Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 55 of 126
Found at i:10891885 original size:22 final size:21
Alignment explanation
Indices: 10891860--10891934 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 21
10891850 AGAATTTTTC
10891860 AAATTTTGATTGTGAATCTCTA
1 AAATTTTGA-TGTGAATCTCTA
* * *
10891882 AAATTGATTGACTGTGAATATTTG
1 AAATT--TTGA-TGTGAATCTCTA
*
10891906 AAATTTTAGATGTGAAAC-CTTA
1 AAATTTT-GATGTGAATCTC-TA
10891928 AAATTTT
1 AAATTTT
10891935 TTGAATAAGC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
22 21 0.51
23 2 0.05
24 18 0.44
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.43
Consensus pattern (21 bp):
AAATTTTGATGTGAATCTCTA
Found at i:10892305 original size:51 final size:50
Alignment explanation
Indices: 10892250--10892402 Score: 155
Period size: 52 Copynumber: 3.0 Consensus size: 50
10892240 TATGAATATG
* *
10892250 AAATTTTTACGAATCTTTAAATTCTTACGAATTTGAGTTCTTGCGAATCT-A
1 AAATTTTTA-GAATC-TGAAATTCTTATGAATTTGAGTTCTTGCGAATCTAA
* * * * *
10892301 AAATTTCTTGAAAATATGAAATTCTTATGAAATTGAATTTCTTGCAAATCTAA
1 AAATTT-TT-AGAATCTGAAATTCTTATGAATTTG-AGTTCTTGCGAATCTAA
* * *
10892354 AAATTATTATGAAACTGAAATTCTTATGAATTAGAGTTCTTGCGAATCT
1 AAATTTTTA-GAATCTGAAATTCTTATGAATTTGAGTTCTTGCGAATCT
10892403 TTCATTCTTA
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
51 36 0.44
52 39 0.48
53 7 0.09
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.41
Consensus pattern (50 bp):
AAATTTTTAGAATCTGAAATTCTTATGAATTTGAGTTCTTGCGAATCTAA
Found at i:10892337 original size:17 final size:18
Alignment explanation
Indices: 10892312--10892383 Score: 53
Period size: 17 Copynumber: 4.1 Consensus size: 18
10892302 AATTTCTTGA
10892312 AAATATGAAATTCTTATG
1 AAATATGAAATTCTTATG
*
10892330 AAAT-TGAATTTC-T-TG
1 AAATATGAAATTCTTATG
* * *
10892345 CAAATCTAAAAATTATTATG
1 -AAATAT-GAAATTCTTATG
*
10892365 AAA-CTGAAATTCTTATG
1 AAATATGAAATTCTTATG
10892382 AA
1 AA
10892384 TTAGAGTTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
15 2 0.05
16 5 0.12
17 20 0.47
18 10 0.23
19 4 0.09
20 2 0.05
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (18 bp):
AAATATGAAATTCTTATG
Found at i:10892358 original size:35 final size:34
Alignment explanation
Indices: 10892302--10892378 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 34
10892292 GCGAATCTAA
* * *
10892302 AATTTCTTGAAAATATGAAATTCTTATGAAATTG
1 AATTTCTTGAAAATATAAAATTATTATGAAACTG
* *
10892336 AATTTCTTGCAAATCTAAAAATTATTATGAAACTG
1 AATTTCTTGAAAATAT-AAAATTATTATGAAACTG
*
10892371 AAATTCTT
1 AATTTCTT
10892379 ATGAATTAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 14 0.39
35 22 0.61
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (34 bp):
AATTTCTTGAAAATATAAAATTATTATGAAACTG
Found at i:10892529 original size:16 final size:17
Alignment explanation
Indices: 10892505--10892550 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
10892495 AAATCTTCCC
*
10892505 TTCTAGCAAATCTG-AG
1 TTCTTGCAAATCTGAAG
*
10892521 TTCTTGCAAATATGAAAG
1 TTCTTGCAAATCTG-AAG
10892539 -TCTTGCAAATCT
1 TTCTTGCAAATCT
10892551 TTGTGTCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 12 0.48
17 11 0.44
18 2 0.08
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (17 bp):
TTCTTGCAAATCTGAAG
Found at i:10892725 original size:43 final size:43
Alignment explanation
Indices: 10892644--10892845 Score: 207
Period size: 43 Copynumber: 4.7 Consensus size: 43
10892634 GCCGATTTCT
* * * * * **
10892644 TCATTTAAATTTTTTTTAAGTTTTTGAGTCTCTGCTTAGATAAG
1 TCATTTAAA-ATTTTTAAAGTTTGTGAGCCTCTACTTAGAGGAG
10892688 TCATTTAAAATTTTTAAAGTTTGTGAGCCTCTACTTAGAGGAG
1 TCATTTAAAATTTTTAAAGTTTGTGAGCCTCTACTTAGAGGAG
** *
10892731 -CTATTTAAAATTTTTAAAGTTT-TGAGCCTCTGTTTAGAGGTG
1 TC-ATTTAAAATTTTTAAAGTTTGTGAGCCTCTACTTAGAGGAG
* * *
10892773 CCATTTAAAATTTTTAAAGGTTTTTTAGCCTCTACTTA-A-GAG
1 TCATTTAAAATTTTTAAA-GTTTGTGAGCCTCTACTTAGAGGAG
10892815 TCATTTAAAATTTTTTAAAG-TTGTTGAGCCT
1 TCATTTAAAA-TTTTTAAAGTTTG-TGAGCCT
10892846 TTGTTTAAAA
Statistics
Matches: 135, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
41 2 0.01
42 52 0.39
43 61 0.45
44 20 0.15
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (43 bp):
TCATTTAAAATTTTTAAAGTTTGTGAGCCTCTACTTAGAGGAG
Found at i:10892762 original size:85 final size:84
Alignment explanation
Indices: 10892644--10892845 Score: 237
Period size: 85 Copynumber: 2.3 Consensus size: 84
10892634 GCCGATTTCT
* * * * *
10892644 TCATTTAAATTTTTTTTAAGTTTTTGAGTCTCTGCTTAGATAAGTCATTTAAAATTTTTAAA-GT
1 TCATTTAAA-ATTTTTAAAG-TTTTGAGCCTCTGCTTAGAGAAGCCATTTAAAATTTTTAAAGGT
10892708 TTGTGAGCCTCTACTTAGAGGAG
64 TTGTGAGCCTCTACTTA-A-GAG
* **
10892731 -CTATTTAAAATTTTTAAAGTTTTGAGCCTCTGTTTAGAGGTGCCATTTAAAATTTTTAAAGGTT
1 TC-ATTTAAAATTTTTAAAGTTTTGAGCCTCTGCTTAGAGAAGCCATTTAAAATTTTTAAAGGTT
* *
10892795 TTTTAGCCTCTACTTAAGAG
65 TGTGAGCCTCTACTTAAGAG
10892815 TCATTTAAAATTTTTTAAAGTTGTTGAGCCT
1 TCATTTAAAA-TTTTTAAAGTT-TTGAGCCT
10892846 TTGTTTAAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
84 11 0.11
85 48 0.48
86 34 0.34
87 7 0.07
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (84 bp):
TCATTTAAAATTTTTAAAGTTTTGAGCCTCTGCTTAGAGAAGCCATTTAAAATTTTTAAAGGTTT
GTGAGCCTCTACTTAAGAG
Found at i:10892770 original size:42 final size:41
Alignment explanation
Indices: 10892646--10892876 Score: 196
Period size: 43 Copynumber: 5.4 Consensus size: 41
10892636 CGATTTCTTC
* * * **
10892646 ATTTAAATTTTTTTTAAGTTTTTGAGTCTCTGCTTAGATAAGT
1 ATTTAAA-ATTTTTAAAG-TTTTGAGCCTCTGCTTAGAGGAGT
*
10892689 CATTTAAAATTTTTAAAGTTTGTGAGCCTCTACTTAGAGGAGCT
1 -ATTTAAAATTTTTAAAGTTT-TGAGCCTCTGCTTAGAGGAG-T
* * *
10892733 ATTTAAAATTTTTAAAGTTTTGAGCCTCTGTTTAGAGGTGCC
1 ATTTAAAATTTTTAAAGTTTTGAGCCTCTGCTTAGAGGAG-T
* *
10892775 ATTTAAAATTTTTAAAGGTTTTTTAGCCTCTACTTA-A-GAGT
1 ATTTAAAATTTTTAAA-G-TTTTGAGCCTCTGCTTAGAGGAGT
* * * *
10892816 CATTTAAAATTTTTTAAAGTTGTTGAGCCTTTGTTTAAAAGAGAT
1 -ATTTAAAA-TTTTTAAAGTT-TTGAGCCTCTGCTTAGAGGAG-T
*
10892861 ATTTGAAATTTTTAAA
1 ATTTAAAATTTTTAAA
10892877 ATTGTTCAAC
Statistics
Matches: 157, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.01
42 59 0.38
43 63 0.40
44 32 0.20
45 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (41 bp):
ATTTAAAATTTTTAAAGTTTTGAGCCTCTGCTTAGAGGAGT
Found at i:10892870 original size:86 final size:85
Alignment explanation
Indices: 10892689--10892876 Score: 238
Period size: 86 Copynumber: 2.2 Consensus size: 85
10892679 TTAGATAAGT
10892689 CATTTAAAATTTTTAAAGTTTGTGAGCCTCTACTTAGAGGAGCTATTTAAAATTTTTAAAGTTTT
1 CATTTAAAATTTTTAAAGTTTGTGAGCCTCTACTTAGAGGAGCTATTTAAAATTTTTAAAGTTTT
* * * *
10892754 GAGCCTCTGTTTAGAGGTGC
66 GAGCCTCTGTTTAAAAGAGA
* *
10892774 CATTTAAAATTTTTAAAGGTTTTTTAGCCTCTACTTA-A-GAG-TCATTTAAAATTTTTTAAAGT
1 CATTTAAAATTTTTAAA-GTTTGTGAGCCTCTACTTAGAGGAGCT-ATTTAAAA-TTTTTAAAGT
*
10892836 TGTTGAGCCTTTGTTTAAAAGAGA
63 T-TTGAGCCTCTGTTTAAAAGAGA
* *
10892860 TATTTGAAATTTTTAAA
1 CATTTAAAATTTTTAAA
10892877 ATTGTTCAAC
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
83 1 0.01
84 11 0.12
85 29 0.32
86 49 0.54
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (85 bp):
CATTTAAAATTTTTAAAGTTTGTGAGCCTCTACTTAGAGGAGCTATTTAAAATTTTTAAAGTTTT
GAGCCTCTGTTTAAAAGAGA
Found at i:10892873 original size:43 final size:42
Alignment explanation
Indices: 10892690--10892918 Score: 178
Period size: 43 Copynumber: 5.4 Consensus size: 42
10892680 TAGATAAGTC
** * *
10892690 ATTTAAAATTTTTAAAGTTTGTGAGCCTCTACTTAGAGGAGCT
1 ATTTAAAATTTTTAAAGTTT-TGAGCCTCTGTTTAAAGGAGAT
* * **
10892733 ATTTAAAATTTTTAAAGTTTTGAGCCTCTGTTTAGAGGTGCC
1 ATTTAAAATTTTTAAAGTTTTGAGCCTCTGTTTAAAGGAGAT
* **
10892775 ATTTAAAATTTTTAAAGGTTTTTTAGCCTCTACTT-AA-GAG-T
1 ATTTAAAATTTTTAAA-G-TTTTGAGCCTCTGTTTAAAGGAGAT
* *
10892816 CATTTAAAATTTTTTAAAGTTGTTGAGCCTTTGTTTAAAAGAGAT
1 -ATTTAAAA-TTTTTAAAGTT-TTGAGCCTCTGTTTAAAGGAGAT
* * * * *
10892861 ATTTGAAATTTTTAAAATTGTTCAACCTTTGTTTAAAGGA-ATT
1 ATTTAAAATTTTTAAAGTT-TTGAGCCTCTGTTTAAAGGAGA-T
* *
10892904 ATTTGAAGTTTTTAA
1 ATTTAAAATTTTTAA
10892919 GCTTTATTCC
Statistics
Matches: 157, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
41 2 0.01
42 56 0.36
43 75 0.48
44 23 0.15
45 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (42 bp):
ATTTAAAATTTTTAAAGTTTTGAGCCTCTGTTTAAAGGAGAT
Found at i:10894377 original size:12 final size:13
Alignment explanation
Indices: 10894362--10894390 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10894352 TTTTGTTTTG
10894362 TTTTATTTCTT-A
1 TTTTATTTCTTCA
10894374 TTTTATTTCTTCA
1 TTTTATTTCTTCA
10894387 TTTT
1 TTTT
10894391 CTACTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTCTTCA
Found at i:10894537 original size:21 final size:21
Alignment explanation
Indices: 10894482--10894538 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
10894472 TTTATTTATT
* *
10894482 TATTT-TTGCATGACATTTTA
1 TATTTATTGCATGATAGTTTA
* *
10894502 TCTTAATTGCATGATAGTTTA
1 TATTTATTGCATGATAGTTTA
10894523 TATTTATTGCATGATA
1 TATTTATTGCATGATA
10894539 CTATTTTGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (21 bp):
TATTTATTGCATGATAGTTTA
Found at i:10904461 original size:42 final size:42
Alignment explanation
Indices: 10904415--10904553 Score: 147
Period size: 42 Copynumber: 3.3 Consensus size: 42
10904405 ACTTTTTAAA
* * * *
10904415 AAAGTTATATGGCTTTGTTTTGAAAAAGTCTTAAATTTTCTC
1 AAAGTTGTGTGGCTTTGTTTTGAAAGAGTCTTAAATTTTTTC
* *
10904457 AAAGTTGTGT-GCTTTCATTTTGAAAGAGCCTTATATATTTTTTTC
