Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009584.1 Hibiscus syriacus cultivar Beakdansim tig00116961_pilon, 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: 2003061
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:3535 original size:22 final size:22
Alignment explanation
Indices: 3507--3552 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
3497 TCAATACTTC
3507 AAAGTTGAAGGACTAAATTTAT
1 AAAGTTGAAGGACTAAATTTAT
*
3529 AAAGTTGAATGACTAAATTTAT
1 AAAGTTGAAGGACTAAATTTAT
3551 AA
1 AA
3553 TTAAACCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (22 bp):
AAAGTTGAAGGACTAAATTTAT
Found at i:4333 original size:25 final size:25
Alignment explanation
Indices: 4299--4347 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
4289 AAGGGTCAAG
4299 GAAAACAAATAGTTTGAATCAGATT
1 GAAAACAAATAGTTTGAATCAGATT
4324 GAAAACAAATAGTTTGAATCAGAT
1 GAAAACAAATAGTTTGAATCAGAT
4348 CAATTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (25 bp):
GAAAACAAATAGTTTGAATCAGATT
Found at i:6928 original size:20 final size:20
Alignment explanation
Indices: 6903--6942 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6893 TCCATTCTAT
6903 GATGGAATTCAATTCTCTTG
1 GATGGAATTCAATTCTCTTG
6923 GATGGAATTCAATTCTCTTG
1 GATGGAATTCAATTCTCTTG
6943 TTGGAGGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
GATGGAATTCAATTCTCTTG
Found at i:8769 original size:75 final size:75
Alignment explanation
Indices: 8646--8796 Score: 293
Period size: 75 Copynumber: 2.0 Consensus size: 75
8636 TCCTTTGATC
8646 AGTACTCGATATCCACTTCTAACTGTGTATATTCCTATATGCTTCCCCCTCAAACCTTAACATCT
1 AGTACTCGATATCCACTTCTAACTGTGTATATTCCTATATGCTTCCCCCTCAAACCTTAACATCT
8711 TGTTGATCGA
66 TGTTGATCGA
*
8721 AGTACTCGATATCCACTTCTAATTGTGTATATTCCTATATGCTTCCCCCTCAAACCTTAACATCT
1 AGTACTCGATATCCACTTCTAACTGTGTATATTCCTATATGCTTCCCCCTCAAACCTTAACATCT
8786 TGTTGATCGA
66 TGTTGATCGA
8796 A
1 A
8797 CTTTGCGATT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (75 bp):
AGTACTCGATATCCACTTCTAACTGTGTATATTCCTATATGCTTCCCCCTCAAACCTTAACATCT
TGTTGATCGA
Found at i:22116 original size:2 final size:2
Alignment explanation
Indices: 22109--22141 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22099 TTTGAAATAA
22109 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22142 AAGGTATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22973 original size:17 final size:18
Alignment explanation
Indices: 22934--22981 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
22924 TATTTATGAG
22934 GGAATTGAAATCTGTGAA
1 GGAATTGAAATCTGTGAA
*
22952 GGAATTGAAATCTGT-CA
1 GGAATTGAAATCTGTGAA
22969 GGAATTGAAATCT
1 GGAATTGAAATCT
22982 AATTCCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (18 bp):
GGAATTGAAATCTGTGAA
Found at i:24346 original size:37 final size:38
Alignment explanation
Indices: 24270--24343 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
24260 AGATGAAACG
*
24270 GAAGAGGAAAAAGAGGGGAAGGGAAGACAATCTGTTTC
1 GAAGAGGAAAAAGAGGGAAAGGGAAGACAATCTGTTTC
*
24308 GAAGAGGAAAAAGAGGGAAAGGGGAGACAATCTGTT
1 GAAGAGGAAAAAGAGGGAAAGGGAAGACAATCTGTT
24344 CGACAGATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.43, C:0.07, G:0.38, T:0.12
Consensus pattern (38 bp):
GAAGAGGAAAAAGAGGGAAAGGGAAGACAATCTGTTTC
Found at i:25836 original size:13 final size:13
Alignment explanation
Indices: 25818--25860 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
25808 ATTTAATTAT
25818 TTAAAATTTAAAA
1 TTAAAATTTAAAA
25831 TTAAAAATTTAAAA
1 TT-AAAATTTAAAA
* *
25845 ATACAATTTAAAA
1 TTAAAATTTAAAA
25858 TTA
1 TTA
25861 TTTATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TTAAAATTTAAAA
Found at i:25844 original size:8 final size:7
Alignment explanation
Indices: 25816--25859 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
25806 GTATTTAATT
25816 ATTTAAA
1 ATTTAAA
25823 ATTTAAA
1 ATTTAAA
*
25830 ATTAAAA
1 ATTTAAA
25837 ATTTAAA
1 ATTTAAA
* *
25844 A-ATACA
1 ATTTAAA
25850 ATTTAAA
1 ATTTAAA
25857 ATT
1 ATT
25860 ATTTATATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (7 bp):
ATTTAAA
Found at i:27079 original size:5 final size:5
Alignment explanation
Indices: 27066--27120 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
27056 AATTTTTGTA
* * *
27066 TATAG TATAT TATAT TAT-T ATATAT TATA- TATCT TATAG TATATT TATAT
1 TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TATAT TATA-T TATAT
27116 TATAT
1 TATAT
27121 AGTATAAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
4 4 0.10
5 32 0.78
6 5 0.12
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:27096 original size:2 final size:2
Alignment explanation
Indices: 27064--27266 Score: 67
Period size: 2 Copynumber: 104.5 Consensus size: 2
27054 CGAATTTTTG
*
27064 TA TA TA GTA TA T- TA TA T- TA T- TA TA TA T- TA TA TA TC T- TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
27102 TA GTA TA TT TA TA T- TA TA TA GTA TA AA CA TA CTA TA TGA T- TA
1 TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA T-A TA TA
* * * * *
27144 TA TA TT TA T- TA TA TA GTA TA TT TA TA -A TA TA TA GCA TG CA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * *
27186 TA CA T- TA TA TT TA TA T- TA TA TGG TA CA TA TA T- TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
* **
27226 TT TA TA T- TA CG TA TA T- TA TA TCA T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
27266 T
1 T
27267 TATTACATAT
Statistics
Matches: 145, Mismatches: 32, Indels: 48
0.64 0.14 0.21
Matches are distributed among these distances:
1 15 0.10
2 114 0.79
3 16 0.11
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27102 original size:9 final size:9
Alignment explanation
Indices: 27064--27289 Score: 74
