGAGCCTCTGCTTAGAGGATTTTTATTTATTTGTCTAAAGTTATTAAGCCTCTATTTAGAGGAG
66 TTGAGCCTCTGCTTAGAGGAGTTTTGTTTATTT-TCTAAAGTCATTAAGCTTCTATCTAGAGGAG
* * * * * *
16193318 CTTTGTTTATTTTCCAAAGTCGTTGAGTCTCTGTTTAGAGGAGCATTATTTATTTT-TCAAAGTC
1 CTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTCT-AAAGTT
* * * *
16193382 ATTGAGCCTCTGTTTAGAGGAGCTTTGTTTATCTTTCCAAAGTCATTAAGCATT-TA-CTTAGAG
65 GTTGAGCCTCTGCTTAGAGGAGTTTTGTTTAT-TTTCTAAAGTCATTAAGC-TTCTATC-TAGAG
16193445 GAG
127 GAG
* * *
16193448 CCTTATTTATTTTTCTAAAAGGTCATTGAGCCTCTGATTAGAGGAGCTTTG
1 CTTTATTTATTTTTC--AAA-GTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
16193499 ATCAAGGTTT
Statistics
Matches: 266, Mismatches: 37, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
129 37 0.14
130 198 0.74
131 3 0.01
132 3 0.01
133 25 0.09
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.44
Consensus pattern (129 bp):
CTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTCTAAAGTTG
TTGAGCCTCTGCTTAGAGGAGTTTTGTTTATTTTCTAAAGTCATTAAGCTTCTATCTAGAGGAG
Found at i:16193330 original size:173 final size:172
Alignment explanation
Indices: 16193041--16193498 Score: 533
Period size: 173 Copynumber: 2.6 Consensus size: 172
16193031 AAGTTGTGAT
* * * * * *
16193041 GCCTCTGTTTAAAAGAACTTTATTTATTTT-TCAAAGTCGTTGAGCCTCTATTTAGAAGAGCTTT
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTCT-AAAGTCGTTGAGCCTCTACTTAGAGGAGCTTT
* * * * * * **
16193105 GTTTATTTGTCCAAAGTTGTTAAACCTTTACTTAGAGGAGTTTTGTTTATTTTTTAAAGTCATTG
65 ATTTATTTGTCTAAAGTTATTAAGCCTCTA-TTAGAGGAGCTTTGTTTATTTTCCAAAGTCATTG
* * *
16193170 AG-CTTCTATCTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
129 AGTC-TCTATCTAGAGGAGCATTATTTATTTTTCAAAGTCATTGA
* * **
16193214 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTCTAAAGTTGTTGAGCCTCTGCTTAGAGGATTTTTA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTCTAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTA
*
16193279 TTTATTTGTCTAAAGTTATTAAGCCTCTATTTAGAGGAGCTTTGTTTATTTTCCAAAGTCGTTGA
66 TTTATTTGTCTAAAGTTATTAAGCCTCTA-TTAGAGGAGCTTTGTTTATTTTCCAAAGTCATTGA
* *
16193344 GTCTCTGTTTAGAGGAGCATTATTTATTTTTCAAAGTCATTGA
130 GTCTCTATCTAGAGGAGCATTATTTATTTTTCAAAGTCATTGA
* * * * * *
16193387 GCCTCTGTTTAGAGGAGCTTTGTTTATCTTTCCAAAGTCATTAAGCATTTACTTAGAGGAGCCTT
1 GCCTCTGTTTAGAGGAGCTTTGTTTAT-TTTCTAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTT
* * *
16193452 ATTTATTTTTCTAAAAGGTCATTGAGCCTCTGATTAGAGGAGCTTTG
65 ATTTATTTGTCT-AAA-GTTATTAAGCCTCT-ATTAGAGGAGCTTTG
16193499 ATCAAGGTTT
Statistics
Matches: 241, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
173 171 0.71
174 40 0.17
175 3 0.01
176 26 0.11
177 1 0.00
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.44
Consensus pattern (172 bp):
GCCTCTGTTTAGAGGAGCTTTGTTTATTTTCTAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTA
TTTATTTGTCTAAAGTTATTAAGCCTCTATTAGAGGAGCTTTGTTTATTTTCCAAAGTCATTGAG
TCTCTATCTAGAGGAGCATTATTTATTTTTCAAAGTCATTGA
Found at i:16193461 original size:87 final size:86
Alignment explanation
Indices: 16193041--16193498 Score: 445
Period size: 87 Copynumber: 5.3 Consensus size: 86
16193031 AAGTTGTGAT
* * * * * * * * *
16193041 GCCTCTGTTTAAAAGAACTTTATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAGAAGAGCTTTG
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTCCAAAGTCATTGAG-CTCTACTTAGAGGAGCTTTA
* * ** *
16193106 TTTATTTGTCCAAAGTTGTTAA
65 TTTATTTTTCTAAAGTCATTGA
* * ** * **
16193128 ACCTTTACTTAGAGGAGTTTTGTTTATTTTTTAAAGTCATTGAGCTTCTA-TCTAGAGGAGCTTT
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTCCAAAGTCATTGAGC-TCTACT-TAGAGGAGCTTT
* *
16193192 GTTTATTTTTC-AAAGTCGTTGA
64 ATTTATTTTTCTAAAGTCATTGA
* ** * **
16193214 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTCTAAAGTTGTTGAGCCTCTGCTTAGAGGATTTTTA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTCCAAAGTCATTGAG-CTCTACTTAGAGGAGCTTTA
* * *
16193279 TTTATTTGTCTAAAGTTATTAA
65 TTTATTTTTCTAAAGTCATTGA
* * ** *
16193301 GCCTCTATTTAGAGGAGCTTTGTTTATTTTCCAAAGTCGTTGAGTCTCTGTTTAGAGGAGCATTA
1 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTCCAAAGTCATTGAG-CTCTACTTAGAGGAGCTTTA
16193366 TTTATTTTTC-AAAGTCATTGA
65 TTTATTTTTCTAAAGTCATTGA
* * *
16193387 GCCTCTGTTTAGAGGAGCTTTGTTTATCTTTCCAAAGTCATTAAGCATTTACTTAGAGGAGCCTT
1 GCCTCTGTTTAGAGGAGCTTTGTTTAT-TTTCCAAAGTCATTGAGC-TCTACTTAGAGGAGCTTT
16193452 ATTTATTTTTCTAAAAGGTCATTGA
64 ATTTATTTTTCT-AAA-GTCATTGA
*
16193477 GCCTCTGATTAGAGGAGCTTTG
1 GCCTCTGTTTAGAGGAGCTTTG
16193499 ATCAAGGTTT
Statistics
Matches: 311, Mismatches: 50, Indels: 17
0.82 0.13 0.04
Matches are distributed among these distances:
86 105 0.34
87 174 0.56
89 3 0.01
90 29 0.09
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.44
Consensus pattern (86 bp):
GCCTCTGTTTAGAGGAGCTTTGTTTATTTTCCAAAGTCATTGAGCTCTACTTAGAGGAGCTTTAT
TTATTTTTCTAAAGTCATTGA
Found at i:16193689 original size:3 final size:3
Alignment explanation
Indices: 16193681--16193785 Score: 101
Period size: 3 Copynumber: 34.7 Consensus size: 3
16193671 CCATTTTTTC
16193681 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
16193729 TT- TCA TTTA TTG TT- TTT TTCA TTTA TTT TTA TTA TT- TGCTA TTA
1 TTA TTA -TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA T--TA TTA
16193773 -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
16193786 TTGAGTGATT
Statistics
Matches: 87, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
2 6 0.07
3 74 0.85
4 4 0.05
5 3 0.03
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16194017 original size:11 final size:11
Alignment explanation
Indices: 16193997--16194030 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
16193987 GTTGAAACAT
16193997 AATGAAAAAAA
1 AATGAAAAAAA
*
16194008 TA-GAAAAAAA
1 AATGAAAAAAA
16194018 AATGAAAAAAA
1 AATGAAAAAAA
16194029 AA
1 AA
16194031 CAGAAGCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (11 bp):
AATGAAAAAAA
Found at i:16194018 original size:12 final size:12
Alignment explanation
Indices: 16194001--16194035 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
16193991 AAACATAATG
16194001 AAAAAAATAGAA
1 AAAAAAATAGAA
16194013 AAAAAAAT-GAA
1 AAAAAAATAGAA
*
16194024 AAAAAAACAGAA
1 AAAAAAATAGAA
16194036 GCAAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.83, C:0.03, G:0.09, T:0.06
Consensus pattern (12 bp):
AAAAAAATAGAA
Found at i:16195701 original size:81 final size:80
Alignment explanation
Indices: 16195551--16195709 Score: 194
Period size: 81 Copynumber: 2.0 Consensus size: 80
16195541 CATGTTAAAA
* * * ** *
16195551 AAATTTGTAAGTCTTATGGGTAGAATATTTTAAATTTAAAATTTCAAGGTTTCTTTTCAGATGAG
1 AAATTCGTAAGTCTTATGGGCAGAATATTTTAAATTTAAAATTTCAAAGCCTCTTTTCAGATGAA
16195616 CATTTATAGATGTTG
66 CATTTATAGATGTTG
* * * **
16195631 AAATTCGTAAGTTTTCTGGGCAGAATATTTTAAAATTTAAAGTTTCAAAGCCTCTTTTTGGA-GA
1 AAATTCGTAAGTCTTATGGGCAGAATATTTT-AAATTTAAAATTTCAAAGCCTCTTTTCAGATG-
16195695 AACATTTATAGATGT
64 AACATTTATAGATGT
16195710 CGAGCTTTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
80 28 0.42
81 38 0.58
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (80 bp):
AAATTCGTAAGTCTTATGGGCAGAATATTTTAAATTTAAAATTTCAAAGCCTCTTTTCAGATGAA
CATTTATAGATGTTG
Found at i:16198285 original size:24 final size:23
Alignment explanation
Indices: 16198239--16198294 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
16198229 AAAAGTCGGA
*
16198239 ACTTGAAAACTCCAAACCCTAAAAT
1 ACTT-AAAACTCAAAACCCT-AAAT
*
16198264 AC-TAAAACCTCAAAACCTTAAAT
1 ACTTAAAA-CTCAAAACCCTAAAT
16198287 ACTTAAAA
1 ACTTAAAA
16198295 ACGAAAACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 15 0.56
25 2 0.07
ACGTcount: A:0.52, C:0.25, G:0.02, T:0.21
Consensus pattern (23 bp):
ACTTAAAACTCAAAACCCTAAAT
Found at i:16198441 original size:53 final size:53
Alignment explanation
Indices: 16198332--16198434 Score: 129
Period size: 53 Copynumber: 1.9 Consensus size: 53
16198322 CTAAAACTCG
* * *
16198332 AAATCCTAAAATTCAAAACCTTAAAACTTCAAACCCTAAACCTCGACACCTCA