1 AAAGTTGTGTGGCTTT-GTTTTGAAAGAGTCTTA-A-A-TTTTTTC
* * *
10904502 AAAGTCGTGTGACTTTGTTTTG-AGGAGTCTTAAATTTTTTC
1 AAAGTTGTGTGGCTTTGTTTTGAAAGAGTCTTAAATTTTTTC
10904543 AAAGTTGTGTG
1 AAAGTTGTGTG
10904554 CCTTCTTTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
41 22 0.28
42 23 0.29
43 2 0.03
44 9 0.11
45 20 0.25
46 4 0.05
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (42 bp):
AAAGTTGTGTGGCTTTGTTTTGAAAGAGTCTTAAATTTTTTC
Found at i:10904512 original size:45 final size:41
Alignment explanation
Indices: 10904426--10904584 Score: 149
Period size: 41 Copynumber: 3.7 Consensus size: 41
10904416 AAGTTATATG
* * * *
10904426 GCTTTGTTTTGAAAAAGTCTTAAATTTTCTCAAAGTTGTGT
1 GCTTTCTTTTGAAAGAGCCTTAAATTTTTTCAAAGTTGTGT
*
10904467 GCTTTCATTTTGAAAGAGCCTTATATATTTTTTTCAAAGTCGTGT
1 GCTTTC-TTTTGAAAGAGCCTTA-A-A-TTTTTTCAAAGTTGTGT
* * *
10904512 GACTTTGTTTTG-AGGAGTCTTAAATTTTTTCAAAGTTGTGT
1 G-CTTTCTTTTGAAAGAGCCTTAAATTTTTTCAAAGTTGTGT
* * *
10904553 GCCTTCTTTTTAAAGGAGCTTTGAAATTTTTT
1 GCTTTCTTTTGAAA-GAGCCTT-AAATTTTTT
10904585 TTTTGTGCTT
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
40 7 0.07
41 23 0.24
42 20 0.21
43 11 0.12
44 9 0.09
45 21 0.22
46 4 0.04
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.48
Consensus pattern (41 bp):
GCTTTCTTTTGAAAGAGCCTTAAATTTTTTCAAAGTTGTGT
Found at i:10904553 original size:41 final size:41
Alignment explanation
Indices: 10904426--10904554 Score: 152
Period size: 41 Copynumber: 3.0 Consensus size: 41
10904416 AAGTTATATG
* *
10904426 GCTTTGTTTTGAAAAAGTCTTAAATTTTCTCAAAGTTGTGT
1 GCTTTGTTTTGAAAGAGTCTTAAATTTTTTCAAAGTTGTGT
* * *
10904467 GCTTTCATTTTGAAAGAGCCTTATATATTTTTTTCAAAGTCGTGT
1 GCTTT-GTTTTGAAAGAGTCTTA-A-A-TTTTTTCAAAGTTGTGT
*
10904512 GACTTTGTTTTG-AGGAGTCTTAAATTTTTTCAAAGTTGTGT
1 G-CTTTGTTTTGAAAGAGTCTTAAATTTTTTCAAAGTTGTGT
10904553 GC
1 GC
10904555 CTTCTTTTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
40 1 0.01
41 22 0.30
42 15 0.20
43 2 0.03
44 9 0.12
45 21 0.28
46 4 0.05
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.47
Consensus pattern (41 bp):
GCTTTGTTTTGAAAGAGTCTTAAATTTTTTCAAAGTTGTGT
Found at i:10904584 original size:86 final size:87
Alignment explanation
Indices: 10904427--10904587 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 87
10904417 AGTTATATGG
* *
10904427 CTTTGTTTTGAAAAAGTCTTAAATTTTCTCAAAGTTGTGTGCTTTCATTTTGAAAGAGCCTTATA
1 CTTTGTTTTGAAAAAGTCTTAAATTTTCTCAAAGTTGTGTGCCTTCATTTTGAAAGAGCCTTAAA
10904492 TATTTTTTTCAAAGTCGTGTGA
66 TATTTTTTTCAAAGTCGTGTGA
** * * *
10904514 CTTTGTTTTG-AGGAGTCTTAAATTTTTTCAAAGTTGTGTGCCTTC-TTTTTAAAGGAGCTTTGA
1 CTTTGTTTTGAAAAAGTCTTAAATTTTCTCAAAGTTGTGTGCCTTCATTTTGAAA-GAGCCTT-A
*
10904577 AATTTTTTTTT
64 AATATTTTTTT
10904588 TGTGCTTCTG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 7 0.11
86 37 0.58
87 20 0.31
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.49
Consensus pattern (87 bp):
CTTTGTTTTGAAAAAGTCTTAAATTTTCTCAAAGTTGTGTGCCTTCATTTTGAAAGAGCCTTAAA
TATTTTTTTCAAAGTCGTGTGA
Found at i:10904856 original size:28 final size:28
Alignment explanation
Indices: 10904808--10904862 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
10904798 AAATTTTATA
*
10904808 TTTTATTTCTTTTTCATTTATATTTATCC
1 TTTTAGTTCTTTTTCA-TTATATTTATCC
*
10904837 TTTTAGTTCTTTATTC-TTATGTTTAT
1 TTTTAGTTCTTT-TTCATTATATTTAT
10904863 TTTATCCAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.39
29 11 0.48
30 3 0.13
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.69
Consensus pattern (28 bp):
TTTTAGTTCTTTTTCATTATATTTATCC
Found at i:10908480 original size:156 final size:158
Alignment explanation
Indices: 10908295--10908686 Score: 429
Period size: 163 Copynumber: 2.5 Consensus size: 158
10908285 CAAATGGATA
* * * *
10908295 ATTTTCTAGAATATTTCTAGGTAAGAAAATTCTTCTAAATTTGGTCTAAATAGTGAAAAATTTAG
1 ATTTTCTAGAA-ATTTCTAAGTAATAAAATT-TTCTAAATTTAGTCTAAATAGTGAAAGATTTAG
* * *
10908360 ATATATTTTTA-ATACAA-T-A-AAAATTAAAAGTAAAACTTACAAATCAAAAAAAT-AAGTTCA
64 ATATATTTTTATAAAAAATTAATAAAATTAAAAATAAAACTTACAAATCAAAAAAATAAAGTTCA
10908420 AGATGAAATTCTTAATAATCGCAAACAGATT
129 A-ATGAAATTCTTAATAATCGCAAACAGATT
* * *
10908451 ATTTTCTGAGAAATTTCTAAGTAATAAAATATTTTTAAATTCAGT-TCAAATGGTGAAAGATTTA
1 ATTTTCT-AGAAATTTCTAAGTAATAAAAT-TTTCTAAATTTAGTCT-AAATAGTGAAAGATTTA
* *
10908515 GATATATTTTCTATAAAAAATTTTAATAAAATTAAAAATAAAACTTACAAATTAAAAAAATAAAT
63 GATATATTTT-TATAAAAAA--TTAATAAAATTAAAAATAAAACTTACAAATCAAAAAAATAAAG
* * * * **
10908580 TTTAAATGAAATTCTTAGTAATTGTAAATGGATT
125 TTCAAATGAAATTCTTAATAATCGCAAACAGATT
* * ** * *
10908614 ATTTTCTAAGAAATTTCAAAGTAATAAAATATTCTAAATTTAGTCCGAATAGTGGAAGATTTATA
1 ATTTTCT-AGAAATTTCTAAGTAATAAAATTTTCTAAATTTAGTCTAAATAGTGAAAGATTTAGA
10908679 TAT-TTTTT
65 TATATTTTT
10908687 CGATAAAGAA
Statistics
Matches: 196, Mismatches: 28, Indels: 20
0.80 0.11 0.08
Matches are distributed among these distances:
155 1 0.01
156 58 0.30
157 7 0.04
158 4 0.02
160 1 0.01
161 5 0.03
162 30 0.15
163 84 0.43
164 6 0.03
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (158 bp):
ATTTTCTAGAAATTTCTAAGTAATAAAATTTTCTAAATTTAGTCTAAATAGTGAAAGATTTAGAT
ATATTTTTATAAAAAATTAATAAAATTAAAAATAAAACTTACAAATCAAAAAAATAAAGTTCAAA
TGAAATTCTTAATAATCGCAAACAGATT
Found at i:10908596 original size:163 final size:164
Alignment explanation
Indices: 10908379--10908709 Score: 434
Period size: 163 Copynumber: 2.0 Consensus size: 164
10908369 TAATACAATA
*
10908379 AAAATTAAAAGTAAAACTTACAAATCAAAAAAATAAGTTCAAGATGAAATTCTTAATAATCGCAA
1 AAAATTAAAAATAAAACTTACAAATCAAAAAAATAAGTTCAAGATGAAATTCTTAATAATCGCAA
* * * * *
10908444 ACAGATTATTTTCTGAGAAATTTCTAAGTAATAAAATATTTTTAAATTCAGTTCAAATGGTGAAA
66 ACAGATTATTTTCTAAGAAATTTCAAAGTAATAAAATA-TTCTAAATTCAGTCCAAATAGTGAAA
* *
10908509 GATTTAGATATATTTTCTAT-AA-AAAATTTTAAT
130 GATTTAGATATATTTTCGATAAAGAAAAATTTAAT
* * * * * *
10908542 AAAATTAAAAATAAAACTTACAAATTAAAAAAATAAATTTTAA-ATGAAATTCTTAGTAATTGTA
1 AAAATTAAAAATAAAACTTACAAATCAAAAAAAT-AAGTTCAAGATGAAATTCTTAATAATCGCA
** * * *
10908606 AATGGATTATTTTCTAAGAAATTTCAAAGTAATAAAATATTCTAAATTTAGTCCGAATAGTGGAA
65 AACAGATTATTTTCTAAGAAATTTCAAAGTAATAAAATATTCTAAATTCAGTCCAAATAGTGAAA
* *
10908671 GATTTATATATTTTTTCGATAAAGAAAAATTTAAT
130 GATTTAGATATATTTTCGATAAAGAAAAATTTAAT
10908706 AAAA
1 AAAA
10908710 AATTAGATGA
Statistics
Matches: 144, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
162 37 0.26
163 87 0.60
164 20 0.14
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (164 bp):
AAAATTAAAAATAAAACTTACAAATCAAAAAAATAAGTTCAAGATGAAATTCTTAATAATCGCAA
ACAGATTATTTTCTAAGAAATTTCAAAGTAATAAAATATTCTAAATTCAGTCCAAATAGTGAAAG
ATTTAGATATATTTTCGATAAAGAAAAATTTAAT
Found at i:10913789 original size:17 final size:17
Alignment explanation
Indices: 10913764--10913797 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10913754 TTAATGACGA
*
10913764 GATTAGTTATTTGGCTG
1 GATTAGTTATATGGCTG
*
10913781 GATTCGTTATATGGCTG
1 GATTAGTTATATGGCTG
10913798 ACGTCATGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.09, G:0.29, T:0.44
Consensus pattern (17 bp):
GATTAGTTATATGGCTG
Found at i:10915675 original size:14 final size:14
Alignment explanation
Indices: 10915656--10915708 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
10915646 GCAGATGATA
*
10915656 AAAAAATAAAAAAT
1 AAAAAAGAAAAAAT
10915670 AAAAAAGAAAAAAT
1 AAAAAAGAAAAAAT
* *
10915684 CAGAAAACAGAAAACAG
1 -A-AAAA-AGAAAAAAT
10915701 AAAAAAGA
1 AAAAAAGA
10915709 TGAGACATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 16 0.48
15 5 0.15
16 5 0.15
17 7 0.21
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (14 bp):
AAAAAAGAAAAAAT
Found at i:10919825 original size:24 final size:25
Alignment explanation
Indices: 10919784--10919830 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
10919774 AATTGAAAGT
* *
10919784 AATTTTTTTTTAGCATAG-AAAACA
1 AATTTTCTTTTAACATAGCAAAACA
*
10919808 AATTTTCTTTTAATATAGCAAAA
1 AATTTTCTTTTAACATAGCAAAA
10919831 TGCCTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (25 bp):
AATTTTCTTTTAACATAGCAAAACA
Found at i:10922706 original size:15 final size:16
Alignment explanation
Indices: 10922672--10922707 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
10922662 TACCAAGTCC
10922672 GATAAAACAAACATCA
1 GATAAAACAAACATCA
10922688 -ATAAAACAAACAT-A
1 GATAAAACAAACATCA
10922702 GATAAA
1 GATAAA
10922708 GAGTTACACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 18 0.95
ACGTcount: A:0.67, C:0.14, G:0.06, T:0.14
Consensus pattern (16 bp):
GATAAAACAAACATCA
Found at i:10923287 original size:68 final size:68
Alignment explanation
Indices: 10923214--10923360 Score: 172
Period size: 68 Copynumber: 2.2 Consensus size: 68
10923204 CTTGTAAATT
* *
10923214 ATCTTATAT-ATACAGA-AGGTAAAAAGGTAATCATCCATTCATATACCAGTAGAAATAATTTTA
1 ATCTTAT-TCATACAGATAGG-AAAAAGGTAATCATCCATTCATATACCAGCAAAAATAATTTTA
10923277 TAAAC
64 TAAAC
* * * * * *
10923282 ATCTTATTCATTCATATATGCAAAAGGTAATCATCCATTTATATACTAGCAAAAATAATTTTATA
1 ATCTTATTCATACAGATAGGAAAAAGGTAATCATCCATTCATATACCAGCAAAAATAATTTTATA
10923347 AAC
66 AAC
**
10923350 ATAATATTCAT
1 ATCTTATTCAT
10923361 TAGTGTAATG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
67 1 0.01
68 64 0.96
69 2 0.03
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (68 bp):
ATCTTATTCATACAGATAGGAAAAAGGTAATCATCCATTCATATACCAGCAAAAATAATTTTATA
AAC
Found at i:10923361 original size:68 final size:68