Period size: 9 Copynumber: 24.1 Consensus size: 9
27054 CGAATTTTTG
*
27064 TATATAGTA
1 TATATATTA
27073 TATTATATTA
1 TA-TATATTA
27083 TTATATATTA
1 -TATATATTA
*
27093 TATATCTTA
1 TATATATTA
27102 TAGTATATT-
1 TA-TATATTA
27111 TATATTATATA
1 TATA-TAT-TA
* *
27122 GTATAAACATA
1 -TATATA-TTA
27133 CTATATGATTA
1 -TATAT-ATTA
27144 TATAT-TTA
1 TATATATTA
*
27152 TTATATAGTA
1 -TATATATTA
* *
27162 TATTTATAA
1 TATATATTA
**
27171 TATATAGCA
1 TATATATTA
*
27180 TGCATATA-CA
1 T--ATATATTA
27190 T-TATATTTA
1 TATATA-TTA
27199 TATTATATGGTA
1 TA-TATAT--TA
*
27211 CATATATTA
1 TATATATTA
27220 T-T-TA-TA
1 TATATATTA
*
27226 TTTATATTA
1 TATATATTA
**
27235 CGTATATTA
1 TATATATTA
*
27244 TAT-CATTA
1 TATATATTA
27252 TATATA-TA
1 TATATATTA
27260 TATATATTA
1 TATATATTA
*
27269 TTACATATTA
1 -TATATATTA
*
27279 CATATTATTA
1 TATA-TATTA
27289 T
1 T
27290 TAAACCTATA
Statistics
Matches: 163, Mismatches: 28, Indels: 51
0.67 0.12 0.21
Matches are distributed among these distances:
6 3 0.02
7 7 0.04
8 23 0.14
9 54 0.33
10 43 0.26
11 25 0.15
12 8 0.05
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (9 bp):
TATATATTA
Found at i:27276 original size:20 final size:20
Alignment explanation
Indices: 27237--27291 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
27227 TTATATTACG
* *
27237 TATAT-TATATCATTATATA
1 TATATATATATTATTACATA
27256 TATATATATATTATTACATA
1 TATATATATATTATTACATA
*
27276 T-TACATATTATTATTA
1 TATATATA-TATTATTA
27292 AACCTATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATATATATTATTACATA
Found at i:28509 original size:32 final size:32
Alignment explanation
Indices: 28470--28559 Score: 180
Period size: 32 Copynumber: 2.8 Consensus size: 32
28460 TTTTTATTTA
28470 TTTATTTACTCATTTGTTTTTTCATTGTTATT
1 TTTATTTACTCATTTGTTTTTTCATTGTTATT
28502 TTTATTTACTCATTTGTTTTTTCATTGTTATT
1 TTTATTTACTCATTTGTTTTTTCATTGTTATT
28534 TTTATTTACTCATTTGTTTTTTCATT
1 TTTATTTACTCATTTGTTTTTTCATT
28560 CTATTTACTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.69
Consensus pattern (32 bp):
TTTATTTACTCATTTGTTTTTTCATTGTTATT
Found at i:28564 original size:25 final size:25
Alignment explanation
Indices: 28536--28602 Score: 134
Period size: 25 Copynumber: 2.7 Consensus size: 25
28526 TTGTTATTTT
28536 TATTTACTCATTTGTTTTTTCATTC
1 TATTTACTCATTTGTTTTTTCATTC
28561 TATTTACTCATTTGTTTTTTCATTC
1 TATTTACTCATTTGTTTTTTCATTC
28586 TATTTACTCATTTGTTT
1 TATTTACTCATTTGTTT
28603 ATGTTTTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.16, C:0.15, G:0.04, T:0.64
Consensus pattern (25 bp):
TATTTACTCATTTGTTTTTTCATTC
Found at i:28603 original size:12 final size:12
Alignment explanation
Indices: 28469--28603 Score: 61
Period size: 12 Copynumber: 11.8 Consensus size: 12
28459 ATTTTTATTT
*
28469 ATTTATTTACTC
1 ATTTGTTTACTC
**
28481 ATTTGTTTTTTC
1 ATTTGTTTACTC
28493 A-TTG-TTA-T-
1 ATTTGTTTACTC
* *
28501 TTTTATTTACTC
1 ATTTGTTTACTC
**
28513 ATTTGTTTTTTC
1 ATTTGTTTACTC
28525 A-TTG-TTA-T-
1 ATTTGTTTACTC
* *
28533 TTTTATTTACTC
1 ATTTGTTTACTC
**
28545 ATTTGTTTTTTC
1 ATTTGTTTACTC
*
28557 ATTCTATTTACTC
1 ATT-TGTTTACTC
**
28570 ATTTGTTTTTTC
1 ATTTGTTTACTC
*
28582 ATTCTATTTACTC
1 ATT-TGTTTACTC
28595 ATTTGTTTA
1 ATTTGTTTA
28604 TGTTTTTTCT
Statistics
Matches: 86, Mismatches: 27, Indels: 20
0.65 0.20 0.15
Matches are distributed among these distances:
9 6 0.07
10 10 0.12
11 8 0.09
12 44 0.51
13 18 0.21
ACGTcount: A:0.17, C:0.12, G:0.05, T:0.66
Consensus pattern (12 bp):
ATTTGTTTACTC
Found at i:34788 original size:13 final size:13
Alignment explanation
Indices: 34757--34800 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
34747 GCCCCGATTA
*
34757 CCCGATTACCCAC
1 CCCGATTACCCGC
34770 CCCGATTACCCGC
1 CCCGATTACCCGC
* *
34783 CTCGA-TACCCGA
1 CCCGATTACCCGC
34795 CCCGAT
1 CCCGAT
34801 AAATATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.20, C:0.50, G:0.14, T:0.16
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:34942 original size:12 final size:11
Alignment explanation
Indices: 34918--34961 Score: 61
Period size: 12 Copynumber: 3.8 Consensus size: 11
34908 CGATTCCCAG
34918 CCCAATACCGA
1 CCCAATACCGA
34929 CCCAATACCCGA
1 CCCAATA-CCGA
*
34941 CCCAATACCTA
1 CCCAATACCGA
34952 GCCCAATACC
1 -CCCAATACC
34962 CGTTTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.34, C:0.48, G:0.07, T:0.11
Consensus pattern (11 bp):
CCCAATACCGA
Found at i:34945 original size:23 final size:24
Alignment explanation
Indices: 34918--34963 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
34908 CGATTCCCAG
34918 CCCAATACCGA-CCCAATACCCGA
1 CCCAATACCGAGCCCAATACCCGA
*
34941 CCCAATACCTAGCCCAATACCCG
1 CCCAATACCGAGCCCAATACCCG
34964 TTTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.33, C:0.48, G:0.09, T:0.11
Consensus pattern (24 bp):
CCCAATACCGAGCCCAATACCCGA
Found at i:41655 original size:55 final size:56
Alignment explanation
Indices: 41557--41691 Score: 132
Period size: 55 Copynumber: 2.4 Consensus size: 56
41547 ATATATCTTC
** *
41557 TAGTATATTTATATTATATATTATAAACATACTATATGATTATA-TA-TTTATTATA
1 TAGTATATTTATATTATATAGCATAAACATACTATAT-ATTATAGTACTATATTATA
**
41612 TAGTATATTTATATTATATAGCATGCACATAC-ATTATATTTATAGTACGTATATTATA
1 TAGTATATTTATATTATATAGCATAAACATACTA-TATA-TTATAGTAC-TATATTATA
* *
41670 TCATTATATATATATATATATA
1 T-AGTATATTTATAT-TATATA
41692 TATATATATT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
54 2 0.03
55 36 0.55
56 2 0.03
58 9 0.14
59 11 0.17
60 6 0.09
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (56 bp):
TAGTATATTTATATTATATAGCATAAACATACTATATATTATAGTACTATATTATA
Found at i:41681 original size:2 final size:2
Alignment explanation
Indices: 41661--41700 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
41651 TTATAGTACG