1 AAATCCCAAAATTCAAAACCTTAAAACTTAAAACCCTAAACCTCGAAACCTCA
* *
16198385 AAATCCCAAAA-TCAAAA-CTCTAGAACTTAAAACCCTAAAACCTTGAAACC
1 AAATCCCAAAATTCAAAACCT-TAAAACTTAAAACCCT-AAACCTCGAAACC
16198435 CTAAAATAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
51 2 0.05
52 20 0.47
53 21 0.49
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.19
Consensus pattern (53 bp):
AAATCCCAAAATTCAAAACCTTAAAACTTAAAACCCTAAACCTCGAAACCTCA
Found at i:16200749 original size:18 final size:19
Alignment explanation
Indices: 16200726--16200770 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
16200716 ATTTCCTTTG
*
16200726 AATTCCAACCTTA-AACCC
1 AATTCCAACCTTACAAACC
*
16200744 AATTCCAACTTTACAAACC
1 AATTCCAACCTTACAAACC
16200763 AATTCCAA
1 AATTCCAA
16200771 TAATTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (19 bp):
AATTCCAACCTTACAAACC
Found at i:16201032 original size:41 final size:40
Alignment explanation
Indices: 16200973--16201064 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 40
16200963 AAAAATAAAC
* * **
16200973 AAAGCTCCTTTAAACAGAGGCTCAACGACTTTTGAAAATA
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAATA
*
16201013 AAAGTCTCCTCTAATCAGAGGCTCAACAACTTTAAAAAATA
1 AAAG-CTCCTCTAAACAGAGGCTCAACAACTTTAAAAAATA
16201054 AAAGGCTCCTC
1 AAA-GCTCCTC
16201065 AATAATCACA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
40 4 0.09
41 40 0.89
42 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (40 bp):
AAAGCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAATA
Found at i:16201341 original size:21 final size:22
Alignment explanation
Indices: 16201317--16201370 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
16201307 AACATTTAAG
* *
16201317 GATTCTCATTC-AAATTTTGGA
1 GATTCTCATTCAAAAATTTGAA
*
16201338 GATTCTCATCCAAAAATTTGAA
1 GATTCTCATTCAAAAATTTGAA
*
16201360 GCTTCTCATTC
1 GATTCTCATTC
16201371 GAGTTCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (22 bp):
GATTCTCATTCAAAAATTTGAA
Found at i:16201585 original size:22 final size:22
Alignment explanation
Indices: 16201519--16201687 Score: 177
Period size: 21 Copynumber: 7.7 Consensus size: 22
16201509 TTTACATATT
16201519 AAAGATTCTCATTTGAA-ACTC
1 AAAGATTCTCATTTGAAGACTC
16201540 AAAGATTCTCATTTGAA-ACTC
1 AAAGATTCTCATTTGAAGACTC
*
16201561 AAAAATTCTCATTTGAAGACTC
1 AAAGATTCTCATTTGAAGACTC
* *
16201583 AAAGATTCTTATTTGAA-ATTTC
1 AAAGATTCTCATTTGAAGA-CTC
* * * * *
16201605 AAACATTTTCGTTTGAAGATTTTTT
1 AAAGATTCTCATTTGAAGA---CTC
16201630 AAAGATTCTCATTT-AAGACTC
1 AAAGATTCTCATTTGAAGACTC
*
16201651 AAAGAGTCTCATTT-AAGACTC
1 AAAGATTCTCATTTGAAGACTC
*
16201672 AAAGATTCTTATTTGA
1 AAAGATTCTCATTTGA
16201688 GGATTTTTTA
Statistics
Matches: 125, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
21 71 0.57
22 35 0.28
23 1 0.01
24 4 0.03
25 14 0.11
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (22 bp):
AAAGATTCTCATTTGAAGACTC
Found at i:16201651 original size:90 final size:91
Alignment explanation
Indices: 16201540--16201758 Score: 273
Period size: 92 Copynumber: 2.4 Consensus size: 91
16201530 TTTGAAACTC
*
16201540 AAAGATTCTCATTTGAAACTCAAAAATTCTCATTTGAAGACTCAAAGATTCTTATTTGA-A-ATT
1 AAAGATTCTCATTT-AAACTCAAAGATTCTCATTTGAAGACTCAAAGATTCTTATTTGAGATATT
* * *
16201603 TCAAACATTTTCGTTTGAAGATTTTTT
65 TCAAACATTCTCATTGGAAGATTTTTT
* *
16201630 AAAGATTCTCATTTAAGACTCAAAGAGTCTCATTT-AAGACTCAAAGATTCTTATTTGAGGATTT
1 AAAGATTCTCATTTAA-ACTCAAAGATTCTCATTTGAAGACTCAAAGATTCTTATTTGA-GATAT
* *
16201694 TTTAAAGATTCTCATTGGAAGATTTTTT
64 TTCAAACATTCTCATTGGAAGATTTTTT
* * * *
16201722 AAAGATTTTCATATAAAACTCAATGATTCTTATTTGA
1 AAAGATTCTCAT-TTAAACTCAAAGATTCTCATTTGA
16201759 GGATTCATAA
Statistics
Matches: 110, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
89 25 0.23
90 30 0.27
91 1 0.01
92 50 0.45
93 4 0.04
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (91 bp):
AAAGATTCTCATTTAAACTCAAAGATTCTCATTTGAAGACTCAAAGATTCTTATTTGAGATATTT
CAAACATTCTCATTGGAAGATTTTTT
Found at i:16201693 original size:67 final size:66
Alignment explanation
Indices: 16201519--16201763 Score: 203
Period size: 67 Copynumber: 3.6 Consensus size: 66
16201509 TTTACATATT
* ** * *
16201519 AAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGA--A--ACTCAAAAATTCTCATTTGAAGA
1 AAAGATTCTCATTT-AAACTCAAAGATTCTTATTTGAGGATTTTTTAAAGATTCTCATTT-AAGA
16201580 CTC
64 CTC
* * * * *
16201583 AAAGATTCTTATTTGAAATTTCAAACATT-TTCGTTTGAAGATTTTTTAAAGATTCTCATTTAAG
1 AAAGATTCTCATTT-AAA-CTCAAAGATTCTT-ATTTGAGGATTTTTTAAAGATTCTCATTTAAG
16201647 ACTC
63 ACTC
* *
16201651 AAAGAGTCTCATTTAAGACTCAAAGATTCTTATTTGAGGATTTTTTAAAGATTCTCATTGGAAGA
1 AAAGATTCTCATTTAA-ACTCAAAGATTCTTATTTGAGGATTTTTTAAAGATTCTCATT-TAAGA
* *
16201716 TTTTTT
64 ---CTC
* * *
16201722 AAAGATTTTCATATAAAACTCAATGATTCTTATTTGAGGATT
1 AAAGATTCTCAT-TTAAACTCAAAGATTCTTATTTGAGGATT
16201764 CATAATTTTA
Statistics
Matches: 146, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
64 18 0.12
65 13 0.09
67 37 0.25
68 26 0.18
69 14 0.10
71 35 0.24
72 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (66 bp):
AAAGATTCTCATTTAAACTCAAAGATTCTTATTTGAGGATTTTTTAAAGATTCTCATTTAAGACT
C
Found at i:16201717 original size:25 final size:25
Alignment explanation
Indices: 16201672--16201733 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
16201662 TTTAAGACTC
* * *
16201672 AAAGATTCTTATTTGAGGATTTTTT
1 AAAGATTCTCATTGGAAGATTTTTT
16201697 AAAGATTCTCATTGGAAGATTTTTT
1 AAAGATTCTCATTGGAAGATTTTTT
*
16201722 AAAGATTTTCAT
1 AAAGATTCTCAT
16201734 ATAAAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (25 bp):
AAAGATTCTCATTGGAAGATTTTTT
Found at i:16201755 original size:71 final size:67
Alignment explanation
Indices: 16201565--16201763 Score: 184
Period size: 71 Copynumber: 2.9 Consensus size: 67
16201555 AAACTCAAAA
* * * ** * * *
16201565 ATTCTCATTTGAAGACTCAAAGATTCTTATTTGAAATTTCAAACATT-TTCGTTTGAAGATTTTT
1 ATTCTCA-TTGAAGACTCAAAGAGTCTCATAT-AAAACTCAAAGATTCTT-ATTTGAGGATTTTT
16201629 TAAAG
63 TAAAG
* * *
16201634 ATTCTCATTTAAGACTCAAAGAGTCTCATTTAAGACTCAAAGATTCTTATTTGAGGATTTTTTAA
1 ATTCTCATTGAAGACTCAAAGAGTCTCATATAAAACTCAAAGATTCTTATTTGAGGATTTTTTAA
16201699 AG
66 AG
* * * * *
16201701 ATTCTCATTGGAAGATTTTTTAAAGATTTTCATATAAAACTCAATGATTCTTATTTGAGGATT
1 ATTCTCATT-GAAGA---CTCAAAGAGTCTCATATAAAACTCAAAGATTCTTATTTGAGGATT
16201764 CATAATTTTA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
67 36 0.33
68 27 0.25
69 7 0.06
71 38 0.35
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.42
Consensus pattern (67 bp):
ATTCTCATTGAAGACTCAAAGAGTCTCATATAAAACTCAAAGATTCTTATTTGAGGATTTTTTAA
AG
Found at i:16202198 original size:63 final size:62
Alignment explanation
Indices: 16202126--16202257 Score: 156
Period size: 62 Copynumber: 2.1 Consensus size: 62
16202116 ATCTCAAAAT
* ** * * * *
16202126 AAATTTTGTCTTTTATCACTTGATCATCACTCGTAAGCTTTTTAGCACTAGCAATTTCAGAAC
1 AAATTTTGTCCTCCATCACTTGATCACCACTCAT-AGCTTCTCAGCACTAGCAATTTCAGAAC
* * * *
16202189 AAATTTTGTCCTCCATCACTTGGTCACCACTCATAGCTTCTCAGCACTAGCCATTTCATAAT
1 AAATTTTGTCCTCCATCACTTGATCACCACTCATAGCTTCTCAGCACTAGCAATTTCAGAAC
16202251 AAATTTT
1 AAATTTT
16202258 ATCCACTGAG
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
62 30 0.52
63 28 0.48
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (62 bp):
AAATTTTGTCCTCCATCACTTGATCACCACTCATAGCTTCTCAGCACTAGCAATTTCAGAAC
Found at i:16202255 original size:62 final size:63
Alignment explanation
Indices: 16202098--16202257 Score: 178
Period size: 63 Copynumber: 2.6 Consensus size: 63
16202088 CACCATTTTG
* * * * ** * *
16202098 AGCTTCTTAGCATTGGCCATCTCAAAATAAATTTTGTCTTTTATCACTTGATCATCACTCGTA
1 AGCTTCTTAGCACTAGCCATTTCAAAATAAATTTTGTCCTCCATCACTTGATCACCACTCATA
* * * * *
16202161 AGCTTTTTAGCACTAGCAATTTCAGAACAAATTTTGTCCTCCATCACTTGGTCACCACTCAT-
1 AGCTTCTTAGCACTAGCCATTTCAAAATAAATTTTGTCCTCCATCACTTGATCACCACTCATA
* *
16202223 AGCTTCTCAGCACTAGCCATTTCATAATAAATTTT
1 AGCTTCTTAGCACTAGCCATTTCAAAATAAATTTT
16202258 ATCCACTGAG
Statistics
Matches: 79, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