Alignment explanation
Indices: 10923235--10923361 Score: 200
Period size: 68 Copynumber: 1.9 Consensus size: 68
10923225 ACAGAAGGTA
* * **
10923235 AAAAGGTAATCATCCATTCATATACCAGTAGAAATAATTTTATAAACATCTTATTCATTCATATA
1 AAAAGGTAATCATCCATTCATATACCAGCAAAAATAATTTTATAAACATAATATTCATTCATATA
10923300 TGC
66 TGC
* *
10923303 AAAAGGTAATCATCCATTTATATACTAGCAAAAATAATTTTATAAACATAATATTCATT
1 AAAAGGTAATCATCCATTCATATACCAGCAAAAATAATTTTATAAACATAATATTCATT
10923362 AGTGTAATGC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 53 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.35
Consensus pattern (68 bp):
AAAAGGTAATCATCCATTCATATACCAGCAAAAATAATTTTATAAACATAATATTCATTCATATA
TGC
Found at i:10933173 original size:21 final size:21
Alignment explanation
Indices: 10933144--10933188 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10933134 ATTTACTTAA
* * * *
10933144 TATTTATTTGTTTTTTATATT
1 TATTGATTTGGTTTTAATACT
10933165 TATTGATTTGGTTTTAATACT
1 TATTGATTTGGTTTTAATACT
10933186 TAT
1 TAT
10933189 ATTTCATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (21 bp):
TATTGATTTGGTTTTAATACT
Found at i:10935329 original size:46 final size:49
Alignment explanation
Indices: 10935207--10935331 Score: 121
Period size: 50 Copynumber: 2.6 Consensus size: 49
10935197 TATTGAAGGC
* * * * * *
10935207 ATTTTTGGCTAAAAATGCTTTGAATAATTCATGGATTATTCAATGCATTT
1 ATTTTTTGCCAAAAATGCCTTCAATAATCCATGAATTATTCAATGCA-TT
* ** *
10935257 TTTTTTTGCCAAAAACACCTTTAATAATCCATGAATTATTCAA-G-A-T
1 ATTTTTTGCCAAAAATGCCTTCAATAATCCATGAATTATTCAATGCATT
*
10935303 ATTTTTTGTCAAAAATGCCTTCAATAATC
1 ATTTTTTGCCAAAAATGCCTTCAATAATC
10935332 TCAGCGTTTT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
46 25 0.41
48 1 0.02
49 1 0.02
50 34 0.56
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (49 bp):
ATTTTTTGCCAAAAATGCCTTCAATAATCCATGAATTATTCAATGCATT
Found at i:10938093 original size:17 final size:17
Alignment explanation
Indices: 10938073--10938107 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10938063 TTGATTTTCA
10938073 CATTAAACACTATCAAT
1 CATTAAACACTATCAAT
*
10938090 CATTAAACTCTATCAAT
1 CATTAAACACTATCAAT
10938107 C
1 C
10938108 TATCGGTTTG
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:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (17 bp):
CATTAAACACTATCAAT
Found at i:10943578 original size:15 final size:15
Alignment explanation
Indices: 10943558--10943587 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10943548 TTTGCAGGAA
10943558 GAGCTATGTCTTGAC
1 GAGCTATGTCTTGAC
10943573 GAGCTATGTCTTGAC
1 GAGCTATGTCTTGAC
10943588 ACTCTAAGTT
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:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (15 bp):
GAGCTATGTCTTGAC
Found at i:10952054 original size:24 final size:24
Alignment explanation
Indices: 10952027--10952074 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
10952017 AGAGGTGCCC
10952027 AAGACCTCTAATAGTGCTTATGAT
1 AAGACCTCTAATAGTGCTTATGAT
10952051 AAGACCTCTAATAGTGCTTATGAT
1 AAGACCTCTAATAGTGCTTATGAT
10952075 CTAATAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (24 bp):
AAGACCTCTAATAGTGCTTATGAT
Found at i:10953183 original size:3 final size:3
Alignment explanation
Indices: 10953107--10953169 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
10953097 TAATCATGCA
10953107 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10953155 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
10953170 GTAACACATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10954898 original size:17 final size:17
Alignment explanation
Indices: 10954876--10954939 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
10954866 TTTTGTATAC
10954876 GTTTCAAATTCGTAAAG
1 GTTTCAAATTCGTAAAG
* *
10954893 GTTTCAAATTTCATAGAG
1 GTTTCAAA-TTCGTAAAG
* * * *
10954911 GTTCCAGACTCGCAAAG
1 GTTTCAAATTCGTAAAG
*
10954928 GTTTTAAATTCG
1 GTTTCAAATTCG
10954940 CAAGAATAGA
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
17 21 0.62
18 13 0.38
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (17 bp):
GTTTCAAATTCGTAAAG
Found at i:10955148 original size:17 final size:17
Alignment explanation
Indices: 10955094--10955154 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
10955084 AAAGATTCGC
* *
10955094 AAGAGATTTAGGTTCAC
1 AAGAAATTTAGGTTCAT
*
10955111 AA-AAATTTCAGATTCAT
1 AAGAAATTT-AGGTTCAT
*
10955128 AAGAAATTTAGGTTTAT
1 AAGAAATTTAGGTTCAT
*
10955145 AAGAATTTTA
1 AAGAAATTTA
10955155 AATTCATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 5 0.14
17 25 0.69
18 6 0.17
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.36
Consensus pattern (17 bp):
AAGAAATTTAGGTTCAT
Found at i:10955152 original size:34 final size:34
Alignment explanation
Indices: 10955094--10955163 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
10955084 AAAGATTCGC
* *
10955094 AAGAGATTTAGGTTCACAAAAATTTCAGATTCAT
1 AAGAAATTTAGGTTCACAAAAATTTCAAATTCAT
* * * *
10955128 AAGAAATTTAGGTTTATAAGAATTTTAAATTCAT
1 AAGAAATTTAGGTTCACAAAAATTTCAAATTCAT
10955162 AA
1 AA
10955164 AGATGAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (34 bp):
AAGAAATTTAGGTTCACAAAAATTTCAAATTCAT
Found at i:10955675 original size:135 final size:136
Alignment explanation
Indices: 10955413--10955675 Score: 300
Period size: 135 Copynumber: 1.9 Consensus size: 136
10955403 ATTTTTGGGT
* * * * *
10955413 TTCACGTCTAAAATTTCAAAAATTCACCTTCAAAAAATTTTAATATTTCATAACCAAAATTTTAA
1 TTCACATCAAAAATTTCAAAAATTCACATTCAAAAAACTTTAATATTTCACAACCAAAATTTTAA
* ** *
10955478 AGATTCTCATCCAAAAAGTTTTTGGGTTCCACATCCAAAAGTTAAAAATTTTCCTTCAAAAAACA
66 AGATTCTCATCCAAAAAGTTTATGGGTTCCACATCCAAAAGTTAAAAATTCACATTCAAAAAACA
10955543 TAAAGA
131 TAAAGA
* * *
10955549 TTCACATCAAAAATTTCAAAATTTTACATT-TAAAAACTTTAATATTTCACAACCAAAATTTTAA
1 TTCACATCAAAAATTTCAAAAATTCACATTCAAAAAACTTTAATATTTCACAACCAAAATTTTAA
* ** * * * *
10955613 A-ACTTCTTATTTGAAAAA-TTTATGGGTTTCACAT-CAAAATTTCAAAGATTCACATTCGAAAA
66 AGA-TTCTCA-TCCAAAAAGTTTATGGGTTCCACATCCAAAAGTT-AAAAATTCACATTCAAAAA
10955675 A
128 A
10955676 TTTTAGAGAT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
134 8 0.08
135 66 0.63
136 31 0.30
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (136 bp):
TTCACATCAAAAATTTCAAAAATTCACATTCAAAAAACTTTAATATTTCACAACCAAAATTTTAA
AGATTCTCATCCAAAAAGTTTATGGGTTCCACATCCAAAAGTTAAAAATTCACATTCAAAAAACA
TAAAGA
Found at i:10955696 original size:91 final size:90
Alignment explanation
Indices: 10955549--10955811 Score: 216
Period size: 90 Copynumber: 2.9 Consensus size: 90
10955539 AACATAAAGA
* * * * *
10955549 TTCACATCAAAAATTTCAAA-ATTTTACATT-TAAAAACTTTA-ATATTTCACAACCAAAATTTT
1 TTCACATC-AAAATTTCAAAGA-TTCACATTCAAAAAATTTTAGAGA-TTCACATCCAAAATTTT
**
10955611 AAAACTTCTTATTTGAAAAA-TTTATGGGT
63 AAAA-TTCTTATTTGAAAAACTTTAT-GAC
* * *
10955640 TTCACATCAAAATTTCAAAGATTCACATTCGAAAAATTTTAGAGATTCATATCCAAAGTTTTTAA
1 TTCACATCAAAATTTCAAAGATTCACATTCAAAAAATTTTAGAGATTCACATCCAAA-ATTTTAA
* *
10955705 AGTT-TT-TTTCAAAAACTTTATGAC
65 AATTCTTATTTGAAAAACTTTATGAC
* * * * * * *
10955729 TTCATATCCAAAATTTTAGAGATTCTCATTCAAAAAAAATTTT-GGGTTTCACATCCAAAATTTG
1 TTCACAT-CAAAATTTCAAAGATTCACATTC--AAAAAATTTTAGAGATTCACATCCAAAATTTT
10955793 AAAGATTCTTATTTGAAAA
63 AAA-ATTCTTATTTGAAAA
10955812 GCTACTTGAA
Statistics
Matches: 138, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
89 15 0.11
90 51 0.37
91 45 0.33
92 20 0.14
93 7 0.05
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (90 bp):
TTCACATCAAAATTTCAAAGATTCACATTCAAAAAATTTTAGAGATTCACATCCAAAATTTTAAA
ATTCTTATTTGAAAAACTTTATGAC
Found at i:10960882 original size:21 final size:21
Alignment explanation
Indices: 10960853--10960892 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10960843 ATAATATAGT
*
10960853 ATATCAATTACCATGCAATCA
1 ATATAAATTACCATGCAATCA
*
10960874 ATATAAATTATCATGCAAT
1 ATATAAATTACCATGCAAT
10960893 TAATTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (21 bp):
ATATAAATTACCATGCAATCA
Found at i:10961013 original size:3 final size:3
Alignment explanation
Indices: 10961005--10961058 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
10960995 TTTAATTAGA
10961005 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10961053 AAT AAT
1 AAT AAT
10961059 GTAACACAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10961140 original size:7 final size:6
Alignment explanation
Indices: 10961112--10961141 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
10961102 AAGAAAGAAA
10961112 AAAATC AAAATC AAAATC AAAATC GAAAAT
1 AAAATC AAAATC AAAATC AAAATC -AAAAT
10961142 AACAAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.67, C:0.13, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:10967612 original size:2 final size:2
Alignment explanation
Indices: 10967605--10967630 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10967595 TATCACAATC
10967605 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
10967631 AATAGTAGGA
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):
TA
Found at i:10972687 original size:17 final size:17
Alignment explanation
Indices: 10972657--10972690 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10972647 ACAGCGAAAG
10972657 AAAGTAAAGAAAAAAAA
1 AAAGTAAAGAAAAAAAA
10972674 AAAG-AAAGAGAAAAAAA
1 AAAGTAAAGA-AAAAAAA
10972691 TTGTTGACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAGTAAAGAAAAAAAA
Found at i:10979035 original size:12 final size:12
Alignment explanation
Indices: 10979018--10979052 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10979008 CACACAAAAA
10979018 TTGTTCTAGTTC
1 TTGTTCTAGTTC
10979030 TTGTTCTAGTTC
1 TTGTTCTAGTTC
* *
10979042 TAGTTCGAGTT
1 TTGTTCTAGTT
10979053 TCTAACTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.54
Consensus pattern (12 bp):
TTGTTCTAGTTC
Found at i:10984979 original size:12 final size:11
Alignment explanation
Indices: 10984963--10984996 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
10984953 GAAAATTATT
10984963 AAAAAAATAAA
1 AAAAAAATAAA
10984974 ATAAAAAATAAA
1 A-AAAAAATAAA
*
10984986 AATAAAATAAA
1 AAAAAAATAAA
10984997 GAATAGCAAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:10984988 original size:18 final size:18
Alignment explanation
Indices: 10984965--10985001 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10984955 AAATTATTAA
10984965 AAAAATAAAATAAAAAAT
1 AAAAATAAAATAAAAAAT
*
10984983 AAAAATAAAATAAAGAAT
1 AAAAATAAAATAAAAAAT
10985001 A
1 A
10985002 GCAAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAAATAAAATAAAAAAT
Found at i:10985034 original size:3 final size:3
Alignment explanation
Indices: 10985026--10985058 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10985016 TGTAATCAAT
*
10985026 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10985059 AAAATCTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10985344 original size:15 final size:15
Alignment explanation
Indices: 10985324--10985364 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10985314 ATTGCACCTT
10985324 TCTTTCTCTCTCTCC
1 TCTTTCTCTCTCTCC
* * *
10985339 TCTTTCTTTTTCTCT
1 TCTTTCTCTCTCTCC
10985354 TCTTTCTCTCT
1 TCTTTCTCTCT
10985365 AAATAGAATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (15 bp):
TCTTTCTCTCTCTCC
Found at i:10985808 original size:26 final size:26
Alignment explanation
Indices: 10985779--10985902 Score: 119
Period size: 26 Copynumber: 4.7 Consensus size: 26
10985769 AATAAAAAAA
10985779 AGATAAAATAAAAAATATATATTAAT
1 AGATAAAATAAAAAATATATATTAAT
*
10985805 AGAT-AAATAATAAAAAATATATTAAT
1 AGATAAAATAA-AAAATATATATTAAT
* *
10985831 AGAT-AAAT-AAAAATACATAAATAGAT
1 AGATAAAATAAAAAATATAT-ATTA-AT
* *
10985857 AAATAATAATAAAAAATATATATTGAT
1 AGATAA-AATAAAAAATATATATTAAT
*
10985884 AAATAATAATAATAAAATA
1 AGATAA-AATAA-AAAATA
10985903 AAATGCAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
24 7 0.08
25 10 0.12
26 31 0.37
27 15 0.18
28 11 0.13
29 9 0.11
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (26 bp):
AGATAAAATAAAAAATATATATTAAT
Found at i:10985839 original size:8 final size:7
Alignment explanation
Indices: 10985802--10985899 Score: 57
Period size: 8 Copynumber: 14.3 Consensus size: 7
10985792 AATATATATT
10985802 AATAGATA
1 AATA-ATA
10985810 AATAATA
1 AATAATA
10985817 AA-AA-A
1 AATAATA
* *
10985822 TAT-ATT
1 AATAATA
10985828 AATAGATA
1 AATA-ATA
10985836 AATAA-A
1 AATAATA
10985842 AATACATA
1 AATA-ATA
10985850 AATAGATA
1 AATA-ATA
10985858 AATAAT-
1 AATAATA
*
10985864 AATAAAA
1 AATAATA
10985871 AAT-ATA
1 AATAATA
* *
10985877 TATTGATA
1 -AATAATA
10985885 AATAAT-
1 AATAATA
10985891 AATAATA
1 AATAATA
10985898 AA
1 AA
10985900 ATAAAATGCA
Statistics
Matches: 70, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
5 3 0.04
6 22 0.31
7 20 0.29
8 25 0.36
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:10985842 original size:22 final size:22
Alignment explanation
Indices: 10985786--10985867 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
10985776 AAAAGATAAA
*
10985786 ATAAA-AAATATATATTAATAG
1 ATAAATAAAAATATATTAATAG
10985807 ATAAATAATAAAAAATATATTAATAG
1 AT--A-AAT-AAAAATATATTAATAG
* *
10985833 ATAAATAAAAATACATAAATAG
1 ATAAATAAAAATATATTAATAG
*
10985855 ATAAATAATAATA
1 ATAAATAAAAATA
10985868 AAAAATATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
21 2 0.04
22 26 0.50
23 4 0.08
24 3 0.06
26 17 0.33
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (22 bp):
ATAAATAAAAATATATTAATAG
Found at i:10985863 original size:48 final size:48
Alignment explanation
Indices: 10985779--10985899 Score: 138
Period size: 49 Copynumber: 2.4 Consensus size: 48
10985769 AATAAAAAAA
*
10985779 AGATAAAATAAAAAATATATATTAATAGATAAATAATAA-AAAATATAT-TAAT
1 AGAT-AAAT-AAAAATA-ATA--AATAGATAAATAATAATAAAAAATATAT-AT
10985831 AGATAAATAAAAATACATAAATAGATAAATAATAATAAAAAATATATAT
1 AGATAAATAAAAATA-ATAAATAGATAAATAATAATAAAAAATATATAT
* *
10985880 TGATAAATAATAATAATAAA
1 AGATAAATAAAAATAATAAA
10985900 ATAAAATGCA
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
48 21 0.33
49 23 0.37
50 11 0.17
51 4 0.06
52 4 0.06
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (48 bp):
AGATAAATAAAAATAATAAATAGATAAATAATAATAAAAAATATATAT
Found at i:10985901 original size:14 final size:14
Alignment explanation
Indices: 10985763--10985903 Score: 53
Period size: 14 Copynumber: 9.5 Consensus size: 14
10985753 ATCCTAGCCG
*
10985763 AAAATCAATAA-AAA
1 AAAAT-AATAATAAT
10985777 AAAGATAA-AATAA-
1 AAA-ATAATAATAAT
*
10985790 AAAATATATATTAAT
1 AAAATA-ATAATAAT
*
10985805 -AGATAAATAATAA-
1 AAAAT-AATAATAAT
10985818 AAAATATATTAATAGAT
1 AAAATA-A-TAATA-AT
*
10985835 -AAATAAAAATACAT
1 AAAATAATAATA-AT
10985849 AAATAGATAAATAATAAT
1 -AA-A-AT-AATAATAAT
*
10985867 AAAA-AATATATATT
1 AAAATAATA-ATAAT
10985881 GATAAATAATAATAAT
1 -A-AAATAATAATAAT
10985897 AAAATAA
1 AAAATAA
10985904 AATGCAAAAT
Statistics
Matches: 98, Mismatches: 9, Indels: 40
0.67 0.06 0.27
Matches are distributed among these distances:
12 3 0.03
13 11 0.11
14 40 0.41
15 12 0.12
16 15 0.15
17 7 0.07
18 4 0.04
19 6 0.06
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:10985914 original size:53 final size:51
Alignment explanation
Indices: 10985779--10985904 Score: 134
Period size: 51 Copynumber: 2.5 Consensus size: 51
10985769 AATAAAAAAA
* * * *
10985779 AGATAAAATAAAAA-ATATATATTAATAGATAAATAATAAAAAATATATTAAT
1 AGAT-AAATAAAAATACATAAATAAATAAAT-AATAATAAAAAATATATTAAT
*
10985831 AGATAAATAAAAATACATAAATAGATAAATAATAATAAAAAATATA-T-AT
1 AGATAAATAAAAATACATAAATAAATAAATAATAATAAAAAATATATTAAT
* *
10985880 TGATAAATAATAATA-ATAAAATAAA
1 AGATAAATAAAAATACAT-AAATAAA
10985905 ATGCAAAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
48 2 0.03
49 21 0.33
50 1 0.02
51 25 0.39
52 15 0.23
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.29
Consensus pattern (51 bp):
AGATAAATAAAAATACATAAATAAATAAATAATAATAAAAAATATATTAAT
Found at i:10986152 original size:41 final size:41
Alignment explanation
Indices: 10986107--10986232 Score: 191
Period size: 41 Copynumber: 3.1 Consensus size: 41
10986097 TCTAGGTCAA
* *
10986107 AGGCTCAACGACTTTGGAAAATAAATAACTCCTTTAATCAG
1 AGGCTTAACAACTTTGGAAAATAAATAACTCCTTTAATCAG
*
10986148 AGGCTTAACAACTTTAGAAAATAAATAACT-CTTCTAATCAG
1 AGGCTTAACAACTTTGGAAAATAAATAACTCCTT-TAATCAG
* *
10986189 AGGCTTAACAACTTTGAAAAATAAATAACTCATTTAATCAG
1 AGGCTTAACAACTTTGGAAAATAAATAACTCCTTTAATCAG
10986230 AGG
1 AGG
10986233 TAGCAGAACT
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
40 3 0.04
41 72 0.94
42 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (41 bp):
AGGCTTAACAACTTTGGAAAATAAATAACTCCTTTAATCAG
Found at i:10986243 original size:41 final size:39
Alignment explanation
Indices: 10986107--10986255 Score: 176
Period size: 41 Copynumber: 3.6 Consensus size: 39
10986097 TCTAGGTCAA
* *
10986107 AGGCTCAACGACTTTGGAAAATAAATAACTCCTTTAATCAG
1 AGGCT-AACAACTTTGAAAAATAAATAACT-CTTTAATCAG
10986148 AGGCTTAACAACTTT-AGAAAATAAATAACTCTTCTAATCAG
1 AGGC-TAACAACTTTGA-AAAATAAATAACTCTT-TAATCAG
10986189 AGGCTTAACAACTTTGAAAAATAAATAACTCATTTAATCAG
1 AGGC-TAACAACTTTGAAAAATAAATAACTC-TTTAATCAG
*
10986230 AGG-TAGCAGAACTTTGAAAAATAAAT
1 AGGCTA--ACAACTTTGAAAAATAAAT
10986256 GCTTCTCTAA
Statistics
Matches: 98, Mismatches: 3, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
39 2 0.02
40 3 0.03
41 89 0.91
42 4 0.04
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (39 bp):
AGGCTAACAACTTTGAAAAATAAATAACTCTTTAATCAG
Found at i:10986283 original size:40 final size:41
Alignment explanation
Indices: 10986198--10986337 Score: 140
Period size: 41 Copynumber: 3.4 Consensus size: 41
10986188 GAGGCTTAAC
** * * * *
10986198 AACTTTGAAAAATAAATAACTCAT-TTAATCAGAGGTAGCAG
1 AACTTTGAAAAATAAATGGCTCCTCTAAAT-AGAGGCAACAG
*
10986239 AACTTTGAAAAATAAAT-GCTTCTCTAAATAGAGGCAACAG
1 AACTTTGAAAAATAAATGGCTCCTCTAAATAGAGGCAACAG
* * *
10986279 AACTTTCAAGAAAATAAATGGCTCCTCTAAATAGAGGCAATAA
1 AACTTT-GA-AAAATAAATGGCTCCTCTAAATAGAGGCAACAG
*
10986322 AACTTTGAAATATAAA
1 AACTTTGAAAAATAAA
10986338 ATACTCATTG
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
40 18 0.22
41 29 0.35
42 10 0.12
43 26 0.31
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (41 bp):
AACTTTGAAAAATAAATGGCTCCTCTAAATAGAGGCAACAG
Found at i:10986308 original size:43 final size:42
Alignment explanation
Indices: 10986247--10986327 Score: 126
Period size: 43 Copynumber: 1.9 Consensus size: 42
10986237 AGAACTTTGA
* *
10986247 AAAATAAATGCTTCTCTAAATAGAGGCAACAGAACTTTCAAG
1 AAAATAAATGCTCCTCTAAATAGAGGCAACAAAACTTTCAAG
*
10986289 AAAATAAATGGCTCCTCTAAATAGAGGCAATAAAACTTT
1 AAAATAAAT-GCTCCTCTAAATAGAGGCAACAAAACTTT
10986328 GAAATATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 9 0.26
43 26 0.74
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.25