41661 TA TA T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41701 TATTACATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 31 0.89
3 2 0.06
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:43880 original size:16 final size:17
Alignment explanation
Indices: 43830--43881 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
43820 CAAAAAAATA
43830 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
43847 GA-TT-AAAG-TAGGAGT
1 AATTTGAAAGTTA-GAGT
43862 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
43878 AATT
1 AATT
43882 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 2 0.07
15 9 0.31
16 11 0.38
17 5 0.17
18 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:46914 original size:2 final size:2
Alignment explanation
Indices: 46907--46983 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
46897 TATTCCGAAT
46907 TA TA TA TA TA TA 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 TA TA TA TA TA TA
46949 TA TA 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 TA TA T
46984 CAATTAAAAG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48602 original size:19 final size:19
Alignment explanation
Indices: 48578--48620 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
48568 TTATGTATCG
48578 ATGCATAGATAATGCATCA
1 ATGCATAGATAATGCATCA
* *
48597 ATGCATAGATAGTGCATCG
1 ATGCATAGATAATGCATCA
48616 ATGCA
1 ATGCA
48621 CCCATCATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (19 bp):
ATGCATAGATAATGCATCA
Found at i:49285 original size:23 final size:23
Alignment explanation
Indices: 49255--49300 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
49245 ATAATCTTAT
*
49255 ATTCTACGAGACACTTTGGTGCA
1 ATTCTACGAGACACTTCGGTGCA
* *
49278 ATTCTACGTGGCACTTCGGTGCA
1 ATTCTACGAGACACTTCGGTGCA
49301 TTTATATGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (23 bp):
ATTCTACGAGACACTTCGGTGCA
Found at i:55546 original size:63 final size:64
Alignment explanation
Indices: 55407--55566 Score: 186
Period size: 63 Copynumber: 2.5 Consensus size: 64
55397 ATTGTTCAAG
* * *
55407 GTGTATCGATGCACATGAAGTGCATCGATGCACTACTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACTACCTTAAAATAAAAACATCGAATGCCATCA
* *
55471 GTGTATCGATGCACAAGTAGTGCATCGATGCAC-ACCCTT-AAATACAAACATCGAATAG-GATT
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACTA-CCTTAAAATAAAAACATCGAAT-GCCA-T
*
55533 TA
63 CA
*
55535 -TGTATCGATGCA-TAGATAGTGCATCGATGCAC
1 GTGTATCGATGCACAAG-TAGTGCATCGATGCAC
55567 CCGTCAAGGG
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
62 2 0.02
63 46 0.54
64 37 0.44
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (64 bp):
GTGTATCGATGCACAAGTAGTGCATCGATGCACTACCTTAAAATAAAAACATCGAATGCCATCA
Found at i:56236 original size:23 final size:23
Alignment explanation
Indices: 56210--56292 Score: 139
Period size: 23 Copynumber: 3.6 Consensus size: 23
56200 AATCTTATAT
* *
56210 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTATGC
56233 GGCACTTCGGTGCAATTCTATGC
1 GGCACTTCGGTGCAATTCTATGC
*
56256 GGCACTTCGGTGCAATTCTATGT
1 GGCACTTCGGTGCAATTCTATGC
56279 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
56293 TTTATACGAG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTATGC
Found at i:58795 original size:21 final size:22
Alignment explanation
Indices: 58770--58976 Score: 69
Period size: 23 Copynumber: 9.2 Consensus size: 22
58760 TTTCATGCCT
58770 TTTATAC-TATTATACATTTCA
1 TTTATACATATTATACATTTCA
** *
58791 TTTATGACATCATT-T-CATGCCT
1 TTTAT-ACAT-ATTATACATTTCA
58813 TTTATACAATATTATACATTTCA
1 TTTATAC-ATATTATACATTTCA
* *
58836 TTTATGGCATCCTT-T-CATGCTT--
1 TTTAT-ACAT-ATTATACAT--TTCA
58858 TTTATACATTATTATACATTTCA
1 TTTATACA-TATTATACATTTCA
* ** *
58881 TTTATAACAT-TCT-TTCATGCCCT
1 TTTAT-ACATAT-TATACAT-TTCA
58904 TTTATA-AGCTATTATACATTTCA
1 TTTATACA--TATTATACATTTCA
* ** *
58927 TTTATAGCATCCTT-T-CATGCCT
1 TTTATA-CAT-ATTATACATTTCA
58949 TTTATACACTATTATACATTTCA
1 TTTATACA-TATTATACATTTCA
58972 TTTAT
1 TTTAT
58977 GGTATCCTTT
Statistics
Matches: 132, Mismatches: 26, Indels: 54
0.62 0.12 0.25
Matches are distributed among these distances:
21 21 0.16
22 42 0.32
23 50 0.38
24 18 0.14
25 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTATACATATTATACATTTCA
Found at i:58839 original size:45 final size:45
Alignment explanation
Indices: 58741--59000 Score: 366
Period size: 45 Copynumber: 5.8 Consensus size: 45
58731 CACCCATATG
*
58741 CATTTCATTTATGGCATCCTTTCATGCCTTTTAT--ACTATTATA
1 CATTTCATTTATGACATCCTTTCATGCCTTTTATACACTATTATA
* *
58784 CATTTCATTTATGACATCATTTCATGCCTTTTATACAATATTATA
1 CATTTCATTTATGACATCCTTTCATGCCTTTTATACACTATTATA
* * *
58829 CATTTCATTTATGGCATCCTTTCATGCTTTTTATACATTATTATA
1 CATTTCATTTATGACATCCTTTCATGCCTTTTATACACTATTATA
* *
58874 CATTTCATTTATAACATTCTTTCATGCCCTTTTATA-AGCTATTATA
1 CATTTCATTTATGACATCCTTTCATG-CCTTTTATACA-CTATTATA
58920 CATTTCATTTAT-AGCATCCTTTCATGCCTTTTATACACTATTATA
1 CATTTCATTTATGA-CATCCTTTCATGCCTTTTATACACTATTATA
** *
58965 CATTTCATTTATGGTATCCTTTCATGTCTTTTATAC
1 CATTTCATTTATGACATCCTTTCATGCCTTTTATAC
59001 TACGTTATGC
Statistics
Matches: 194, Mismatches: 16, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
43 32 0.16
45 123 0.63
46 39 0.20
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.49
Consensus pattern (45 bp):
CATTTCATTTATGACATCCTTTCATGCCTTTTATACACTATTATA
Found at i:58939 original size:91 final size:89
Alignment explanation
Indices: 58741--59000 Score: 373
Period size: 91 Copynumber: 2.9 Consensus size: 89
58731 CACCCATATG
*
58741 CATTTCATTTATGGCATCCTTTCATGCCTTTTATAC-TATTATACATTTCATTTATGACATCATT
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACATATTATACATTTCATTTATAACATCATT
58805 TCATGCCTTTTATACAATATTATA