62 30 0.38
63 49 0.62
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (63 bp):
AGCTTCTTAGCACTAGCCATTTCAAAATAAATTTTGTCCTCCATCACTTGATCACCACTCATA
Found at i:16206678 original size:15 final size:14
Alignment explanation
Indices: 16206650--16206677 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16206640 CCTATCTAAA
16206650 ATTTTTTTTCTTTT
1 ATTTTTTTTCTTTT
16206664 ATTTTTTTTCTTTT
1 ATTTTTTTTCTTTT
16206678 TGGATGTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (14 bp):
ATTTTTTTTCTTTT
Found at i:16207183 original size:16 final size:15
Alignment explanation
Indices: 16207157--16207194 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
16207147 TATTCTCAAA
16207157 ATTTATTTTATTTTTT
1 ATTT-TTTTATTTTTT
16207173 ATCTTTTTTATTTTTT
1 AT-TTTTTTATTTTTT
16207189 ATTTTT
1 ATTTTT
16207195 CTAAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (15 bp):
ATTTTTTTATTTTTT
Found at i:16207990 original size:19 final size:20
Alignment explanation
Indices: 16207968--16208021 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
16207958 TTTTTTACAT
16207968 AAAAAACATAATCTTAA-AA
1 AAAAAACATAATCTTAACAA
* * *
16207987 AAAAATCAT-ATTTCTAACAC
1 AAAAAACATAATCT-TAACAA
16208007 AAAAAACATAATCTT
1 AAAAAACATAATCTT
16208022 TTAATAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
18 3 0.11
19 11 0.41
20 10 0.37
21 3 0.11
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAACATAATCTTAACAA
Found at i:16208419 original size:23 final size:23
Alignment explanation
Indices: 16208393--16208438 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16208383 TAGTTGTTTA
16208393 GTTTCAAAACATAGTGGTTAATT
1 GTTTCAAAACATAGTGGTTAATT
* * * *
16208416 GTTTTAAAATATTGTGTTTAATT
1 GTTTCAAAACATAGTGGTTAATT
16208439 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (23 bp):
GTTTCAAAACATAGTGGTTAATT
Found at i:16208746 original size:17 final size:18
Alignment explanation
Indices: 16208713--16208745 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16208703 ACTCCTTGTC
16208713 AAAAATTCATATTTTTTA
1 AAAAATTCATATTTTTTA
16208731 AAAAATT-AT-TTTTTT
1 AAAAATTCATATTTTTT
16208746 TTCAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
AAAAATTCATATTTTTTA
Found at i:16211562 original size:19 final size:20
Alignment explanation
Indices: 16211514--16211562 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 20
16211504 ACTCTGAGCG
*
16211514 GTTATGATTTTTCACACTTA
1 GTTATGATTTTTCACACCTA
*
16211534 GATAT-A-TTTT-ACACCTA
1 GTTATGATTTTTCACACCTA
16211551 GTTATGATTTTT
1 GTTATGATTTTT
16211563 TTGTTCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 10 0.42
18 5 0.21
19 5 0.21
20 4 0.17
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (20 bp):
GTTATGATTTTTCACACCTA
Found at i:16215008 original size:15 final size:16
Alignment explanation
Indices: 16214988--16215021 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16214978 TCTATGTCAT
*
16214988 ATATAATTTTTA-ATA
1 ATATAAATTTTATATA
16215003 ATATAAATTTTATATA
1 ATATAAATTTTATATA
16215019 ATA
1 ATA
16215022 ATTTATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATAAATTTTATATA
Found at i:16216019 original size:22 final size:21
Alignment explanation
Indices: 16215985--16216026 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
16215975 GTGATAGAAA
*
16215985 AATTGATTGATCAATTAAAAAT
1 AATTGATTAATCAA-TAAAAAT
*
16216007 AATTTATTAATCAATAAAAA
1 AATTGATTAATCAATAAAAA
16216027 GTAAGATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (21 bp):
AATTGATTAATCAATAAAAAT
Found at i:16216293 original size:23 final size:25
Alignment explanation
Indices: 16216258--16216308 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 25
16216248 AATAAAAATA
*
16216258 TTAATATTATAAATCTTTTA-ATATT
1 TTAATATTATAAATATTTTATA-ATT
16216283 TTAAT-TT-TAAATATTTTATAATT
1 TTAATATTATAAATATTTTATAATT
16216306 TTA
1 TTA
16216309 CTTGAGTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 16 0.67
24 3 0.12
25 5 0.21
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTAATATTATAAATATTTTATAATT
Found at i:16216774 original size:18 final size:17
Alignment explanation
Indices: 16216728--16216774 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
16216718 TTTAATATAA
*
16216728 AATATAAATATTTTAAT
1 AATAAAAATATTTTAAT
*
16216745 AGTAAAAATATTTTAAT
1 AATAAAAATATTTTAAT
16216762 AATAAACAATATT
1 AATAAA-AATATT
16216775 ATTTTAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AATAAAAATATTTTAAT
Found at i:16216779 original size:21 final size:20
Alignment explanation
Indices: 16216717--16216809 Score: 77
Period size: 21 Copynumber: 4.5 Consensus size: 20
16216707 TAATAGATAC
16216717 TTTTAAT-ATAAAATATAAATA
1 TTTTAATAATAAAA-AT-AATA
*
16216738 TTTTAATAGT--AAA-AATA
1 TTTTAATAATAAAAATAATA
*
16216755 TTTTAATAATAAACAATATTA
1 TTTTAATAATAAA-AATAATA
16216776 TTTTAATATTAATAAAAATAATA
1 TTTT-A-A-TAATAAAAATAATA
*
16216799 TTTTAAGAATA
1 TTTTAATAATA
16216810 GTAATTCTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
17 13 0.22
19 2 0.03
20 8 0.14
21 15 0.25
22 3 0.05
23 11 0.19
24 7 0.12
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (20 bp):
TTTTAATAATAAAAATAATA
Found at i:16216903 original size:19 final size:18
Alignment explanation
Indices: 16216873--16216917 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
16216863 TTATTTTAAG
16216873 TATTTT-ATATTAATATAA
1 TATTTTAATATTAA-ATAA
*
16216891 TATTTTAATATTAAATAT
1 TATTTTAATATTAAATAA
16216909 TATTATTAA
1 TATT-TTAA
16216918 AATATAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTTAATATTAAATAA
Found at i:16216966 original size:25 final size:26
Alignment explanation
Indices: 16216938--16217004 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 26
16216928 TTTTTGAATA
16216938 TCAATAATTTTAATAAAAAATAA-TT
1 TCAATAATTTTAATAAAAAATAATTT
* *
16216963 TCAATATACTTTAATAATAAATAATTT
1 TCAATA-ATTTTAATAAAAAATAATTT
*
16216990 TTAAT-ATTTTAATAA
1 TCAATAATTTTAATAA
16217005 TTATACTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 15 0.42
26 15 0.42
27 6 0.17
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (26 bp):
TCAATAATTTTAATAAAAAATAATTT
Found at i:16216975 original size:26 final size:25
Alignment explanation
Indices: 16216938--16216989 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
16216928 TTTTTGAATA
*
16216938 TCAATAATTTTAATAAAAAATAATT
1 TCAATAACTTTAATAAAAAATAATT
*
16216963 TCAATATACTTTAATAATAAATAATT
1 TCAATA-ACTTTAATAAAAAATAATT
16216989 T
1 T
16216990 TTAATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (25 bp):
TCAATAACTTTAATAAAAAATAATT
Found at i:16224404 original size:17 final size:18
Alignment explanation
Indices: 16224383--16224424 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
16224373 TTTATATTCG
*
16224383 ATTTTATATATTTAACAT
1 ATTTTATATATTTAAAAT
* *
16224401 -TTTTTTGTATTTAAAAT
1 ATTTTATATATTTAAAAT
16224418 ATTTTAT
1 ATTTTAT
16224425 TCTGTTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTTATATATTTAAAAT
Found at i:16226561 original size:17 final size:18
Alignment explanation
Indices: 16226539--16226575 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
16226529 TCTCTCTCTT
16226539 TCTCTCTCT-AAGC-TTCC
1 TCTCTCT-TAAAGCGTTCC
16226556 TCTCTCTTAAAGCGTTCC
1 TCTCTCTTAAAGCGTTCC
16226574 TC
1 TC
16226576 ATACACTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 11 0.61
18 6 0.33
ACGTcount: A:0.14, C:0.38, G:0.08, T:0.41
Consensus pattern (18 bp):
TCTCTCTTAAAGCGTTCC
Found at i:16228619 original size:215 final size:213
Alignment explanation
Indices: 16228219--16228619 Score: 567
Period size: 213 Copynumber: 1.9 Consensus size: 213
16228209 GAAACCAAGG
* *
16228219 ATTTGAATGTAGATTGGGCCATTAAGGCATTCACCTCAGGGGCGAGGCATGATCATTTAAGATAT
1 ATTTGAATGTAGAATGGGCCATTAAGGCATTCACCACAGGGGCGAGGCATGATCATTTAAGATAT
* * * *
16228284 TTGTTAACGAAGACAAGCCAGAGTAGTTGTATCAACTATATAAAATGGTTTAGAAGTTTGTTAAG
66 TCGTTAACGAAGACAAGCCAGAGCAATTGTATCAACTATATAAAATGGTCTAGAAGTTTGTTAAG