Consensus pattern (42 bp):
AAAATAAATGCTCCTCTAAATAGAGGCAACAAAACTTTCAAG
Found at i:10987378 original size:10 final size:10
Alignment explanation
Indices: 10987363--10987395 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
10987353 TCATTTTTCA
10987363 TTTTCTTTTT
1 TTTTCTTTTT
10987373 TTTTC-TTTT
1 TTTTCTTTTT
10987382 TTTTCTTTTT
1 TTTTCTTTTT
10987392 TTTT
1 TTTT
10987396 GAAGCATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:10987381 original size:9 final size:9
Alignment explanation
Indices: 10987363--10987394 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
10987353 TCATTTTTCA
10987363 TTTTCTTTTT
1 TTTTC-TTTT
10987373 TTTTCTTTT
1 TTTTCTTTT
10987382 TTTTCTTTT
1 TTTTCTTTT
10987391 TTTT
1 TTTT
10987395 TGAAGCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:10997748 original size:129 final size:129
Alignment explanation
Indices: 10997518--10997775 Score: 489
Period size: 129 Copynumber: 2.0 Consensus size: 129
10997508 CGAGAGTACG
10997518 GTTACGTATGAGGAAGGTTATAACACCCTCACAACGCCCATCAAAAGATAATACCAGCTTAATTT
1 GTTACGTATGAGGAAGGTTATAACACCCTCACAACGCCCATCAAAAGATAATACCAGCTTAATTT
10997583 TGTGTTATCCAATGAGCCTTAAAATTTACCAAGTAATTAATTATTAGAAATTATTCTCAATTGA
66 TGTGTTATCCAATGAGCCTTAAAATTTACCAAGTAATTAATTATTAGAAATTATTCTCAATTGA
* *
10997647 GTTACGTATGAGGAAGGTTATAACACCCTCACAACGCCTATCGAAAGATAATACCAGCTTAATTT
1 GTTACGTATGAGGAAGGTTATAACACCCTCACAACGCCCATCAAAAGATAATACCAGCTTAATTT
*
10997712 TGTGTTATCCAATGAGCCTTAAAATTTACTAAGTAATTAATTATTAGAAATTATTCTCAATTGA
66 TGTGTTATCCAATGAGCCTTAAAATTTACCAAGTAATTAATTATTAGAAATTATTCTCAATTGA
10997776 CTTTAATACT
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (129 bp):
GTTACGTATGAGGAAGGTTATAACACCCTCACAACGCCCATCAAAAGATAATACCAGCTTAATTT
TGTGTTATCCAATGAGCCTTAAAATTTACCAAGTAATTAATTATTAGAAATTATTCTCAATTGA
Found at i:10998133 original size:14 final size:14
Alignment explanation
Indices: 10998111--10998141 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10998101 TTTTCCTCAA
10998111 AAATATATTTTTTT
1 AAATATATTTTTTT
*
10998125 AAATTTATTTTTTT
1 AAATATATTTTTTT
10998139 AAA
1 AAA
10998142 AAAATTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AAATATATTTTTTT
Found at i:10998218 original size:60 final size:57
Alignment explanation
Indices: 10998093--10998319 Score: 296
Period size: 58 Copynumber: 3.9 Consensus size: 57
10998083 TTTCGAGATG
* * *
10998093 CTTTCAACTTTTCCTCAAAAATATATTTTTTTAAATTTATTTTTTTAAAAAAATTGATA
1 CTTTCAACTTTTCCTCAAAAATAT-TTTTTTAAAATTT-TATTTTCAAAAAAATTGATA
*
10998152 ATTTCAACTTTTCCTCAAAAATATTTTTTTAAAAAATTTTATTTTCAGAAAAAATTGATA
1 CTTTCAACTTTTCCTCAAAAATATTTTTTT--AAAATTTTATTTTCA-AAAAAATTGATA
* ** *
10998212 CTTTCAACTTTTCCTCAACAATATTTTTTTAAAAAATTATTTTCAAGAAAAATTAATA
1 CTTTCAACTTTTCCTCAAAAATATTTTTTTAAAATTTTATTTTCAA-AAAAATTGATA
* *
10998270 CTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAATTTTATTTT-AAGAAAAT
1 CTTTCAACTTTTCCTCAAAAATATTTTTTTAAAATTTTATTTTCAAAAAAAT
10998320 CATTAAAAAA
Statistics
Matches: 150, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
55 5 0.03
56 2 0.01
57 17 0.11
58 51 0.34
59 29 0.19
60 46 0.31
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (57 bp):
CTTTCAACTTTTCCTCAAAAATATTTTTTTAAAATTTTATTTTCAAAAAAATTGATA
Found at i:10998339 original size:11 final size:11
Alignment explanation
Indices: 10998325--10998372 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
10998315 AAAATCATTA
*
10998325 AAAAATAAGAT
1 AAAAATAAAAT
*
10998336 AAAATTAAAAT
1 AAAAATAAAAT
*
10998347 AAGAATAAAAAAT
1 AA-AA-ATAAAAT
10998360 AAAAATAAAAT
1 AAAAATAAAAT
10998371 AA
1 AA
10998373 GGAATACCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 19 0.63
12 4 0.13
13 7 0.23
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:10998412 original size:3 final size:3
Alignment explanation
Indices: 10998404--10998438 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
10998394 CTAATAAATA
* *
10998404 AAT AAT AAT AAT AAT GAT AAC AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10998439 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:10999183 original size:25 final size:25
Alignment explanation
Indices: 10999144--10999255 Score: 133
Period size: 25 Copynumber: 4.5 Consensus size: 25
10999134 AAAAAGATAA
10999144 AATAA-AAAATATATATTAATAGAT
1 AATAATAAAATATATATTAATAGAT
10999168 AATAATAAAATATATATTAATAGAT
1 AATAATAAAATATATATTAATAGAT
*
10999193 -A-AATAAAA-ATACATTAATAGAT
1 AATAATAAAATATATATTAATAGAT
* *
10999215 AAATAATAAATAGATATATATTGATAAAT
1 -AATAAT-AA-A-ATATATATTAATAGAT
10999244 AATAATAAAATA
1 AATAATAAAATA
10999256 AAATATAAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
22 13 0.17
23 7 0.09
24 7 0.09
25 25 0.33
26 3 0.04
27 3 0.04
28 7 0.09
29 11 0.14
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (25 bp):
AATAATAAAATATATATTAATAGAT
Found at i:10999213 original size:47 final size:47
Alignment explanation
Indices: 10999145--10999272 Score: 129
Period size: 47 Copynumber: 2.8 Consensus size: 47
10999135 AAAAGATAAA
* * *
10999145 ATAAA-AAATATATATTAATAGAT-AATAATAAA-ATATATATTAATAG
1 ATAAATAAAAATACATTAATAGATAAATAATAAATAGATATA-T-ATAG
*
10999191 ATAAATAAAAATACATTAATAGATAAATAATAAATAGATATATATTG
1 ATAAATAAAAATACATTAATAGATAAATAATAAATAGATATATATAG
* * * * *
10999238 ATAAATAATAATAAAATAAAATATAAAT-ATAAATA
1 ATAAATAAAAATACATTAATAGATAAATAATAAATA
10999273 TAAATATAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 12 0.17
47 42 0.60
48 10 0.14
49 6 0.09
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (47 bp):
ATAAATAAAAATACATTAATAGATAAATAATAAATAGATATATATAG
Found at i:10999265 original size:6 final size:6
Alignment explanation
Indices: 10999238--10999288 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
10999228 ATATATATTG
10999238 ATAAAT A-ATAAT A-AAAT A-AAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATA-AAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
10999284 ATAAA
1 ATAAA
10999289 ATGGGCTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.23
6 33 0.77
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
ATAAAT
Found at i:10999272 original size:25 final size:24
Alignment explanation
Indices: 10999213--10999288 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
10999203 ACATTAATAG
* *
10999213 ATAAATAATAAAT-AGATATATATT
1 ATAAATAATAAATAAAATATA-AAT
10999237 GATAAATAAT-AATAAAATA-AAAT
1 -ATAAATAATAAATAAAATATAAAT
10999260 ATAAAT-ATAAATATAAATATAAAT
1 ATAAATAATAAATA-AAATATAAAT
10999284 ATAAA
1 ATAAA
10999289 ATGGGCTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
21 2 0.04
22 10 0.22
23 7 0.16
24 13 0.29
25 13 0.29
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (24 bp):
ATAAATAATAAATAAAATATAAAT
Found at i:10999699 original size:23 final size:23
Alignment explanation
Indices: 10999669--10999712 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
10999659 TAATGTAGAA
10999669 AATAATATTAAT-ATTTTCTCTC
1 AATAATATTAATAATTTTCTCTC
*
10999691 AATATATATTGATAATTTTCTC
1 AATA-ATATTAATAATTTTCTC
10999713 AAATTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (23 bp):
AATAATATTAATAATTTTCTCTC
Found at i:10999712 original size:22 final size:22
Alignment explanation
Indices: 10999669--10999714 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
10999659 TAATGTAGAA
*
10999669 AATAATATTAATATTTTCTCTC
1 AATAATATTAATAATTTCTCTC
*
10999691 AATATATATTGATAATTT-TCTC
1 AATA-ATATTAATAATTTCTCTC
10999713 AA
1 AA
10999715 ATTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (22 bp):
AATAATATTAATAATTTCTCTC
Found at i:11003532 original size:10 final size:11
Alignment explanation
Indices: 11003517--11003554 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
11003507 AAAGACACCT
11003517 TTATGAA-TAA
1 TTATGAACTAA
11003527 TTATGAACGTAA
1 TTATGAAC-TAA
11003539 TTATGAACATAA
1 TTATGAAC-TAA
11003551 TTAT
1 TTAT
11003555 TCACCATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 7 0.28
12 18 0.72
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (11 bp):
TTATGAACTAA
Found at i:11003541 original size:12 final size:12
Alignment explanation
Indices: 11003523--11003554 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
11003513 ACCTTTATGA
11003523 ATAATTATGAAC
1 ATAATTATGAAC
*
11003535 GTAATTATGAAC
1 ATAATTATGAAC
11003547 ATAATTAT
1 ATAATTAT
11003555 TCACCATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (12 bp):
ATAATTATGAAC
Found at i:11007636 original size:14 final size:15
Alignment explanation
Indices: 11007612--11007641 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11007602 TCATTTAACT
11007612 ACTATTGTCTATTCC
1 ACTATTGTCTATTCC
11007627 ACTA-TGTCTATTCC
1 ACTATTGTCTATTCC
11007641 A
1 A
11007642 TTGTACAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.23, C:0.27, G:0.07, T:0.43
Consensus pattern (15 bp):
ACTATTGTCTATTCC
Found at i:11016886 original size:91 final size:91
Alignment explanation
Indices: 11016731--11016913 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
11016721 TAGGGTATTG
11016731 TAAGTGGTACAATGACCTTACTGCCATAATCCACTAAGATTCAGCCCTTTGTCACTTTGATTCAT
1 TAAGTGGTACAATGACCTTACTGCCATAATCCACTAAGATTCAGCCCTTTGTCACTTTGATTCAT
11016796 CCCTCCCCTCACACCTACTAAAGTTT
66 CCCTCCCCTCACACCTACTAAAGTTT
11016822 TAAGTGGTACAATGACCTTACTGCCATAATCCACTAAGATTCAGCCCTTTGTCACTTTGATTCAT
1 TAAGTGGTACAATGACCTTACTGCCATAATCCACTAAGATTCAGCCCTTTGTCACTTTGATTCAT