66 TCATGCCTTTTATACAATATTATA
*
58829 CATTTCATTTATGGCATCCTTTCATGCTTTTTATACATTATTATACATTTCATTTATAACATTC-
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACA-TATTATACATTTCATTTATAACA-TCA
*
58893 TTTCATGCCCTTTTATA-AGCTATTATA
64 TTTCATG-CCTTTTATACA-ATATTATA
* *** *
58920 CATTTCATTTATAGCATCCTTTCATGCCTTTTATACACTATTATACATTTCATTTATGGTATCCT
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACA-TATTATACATTTCATTTATAACATCAT
*
58985 TTCATGTCTTTTATAC
65 TTCATGCCTTTTATAC
59001 TACGTTATGC
Statistics
Matches: 155, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
88 35 0.23
90 40 0.26
91 80 0.52
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.49
Consensus pattern (89 bp):
CATTTCATTTATGGCATCCTTTCATGCCTTTTATACATATTATACATTTCATTTATAACATCATT
TCATGCCTTTTATACAATATTATA
Found at i:58962 original size:136 final size:133
Alignment explanation
Indices: 58741--59000 Score: 407
Period size: 136 Copynumber: 1.9 Consensus size: 133
58731 CACCCATATG
**
58741 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACTATTATACATTTCATTTATGACATCATTT
1 CATTTCATTTATAACATCCTTTCATGCCTTTTATACTATTATACATTTCATTTATGACATCATTT
58806 CATGCCTTTTATACAATATTATACATTTCATTTATGGCATCCTTTCATG-CTTTTTATACATTAT
66 CATGCCTTTTATACAATATTATACATTTCATTTATGGCATCCTTTCATGTC-TTTTATACATTAT
58870 TATA
130 TATA
*
58874 CATTTCATTTATAACATTCTTTCATGCCCTTTTATAAGCTATTATACATTTCATTTAT-AGCATC
1 CATTTCATTTATAACATCCTTTCATG-CCTTTTAT-A-CTATTATACATTTCATTTATGA-CATC
* * *
58938 CTTTCATGCCTTTTATACACTATTATACATTTCATTTATGGTATCCTTTCATGTCTTTTATAC
62 ATTTCATGCCTTTTATACAATATTATACATTTCATTTATGGCATCCTTTCATGTCTTTTATAC
59001 TACGTTATGC
Statistics
Matches: 116, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
133 23 0.20
134 8 0.07
135 2 0.02
136 82 0.71
137 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.49
Consensus pattern (133 bp):
CATTTCATTTATAACATCCTTTCATGCCTTTTATACTATTATACATTTCATTTATGACATCATTT
CATGCCTTTTATACAATATTATACATTTCATTTATGGCATCCTTTCATGTCTTTTATACATTATT
ATA
Found at i:59122 original size:81 final size:81
Alignment explanation
Indices: 59030--59184 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 81
59020 CATCTAGTTT
* * * * *
59030 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATGATTCACACCTTTTTGTCAAATGCAT
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATAATTCACACATTTCTATCAAATGCAC
59095 AGCTAGGCCATTTATC
66 AGCTAGGCCATTTATC
* * *
59111 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTATCAAATGCAC
1 TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATAATTCACACATTTCTATCAAATGCAC
59176 AGCTAGGCC
66 AGCTAGGCC
59185 TCAAAGGAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
TTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATAATTCACACATTTCTATCAAATGCAC
AGCTAGGCCATTTATC
Found at i:59225 original size:68 final size:68
Alignment explanation
Indices: 59116--59795 Score: 986
Period size: 68 Copynumber: 10.0 Consensus size: 68
59106 TTATCTTTTA
* * * * * *
59116 CTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTATCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
59181 GGC
66 GGC
* * *
59184 CTCAAAGGAACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCATAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
59249 GGC
66 GGC
**
59252 CTCAAAGGCACTTAGCCTTTCATCTAACT-GCATAATTGACACCTTTCTGTCAAATGCGTAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
59316 GGC
66 GGC
*
59319 CTCAAAGGCACTTAGCCTTTCATCTAACT-GACATAATTGACACCTTTCTCTCAAATGCACAGCT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTAG-CATAATTGACACCTTTCTGTCAAATGCACAGCT
*
59383 AGGT
65 AGGC
* * *
59387 CTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
59452 GGC
66 GGC
* *
59455 CTCAAAGGCAGTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTATCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
59520 GGC
66 GGC
* * *
59523 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACATCTTTCTATCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
59588 GGC
66 GGC
* * * * * * *
59591 CTCAAAGGCACTTAACATTTCATTTAACTAGGATAATTGACACATTTCTTTCAATTGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
59656 GGC
66 GGC
** * * * * * * * *
59659 CTCAAATACACTTAGCCTTCCATCTAATTGGCATAGTTAACACCTTTCTGTCAATTGCCCAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
59724 GGC
66 GGC
*
59727 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
59792 GGC
66 GGC
59795 C
1 C
59796 ATTAATCTTT
Statistics
Matches: 549, Mismatches: 61, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
67 66 0.12
68 482 0.88
69 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
GGC
Found at i:60045 original size:55 final size:55
Alignment explanation
Indices: 59976--60108 Score: 169
Period size: 55 Copynumber: 2.4 Consensus size: 55
59966 CATATAATTT
* * *
59976 CTTAGTATGCATTTCCTAGATTTTACACATATCGTGCACATA-AAAAATTCATCCA
1 CTTAGTATGAATTTCTTA-ATTTTACACATATAGTGCACATACAAAAATTCATCCA
* * * **
60031 CTTAGTATGAATTTCTTAAGTTTACGCATATAGTGCCCATACGGAAATTCATCCA
1 CTTAGTATGAATTTCTTAATTTTACACATATAGTGCACATACAAAAATTCATCCA
*
60086 CTTAGTATGTATTTCTTAATTTT
1 CTTAGTATGAATTTCTTAATTTT
60109 TTTGCACACT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
54 19 0.28
55 48 0.72
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (55 bp):
CTTAGTATGAATTTCTTAATTTTACACATATAGTGCACATACAAAAATTCATCCA
Found at i:60488 original size:19 final size:19
Alignment explanation
Indices: 60461--60501 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
60451 GTATTAATAC
60461 TACTATACTATGGTATCAA
1 TACTATACTATGGTATCAA
* *
60480 TACTCTACTATGGTATCGA
1 TACTATACTATGGTATCAA
60499 TAC
1 TAC
60502 CATGTTTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (19 bp):
TACTATACTATGGTATCAA