* * * *
16228349 GCTAAAGAGATTAGGGCAGCAGATAGGGTCAAATGATGTGAACAAGTTCAAAAATGTCCACAAAC
131 GCTAAAGAGATTAAGGCAGCAGATAGGGTCAAACGATGTGAACAAGATAAAAAATGTCCACAAAC
16228414 GTCACTTGTAGGTGAAAT
196 GTCACTTGTAGGTGAAAT
* * *
16228432 ATTTGAATGCTA-AATGGGCCATTAAGGCTTTCACCACA-GGGCTGAGGTATGATCATTTGAGAT
1 ATTTGAATG-TAGAATGGGCCATTAAGGCATTCACCACAGGGGC-GAGGCATGATCATTTAAGAT
16228495 ATTCGTTAACGAAGAACAAGCCAGAGCAATTGTATCAACTATATGAAAATGGTCTAGAAGTTTGA
64 ATTCGTTAACGAAG-ACAAGCCAGAGCAATTGTATCAACTATAT-AAAATGGTCTAGAAGTTTG-
* * * *
16228560 TTAA-GCTTAAGAGATTAAGGCAGTAGATAGGGTCGAACGATGTGAA-TAGCATAAAAAATG
126 TTAAGGCTAAAGAGATTAAGGCAGCAGATAGGGTCAAACGATGTGAACAAG-ATAAAAAATG
16228620 CTCAAAAGAA
Statistics
Matches: 165, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
212 4 0.02
213 63 0.38
214 31 0.19
215 63 0.38
216 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (213 bp):
ATTTGAATGTAGAATGGGCCATTAAGGCATTCACCACAGGGGCGAGGCATGATCATTTAAGATAT
TCGTTAACGAAGACAAGCCAGAGCAATTGTATCAACTATATAAAATGGTCTAGAAGTTTGTTAAG
GCTAAAGAGATTAAGGCAGCAGATAGGGTCAAACGATGTGAACAAGATAAAAAATGTCCACAAAC
GTCACTTGTAGGTGAAAT
Found at i:16235569 original size:21 final size:20
Alignment explanation
Indices: 16235525--16235569 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
16235515 CCACCAACTT
* *
16235525 GCCCTAGATCATTACATACC
1 GCCCTAGATCATTAAATACA
*
16235545 GCCCTAAGATCATTAAATGCA
1 GCCCT-AGATCATTAAATACA
16235566 GCCC
1 GCCC
16235570 ACACATGTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.31, C:0.33, G:0.13, T:0.22
Consensus pattern (20 bp):
GCCCTAGATCATTAAATACA
Found at i:16242057 original size:2 final size:2
Alignment explanation
Indices: 16242050--16242075 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16242040 AACTATACTA
16242050 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
16242076 TGTCAAATTG
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:16242912 original size:7 final size:7
Alignment explanation
Indices: 16242897--16242954 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
16242887 AGTTGACTGA
16242897 GACAATT
1 GACAATT
*
16242904 GACAGTT
1 GACAATT
**
16242911 GACTGTT
1 GACAATT
*
16242918 GATAATT
1 GACAATT
* *
16242925 GATAGTT
1 GACAATT
16242932 GACAATT
1 GACAATT
16242939 GACAATT
1 GACAATT
16242946 GACAATT
1 GACAATT
16242953 GA
1 GA
16242955 TGATGAGTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (7 bp):
GACAATT
Found at i:16242926 original size:21 final size:21
Alignment explanation
Indices: 16242887--16242954 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
16242877 AAGGACGGTG
*
16242887 AGTTGACTG-AGACAATTGAC
1 AGTTGACTGTTGACAATTGAC
* *
16242907 AGTTGACTGTTGATAATTGAT
1 AGTTGACTGTTGACAATTGAC
**
16242928 AGTTGACAATTGACAATTGAC
1 AGTTGACTGTTGACAATTGAC
*
16242949 AATTGA
1 AGTTGA
16242955 TGATGAGTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 9 0.23
21 30 0.77
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.32
Consensus pattern (21 bp):
AGTTGACTGTTGACAATTGAC
Found at i:16243464 original size:49 final size:49
Alignment explanation
Indices: 16243405--16243500 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
16243395 TGGTGAGTTG
* * * * *
16243405 TGTTGATGATGTGTCTTTGTAAGGTGAGGAGTGCTCTCTTGGCGAGCAA
1 TGTTGATGATGTATCTTTGCAAGGCGAGAAATGCTCTCTTGGCGAGCAA
*
16243454 TGTTGATGATGTATCTTTGCAAGGCGAGAAATGTTCTCTTGGCGAGC
1 TGTTGATGATGTATCTTTGCAAGGCGAGAAATGCTCTCTTGGCGAGC
16243501 TATATGATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.34
Consensus pattern (49 bp):
TGTTGATGATGTATCTTTGCAAGGCGAGAAATGCTCTCTTGGCGAGCAA
Found at i:16244141 original size:12 final size:12
Alignment explanation
Indices: 16244124--16244157 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16244114 GTGTGTGTGT
*
16244124 GAGAGAGACAGA
1 GAGAGAGAAAGA
16244136 GAGAGAGAAAGA
1 GAGAGAGAAAGA
*
16244148 GAAAGAGAAA
1 GAGAGAGAAA
16244158 TGGCACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.38, T:0.00
Consensus pattern (12 bp):
GAGAGAGAAAGA
Found at i:16251629 original size:2 final size:2
Alignment explanation
Indices: 16251624--16251653 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16251614 TCTCTCTATT
16251624 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
16251654 AATTTACATA
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:16251814 original size:2 final size:2
Alignment explanation
Indices: 16251809--16251840 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16251799 TAACTTGATC
*
16251809 CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
16251841 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:16251845 original size:2 final size:2
Alignment explanation
Indices: 16251840--16251870 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16251830 TCTCTCTCTC
16251840 TA 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 TA T
16251871 TTATCACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16253041 original size:19 final size:19
Alignment explanation
Indices: 16253000--16253042 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
16252990 TAATATTGAA
* * *
16253000 AAAAATACAAAAATAAAAG
1 AAAAATAAAAAAAGAAAAC
*
16253019 AAAAATAAAAAAAGGAAAC
1 AAAAATAAAAAAAGAAAAC
16253038 AAAAA
1 AAAAA
16253043 AGTGATAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.81, C:0.05, G:0.07, T:0.07
Consensus pattern (19 bp):
AAAAATAAAAAAAGAAAAC
Found at i:16254267 original size:3 final size:3
Alignment explanation
Indices: 16254253--16254303 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
16254243 ATATTGTTCT
* *
16254253 ATA ATA ATTA ATA ATA ATA ACA ATA ATGA ACA A-A ATA ATAA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA
16254300 ATA A
1 ATA A
16254304 AAAAATTCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
2 2 0.05
3 31 0.76
4 8 0.20
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:16254308 original size:21 final size:21
Alignment explanation
Indices: 16254265--16254309 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
16254255 AATAATTAAT
*
16254265 AATAATAACAATAATGAACAA
1 AATAATAACAATAATGAAAAA
*
16254286 AATAATAAATAATAAT-AAAAA
1 AATAAT-AACAATAATGAAAAA
16254307 AAT
1 AAT
16254310 TCTAAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
AATAATAACAATAATGAAAAA
Found at i:16254430 original size:3 final size:3
Alignment explanation
Indices: 16254422--16254456 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16254412 GAGAATTATA
16254422 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16254457 AATTTTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16254627 original size:30 final size:31
Alignment explanation
Indices: 16254593--16254718 Score: 111
Period size: 30 Copynumber: 4.2 Consensus size: 31
16254583 ATTAAAGCCT
16254593 AAACCCTCCAAACCCTAAAAT-CAAAATCCC
1 AAACCCTCCAAACCCTAAAATCCAAAATCCC
*
16254623 AAA-CCTCTAAACCCTAAAATCCAAAATCCC
1 AAACCCTCCAAACCCTAAAATCCAAAATCCC
* *
16254653 AAACCCT-AAAATCC-AAAA-CCTAAAAAT-CC
1 AAACCCTCCAAACCCTAAAATCC--AAAATCCC
** ** *
16254682 AAATTTCTAAAAACCCTAAAATCCAAAATCCT
1 AAA-CCCTCCAAACCCTAAAATCCAAAATCCC
16254714 AAACC
1 AAACC
16254719 ATAAAATCCA
Statistics
Matches: 78, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
28 2 0.03
29 25 0.32
30 27 0.35
31 14 0.18
32 8 0.10
33 2 0.03
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (31 bp):
AAACCCTCCAAACCCTAAAATCCAAAATCCC
Found at i:16254629 original size:29 final size:30
Alignment explanation
Indices: 16254597--16254657 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
16254587 AAGCCTAAAC
16254597 CCTCCAAACCCTAAAAT-CAAAATCCCAAA
1 CCTCCAAACCCTAAAATCCAAAATCCCAAA
*
16254626 CCTCTAAACCCTAAAATCCAAAATCCCAAA
1 CCTCCAAACCCTAAAATCCAAAATCCCAAA
16254656 CC
1 CC
16254658 CTAAAATCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (30 bp):
CCTCCAAACCCTAAAATCCAAAATCCCAAA
Found at i:16254648 original size:7 final size:7
Alignment explanation
Indices: 16254638--16254747 Score: 62