*
11016887 CCTTCCCCTCACACCTACTAAAGTTT
66 CCCTCCCCTCACACCTACTAAAGTTT
11016913 T
1 T
11016914 CTCACTTTAT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (91 bp):
TAAGTGGTACAATGACCTTACTGCCATAATCCACTAAGATTCAGCCCTTTGTCACTTTGATTCAT
CCCTCCCCTCACACCTACTAAAGTTT
Found at i:11022967 original size:47 final size:47
Alignment explanation
Indices: 11022880--11022973 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 47
11022870 TACACATACA
* * * *
11022880 GCACTAAGTGCCAACATCTACCAAAGAGGTGTTCATGGCAACAACCC
1 GCACCAAGTGCCAACATCTACCAAAGAGGAGTCCAAGGCAACAACCC
* * * *
11022927 GCACCAAGTGCTAGCATCTACCAAATAGGAGTCCAAGGCAATAACCC
1 GCACCAAGTGCCAACATCTACCAAAGAGGAGTCCAAGGCAACAACCC
11022974 ACACTAAAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.16
Consensus pattern (47 bp):
GCACCAAGTGCCAACATCTACCAAAGAGGAGTCCAAGGCAACAACCC
Found at i:11026536 original size:17 final size:16
Alignment explanation
Indices: 11026492--11026537 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
11026482 TGAAGTTGTA
*
11026492 ACAAAAACCATCATGT
1 ACAAAGACCATCATGT
*
11026508 ACTAAGAGCCATCATGT
1 ACAAAGA-CCATCATGT
11026525 ACCAAAGACCATC
1 A-CAAAGACCATC
11026538 GAGATGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 5 0.20
17 15 0.60
18 5 0.20
ACGTcount: A:0.43, C:0.28, G:0.11, T:0.17
Consensus pattern (16 bp):
ACAAAGACCATCATGT
Found at i:11030022 original size:47 final size:47
Alignment explanation
Indices: 11029949--11030045 Score: 142
Period size: 47 Copynumber: 2.1 Consensus size: 47
11029939 ATGCCACACT
* *
11029949 AAGTGCCAACATCTACCGAAAAGGTGTCTGAGGCAACAATCCCTACC
1 AAGTGCCAACATCTACCGAAAAGGTGTCTGAGGCAACAAACCCCACC
* *
11029996 AAGTGCCAACATTTGCC-AAAATGGTGTCTGAGGCAACAAACCCCACC
1 AAGTGCCAACATCTACCGAAAA-GGTGTCTGAGGCAACAAACCCCACC
11030043 AAG
1 AAG
11030046 GACCTACTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 4 0.09
47 41 0.91
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (47 bp):
AAGTGCCAACATCTACCGAAAAGGTGTCTGAGGCAACAAACCCCACC
Found at i:11038668 original size:27 final size:28
Alignment explanation
Indices: 11038615--11038668 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
11038605 AAACCTACCG
* *
11038615 TGGTTGGAACTTGCTCTGATACTAACTC
1 TGGTTGGAACTAGCTCTGATACCAACTC
11038643 TGGTTGGAACTAGC-CTGATACCAACT
1 TGGTTGGAACTAGCTCTGATACCAACT
11038669 ATCATGGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (28 bp):
TGGTTGGAACTAGCTCTGATACCAACTC
Found at i:11040738 original size:19 final size:18
Alignment explanation
Indices: 11040714--11040765 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
11040704 TAGGGTGATG
*
11040714 ATTTAAGGTTGTGAGTTGA
1 ATTTAAGGTTGTGA-TTAA
*
11040733 ATTTAATGTT-TGCATTAA
1 ATTTAAGGTTGTG-ATTAA
*
11040751 ATTTAAGGTCGTGAT
1 ATTTAAGGTTGTGAT
11040766 GAATTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (18 bp):
ATTTAAGGTTGTGATTAA
Found at i:11040831 original size:8 final size:8
Alignment explanation
Indices: 11040820--11040991 Score: 53
Period size: 8 Copynumber: 22.4 Consensus size: 8
11040810 AGTTTTAGAT
11040820 TTTTAAGG
1 TTTTAAGG
11040828 TTTT--GG
1 TTTTAAGG
*
11040834 TCTTAA-G
1 TTTTAAGG
11040841 TTTTAAGGG
1 TTTTAA-GG
11040850 TTTT-AGG
1 TTTTAAGG
*
11040857 GTTT--GG
1 TTTTAAGG
11040863 TTTTAAGG
1 TTTTAAGG
* *
11040871 TTTCAA-A
1 TTTTAAGG
*
11040878 TTTTAGGG
1 TTTTAAGG
*
11040886 TTATAA-G
1 TTTTAAGG
* *
11040893 ATTAAAGG
1 TTTTAAGG
*
11040901 -TTT-AGA
1 TTTTAAGG
11040907 TTTTAAGG
1 TTTTAAGG
11040915 TTTTAAGGG
1 TTTTAA-GG
*
11040924 TTTTAGGGTG
1 TTTTA-AG-G
*
11040934 TTTTACGG
1 TTTTAAGG
*
11040942 TTTGAAGG
1 TTTTAAGG
*
11040950 GTTT-AGG
1 TTTTAAGG
* * *
11040957 -GTTCAGA
1 TTTTAAGG
* *
11040964 TTCTAAGT
1 TTTTAAGG
11040972 TTTTGAAGG
1 TTTT-AAGG
11040981 TTTTAAGG
1 TTTTAAGG
11040989 TTT
1 TTT
11040992 GGATTTTATG
Statistics
Matches: 117, Mismatches: 31, Indels: 32
0.65 0.17 0.18
Matches are distributed among these distances:
6 14 0.12
7 29 0.25
8 47 0.40
9 21 0.18
10 6 0.05
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (8 bp):
TTTTAAGG
Found at i:11040922 original size:22 final size:22
Alignment explanation
Indices: 11040804--11040922 Score: 59
Period size: 22 Copynumber: 5.4 Consensus size: 22
11040794 GGTTTCAAGA
*
11040804 TTTTAGAGTTTTAGATTTTTAAGG
1 TTTTA-AGGTTTAGA-TTTTAAGG
11040828 TTTT--GGTCTTA-AGTTTTAAGGG
1 TTTTAAGGT-TTAGA-TTTTAA-GG
* *
11040850 TTTTAGGGTTT-GGTTTTAAGG
1 TTTTAAGGTTTAGATTTTAAGG
* ** * *
11040871 TTTCAAATTTTAGGGTTATAA-G
1 TTTTAAGGTTTA-GATTTTAAGG
* *
11040893 ATTAAAGGTTTAGATTTTAAGG
1 TTTTAAGGTTTAGATTTTAAGG
11040915 TTTTAAGG
1 TTTTAAGG
11040923 GTTTTAGGGT
Statistics
Matches: 71, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
21 24 0.34
22 31 0.44
23 9 0.13
24 7 0.10
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.49
Consensus pattern (22 bp):
TTTTAAGGTTTAGATTTTAAGG
Found at i:11040943 original size:27 final size:26
Alignment explanation
Indices: 11040907--11040958 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
11040897 AAGGTTTAGA
*
11040907 TTTTAAGGTTTTAAGGGTTTTAGGGTG
1 TTTTAAGGTTTGAAGGG-TTTAGGGTG
*
11040934 TTTTACGGTTTGAAGGGTTTAGGGT
1 TTTTAAGGTTTGAAGGGTTTAGGGT
11040959 TCAGATTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.46
Consensus pattern (26 bp):
TTTTAAGGTTTGAAGGGTTTAGGGTG
Found at i:11041067 original size:29 final size:29
Alignment explanation
Indices: 11041042--11041096 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
11041032 AAGGTTTGGA
*
11041042 AATTTATGG-TTTTGATTTTAGGGTTTCG
1 AATTTAAGGTTTTTGATTTTAGGGTTTCG
*
11041070 ATTTTAAGGTTTTTGATTTTAGGGTTT
1 AATTTAAGGTTTTTGATTTTAGGGTTT
11041097 TGGGTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.18, C:0.02, G:0.24, T:0.56
Consensus pattern (29 bp):
AATTTAAGGTTTTTGATTTTAGGGTTTCG
Found at i:11041096 original size:43 final size:43
Alignment explanation
Indices: 11041044--11041150 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
11041034 GGTTTGGAAA
* **
11041044 TTTATGGTTTT-GATTTTAGGGTTTCGATTTTAAGGTTTTTGAT
1 TTTAGGGTTTTGGATTTTAGGGTTT-GATTTTAAGGTTTAAGAT
* * *
11041087 TTTAGGGTTTTGGGTTTTAAGGTTTGATTTTAAGGTTTAAGGT
1 TTTAGGGTTTTGGATTTTAGGGTTTGATTTTAAGGTTTAAGAT
*
11041130 TTTGGGGTTTTGGATTTTAGG
1 TTTAGGGTTTTGGATTTTAGG
11041151 ATTTTTAGGG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 43 0.80
44 11 0.20
ACGTcount: A:0.16, C:0.01, G:0.29, T:0.54
Consensus pattern (43 bp):
TTTAGGGTTTTGGATTTTAGGGTTTGATTTTAAGGTTTAAGAT
Found at i:11041147 original size:15 final size:15
Alignment explanation
Indices: 11040981--11041148 Score: 91
Period size: 15 Copynumber: 11.3 Consensus size: 15
11040971 TTTTTGAAGG
11040981 TTTTAAGG-TTTGGA
1 TTTTAAGGTTTTGGA
* * *
11040995 TTTTATGGTTTCAAGGG
1 TTTTAAGGTTT--TGGA
11041012 TTTTAA-GTTTTCGAGA
1 TTTTAAGGTTTT-G-GA
**
11041028 GCTTAAGG-TTTGGAA
1 TTTTAAGGTTTTGG-A
* *
11041043 ATTTATGGTTTT-GA
1 TTTTAAGGTTTTGGA
* *
11041057 TTTT-AGGGTTTCGA
1 TTTTAAGGTTTTGGA
*
11041071 TTTTAAGGTTTTTGA
1 TTTTAAGGTTTTGGA
* *
11041086 TTTTAGGGTTTTGGG
1 TTTTAAGGTTTTGGA
11041101 TTTTAAGG-TTT-GA
1 TTTTAAGGTTTTGGA
*
11041114 TTTTAAGGTTTAAGG-
1 TTTTAAGGTTT-TGGA
**
11041129 TTTTGGGGTTTTGGA
1 TTTTAAGGTTTTGGA
11041144 TTTTA
1 TTTTA
11041149 GGATTTTTAG
Statistics
Matches: 114, Mismatches: 26, Indels: 27
0.68 0.16 0.16
Matches are distributed among these distances:
13 14 0.12
14 25 0.22
15 51 0.45
16 16 0.14
17 8 0.07
ACGTcount: A:0.19, C:0.02, G:0.27, T:0.51
Consensus pattern (15 bp):
TTTTAAGGTTTTGGA
Found at i:11043634 original size:12 final size:12
Alignment explanation
Indices: 11043617--11043695 Score: 79
Period size: 12 Copynumber: 6.7 Consensus size: 12
11043607 GAAGGCTAGC
11043617 TTAAAATTAGGT
1 TTAAAATTAGGT
11043629 TTAAAATTAGGT
1 TTAAAATTAGGT
***
11043641 TTAAAATTTCAT
1 TTAAAATTAGGT
* *** *
11043653 TGAAGGCTA-GC
1 TTAAAATTAGGT
11043664 TTAAAATTAGGT
1 TTAAAATTAGGT
11043676 TTAAAATTAGGT
1 TTAAAATTAGGT
11043688 TTAAAATT
1 TTAAAATT
11043696 TCATTGAAGG
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
11 5 0.10
12 46 0.90
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.41
Consensus pattern (12 bp):
TTAAAATTAGGT
Found at i:11043661 original size:47 final size:47
Alignment explanation
Indices: 11043607--11043714 Score: 216
Period size: 47 Copynumber: 2.3 Consensus size: 47
11043597 AATTTTGTCC
11043607 GAAGGCTAGCTTAAAATTAGGTTTAAAATTAGGTTTAAAATTTCATT
1 GAAGGCTAGCTTAAAATTAGGTTTAAAATTAGGTTTAAAATTTCATT
11043654 GAAGGCTAGCTTAAAATTAGGTTTAAAATTAGGTTTAAAATTTCATT
1 GAAGGCTAGCTTAAAATTAGGTTTAAAATTAGGTTTAAAATTTCATT
11043701 GAAGGCTAGCTTAA
1 GAAGGCTAGCTTAA
11043715 CTGAGCTTAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (47 bp):
GAAGGCTAGCTTAAAATTAGGTTTAAAATTAGGTTTAAAATTTCATT
Found at i:11043671 original size:23 final size:23
Alignment explanation
Indices: 11043641--11043714 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
11043631 AAAATTAGGT
11043641 TTAAAATTTCATTGAAGGCTAGC
1 TTAAAATTTCATTGAAGGCTAGC
*** * *** *
11043664 TTAAAATTAGGTTTAAAATTAGGT
1 TTAAAATTTCATTGAAGGCTA-GC
11043688 TTAAAATTTCATTGAAGGCTAGC
1 TTAAAATTTCATTGAAGGCTAGC
11043711 TTAA
1 TTAA
11043715 CTGAGCTTAA
Statistics
Matches: 34, Mismatches: 16, Indels: 2
0.65 0.31 0.04
Matches are distributed among these distances:
23 19 0.56
24 15 0.44
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (23 bp):