Found at i:60565 original size:21 final size:21
Alignment explanation
Indices: 60525--60577 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
60515 TGTTTCGAAT
**
60525 GGTATCGATAC-CTTCCCTTC
1 GGTATCGATACTCCCCCCTTC
60545 GGTATCGATACTCCCCCCTTC
1 GGTATCGATACTCCCCCCTTC
60566 GGTATCGATACT
1 GGTATCGATACT
60578 GATTGCATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 11 0.37
21 19 0.63
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.32
Consensus pattern (21 bp):
GGTATCGATACTCCCCCCTTC
Found at i:62924 original size:106 final size:107
Alignment explanation
Indices: 62770--62983 Score: 387
Period size: 106 Copynumber: 2.0 Consensus size: 107
62760 ACAAATCAAT
62770 ACGCTAATTAAATCAATACAATCAAGACTCATGATCCATATAAAATTTCGACCATAATT-ATATA
1 ACGCTAATTAAATCAATACAATCAAGACTCATGATCCATATAAAATTTCGACCATAATTAATA-A
62834 TATTCACTTATTCATAGGTCAACA-TGTCAACCGTCTTAACAA
65 TATTCACTTATTCATAGGTCAACAGTGTCAACCGTCTTAACAA
62876 ACGCTAATTAAATCAATACAATCAAGACTCATGATCCATATAAAATTTCGACCATAATTAATAAT
1 ACGCTAATTAAATCAATACAATCAAGACTCATGATCCATATAAAATTTCGACCATAATTAATAAT
*
62941 ATTCACTTATTCATAGTTCAACATGTGTCAACCGTCTTAACAA
66 ATTCACTTATTCATAGGTCAACA-GTGTCAACCGTCTTAACAA
62984 GAAACAAATG
Statistics
Matches: 104, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
106 83 0.80
107 3 0.03
108 18 0.17
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (107 bp):
ACGCTAATTAAATCAATACAATCAAGACTCATGATCCATATAAAATTTCGACCATAATTAATAAT
ATTCACTTATTCATAGGTCAACAGTGTCAACCGTCTTAACAA
Found at i:64571 original size:16 final size:17
Alignment explanation
Indices: 64536--64571 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
64526 TTATAAGGTG
64536 AAAAATGTAATTATTGT
1 AAAAATGTAATTATTGT
64553 AAAAATGTAATTATT-T
1 AAAAATGTAATTATTGT
64569 AAA
1 AAA
64572 CTAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (17 bp):
AAAAATGTAATTATTGT
Found at i:64972 original size:53 final size:54
Alignment explanation
Indices: 64910--65063 Score: 183
Period size: 53 Copynumber: 2.9 Consensus size: 54
64900 CAATATTCTC
*
64910 AAAT-AATATTGTATCTCAATAATCTTATTCTAAAAAATAATCTTAT-TCCAT-
1 AAATAAATATTGTATTTCAATAATCTTATTCTAAAAAATAATCTTATATCCATG
* * *
64961 AAGATAAATATTGTATTTCAATAATCTTATTCTAATAATTAATCTTATACTCTATG
1 AA-ATAAATATTGTATTTCAATAATCTTATTCTAAAAAATAATCTTATA-TCCATG
* * * *
65017 AACTAAATGTTGCATTTCAATAATTTTATTCT-AAAAATAAT-TTATAT
1 AAATAAATATTGTATTTCAATAATCTTATTCTAAAAAATAATCTTATAT
65064 TTCATGAGCT
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
51 2 0.02
52 3 0.03
53 44 0.50
54 7 0.08
55 30 0.34
56 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.44
Consensus pattern (54 bp):
AAATAAATATTGTATTTCAATAATCTTATTCTAAAAAATAATCTTATATCCATG
Found at i:66631 original size:36 final size:36
Alignment explanation
Indices: 66580--66651 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
66570 TATTCTAGAT
*
66580 TTCTCACTATAGCTCATGAATTGATGTGACTATACA
1 TTCTCACTATAGCTCATGAATTGATGTAACTATACA
* * * *
66616 TTCTCTCTATGGCTCATGACTTGATGTAATTATACA
1 TTCTCACTATAGCTCATGAATTGATGTAACTATACA
66652 ACAAAATATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (36 bp):
TTCTCACTATAGCTCATGAATTGATGTAACTATACA
Found at i:69086 original size:14 final size:15
Alignment explanation
Indices: 69067--69103 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
69057 TAATGTAATT
69067 AATATTTTAT-TTTA
1 AATATTTTATCTTTA
69081 AATATTTTATCTTTA
1 AATATTTTATCTTTA
69096 AAT-TTTTA
1 AATATTTTA
69104 ATTATACGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
AATATTTTATCTTTA
Found at i:69489 original size:20 final size:20
Alignment explanation
Indices: 69460--69497 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
69450 TTTAAGAGTG
69460 ATGCACCGATGCACCAATAC
1 ATGCACCGATGCACCAATAC
*
69480 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
69498 TAATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATAC
Found at i:73467 original size:45 final size:45
Alignment explanation
Indices: 73409--73584 Score: 161
Period size: 45 Copynumber: 4.0 Consensus size: 45
73399 AAACATAGAA
73409 TGCATTT-ATGCATCAATGCACATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCAATGCACATACCATGCATCGATGCACTCAG
* * *** **
73453 TGCATTTGATGCATCGA-CCA-ATTA--ATTTTTC-AAACA-T-AG
1 TGCATTTGATGCATCAATGCACA-TACCATGCATCGATGCACTCAG
*
73492 AATGCATTTTATGCATCAATGCACATACCATGCATCGATGCACTCAG
1 --TGCATTTGATGCATCAATGCACATACCATGCATCGATGCACTCAG
* * *
73539 TGCATTTGATGCATCGATGCACAAGATCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCAATGCAC-ATACCATGCATCGATGCACTCAG
73585 GCTTTTTCAA
Statistics
Matches: 101, Mismatches: 19, Indels: 22
0.71 0.13 0.15
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 18 0.18
42 8 0.08
43 2 0.02
44 15 0.15
45 31 0.31
46 22 0.22
47 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (45 bp):
TGCATTTGATGCATCAATGCACATACCATGCATCGATGCACTCAG
Found at i:73493 original size:85 final size:86
Alignment explanation
Indices: 73384--73555 Score: 337
Period size: 86 Copynumber: 2.0 Consensus size: 86
73374 CATCGATGCC
73384 ACCAATTAATTTTTCAAACATAGAATGCA-TTTATGCATCAATGCACATACCATGCATCGATGCA
1 ACCAATTAATTTTTCAAACATAGAATGCATTTTATGCATCAATGCACATACCATGCATCGATGCA
73448 CTCAGTGCATTTGATGCATCG
66 CTCAGTGCATTTGATGCATCG
73469 ACCAATTAATTTTTCAAACATAGAATGCATTTTATGCATCAATGCACATACCATGCATCGATGCA
1 ACCAATTAATTTTTCAAACATAGAATGCATTTTATGCATCAATGCACATACCATGCATCGATGCA
73534 CTCAGTGCATTTGATGCATCG
66 CTCAGTGCATTTGATGCATCG
73555 A
1 A
73556 TGCACAAGAT
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 29 0.34
86 57 0.66
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (86 bp):
ACCAATTAATTTTTCAAACATAGAATGCATTTTATGCATCAATGCACATACCATGCATCGATGCA
CTCAGTGCATTTGATGCATCG