Period size: 7 Copynumber: 14.7 Consensus size: 7
16254628 TCTAAACCCT
16254638 AAAATCC
1 AAAATCC
16254645 AAAATCC
1 AAAATCC
* *
16254652 CAAACCC
1 AAAATCC
16254659 TAAAATCC
1 -AAAATCC
16254667 AAAA-CC
1 AAAATCC
16254673 TAAAAATCC
1 --AAAATCC
* *
16254682 AAATTTCTA
1 AAA-ATC-C
*
16254691 AAAACCC
1 AAAATCC
16254698 TAAAATCC
1 -AAAATCC
16254706 AAAATCC
1 AAAATCC
*
16254713 TAAA-CC
1 AAAATCC
16254719 ATAAAATCC
1 --AAAATCC
*
16254728 AAAATCTA
1 AAAATC-C
16254736 AAAATCC
1 AAAATCC
16254743 AAAAT
1 AAAAT
16254748 TCTAAAAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
6 4 0.05
7 40 0.51
8 27 0.35
9 7 0.09
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAATCC
Found at i:16254663 original size:22 final size:22
Alignment explanation
Indices: 16254631--16254733 Score: 85
Period size: 22 Copynumber: 4.9 Consensus size: 22
16254621 CCAAACCTCT
16254631 AAACCCTAAAATCCAAAATCCC
1 AAACCCTAAAATCCAAAATCCC
16254653 AAACCCTAAAATCCAAAA--CC
1 AAACCCTAAAATCCAAAATCCC
* * **
16254673 -TA----AAAATCCAAATTTCTAA
1 AAACCCTAAAATCCAAA-ATC-CC
*
16254692 AAACCCTAAAATCCAAAATCCT
1 AAACCCTAAAATCCAAAATCCC
*
16254714 AAACCATAAAATCCAAAATC
1 AAACCCTAAAATCCAAAATC
16254734 TAAAAATCCA
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
15 10 0.16
19 1 0.02
20 3 0.05
22 37 0.59
23 2 0.03
24 10 0.16
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.17
Consensus pattern (22 bp):
AAACCCTAAAATCCAAAATCCC
Found at i:16254665 original size:15 final size:15
Alignment explanation
Indices: 16254615--16254677 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 15
16254605 CCCTAAAATC
16254615 AAAATCCCAAACCTCT
1 AAAATCCCAAACC-CT
*
16254631 -AAA-CCCTAAAATCC-
1 AAAATCCC--AAACCCT
16254645 AAAATCCCAAACCCT
1 AAAATCCCAAACCCT
*
16254660 AAAAT-CCAAAACCT
1 AAAATCCCAAACCCT
16254674 AAAA
1 AAAA
16254678 ATCCAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.51
15 12 0.31
16 7 0.18
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAATCCCAAACCCT
Found at i:16254678 original size:15 final size:15
Alignment explanation
Indices: 16254645--16254746 Score: 77
Period size: 15 Copynumber: 6.7 Consensus size: 15
16254635 CCTAAAATCC
*
16254645 AAAATCCCAAACCCT-
1 AAAAT-CCAAAACCTA
16254660 AAAATCCAAAACCTA
1 AAAATCCAAAACCTA
**
16254675 AAAATCCAAATTTCTA
1 AAAATCCAAA-ACCTA
*
16254691 AAAACCCTAAAATCC--
1 AAAATCC-AAAA-CCTA
*
16254706 AAAATCCTAAACC-A
1 AAAATCCAAAACCTA
*
16254720 TAAAATCCAAAATCTA
1 -AAAATCCAAAACCTA
16254736 AAAATCCAAAA
1 AAAATCCAAAA
16254747 TTCTAAAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
13 2 0.03
14 11 0.16
15 43 0.61
16 10 0.14
17 4 0.06
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATCCAAAACCTA
Found at i:16254705 original size:61 final size:61
Alignment explanation
Indices: 16254631--16254755 Score: 214
Period size: 61 Copynumber: 2.0 Consensus size: 61
16254621 CCAAACCTCT
* *
16254631 AAACCCTAAAATCCAAAATCCCAAACCCTAAAATCCAAAACCTAAAAATCCAAATTTCTAA
1 AAACCCTAAAATCCAAAATCCCAAACCATAAAATCCAAAACCTAAAAATCCAAAATTCTAA
* *
16254692 AAACCCTAAAATCCAAAATCCTAAACCATAAAATCCAAAATCTAAAAATCCAAAATTCTAA
1 AAACCCTAAAATCCAAAATCCCAAACCATAAAATCCAAAACCTAAAAATCCAAAATTCTAA
16254753 AAA
1 AAA
16254756 AAAAAAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.18
Consensus pattern (61 bp):
AAACCCTAAAATCCAAAATCCCAAACCATAAAATCCAAAACCTAAAAATCCAAAATTCTAA
Found at i:16254746 original size:22 final size:22
Alignment explanation
Indices: 16254675--16254747 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
16254665 CCAAAACCTA
* *
16254675 AAAATCCAAATTTCTAAAAACCC
1 AAAATCCAAA-ATCTAAAAATCC
*
16254698 TAAAATCCAAAATCCTAAACCAT--
1 -AAAATCCAAAAT-CTAAA-AATCC
16254721 AAAATCCAAAATCTAAAAATCC
1 AAAATCCAAAATCTAAAAATCC
16254743 AAAAT
1 AAAAT
16254748 TCTAAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 2 0.05
21 5 0.12
22 17 0.41
23 1 0.02
24 15 0.37
25 1 0.02
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAATCCAAAATCTAAAAATCC
Found at i:16254747 original size:15 final size:15
Alignment explanation
Indices: 16254660--16254755 Score: 88
Period size: 15 Copynumber: 6.3 Consensus size: 15
16254650 CCCAAACCCT
*
16254660 AAAATCCAAAACCTA
1 AAAATCCAAAATCTA
*
16254675 AAAATCCAAATTTCTA
1 AAAATCCAAA-ATCTA
* *
16254691 AAAACCCTAAAATC-C
1 AAAATCC-AAAATCTA
* *
16254706 AAAATCCTAAA-CCA
1 AAAATCCAAAATCTA
16254720 TAAAATCCAAAATCTA
1 -AAAATCCAAAATCTA
16254736 AAAATCCAAAATTCTA
1 AAAATCCAAAA-TCTA
16254752 AAAA
1 AAAA
16254756 AAAAAAAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
13 1 0.02
14 3 0.05
15 37 0.57
16 21 0.32
17 3 0.05
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAATCCAAAATCTA
Found at i:16258280 original size:18 final size:18
Alignment explanation
Indices: 16258257--16258300 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
16258247 ACAGGCCATT
*
16258257 CTTTGAAAGACTGTATGA
1 CTTTGAAAGACTGCATGA
16258275 CTTTGAAAGACTGCATGA
1 CTTTGAAAGACTGCATGA
16258293 CTTTGAAA
1 CTTTGAAA
16258301 CATTGGGTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (18 bp):
CTTTGAAAGACTGCATGA
Found at i:16261869 original size:11 final size:11
Alignment explanation
Indices: 16261841--16261869 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
16261831 TAGTTAGAAT
16261841 AAAAAAA-TAA
1 AAAAAAAGTAA
16261851 AAAAAAAGTAA
1 AAAAAAAGTAA
16261862 AAAAAAAG
1 AAAAAAAG
16261870 AATAGAGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAAAGTAA
Found at i:16263569 original size:7 final size:8
Alignment explanation
Indices: 16263546--16263706 Score: 56
Period size: 7 Copynumber: 20.6 Consensus size: 8
16263536 GTCCTAGGTT
*
16263546 CTAAAACC
1 CTAAAATC
16263554 CATAAAATC
1 C-TAAAATC
16263563 C-AAAATC
1 CTAAAATC
*
16263570 CTAAAATT
1 CTAAAATC
* **
16263578 CGAAACCC
1 CTAAAATC
16263586 CTAAAAAT-
1 CT-AAAATC
*
16263594 CTGAAATCC
1 CTAAAAT-C
*
16263603 CTTAAATC
1 CTAAAATC
**
16263611 C-AAACCC
1 CTAAAATC
16263618 CTAAAATC
1 CTAAAATC
16263626 C-AAAACTC
1 CTAAAA-TC
*
16263634 TCCAAAATC
1 -CTAAAATC
16263643 C-AAAATC
1 CTAAAATC
16263650 CT-AAA-C
1 CTAAAATC
* *
16263656 CTTTAAATT
1 C-TAAAATC
*
16263665 CTTAAATC
1 CTAAAATC
*
16263673 C-AAACTC
1 CTAAAATC
16263680 C-AAAATC
1 CTAAAATC
16263687 C-AAAATCC
1 CTAAAAT-C
16263695 CTAAAAT-
1 CTAAAATC
16263702 CTAAA
1 CTAAA
16263707 CCCTAAACCT
Statistics
Matches: 117, Mismatches: 21, Indels: 31
0.69 0.12 0.18
Matches are distributed among these distances:
6 2 0.02
7 51 0.44
8 35 0.30
9 25 0.21
10 4 0.03
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (8 bp):
CTAAAATC
Found at i:16263590 original size:16 final size:16
Alignment explanation
Indices: 16263569--16263624 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
16263559 AATCCAAAAT
16263569 CCTAAAATTCGAAACC
1 CCTAAAATTCGAAACC
* *
16263585 CCTAAAAATCTGAAATC
1 CCTAAAATTC-GAAACC
* *
16263602 CCTTAAA-TCCAAACC
1 CCTAAAATTCGAAACC
16263617 CCTAAAAT
1 CCTAAAAT
16263625 CCAAAACTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 10 0.31
16 11 0.34
17 11 0.34
ACGTcount: A:0.45, C:0.30, G:0.04, T:0.21
Consensus pattern (16 bp):
CCTAAAATTCGAAACC
Found at i:16263642 original size:32 final size:30
Alignment explanation
Indices: 16263549--16263713 Score: 104
Period size: 32 Copynumber: 5.4 Consensus size: 30
16263539 CTAGGTTCTA
* * *
16263549 AAACCCATAAAATCCAAAATCCTAAAATTCG
1 AAACCCCTAAAATCCAAAATCCCAAAA-TCC
** *
16263580 AAACCCCTAAAAATCTGAAATCCCTTAAATCC
1 AAACCCCT-AAAATCCAAAATCCC-AAAATCC
16263612 AAACCCCTAAAATCCAAAACTCTCCAAAATCC
1 AAACCCCTAAAATCCAAAA-TC-CCAAAATCC
** * * **
16263644 AAAATCCT-AAA-CCTTTAAATTCTTAAATCC
1 AAACCCCTAAAATCC--AAAATCCCAAAATCC
* *
16263674 AAACTCC-AAAATCCAAAATCCCTAAAATCT
1 AAACCCCTAAAATCCAAAATCCC-AAAATCC
16263704 AAA-CCCTAAA
1 AAACCCCTAAA
16263714 CCTTCAATAT
Statistics
Matches: 102, Mismatches: 22, Indels: 21
0.70 0.15 0.14
Matches are distributed among these distances:
29 7 0.07
30 29 0.28
31 22 0.22
32 39 0.38
33 5 0.05