TTAAAATTTCATTGAAGGCTAGC
Found at i:11043743 original size:27 final size:29
Alignment explanation
Indices: 11043713--11043783 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 29
11043703 AGGCTAGCTT
*
11043713 AACTGAG-CTTAAAATTGGGTGCC-GATA
1 AACTGAGACTTAAAAATGGGTGCCAGATA
* *
11043740 AACT-AGAATTAAAAATGGGTGCCAGCTA
1 AACTGAGACTTAAAAATGGGTGCCAGATA
11043768 AACTG-GACTTAAAAAT
1 AACTGAGACTTAAAAAT
11043784 TCATTGGGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 18 0.49
28 17 0.46
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (29 bp):
AACTGAGACTTAAAAATGGGTGCCAGATA
Found at i:11043755 original size:28 final size:29
Alignment explanation
Indices: 11043723--11043784 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
11043713 AACTGAGCTT
11043723 AAAATTGGGTGCC-GATAAACTAGAATTA
1 AAAATTGGGTGCCAGATAAACTAGAATTA
* * *
11043751 AAAA-TGGGTGCCAGCTAAACTGGACTTA
1 AAAATTGGGTGCCAGATAAACTAGAATTA
11043779 AAAATT
1 AAAATT
11043785 CATTGGGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 8 0.28
28 20 0.69
29 1 0.03
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (29 bp):
AAAATTGGGTGCCAGATAAACTAGAATTA
Found at i:11043873 original size:33 final size:35
Alignment explanation
Indices: 11043830--11043895 Score: 91
Period size: 33 Copynumber: 1.9 Consensus size: 35
11043820 TTTGTGTTAA
*
11043830 ATAAACTAGGCTTCAC-TTGGAT-CTAGCTATGAG
1 ATAAACTAGGCTTAACTTTGGATGCTAGCTATGAG
* *
11043863 ATAAATTAGGCTTAACTTTGGATGTTAGCTATG
1 ATAAACTAGGCTTAACTTTGGATGCTAGCTATG
11043896 CTGGGCTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 14 0.50
34 6 0.21
35 8 0.29
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (35 bp):
ATAAACTAGGCTTAACTTTGGATGCTAGCTATGAG
Found at i:11044089 original size:32 final size:32
Alignment explanation
Indices: 11044048--11044168 Score: 129
Period size: 32 Copynumber: 3.7 Consensus size: 32
11044038 TCTTCATTGG
*
11044048 GTACTAGGTAAACT-AGACTTAAACTTTCACTA
1 GTACCAGGTAAACTGAG-CTTAAACTTTCACTA
* *
11044080 GTACTAGGTAAACTGAGCTTAAAATCTTTCTC-A
1 GTACCAGGTAAACTGAGCTT-AAA-CTTTCACTA
* * *
11044113 GGTGCCAGGTAAACTGGGCTTAAACTTTTACTA
1 -GTACCAGGTAAACTGAGCTTAAACTTTCACTA
*
11044146 GTACCAAGTAAACTGAGCTTAAA
1 GTACCAGGTAAACTGAGCTTAAA
11044169 ATCTTTCTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
32 42 0.56
33 10 0.13
34 23 0.31
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (32 bp):
GTACCAGGTAAACTGAGCTTAAACTTTCACTA
Found at i:11044123 original size:34 final size:33
Alignment explanation
Indices: 11044085--11044204 Score: 118
Period size: 34 Copynumber: 3.6 Consensus size: 33
11044075 CACTAGTACT
11044085 AGGTAAACTGAGCTTAAAATCTTTCTCAGGTGCC
1 AGGTAAACTGAGCTTAAAATCTTTCT-AGGTGCC
* * *
11044119 AGGTAAACTGGGCTTAAACT-TTTACTA-GTACC
1 AGGTAAACTGAGCTTAAAATCTTT-CTAGGTGCC
* *
11044151 AAGTAAACTGAGCTTAAAATCTTTCTTTGGTGCC
1 AGGTAAACTGAGCTTAAAATCTTTC-TAGGTGCC
** * *
11044185 ATATAAATTGGGCTTAAAAT
1 AGGTAAACTGAGCTTAAAAT
11044205 TTCATTGGGT
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
32 22 0.31
33 8 0.11
34 40 0.57
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (33 bp):
AGGTAAACTGAGCTTAAAATCTTTCTAGGTGCC
Found at i:11044135 original size:66 final size:66
Alignment explanation
Indices: 11044053--11044208 Score: 213
Period size: 66 Copynumber: 2.4 Consensus size: 66
11044043 ATTGGGTACT
* * * *
11044053 AGGTAAACTAGACTTAAACTTTCACTAGTACTAGGTAAACTGAGCTTAAAATCTTTCTCAGGTGC
1 AGGTAAACTGGGCTTAAACTTTCACTAGTACCAAGTAAACTGAGCTTAAAATCTTTCTCAGGTGC
11044118 C
66 C
* **
11044119 AGGTAAACTGGGCTTAAACTTTTACTAGTACCAAGTAAACTGAGCTTAAAATCTTTCTTTGGTGC
1 AGGTAAACTGGGCTTAAACTTTCACTAGTACCAAGTAAACTGAGCTTAAAATCTTTCTCAGGTGC
11044184 C
66 C
** * *
11044185 ATATAAATTGGGCTTAAAATTTCA
1 AGGTAAACTGGGCTTAAACTTTCA
11044209 TTGGGTGCTA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 78 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (66 bp):
AGGTAAACTGGGCTTAAACTTTCACTAGTACCAAGTAAACTGAGCTTAAAATCTTTCTCAGGTGC
C
Found at i:11044626 original size:31 final size:32
Alignment explanation
Indices: 11044591--11044651 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
11044581 TTGGGCTTGC
* * *
11044591 ATGCCAGCTATATTGGGCTT-AAATTTCATTT
1 ATGCCAGCTAAACTAGGCTTAAAATTTCATTT
11044622 ATGCCAGCTAAACTAGGCTTAAAATTTCAT
1 ATGCCAGCTAAACTAGGCTTAAAATTTCAT
11044652 CGAGGGCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (32 bp):
ATGCCAGCTAAACTAGGCTTAAAATTTCATTT
Found at i:11044633 original size:85 final size:84
Alignment explanation
Indices: 11044490--11044759 Score: 265
Period size: 86 Copynumber: 3.1 Consensus size: 84
11044480 CAATGCTAGC
* * * *
11044490 TAATATTGGGCTTTACATGCCAGCTA-ATCTTGGCTTAAATCTCATTGATGCTAACTAAACAGTG
1 TAAT-TTGGGC-TTGCATGCCAGCTATAT-TGGGCTTAAATTTCATTGATGCTAGCTAAACAG-G
*
11044554 CTTAAGACTTCATTGGTGCGAAG-
62 CTTAAAACTTCATTGGTGC-AAGA
* *
11044577 TAATTTGGGCTTGCATGCCAGCTATATTGGGCTTAAATTTCATTTATGCCAGCTAAACTAGGCTT
1 TAATTTGGGCTTGCATGCCAGCTATATTGGGCTTAAATTTCATTGATGCTAGCTAAAC-AGGCTT
* * * *
11044642 AAAATTTCATCGAGGGCTAGA
65 AAAACTTCATTG-GTGCAAGA
* * ** * **
11044663 TAAGTTAGGCTTGTGTGCTAGCTATATTGGGCTTAAATTTCATTGATGCTAGCTAAATTGAGCTT
1 TAATTTGGGCTTGCATGCCAGCTATATTGGGCTTAAATTTCATTGATGCTAGCTAAACAG-GCTT
* *
11044728 AAAACTTCATTAGTGCTAGA
65 AAAACTTCATTGGTGCAAGA
*
11044748 TAATCTGGGCTT
1 TAATTTGGGCTT
11044760 AAAACCCACA
Statistics
Matches: 151, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
85 71 0.47
86 76 0.50
87 4 0.03
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (84 bp):
TAATTTGGGCTTGCATGCCAGCTATATTGGGCTTAAATTTCATTGATGCTAGCTAAACAGGCTTA
AAACTTCATTGGTGCAAGA
Found at i:11044745 original size:32 final size:31
Alignment explanation
Indices: 11044676--11044764 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 31
11044666 GTTAGGCTTG
* *
11044676 TGTGCTAGCTATATTGGGCTT-AAATTTCAT
1 TGTGCTAGCTAAATTGGGCTTAAAACTTCAT
*
11044706 TGATGCTAGCTAAATTGAGCTTAAAACTTCAT
1 TG-TGCTAGCTAAATTGGGCTTAAAACTTCAT
*
11044738 TAGTGCTAGAT-AATCTGGGCTTAAAAC
1 T-GTGCTAGCTAAAT-TGGGCTTAAAAC
11044765 CCACATGCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.04
31 20 0.40
32 27 0.54
33 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (31 bp):
TGTGCTAGCTAAATTGGGCTTAAAACTTCAT
Found at i:11045673 original size:15 final size:14
Alignment explanation
Indices: 11045649--11045696 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
11045639 CATTCATTTA
*
11045649 TTTTCCTTTTCCTT
1 TTTTCTTTTTCCTT
**
11045663 CTTTTCTTTTTTTTT
1 -TTTTCTTTTTCCTT
11045678 TTTTCATTTTTCCTT
1 TTTTC-TTTTTCCTT
11045693 TTTT
1 TTTT
11045697 TTTCTTTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTTTCCTT
Found at i:11045681 original size:23 final size:23
Alignment explanation
Indices: 11045649--11045709 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
11045639 CATTCATTTA
* * *
11045649 TTTTCCTTTTCCTTCTTTTCTTTT
1 TTTTTCTTTTCATT-TTTCCTTTT
11045673 TTTTT-TTTTCATTTTTCCTTTT
1 TTTTTCTTTTCATTTTTCCTTTT
11045695 TTTTTCTTTTC-TTTT
1 TTTTTCTTTTCATTTT
11045710 ACATTCTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 17 0.52
23 12 0.36
24 4 0.12
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTCTTTTCATTTTTCCTTTT
Found at i:11045691 original size:30 final size:29
Alignment explanation
Indices: 11045655--11045719 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
11045645 TTTATTTTCC
* *
11045655 TTTTCCTTCTTTTCTTT-TTTTTTTTTTCAT
1 TTTTCCTT-TTTT-TTTCTTTTCTTTTACAT
11045685 TTTTCCTTTTTTTTTCTTTTCTTTTACAT
1 TTTTCCTTTTTTTTTCTTTTCTTTTACAT
11045714 TCTTTC
1 T-TTTC
11045720 ACTAAGTGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 3 0.10
29 16 0.52
30 12 0.39
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (29 bp):
TTTTCCTTTTTTTTTCTTTTCTTTTACAT
Found at i:11047024 original size:17 final size:17
Alignment explanation
Indices: 11046998--11047030 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11046988 AAAACTTTCC
11046998 TTTTTATCTCTTTTTTG
1 TTTTTATCTCTTTTTTG
*
11047015 TTTTTTTCTCTTTTTT
1 TTTTTATCTCTTTTTT
11047031 CTCTTTCTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTATCTCTTTTTTG
Found at i:11047028 original size:9 final size:9
Alignment explanation
Indices: 11046993--11047057 Score: 71
Period size: 9 Copynumber: 7.3 Consensus size: 9
11046983 GACTAAAAAC
11046993 TTTC-CTTT
1 TTTCTCTTT
11047001 TTATCTCTTT
1 TT-TCTCTTT
*
11047011 TTTGT-TTT
1 TTTCTCTTT
11047019 TTTCTCTTT
1 TTTCTCTTT
11047028 TTTCTCTTT
1 TTTCTCTTT
* * *
11047037 CTCCACTTT
1 TTTCTCTTT
11047046 TTTCTCTTT
1 TTTCTCTTT
11047055 TTT
1 TTT
11047058 TAGGCATTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
8 9 0.20
9 31 0.67
10 6 0.13
ACGTcount: A:0.03, C:0.22, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTCTCTTT
Found at i:11049349 original size:96 final size:96
Alignment explanation
Indices: 11049178--11049367 Score: 344
Period size: 97 Copynumber: 2.0 Consensus size: 96
11049168 CAATTAGGAC
11049178 AATAAGTTGTCTCTAAAATAGATAAGGAAAGAGTTTTTTGTATGAAATGGGAAAAAGATCTAACT
1 AATAAGTTGTCTCTAAAATAGATAAGGAAAGAGTTTTTTGTATGAAATGGGAAAAAGATCTAACT
11049243 ATTTCTTTTTTTTTTAATAATTTTTAGGGAT
66 ATTTCTTTTTTTTTTAATAATTTTTAGGGAT
*
11049274 AATAAGTTGTCTCTGAAATAGATAAGGAAAGAGTTTTTTTGTATGAAATGGGAAAAAGATCTAAC
1 AATAAGTTGTCTCTAAAATAGATAAGGAAAGAG-TTTTTTGTATGAAATGGGAAAAAGATCTAAC
* *
11049339 TGTTTCTTTTTTTTTTAGTAATTTTTAGG