Found at i:74934 original size:107 final size:107
Alignment explanation
Indices: 74748--74947 Score: 400
Period size: 107 Copynumber: 1.9 Consensus size: 107
74738 AGTCACTCAT
74748 GAAGGCACCGATGAGGTAAAAGAATCTAAAATTAGTCTTCTATCACATAGCTATGAAAATTTCAG
1 GAAGGCACCGATGAGGTAAAAGAATCTAAAATTAGTCTTCTATCACATAGCTATGAAAATTTCAG
74813 GATGAAACCAAGTGAAGATATCAAAACTGATATCAAAAACTA
66 GATGAAACCAAGTGAAGATATCAAAACTGATATCAAAAACTA
74855 GAAGGCACCGATGAGGTAAAAGAATCTAAAATTAGTCTTCTATCACATAGCTATGAAAATTTCAG
1 GAAGGCACCGATGAGGTAAAAGAATCTAAAATTAGTCTTCTATCACATAGCTATGAAAATTTCAG
74920 GATGAAACCAAGTGAAGATATCAAAACT
66 GATGAAACCAAGTGAAGATATCAAAACT
74948 ATGACGGATA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 93 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (107 bp):
GAAGGCACCGATGAGGTAAAAGAATCTAAAATTAGTCTTCTATCACATAGCTATGAAAATTTCAG
GATGAAACCAAGTGAAGATATCAAAACTGATATCAAAAACTA
Found at i:77860 original size:45 final size:45
Alignment explanation
Indices: 77777--77863 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 45
77767 CATCGAATGT
* *
77777 ATTTTATGCATCGATGCACATACCATGAATCGATGCACTCAGTGC
1 ATTTGATGCATCGATGCACAGACCATGAATCGATGCACTCAGTGC
* *
77822 ATTTGATG-ATCGATGCACAAGATCATGCATCGATGCACTCAG
1 ATTTGATGCATCGATGCAC-AGACCATGAATCGATGCACTCAG
77864 ACTTTTTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 10 0.27
45 27 0.73
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (45 bp):
ATTTGATGCATCGATGCACAGACCATGAATCGATGCACTCAGTGC
Found at i:79222 original size:25 final size:25
Alignment explanation
Indices: 79189--79243 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
79179 TAAATAAAAT
*
79189 TAAACCATTCACTTAAAAAGTG-TAA
1 TAAAACATTCACTT-AAAAGTGTTAA
79214 TAAAACATTCACTTAAAAGTGTTAA
1 TAAAACATTCACTTAAAAGTGTTAA
79239 TAAAA
1 TAAAA
79244 TATAGACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (25 bp):
TAAAACATTCACTTAAAAGTGTTAA
Found at i:79733 original size:30 final size:30
Alignment explanation
Indices: 79679--79735 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
79669 GTATAGCTAA
* *
79679 AAAAATTATTTTGAGGTATTAAATTTAGAG
1 AAAAATTATTTTGAAGTATCAAATTTAGAG
*
79709 AAAAATTATTTTGAAGTGTCAAATTTA
1 AAAAATTATTTTGAAGTATCAAATTTA
79736 AAAATTGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (30 bp):
AAAAATTATTTTGAAGTATCAAATTTAGAG
Found at i:80030 original size:18 final size:19
Alignment explanation
Indices: 79995--80031 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
79985 CACGGAATGT
79995 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
80015 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
80032 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:80212 original size:37 final size:37
Alignment explanation
Indices: 80178--80247 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
80168 TACAAATTGT
80178 AAAATATTTATAT-ATTTTCTATAAAAAATTAAATTC
1 AAAATATTTATATAATTTTCTATAAAAAATTAAATTC
* * * *
80214 ATAATATTTATATAATTTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTCTATAAAAAATTAAA
80248 AATATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 12 0.41
37 17 0.59
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (37 bp):
AAAATATTTATATAATTTTCTATAAAAAATTAAATTC
Found at i:80956 original size:18 final size:19
Alignment explanation
Indices: 80915--80959 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
80905 TTATAAATAA
*
80915 ATTATTAAAATTAATATAT
1 ATTATTAAAATTAACATAT
* *
80934 TTTATTGAAA-TAACATAT
1 ATTATTAAAATTAACATAT
80952 ATTATTAA
1 ATTATTAA
80960 TTATGTTAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTATTAAAATTAACATAT
Found at i:81070 original size:11 final size:11
Alignment explanation
Indices: 81056--81106 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
81046 AATAATTACA
81056 TTATAATATAT
1 TTATAATATAT
*
81067 TTATAAAATAT
1 TTATAATATAT
*
81078 TAATAAATATAT
1 TTAT-AATATAT
81090 TT-TAA-ATATT
1 TTATAATATA-T
81100 TTATAAT
1 TTATAAT
81107 CAATATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
9 3 0.09
10 5 0.16
11 17 0.53
12 7 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TTATAATATAT
Found at i:81737 original size:60 final size:60
Alignment explanation
Indices: 81625--81767 Score: 150
Period size: 60 Copynumber: 2.4 Consensus size: 60
81615 ATGAATTTGG
* * * * *
81625 GGATGAAATTGGAATATTCAAAAGTTTGTGGACTAATTTAGAAAGAAGGTCATAG-T-TTA
1 GGATGAAATTAGAATATTCAAAAGTTTGAGAACTAATTCAGAAAGAAGGTCAT-GCTGTGA
* *
81684 GAGATGAAATTAGAATGTTCAAAA-TTTGAAGAACTAATTCAGAATG-AGAGTCATGCTGTGA
1 G-GATGAAATTAGAATATTCAAAAGTTTG-AGAACTAATTCAGAAAGAAG-GTCATGCTGTGA
*
81745 GGATGAAATTAAAATATTCAAAA
1 GGATGAAATTAGAATATTCAAAA
81768 AGTTCAAGGA
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
59 8 0.11
60 59 0.84
61 3 0.04
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.29
Consensus pattern (60 bp):
GGATGAAATTAGAATATTCAAAAGTTTGAGAACTAATTCAGAAAGAAGGTCATGCTGTGA
Found at i:83291 original size:21 final size:20
Alignment explanation
Indices: 83246--83293 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
83236 AGACCGATCC
*
83246 TTATCC-TTCAAGAAATGAT
1 TTATCCTTTCAAGAAAAGAT
* *
83265 TGATCCTTTCAGGCAAAAGAT
1 TTATCCTTTCAAG-AAAAGAT
83286 TTATCCTT
1 TTATCCTT
83294 CCTCAAAAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.22
20 5 0.22
21 13 0.57
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (20 bp):
TTATCCTTTCAAGAAAAGAT
Found at i:89979 original size:15 final size:16
Alignment explanation
Indices: 89946--89985 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
89936 AATTTAAATT
89946 AATTCAAATAGTTTTA
1 AATTCAAATAGTTTTA
89962 AATTCAAA-A-TTTTCA
1 AATTCAAATAGTTTT-A
89977 AA-TCAAATA
1 AATTCAAATA
89986 AAGTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.41