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (30 bp):
AAACCCCTAAAATCCAAAATCCCAAAATCC
Found at i:16263702 original size:16 final size:16
Alignment explanation
Indices: 16263556--16263702 Score: 87
Period size: 15 Copynumber: 9.4 Consensus size: 16
16263546 CTAAAACCCA
16263556 TAAAATCCAAAAT-CC
1 TAAAATCCAAAATCCC
* * *
16263571 TAAAATTCGAAACCCC
1 TAAAATCCAAAATCCC
**
16263587 TAAAAATCTGAAATCCC
1 T-AAAATCCAAAATCCC
* *
16263604 TTAAATCC-AAACCCC
1 TAAAATCCAAAATCCC
16263619 TAAAATCCAAAACTCTCC
1 TAAAATCCAAAA-TC-CC
16263637 -AAAATCCAAAAT-CC
1 TAAAATCCAAAATCCC
* *
16263651 T-AAA-CCTTTAAAT-TC
1 TAAAATCC--AAAATCCC
* *
16263666 TTAAATCCAAACT-CC
1 TAAAATCCAAAATCCC
16263681 -AAAATCCAAAATCCC
1 TAAAATCCAAAATCCC
16263696 TAAAATC
1 TAAAATC
16263703 TAAACCCTAA
Statistics
Matches: 102, Mismatches: 18, Indels: 23
0.71 0.13 0.16
Matches are distributed among these distances:
13 2 0.02
14 15 0.15
15 35 0.34
16 21 0.21
17 27 0.26
18 2 0.02
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.22
Consensus pattern (16 bp):
TAAAATCCAAAATCCC
Found at i:16266261 original size:22 final size:22
Alignment explanation
Indices: 16266234--16266300 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
16266224 GAGTTGATTC
16266234 TCTAAGACCTCTAGACATAATT
1 TCTAAGACCTCTAGACATAATT
*
16266256 TCTAAGACCTC-CGAGCATAATCT
1 TCTAAGACCTCTAGA-CATAAT-T
* * *
16266279 T-TAAGACCGCTGGGCATAATT
1 TCTAAGACCTCTAGACATAATT
16266300 T
1 T
16266301 TGATTCATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 4 0.11
22 31 0.82
23 3 0.08
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (22 bp):
TCTAAGACCTCTAGACATAATT
Found at i:16266474 original size:89 final size:88
Alignment explanation
Indices: 16266292--16266478 Score: 214
Period size: 89 Copynumber: 2.1 Consensus size: 88
16266282 AGACCGCTGG
* * * *
16266292 GCATAATTTTGATTCATGGTGTTATTCCAATCAATTCTATATTTTTTTATTTATGGTGTTGTCCC
1 GCATAATTTTGATTCACGGTGTTAGTCCAATCAATTCTATATTTTTTGACTTATGGTGTTGTCCC
* *
16266357 AGTCGATTTTCTAAGACCTCCGA
66 AGTCAATTCTCTAAGACCTCCGA
* * * * * *
16266380 ACATAATTTTGATTCGCGGTGTT-GTCCTGATCGATTCTTTATTTTTTGGACTTGTGGTGTTGTC
1 GCATAATTTTGATTCACGGTGTTAGTCC-AATCAATTCTATATTTTTT-GACTTATGGTGTTGTC
* * *
16266444 CCAGTTAATTCTGTAAGATCTCCGA
64 CCAGTCAATTCTCTAAGACCTCCGA
16266469 GCATAATTTT
1 GCATAATTTT
16266479 TAAGACCTTT
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
87 3 0.04
88 36 0.44
89 42 0.52
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.45
Consensus pattern (88 bp):
GCATAATTTTGATTCACGGTGTTAGTCCAATCAATTCTATATTTTTTGACTTATGGTGTTGTCCC
AGTCAATTCTCTAAGACCTCCGA
Found at i:16266494 original size:22 final size:22
Alignment explanation
Indices: 16266469--16266522 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
16266459 AGATCTCCGA
*
16266469 GCATAATTTTTAAGACCTTTGG
1 GCATAATTTTTAAGACCTTTAG
* *
16266491 GCATAATCTTTAATACCTTTAG
1 GCATAATTTTTAAGACCTTTAG
*
16266513 GTATAATTTT
1 GCATAATTTT
16266523 GATTCGCAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (22 bp):
GCATAATTTTTAAGACCTTTAG
Found at i:16266546 original size:221 final size:222
Alignment explanation
Indices: 16266159--16266559 Score: 486
Period size: 221 Copynumber: 1.8 Consensus size: 222
16266149 GACTTCCAGG
* * *
16266159 CATAATTTTGATTCATGGTGTTATACCGATCGATTCTTTATTTTTTTTGACTTGAGATACTATTC
1 CATAATTTTGATTCACGGTGTTATACCGATCGATTCTTTATTTTTTTGGACTTGAGATACTATCC
* * *
16266224 GAGTTGATTCTCTAAGACCTCTAGACATAATTTCTAAGACCTCCGAGCATAATCTTTAAGACCGC
66 CAGTTAATTCTCTAAGACCTCGAGACATAATTTCTAAGACCTCCGAGCATAATCTTTAAGACCGC
* ** *
16266289 TGGGCATAATTTTGATTCATGGTGTTATTCCAATCAATTCTATATTTTTTTATTTATGGTGTTGT
131 TAGGCATAATTTTGATTCACAGTATTATTCCAATCAATTCTATATTTTTTTATTTATGGTGTTGT
16266354 CCCAGTCGATTTTCTAAGACCTCCGAA
196 CCCAGTCGATTTTCTAAGACCTCCGAA
* * * * ** *
16266381 CATAATTTTGATTCGCGGTGTTGT-CCTGATCGATTCTTTA-TTTTTTGGACTTGTGGTGTTGTC
1 CATAATTTTGATTCACGGTGTTATACC-GATCGATTCTTTATTTTTTTGGACTTGAGATACTATC
* * * ** * *
16266444 CCAGTTAATTCTGTAAGATCTCCGAG-CATAATTTTTAAGACCTTTGGGCATAATCTTTAATACC
65 CCAGTTAATTCTCTAAGACCT-CGAGACATAATTTCTAAGACCTCCGAGCATAATCTTTAAGACC
** * * *
16266508 TTTAGGTATAATTTTGATTCGCAGTATTACTT-CAATCAATTCTTTATTTTTT
129 GCTAGGCATAATTTTGATTCACAGTATTA-TTCCAATCAATTCTATATTTTTT
16266560 GACTTGCTAT
Statistics
Matches: 147, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
221 108 0.73
222 39 0.27
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (222 bp):
CATAATTTTGATTCACGGTGTTATACCGATCGATTCTTTATTTTTTTGGACTTGAGATACTATCC
CAGTTAATTCTCTAAGACCTCGAGACATAATTTCTAAGACCTCCGAGCATAATCTTTAAGACCGC
TAGGCATAATTTTGATTCACAGTATTATTCCAATCAATTCTATATTTTTTTATTTATGGTGTTGT
CCCAGTCGATTTTCTAAGACCTCCGAA
Found at i:16266653 original size:21 final size:22
Alignment explanation
Indices: 16266589--16266661 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 22
16266579 ACCGATTCTA
* * *
16266589 TAAGACCTTCGAGTATGATTTT
1 TAAGACCTACGAGTATAATCTT
16266611 TAAGACCTACGAGTATAATCTT
1 TAAGACCTACGAGTATAATCTT
16266633 TAAGACCTACGAGTA-AATCTT
1 TAAGACCTACGAGTATAATCTT
16266654 TAAGACCT
1 TAAGACCT
16266662 CCAAGCATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 14 0.29
22 34 0.71
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (22 bp):
TAAGACCTACGAGTATAATCTT
Found at i:16266672 original size:43 final size:44
Alignment explanation
Indices: 16266589--16266672 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
16266579 ACCGATTCTA
* * * * *
16266589 TAAGACCTTCGAGTATGATTTTTAAGACCTACGAGTATAATCTT
1 TAAGACCTACGAGTATAATCTTTAAGACCTACAAGCATAATCTT
*
16266633 TAAGACCTACGAGTA-AATCTTTAAGACCTCCAAGCATAAT
1 TAAGACCTACGAGTATAATCTTTAAGACCTACAAGCATAAT
16266673 TTTGATTCGC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 20 0.59
44 14 0.41
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (44 bp):
TAAGACCTACGAGTATAATCTTTAAGACCTACAAGCATAATCTT
Found at i:16266890 original size:22 final size:22
Alignment explanation
Indices: 16266842--16266893 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
16266832 AAAACCTTTA
* * *
16266842 GGCATGATTTTTAAGACCTCTG
1 GGCATAATCTTTAAGACCTCCG
*
16266864 AGCATAATCTTTAAGACCTCCG
1 GGCATAATCTTTAAGACCTCCG
16266886 GGCATAAT
1 GGCATAAT
16266894 TTTGATTCAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (22 bp):
GGCATAATCTTTAAGACCTCCG
Found at i:16266970 original size:374 final size:375
Alignment explanation
Indices: 16266250--16266949 Score: 786
Period size: 374 Copynumber: 1.9 Consensus size: 375
16266240 ACCTCTAGAC
* *** ** *
16266250 ATAATTTCTAAGACCTCCGAGCATAATCTTTAAGACCGCTGGGCATAATTTTGATTCATGGTGTT
1 ATAATTTCTAAGACCTACGAGCATAATCTTTAAGACCGCCAAGCATAATTTTGATTCACAGTATT
* * * *
16266315 ATTCCAATCAATTCTATATTTTTTTATTTATGGTGTTGTCCCAGTCGATTTTCTAAGACCTCCGA
66 ATTCCAATCAATTCTATATTTTTTGACTTATGGTGTTGTCCCAATCGATTCTCTAAGACCTCCGA
* * *
16266380 ACATAATTTTGATTCGCGGTGTTGTCCTGATCGATTCTTTATTTTTTGGACTTGTGGTGTTGTCC
131 ACATAATTTTGATTCACGGTGTTATCCTGATCGATTCTTTATTTTTTGGACTTGTGATGTTGTCC
* * * * * * * *
16266445 CAGTTAATTCTGTAAGATCTCCGAGCATAATTTTTAAGACCTTTGGGCATAATCTTTAATACCTT
196 CAATTAATTCTGTAAAACCTCAGAGCATAATTTTTAAGACCTCTGAGCATAATCTTTAAGACCTC
* * * * * *
16266510 TAGGTATAATTTTGATTCGCAGTATTACTTCAATCAATTCTTTATTTTTTGACTTGCTATGTTGT
261 CAGGCATAATTTTGATTCACAGTATTACCTCAATCAATTCTTTATTTTTTGACTTGCGATGTTAT
16266575 CATAACCGATTCTATAAGACCTTCGAGTATGATTTTTAAGACCTACGAGT
326 CATAACCGATTCTATAAGACCTTCGAGTATGATTTTTAAGACCTACGAGT
* * *
16266625 ATAATCTT-TAAGACCTACGAGTA-AATCTTTAAGACCTCCAAGCATAATTTTGATTCGCAGTAT
1 ATAAT-TTCTAAGACCTACGAGCATAATCTTTAAGACCGCCAAGCATAATTTTGATTCACAGTAT
* * * * * *
16266688 TA-TCTCGATCGATTCTTTATTTTTTGACTTGTGGTGTTGTCCCAATCGGTTCTCTAAGACCTCT
65 TATTC-CAATCAATTCTATATTTTTTGACTTATGGTGTTGTCCCAATCGATTCTCTAAGACCTCC
* * * * *
16266752 TATCATAATTTTGATTTACGGTGTTAT-CTCGATCTACTTTTTTATTTTTT-GACTTGCT-ATGT
129 GAACATAATTTTGATTCACGGTGTTATCCT-GATCGA-TTCTTTATTTTTTGGACTTG-TGATGT
** * * * *
16266814 TGTCTTAATTGATTTTGTAAAACCTTTAG-GCATGATTTTTAAGACCTCTGAGCATAATCTTTAA