65 TATTTCTTTTTTTTTTAATAATTTTTAGG
11049368 TAACAGGTTG
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
96 32 0.36
97 58 0.64
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (96 bp):
AATAAGTTGTCTCTAAAATAGATAAGGAAAGAGTTTTTTGTATGAAATGGGAAAAAGATCTAACT
ATTTCTTTTTTTTTTAATAATTTTTAGGGAT
Found at i:11050557 original size:25 final size:25
Alignment explanation
Indices: 11050529--11050579 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
11050519 AATAATTCAA
11050529 AACAA-AAAAGTAACAGAA-ATAATAT
1 AACAACAAAA-TAACAGAATAT-ATAT
*
11050554 AACAACAAAATAATAGAATATATAT
1 AACAACAAAATAACAGAATATATAT
11050579 A
1 A
11050580 GTGTTCTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.20
Consensus pattern (25 bp):
AACAACAAAATAACAGAATATATAT
Found at i:11052443 original size:17 final size:17
Alignment explanation
Indices: 11052423--11052481 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
11052413 GTTTTAGGGT
11052423 GTTTTAGGGTTTAAAGA
1 GTTTTAGGGTTTAAAGA
* *
11052440 GTTTGA-GGTTT-TAGA
1 GTTTTAGGGTTTAAAGA
*
11052455 -TTTAAGGGTTTGAAAG-
1 GTTTTAGGGTTT-AAAGA
11052471 GTTTTAGGGTT
1 GTTTTAGGGTT
11052482 AGCTTTTAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 4 0.12
15 8 0.24
16 5 0.15
17 16 0.48
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (17 bp):
GTTTTAGGGTTTAAAGA
Found at i:11052581 original size:15 final size:15
Alignment explanation
Indices: 11052570--11052638 Score: 56
Period size: 15 Copynumber: 4.8 Consensus size: 15
11052560 AACATTTTTT
11052570 ATTTTAGGATTTATG
1 ATTTTAGGATTTATG
11052585 ATTTTAGGA-TT-TG
1 ATTTTAGGATTTATG
*
11052598 ATTTTAAGG-TTTAAG
1 ATTTT-AGGATTTATG
* * * *
11052613 GTTTAAGGTTTTAGG
1 ATTTTAGGATTTATG
11052628 ATTTT-GGATTT
1 ATTTTAGGATTT
11052639 TAGGATTGGG
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
13 7 0.16
14 15 0.35
15 21 0.49
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (15 bp):
ATTTTAGGATTTATG
Found at i:11054916 original size:22 final size:21
Alignment explanation
Indices: 11054876--11054917 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11054866 ATCTAGCAAA
*
11054876 AAAACAAGAAACCATATCTAG
1 AAAACAAGAAACCAAATCTAG
*
11054897 AAAACAAGACAATCAAATCTA
1 AAAACAAGA-AACCAAATCTA
11054918 ACCTCTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.19, G:0.07, T:0.14
Consensus pattern (21 bp):
AAAACAAGAAACCAAATCTAG
Found at i:11069928 original size:18 final size:19
Alignment explanation
Indices: 11069905--11069946 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
11069895 AAAAATTTTT
*
11069905 AAAAAATCT-CAAACCATA
1 AAAAAATCTAAAAACCATA
*
11069923 AAAAAATCTAAAAATCATA
1 AAAAAATCTAAAAACCATA
11069942 AAAAA
1 AAAAA
11069947 TAAAAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAAAATCTAAAAACCATA
Found at i:11069947 original size:18 final size:17
Alignment explanation
Indices: 11069904--11069947 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
11069894 TAAAAATTTT
*
11069904 TAAAAAATCTCAAACCA
1 TAAAAAATCTAAAACCA
*
11069921 TAAAAAAATCTAAAAATCA
1 T-AAAAAATCT-AAAACCA
11069940 TAAAAAAT
1 TAAAAAAT
11069948 AAAAAATGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 6 0.26
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (17 bp):
TAAAAAATCTAAAACCA
Found at i:11081616 original size:24 final size:24
Alignment explanation
Indices: 11081589--11081635 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
11081579 GCAAGTGCCC
11081589 ATACCAAGAGTATTTGGTTGCCAA
1 ATACCAAGAGTATTTGGTTGCCAA
** *
11081613 ATACTGAGGGTATTTGGTTGCCA
1 ATACCAAGAGTATTTGGTTGCCA
11081636 TTTACTTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (24 bp):
ATACCAAGAGTATTTGGTTGCCAA
Found at i:11094532 original size:22 final size:22
Alignment explanation
Indices: 11094507--11094553 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
11094497 TAAAGGCCAA
11094507 CATGTGCCGATGGTAGTCAAAG
1 CATGTGCCGATGGTAGTCAAAG
** *
11094529 CATGTGTTGATGGTGGTCAAAG
1 CATGTGCCGATGGTAGTCAAAG
11094551 CAT
1 CAT
11094554 ATGCTAAGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.28
Consensus pattern (22 bp):
CATGTGCCGATGGTAGTCAAAG
Found at i:11097107 original size:45 final size:45
Alignment explanation
Indices: 11097052--11097150 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
11097042 ATGGCTAGCA
11097052 TATGCCAATGGTGA-T-CAAAGCAAGTGCCCATACCAAAGGCCAACT
1 TATGCCAATGGTGATTGCAAA--AAGTGCCCATACCAAAGGCCAACT
* * * *
11097097 TATGCTAATGGTGATTGCAAAAAGTGTCTATACCAAAGGCTAACT
1 TATGCCAATGGTGATTGCAAAAAGTGCCCATACCAAAGGCCAACT
*
11097142 TGTGCCAAT
1 TATGCCAAT
11097151 AATGGTCGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 41 0.89
46 1 0.02
47 4 0.09
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (45 bp):
TATGCCAATGGTGATTGCAAAAAGTGCCCATACCAAAGGCCAACT
Found at i:11104510 original size:24 final size:24
Alignment explanation
Indices: 11104464--11104511 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11104454 CACTCTTTGA
*
11104464 CTTTCTTTTCAAAGTTTTTTTCAT
1 CTTTCTTTTCAAAGTTTTGTTCAT
*
11104488 CTTTC-TTTCATAGTATTTGTTCAT
1 CTTTCTTTTCAAAGT-TTTGTTCAT
11104512 TATAAGTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (24 bp):
CTTTCTTTTCAAAGTTTTGTTCAT
Found at i:11109206 original size:33 final size:33
Alignment explanation
Indices: 11109160--11109222 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
11109150 TACCAGTACA
* ** *
11109160 AAAGGCTAGCATGTGTCGATGGTGGTTGAGATC
1 AAAGGCTAACATGTCCCAATGGTGGTTGAGATC
11109193 AAAGGCTAACATGTCCCAATGGTGGTTGAG
1 AAAGGCTAACATGTCCCAATGGTGGTTGAG
11109223 GCATATGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.25
Consensus pattern (33 bp):
AAAGGCTAACATGTCCCAATGGTGGTTGAGATC
Found at i:11115441 original size:20 final size:20
Alignment explanation
Indices: 11115416--11115458 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
11115406 CACCATGAAA
11115416 GGGTGTTATATGAGGCCATG
1 GGGTGTTATATGAGGCCATG
11115436 GGGTGTTATATGAGGCCATG
1 GGGTGTTATATGAGGCCATG
11115456 GGG
1 GGG
11115459 GCTGAAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.44, T:0.28
Consensus pattern (20 bp):
GGGTGTTATATGAGGCCATG
Found at i:11119358 original size:22 final size:22
Alignment explanation
Indices: 11119307--11119359 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
11119297 GCCCTTGGTT
* **
11119307 TCGACACATATGTCGACTATTA
1 TCGACACATATGTCAACTACCA
11119329 TC-AGCACATATGTCAACTACCA
1 TCGA-CACATATGTCAACTACCA
11119351 TCGACACAT
1 TCGACACAT
11119360 GTTGGCCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.26
Consensus pattern (22 bp):
TCGACACATATGTCAACTACCA
Found at i:11132100 original size:29 final size:30
Alignment explanation
Indices: 11132028--11132102 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 30
11132018 TTATTAAAAT
11132028 AATAAAATTTTTAAAATTTTATTAGTTTATTTA
1 AATAAAA-TTTTAAAATTTTATTA--TTATTTA
* * *
11132061 GATAAATTTTTAAATTTTTATTA-TATTTA
1 AATAAAATTTTAAAATTTTATTATTATTTA
11132090 AATAAAATTTTAA
1 AATAAAATTTTAA
11132103 TCTTTGATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 17 0.46
32 15 0.41
33 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (30 bp):
AATAAAATTTTAAAATTTTATTATTATTTA
Found at i:11132115 original size:30 final size:29
Alignment explanation
Indices: 11132028--11132121 Score: 77
Period size: 29 Copynumber: 3.1 Consensus size: 29
11132018 TTATTAAAAT
11132028 AATAAAATTTTTAAAATTTT-ATTAGTTTATTTA
1 AATAAAA-TTTT-AAATTTTGATTA---TATTTA
* * *
11132061 GATAAATTTTTAAATTTTTATTATATTTA
1 AATAAAATTTTAAATTTTGATTATATTTA
11132090 AATAAAATTTT-AATCTTTGATT-TATATTA
1 AATAAAATTTTAAAT-TTTGATTATAT-TTA
11132119 AAT
1 AAT
11132122 TTTCAATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
28 6 0.11
29 27 0.51
31 7 0.13
32 8 0.15
33 5 0.09
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (29 bp):
AATAAAATTTTAAATTTTGATTATATTTA
Found at i:11132137 original size:25 final size:25
Alignment explanation
Indices: 11132085--11132172 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
11132075 TTTTTATTAT
* * *
11132085 ATTTAAATAAAATTTT-AATCTTTG
1 ATTTATATTAAATTTTCAATCTTTA
11132109 ATTTATATTAAATTTTCAAT-TTTCA
1 ATTTATATTAAATTTTCAATCTTT-A
** *
11132134 ATTTATAAAAAATTTTGAATCTTTA
1 ATTTATATTAAATTTTCAATCTTTA
11132159 ATTTATATTTAAAT
1 ATTTATA-TTAAAT
11132173 AAACTCTTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
24 17 0.33
25 28 0.54
26 7 0.13
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTATATTAAATTTTCAATCTTTA
Found at i:11132253 original size:23 final size:23
Alignment explanation
Indices: 11132208--11132254 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11132198 TATTTAAAAT
** *
11132208 AAAATTTATTTGAATACAATAAA
1 AAAATTTATTAAAAAACAATAAA
*
11132231 AAAATTTATTAAAAAACATTAAA
1 AAAATTTATTAAAAAACAATAAA
11132254 A
1 A
11132255 GCATAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAATTTATTAAAAAACAATAAA
Found at i:11133419 original size:21 final size:19
Alignment explanation
Indices: 11133388--11133433 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
11133378 TATAAAAAAT
11133388 ATTTTTTTAATTTTATTAA
1 ATTTTTTTAATTTTATTAA
11133407 ATTTATTTATAATTTTATTAAA
1 ATTT-TTT-TAATTTTATT-AA
11133429 ATTTT
1 ATTTT
11133434 AGATTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.17
20 3 0.12
21 11 0.46
22 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTTTAATTTTATTAA
Done.