15 5 0.23
16 8 0.36
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (16 bp):
AATTCAAATAGTTTTA
Found at i:98744 original size:30 final size:30
Alignment explanation
Indices: 98680--98782 Score: 93
Period size: 30 Copynumber: 3.4 Consensus size: 30
98670 GAAAGCAAAC
* * * *
98680 CAAAGAAAGAAGAAACTCACCACAAC-AAAC
1 CAAAGAAACAA-AAACCCATCACAACAAAAA
* * *
98710 CAAAGAAAACAAAAACCC-TCACAGCAGAAG
1 CAAAG-AAACAAAAACCCATCACAACAAAAA
*
98740 CAAAGGAAACAAAAGCCCATCACAACAAAAA
1 CAAA-GAAACAAAAACCCATCACAACAAAAA
98771 CAAAGAAACAAA
1 CAAAGAAACAAA
98783 TATAAGGGTA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
29 5 0.08
30 35 0.59
31 19 0.32
ACGTcount: A:0.61, C:0.25, G:0.11, T:0.03
Consensus pattern (30 bp):
CAAAGAAACAAAAACCCATCACAACAAAAA
Found at i:99084 original size:22 final size:22
Alignment explanation
Indices: 99059--99104 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
99049 ATTGGTTTAA
99059 TTATAAATGTAGTCATTCAACT
1 TTATAAATGTAGTCATTCAACT
* *
99081 TTATAAATTTAGTCCTTCAACT
1 TTATAAATGTAGTCATTCAACT
99103 TT
1 TT
99105 GAAGTATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.46
Consensus pattern (22 bp):
TTATAAATGTAGTCATTCAACT
Found at i:105858 original size:16 final size:16
Alignment explanation
Indices: 105821--105860 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
105811 AATAAAACTT
105821 TATTTG-ATTTGAAAA
1 TATTTGAATTTGAAAA
105836 T-TTTGAATTT-AAAA
1 TATTTGAATTTGAAAA
105850 CTATTTGAATT
1 -TATTTGAATT
105861 AATTTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.36
15 6 0.27
16 8 0.36
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (16 bp):
TATTTGAATTTGAAAA
Found at i:108099 original size:36 final size:36
Alignment explanation
Indices: 108030--108099 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
108020 GTTGAGTTGC
** *
108030 TGAAGGAAAAGTTTCGGGTATAGGATAAGAAGGGAT
1 TGAAGGAAAAGTTTCGGGTATAAAAGAAGAAGGGAT
* * *
108066 TGAAGGAAGAGTTTTGGGTATAAAAGAATAAGGG
1 TGAAGGAAAAGTTTCGGGTATAAAAGAAGAAGGG
108100 GCTGATATCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.40, C:0.01, G:0.36, T:0.23
Consensus pattern (36 bp):
TGAAGGAAAAGTTTCGGGTATAAAAGAAGAAGGGAT
Found at i:110834 original size:29 final size:31
Alignment explanation
Indices: 110766--110831 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 31
110756 TGTTCAAAGT
* *
110766 TTGGCCACCAACCAAGATGAAATTTCTAATAAG
1 TTGGCCACCAACCAAGATGAAATTTC--ACAAC
110799 TTGGCCACCAACCAAGATGAAATTTC-CAAC
1 TTGGCCACCAACCAAGATGAAATTTCACAAC
110829 TTG
1 TTG
110832 CCAACTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
33 26 0.84
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (31 bp):
TTGGCCACCAACCAAGATGAAATTTCACAAC
Found at i:117308 original size:21 final size:19
Alignment explanation
Indices: 117281--117329 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
117271 TCCTTTTGAG
*
117281 GAAGGATAAATCTTTTGCCT
1 GAAGGATAAATCATTT-CCT
* *
117301 GAAAGGATCAATCATTTCTT
1 G-AAGGATAAATCATTTCCT
117321 GAAGGATAA
1 GAAGGATAA
117330 GGATCGGTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 13 0.54
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (19 bp):
GAAGGATAAATCATTTCCT
Found at i:119645 original size:30 final size:30
Alignment explanation
Indices: 119611--119667 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
119601 ATACAATTTT
* *
119611 TAAATTTGACACTTCAAAATAATTTTTCTC
1 TAAATTTAACACCTCAAAATAATTTTTCTC
*
119641 TAAATTTAATACCTCAAAATAATTTTT
1 TAAATTTAACACCTCAAAATAATTTTT
119668 TTAGCTATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (30 bp):
TAAATTTAACACCTCAAAATAATTTTTCTC
Found at i:120095 original size:18 final size:19
Alignment explanation
Indices: 120061--120096 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
120051 ATAATTTAGC
120061 TCAATATTTATTATTATTG
1 TCAATATTTATTATTATTG
*
120080 TCAATA-TTATTTTTATT
1 TCAATATTTATTATTATT
120097 TCCATTGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (19 bp):
TCAATATTTATTATTATTG
Found at i:120141 original size:26 final size:27
Alignment explanation
Indices: 120111--120168 Score: 109
Period size: 26 Copynumber: 2.2 Consensus size: 27
120101 TTGGTCTATA
120111 TTTTATTAACACTTTTTAAGTGAAT-G
1 TTTTATTAACACTTTTTAAGTGAATGG
120137 TTTTATTAACACTTTTTAAGTGAATGG
1 TTTTATTAACACTTTTTAAGTGAATGG
120164 TTTTA
1 TTTTA
120169 ATTTTATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (27 bp):
TTTTATTAACACTTTTTAAGTGAATGG
Found at i:121468 original size:19 final size:19
Alignment explanation
Indices: 121417--121460 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
121407 TTGGACCCTT
121417 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
121436 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
121455 AGTGCA
1 AGTGCA
121461 ACGATGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.20
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:121550 original size:46 final size:45
Alignment explanation
Indices: 121497--121584 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 45
121487 TTGAAAAAGT
* *
121497 CTGAGTGCATCGATGCATGATCTTGTGCATCGATACATCAAATGCA
1 CTGAGTGCATCGATGCATGAT-ATGTGCATCGATACATAAAATGCA
* * *
121543 CTGAGTGCATCGATTCATGGTATGTGCATCGATGCATAAAAT
1 CTGAGTGCATCGATGCATGATATGTGCATCGATACATAAAAT
121585 ACATTCGATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 18 0.49
46 19 0.51
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (45 bp):
CTGAGTGCATCGATGCATGATATGTGCATCGATACATAAAATGCA
Found at i:125775 original size:19 final size:19
Alignment explanation
Indices: 125724--125767 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
125714 TTGGACCCTT