191 TGTCCCAATTAATTCTGTAAAACC-TCAGAGCATAATTTTTAAGACCTCTGAGCATAATCTTTAA
* * * * * *
16266878 GACCTCCGGGCATAATTTTGATTCACGGTGTTATCCT-GATCGATTCTTTATTTTTTGGCTTGCG
255 GACCTCCAGGCATAATTTTGATTCACAGTATTA-CCTCAATCAATTCTTTATTTTTTGACTTGCG
*
16266942 GTGTTATC
319 ATGTTATC
16266950 GTAGTCGATT
Statistics
Matches: 263, Mismatches: 55, Indels: 15
0.79 0.17 0.05
Matches are distributed among these distances:
373 4 0.02
374 222 0.84
375 35 0.13
376 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (375 bp):
ATAATTTCTAAGACCTACGAGCATAATCTTTAAGACCGCCAAGCATAATTTTGATTCACAGTATT
ATTCCAATCAATTCTATATTTTTTGACTTATGGTGTTGTCCCAATCGATTCTCTAAGACCTCCGA
ACATAATTTTGATTCACGGTGTTATCCTGATCGATTCTTTATTTTTTGGACTTGTGATGTTGTCC
CAATTAATTCTGTAAAACCTCAGAGCATAATTTTTAAGACCTCTGAGCATAATCTTTAAGACCTC
CAGGCATAATTTTGATTCACAGTATTACCTCAATCAATTCTTTATTTTTTGACTTGCGATGTTAT
CATAACCGATTCTATAAGACCTTCGAGTATGATTTTTAAGACCTACGAGT
Found at i:16270775 original size:13 final size:13
Alignment explanation
Indices: 16270757--16270783 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16270747 TATCTAAAGC
16270757 ATAGAAAACCAAA
1 ATAGAAAACCAAA
16270770 ATAGAAAACCAAA
1 ATAGAAAACCAAA
16270783 A
1 A
16270784 AGGTTATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.15, G:0.07, T:0.07
Consensus pattern (13 bp):
ATAGAAAACCAAA
Found at i:16274864 original size:2 final size:2
Alignment explanation
Indices: 16274857--16274890 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
16274847 ACATAAAAGA
16274857 AT AT AT AT 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 AT AT AT AT
16274891 GCATAAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16279790 original size:2 final size:2
Alignment explanation
Indices: 16279783--16279809 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16279773 CCAATTTCAT
16279783 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 T
16279810 GTTGAGCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16282337 original size:17 final size:17
Alignment explanation
Indices: 16282317--16282358 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
16282307 TATTTTAAAA
**
16282317 ATATATTATTTTTTATT
1 ATATATTATTAATTATT
*
16282334 ATATATAATTAATTATT
1 ATATATTATTAATTATT
16282351 A-ATATTAT
1 ATATATTAT
16282359 CATATTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATATTATTAATTATT
Found at i:16283127 original size:132 final size:133
Alignment explanation
Indices: 16282931--16283193 Score: 501
Period size: 132 Copynumber: 2.0 Consensus size: 133
16282921 TATGAGATGG
16282931 AATTATAATTCTAATTTATTTAATAAATTAATAAAAAATAATAGTTTGATTAAAATTAAATAGTG
1 AATTATAATTCTAATTTATTTAATAAATTAATAAAAAATAATAGTTTGATTAAAATTAAATAGTG
* *
16282996 ATAAATTTGTATCATATATTGACAATTTTGTGATAGATTGTTAATAGATTTGTGTAAAACTTTTT
66 ACAAATTTGTATCATATATTGACAAATTTGTGATAGATTGTTAATAGATTTGTGTAAAACTTTTT
16283061 TCC
131 TCC
16283064 AATTATAATTCTAATTTATTTAATAAATTAAT-AAAAATAATAGTTTGATTAAAATTAAATAGTG
1 AATTATAATTCTAATTTATTTAATAAATTAATAAAAAATAATAGTTTGATTAAAATTAAATAGTG
16283128 ACAAATTTGTATCATATATTGACAAATTTGTGATAGATTGTTAATAGATTTGTGTAAAACTTTTT
66 ACAAATTTGTATCATATATTGACAAATTTGTGATAGATTGTTAATAGATTTGTGTAAAACTTTTT
16283193 T
131 T
16283194 TCGAATGACC
Statistics
Matches: 128, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
132 96 0.75
133 32 0.25
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (133 bp):
AATTATAATTCTAATTTATTTAATAAATTAATAAAAAATAATAGTTTGATTAAAATTAAATAGTG
ACAAATTTGTATCATATATTGACAAATTTGTGATAGATTGTTAATAGATTTGTGTAAAACTTTTT
TCC
Found at i:16283545 original size:31 final size:31
Alignment explanation
Indices: 16283486--16283562 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
16283476 TATATTAGAA
* * *
16283486 AGACTAAATTTCAAATTTTGTTAGAGTATA-
1 AGACTAAATTTTAAAATTTGTCAGAGTATAG
16283516 AGGACTAAATTTTAAAATTTGTGCA-AGTATAG
1 A-GACTAAATTTTAAAATTTGT-CAGAGTATAG
*
16283548 AGAGTAAATTTTAAA
1 AGACTAAATTTTAAA
16283563 GTCCACATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 1 0.03
31 37 0.93
32 2 0.05
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (31 bp):
AGACTAAATTTTAAAATTTGTCAGAGTATAG
Found at i:16284289 original size:73 final size:74
Alignment explanation
Indices: 16284186--16284338 Score: 197
Period size: 73 Copynumber: 2.1 Consensus size: 74
16284176 GCTGCAGTTA
16284186 AAAAAG-TTTGGATTGAAAAAAAAAAACATTTAAAAAGTGTGGTCA-GAAATTTT-AGATATTTG
1 AAAAAGTTTTGGATTGAAAAAAAAAAACATTTAAAAAGTGTGGT-AGGAAATTTTAAG-TATTTG
* *
16284248 GTATTGCTATG
64 ATATTACTATG
* * * *
16284259 AAAAAGTTTTGGGTTG-AAAAAAAAAGCATTTAAAAGGTGTGGTAGGAAATTTTAAGTGTTTGAT
1 AAAAAGTTTTGGATTGAAAAAAAAAAACATTTAAAAAGTGTGGTAGGAAATTTTAAGTATTTGAT
*
16284323 ATTATTATG
66 ATTACTATG
16284332 AAAAAGT
1 AAAAAGT
16284339 GTTGTGAGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
72 1 0.01
73 59 0.84
74 10 0.14
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (74 bp):
AAAAAGTTTTGGATTGAAAAAAAAAAACATTTAAAAAGTGTGGTAGGAAATTTTAAGTATTTGAT
ATTACTATG
Found at i:16284552 original size:73 final size:75
Alignment explanation
Indices: 16284455--16284608 Score: 201
Period size: 75 Copynumber: 2.1 Consensus size: 75
16284445 CTGCAGTTAA
*
16284455 AAAAAG-TTTGGATTG-AAAAAAAAAA-TGTTTAAAAAGTGTGGTCA-GAAATTTT-AGATATTT
1 AAAAAGTTTTGGATTGAAAAAAAAAAAGCGTTTAAAAAGTGTGGT-ATGAAATTTTAAG-TATTT
*
16284515 GGTATTACTATG
64 GATATTACTATG
* * *
16284527 AAAAAGTTTTGGGTTGAAAAAAAAAAAGCGTTTAAAAGGTGTGGTATGAAATTTTAAGTGTTTGA
1 AAAAAGTTTTGGATTGAAAAAAAAAAAGCGTTTAAAAAGTGTGGTATGAAATTTTAAGTATTTGA
*
16284592 TATTATTATG
66 TATTACTATG
16284602 AAAAAGT
1 AAAAAGT
16284609 GTTGTGAGTA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
72 6 0.08
73 8 0.11
74 11 0.15
75 44 0.62
76 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (75 bp):
AAAAAGTTTTGGATTGAAAAAAAAAAAGCGTTTAAAAAGTGTGGTATGAAATTTTAAGTATTTGA
TATTACTATG
Found at i:16288183 original size:37 final size:38
Alignment explanation
Indices: 16288141--16288214 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
16288131 TAAGGTATGG
16288141 ATTTT-AAATATTTTGATTTTAGTTTAGCATGGAATAT
1 ATTTTAAAATATTTTGATTTTAGTTTAGCATGGAATAT
16288178 ATTTTAAAATATTTTGATTTTAGTTTAGCATGGAATA
1 ATTTTAAAATATTTTGATTTTAGTTTAGCATGGAATA
16288215 CTATGTATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 5 0.14
38 31 0.86
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.50
Consensus pattern (38 bp):
ATTTTAAAATATTTTGATTTTAGTTTAGCATGGAATAT
Found at i:16290303 original size:24 final size:24
Alignment explanation
Indices: 16290271--16290385 Score: 97
Period size: 24 Copynumber: 4.7 Consensus size: 24
16290261 TGAAATTTTG
* *
16290271 GGACTTGTATATAT-GTAAAACTTT
1 GGACTTGTATAAATAATAAAA-TTT
16290295 GGACTTGTATAAATAATAAAATTT
1 GGACTTGTATAAATAATAAAATTT
** * * *
16290319 GGACAAGTTTAAATTAAAAAAAAAATT
1 GGACTTGTATAAA-T--AATAAAATTT
* *
16290346 GGACTTGTATTAATCATAAAATTT
1 GGACTTGTATAAATAATAAAATTT
*
16290370 AGACTTGTATAAATAA
1 GGACTTGTATAAATAA
16290386 AAATTTTATT
Statistics
Matches: 70, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
24 46 0.66
25 6 0.09
26 1 0.01
27 17 0.24
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (24 bp):
GGACTTGTATAAATAATAAAATTT
Found at i:16290383 original size:51 final size:50
Alignment explanation
Indices: 16290293--16290388 Score: 129
Period size: 51 Copynumber: 1.9 Consensus size: 50
16290283 ATGTAAAACT
* *
16290293 TTGGACTTGTATAAATAATAAAATTTGGACAAGTTTAAATTAAAAAAAAAA
1 TTGGACTTGTATAAATAATAAAATTTAGACAAGTATAAA-TAAAAAAAAAA
* * **
16290344 TTGGACTTGTATTAATCATAAAATTTAGACTTGTATAAATAAAAA
1 TTGGACTTGTATAAATAATAAAATTTAGACAAGTATAAATAAAAA
16290389 TTTTATTTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 6 0.15
51 33 0.85
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.34
Consensus pattern (50 bp):
TTGGACTTGTATAAATAATAAAATTTAGACAAGTATAAATAAAAAAAAAA
Found at i:16294186 original size:53 final size:53
Alignment explanation
Indices: 16293938--16294209 Score: 162
Period size: 53 Copynumber: 5.2 Consensus size: 53
16293928 TAAAAATTGC
** * * *
16293938 GTTTCTACTTTAAAAAACGTAATTTTTGT--AATTTTTT-TAATCAAAGACTAT
1 GTTTCTACTTTAAAAAATATAGTTTTTGTAAAATTTTTTCT-ATCAAAAAATAT
* * ** *
16293989 ATTTTTACAATAAAAAATATAGTTTTTGT-AAATTGTTTTCAAT-AAAAAACTAT
1 GTTTCTACTTTAAAAAATATAGTTTTTGTAAAATT-TTTTCTATCAAAAAA-TAT
*** * * ** * * *
16294042 AACTCTACTTTAAAAAATGTGGTCGTTGTAAAATTTTTTTTAATCAAAAACTAA
1 GTTTCTACTTTAAAAAATATAGTTTTTGTAAAATTTTTTCT-ATCAAAAAATAT
* ** * **
16294096 GTTTCTA-TTTAAAAAA-AGCAAGTCATTATAATTTTTTTTCTATCAAAAAATAT
1 GTTTCTACTTTAAAAAATA--TAGTTTTTGTAAAATTTTTTCTATCAAAAAATAT
* * * *
16294149 GTTTATACTTTAAAAAATATAGTTTTTGTAAAATTTTTTCAATCAAAGAATAC
1 GTTTCTACTTTAAAAAATATAGTTTTTGTAAAATTTTTTCTATCAAAAAATAT
*
16294202 ATTTCTAC
1 GTTTCTAC
16294210 AATAGAAAAC
Statistics
Matches: 162, Mismatches: 48, Indels: 20
0.70 0.21 0.09
Matches are distributed among these distances:
51 22 0.14
52 8 0.05
53 89 0.55
54 37 0.23
55 6 0.04
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.43
Consensus pattern (53 bp):
GTTTCTACTTTAAAAAATATAGTTTTTGTAAAATTTTTTCTATCAAAAAATAT
Found at i:16294228 original size:53 final size:54
Alignment explanation
Indices: 16294162--16294263 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
16294152 TATACTTTAA
* *
16294162 AAAATATAGTTTTTGTA-AAATTTTTTCAATCAAAGAATACATTTCTACAATAG
1 AAAACATAGTTTTTGTATAAATTTTTTCAATCAAACAATACATTTCTACAATAG
* * * *
16294215 AAAACATATTTTTTTTATAATTTTTTTCAATCAAACATTACATTTCTAC
1 AAAACATAGTTTTTGTATAAATTTTTTCAATCAAACAATACATTTCTAC
16294264 TTGCATAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 14 0.33
54 28 0.67
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (54 bp):
AAAACATAGTTTTTGTATAAATTTTTTCAATCAAACAATACATTTCTACAATAG
Found at i:16306442 original size:22 final size:24
Alignment explanation
Indices: 16306403--16306449 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
16306393 TTCACACCAG
16306403 TTCAAGAAAAAACATTTTTTTTCA
1 TTCAAGAAAAAACATTTTTTTTCA
*
16306427 TTCAAG-AAAAA-TTTTTTTTTCA
1 TTCAAGAAAAAACATTTTTTTTCA
16306449 T
1 T
16306450 ATTAACAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 5 0.23
24 6 0.27
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (24 bp):
TTCAAGAAAAAACATTTTTTTTCA
Found at i:16309807 original size:27 final size:27
Alignment explanation
Indices: 16309769--16309820 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
16309759 ATATCATCTG
*
16309769 GAACATATTGATCA-TTGCTTCCCTATT
1 GAACATATTGAT-AGTAGCTTCCCTATT
*
16309796 GAACATCTTGATAGTAGCTTCCCTA
1 GAACATATTGATAGTAGCTTCCCTA
16309821 GTCACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (27 bp):
GAACATATTGATAGTAGCTTCCCTATT
Found at i:16311352 original size:16 final size:16
Alignment explanation
Indices: 16311331--16311364 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
16311321 ATAAAATCTC
16311331 GACTTTATGAATACTT
1 GACTTTATGAATACTT
16311347 GACTTTATGAATACTT
1 GACTTTATGAATACTT
16311363 GA
1 GA
16311365 GTATGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (16 bp):
GACTTTATGAATACTT
Found at i:16315363 original size:15 final size:15
Alignment explanation
Indices: 16315343--16315372 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16315333 CTTGATATGG
16315343 TTTGAATTGGATTAT
1 TTTGAATTGGATTAT
*
16315358 TTTGAATTGGGTTAT
1 TTTGAATTGGATTAT
16315373 ATCGAGTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (15 bp):
TTTGAATTGGATTAT
Found at i:16316774 original size:12 final size:12
Alignment explanation
Indices: 16316728--16316787 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
16316718 ATGTCATGTG
*
16316728 TTTTTTCTTT-C
1 TTTTTTTTTTCC
*
16316739 TTTCTTTCTTTCC
1 TTT-TTTTTTTCC
16316752 TTTTTCCTTTTTCC
1 TTTTT--TTTTTCC
*
16316766 TTTTTTTTTCCAC
1 TTTTTTTTTTC-C
16316779 TTTTTTTTT
1 TTTTTTTTT
16316788 ATCTTTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
11 3 0.07
12 14 0.33
13 14 0.33
14 11 0.26
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTTCC
Found at i:16317039 original size:23 final size:22
Alignment explanation
Indices: 16317008--16317061 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
16316998 TCATTTTCAG
*
16317008 TTTTTTTTTAATTTTTTTAAAA
1 TTTTTTTTTAATATTTTTAAAA
16317030 TATTTTTTTT--TATTTTTAAAA
1 T-TTTTTTTTAATATTTTTAAAA
*
16317051 TTTTCTTTTAA
1 TTTTTTTTTAA
16317062 AGTATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 7 0.26
21 11 0.41
22 1 0.04
23 8 0.30
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTTTTTAATATTTTTAAAA
Found at i:16317053 original size:19 final size:21
Alignment explanation
Indices: 16317021--16317060 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
16317011 TTTTTTAATT
*
16317021 TTTTTAAAATATTTTTTTTTA
1 TTTTTAAAATATTTTCTTTTA
16317042 TTTTT-AAA-ATTTTCTTTTA
1 TTTTTAAAATATTTTCTTTTA
16317061 AAGTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTAAAATATTTTCTTTTA
Found at i:16317081 original size:22 final size:22
Alignment explanation
Indices: 16317056--16317107 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
16317046 TAAAATTTTC
* *
16317056 TTTTAAAGTATTTAATAAATAT-
1 TTTTAAAGTA-TAAAAAAATATA
*
16317078 TTTTCAAATTATAAAAAAATATA
1 TTTT-AAAGTATAAAAAAATATA
16317101 TTTTAAA
1 TTTTAAA
16317108 AATTTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTTAAAGTATAAAAAAATATA
Found at i:16320440 original size:13 final size:13
Alignment explanation
Indices: 16320424--16320455 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
16320414 TTTTTTTATT
16320424 TATTTTATTTAAG
1 TATTTTATTTAAG
16320437 TATTTTATTTAAG
1 TATTTTATTTAAG
16320450 TATTTT
1 TATTTT
16320456 TTCCCTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (13 bp):
TATTTTATTTAAG
Found at i:16320576 original size:11 final size:11
Alignment explanation
Indices: 16320560--16320586 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16320550 TTCAAATGGT
16320560 AAATTTTTATA
1 AAATTTTTATA
16320571 AAATTTTTATA
1 AAATTTTTATA
16320582 AAATT
1 AAATT
16320587 CCTATGTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AAATTTTTATA
Found at i:16322224 original size:28 final size:28
Alignment explanation
Indices: 16322188--16322285 Score: 68
Period size: 28 Copynumber: 3.7 Consensus size: 28
16322178 TTTATGCATC
*
16322188 TGCACCATTTTCAT-ATCATTTCATTCTA
1 TGCATCATTTTCATCATCATTTCATT-TA
* *
16322216 TGCATCATTTTCATCCTCATGT--TTTA
1 TGCATCATTTTCATCATCATTTCATTTA
*
16322242 -G---CATTATCAT-ATCATTTCATTATA
1 TGCATCATTTTCATCATCATTTCATT-TA
* *
16322266 TGTATCATTTTCATGATCAT
1 TGCATCATTTTCATCATCAT
16322286 ATTTAACACT
Statistics
Matches: 54, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
21 5 0.09
22 8 0.15
23 2 0.04
24 2 0.04
25 2 0.04
26 2 0.04
27 2 0.04
28 21 0.39
29 10 0.19
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.48
Consensus pattern (28 bp):
TGCATCATTTTCATCATCATTTCATTTA
Found at i:16331660 original size:10 final size:10
Alignment explanation
Indices: 16331645--16331705 Score: 63
Period size: 10 Copynumber: 6.2 Consensus size: 10
16331635 TACTATGCTT
16331645 GAAAAAAAAA
1 GAAAAAAAAA
*
16331655 GAAAAAAAAT
1 GAAAAAAAAA
*
16331665 G-GAAAAAAA
1 GAAAAAAAAA
16331674 GAAAGAAAAAA
1 GAAA-AAAAAA
*
16331685 -TAAAAAAAA
1 GAAAAAAAAA
*
16331694 TAAAAAAAAA
1 GAAAAAAAAA
16331704 GA
1 GA
16331706 TTCAAAGCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 13 0.32
10 22 0.54
11 6 0.15
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:16331661 original size:9 final size:9
Alignment explanation
Indices: 16331647--16331702 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
16331637 CTATGCTTGA
16331647 AAAAAAAAG
1 AAAAAAAAG
16331656 AAAAAAAATG
1 AAAAAAAA-G
*
16331666 GAAAAAAAG
1 AAAAAAAAG
*
16331675 AAAGAAAAAAT
1 -AA-AAAAAAG
*
16331686 AAAAAAAAT
1 AAAAAAAAG
16331695 AAAAAAAA
1 AAAAAAAA
16331703 AGATTCAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
9 24 0.59
10 11 0.27
11 6 0.15
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.05
Consensus pattern (9 bp):
AAAAAAAAG
Done.