125724 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
125743 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
125762 AGTGCA
1 AGTGCA
125768 ACGATGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.20
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:125857 original size:46 final size:45
Alignment explanation
Indices: 125804--125891 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 45
125794 TTGAAAAAGT
* *
125804 CTGAGTGCATCGATGCATGATCTTGTGCATCGATACATCAAATGCA
1 CTGAGTGCATCGATGCATGAT-ATGTGCATCGATACATAAAATGCA
* * *
125850 CTGAGTGCATCGATTCATGGTATGTGCATCGATGCATAAAAT
1 CTGAGTGCATCGATGCATGATATGTGCATCGATACATAAAAT
125892 ACATTCGATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 18 0.49
46 19 0.51
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (45 bp):
CTGAGTGCATCGATGCATGATATGTGCATCGATACATAAAATGCA
Found at i:128099 original size:21 final size:19
Alignment explanation
Indices: 128075--128118 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 19
128065 GAGTTTATTT
128075 TCATTTTTCA-ATTTTGAAATA
1 TCATTTTT-ATATTTT-AAA-A
128096 TCATTTTTATATTTTAAAA
1 TCATTTTTATATTTTAAAA
128115 TCAT
1 TCAT
128119 CTAATAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.23
20 4 0.18
21 13 0.59
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (19 bp):
TCATTTTTATATTTTAAAA
Found at i:130139 original size:45 final size:46
Alignment explanation
Indices: 130054--130141 Score: 133
Period size: 45 Copynumber: 1.9 Consensus size: 46
130044 AAAAAGCCTG
* *
130054 AGTGCATCGATGCATGATCTTGTGCATCGATGCATCAAATGCACTT
1 AGTGCATCGATGCATGATCATGTGCATCGATGCATAAAATGCACTT
* *
130100 AGTGCATCGATGCATGGT-ATGTGCATTGATGCATAAAATGCA
1 AGTGCATCGATGCATGATCATGTGCATCGATGCATAAAATGCA
130142 TTCTATGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
45 21 0.55
46 17 0.45
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (46 bp):
AGTGCATCGATGCATGATCATGTGCATCGATGCATAAAATGCACTT
Found at i:130186 original size:20 final size:20
Alignment explanation
Indices: 130161--130198 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
130151 TGAAAAATTA
130161 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
130181 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
130199 CACTCTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:132265 original size:22 final size:21
Alignment explanation
Indices: 132223--132262 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
132213 GAGTTTATTT
*
132223 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
132244 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
132263 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:134338 original size:19 final size:19
Alignment explanation
Indices: 134300--134338 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
134290 AATGCACTGA
* **
134300 GTGCATCGATGCATGGTAT
1 GTGCATCGATGAATAATAT
134319 GTGCATCGATGAATAATAT
1 GTGCATCGATGAATAATAT
134338 G
1 G
134339 CATTCGATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGAATAATAT
Found at i:134340 original size:45 final size:46
Alignment explanation
Indices: 134250--134340 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
134240 TTGAAAAAGC
* *
134250 CTGAGTGCATCGATGCATGATCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGATCATGTGCATCGATGAATCAAATGCA
*
134296 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGAAT-AATATGCA
1 CTGAGTGCATCGATGCATGATCATGTGCATCGATGAATCAA-ATGCA
134341 TTCGATGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
44 2 0.05
45 19 0.46
46 20 0.49
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGATCATGTGCATCGATGAATCAAATGCA
Found at i:134385 original size:20 final size:20
Alignment explanation
Indices: 134360--134397 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
134350 TGAAAAATTA
134360 ATTGGTGCATCGATGCATGT
1 ATTGGTGCATCGATGCATGT
*
134380 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
134398 CACTCTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGT
Found at i:134784 original size:14 final size:15
Alignment explanation
Indices: 134754--134790 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
134744 AGCGTATAAT
134754 TAAAA-ATTTAAAGA
1 TAAAATATTTAAAGA
134768 TAAAATATTTAAA-A
1 TAAAATATTTAAAGA
134782 TAAAATATT
1 TAAAATATT
134791 AATTACATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
TAAAATATTTAAAGA
Found at i:134792 original size:13 final size:14
Alignment explanation
Indices: 134756--134792 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
134746 CGTATAATTA
134756 AAAAT-TTAAAGAT
1 AAAATATTAAAGAT
134769 AAAATATTTAAA-AT
1 AAAATA-TTAAAGAT
134783 AAAATATTAA
1 AAAATATTAA
134793 TTACATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.41
14 8 0.36
15 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
AAAATATTAAAGAT
Found at i:135139 original size:16 final size:17
Alignment explanation
Indices: 135104--135141 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
135094 TTTGAGGGCT
*
135104 TTTTTAAATTTAATTTA
1 TTTTTAAATTTAATTAA
*
135121 TTTTTAATTTTAA-TAA
1 TTTTTAAATTTAATTAA
135137 TTTTT
1 TTTTT
135142 CCTCCAAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTAAATTTAATTAA
Found at i:137264 original size:36 final size:36
Alignment explanation
Indices: 137215--137286 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
137205 GATATTTTGT
*
137215 TGTATAATTACATCAAGTCATGAGCCATAGAGAGAA
1 TGTATAATCACATCAAGTCATGAGCCATAGAGAGAA
* * * *
137251 TGTATAGTCACATCAATTCATGAGCTATAGTGAGAA
1 TGTATAATCACATCAAGTCATGAGCCATAGAGAGAA
137287 ATCTAGAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (36 bp):
TGTATAATCACATCAAGTCATGAGCCATAGAGAGAA
Found at i:138968 original size:55 final size:54
Alignment explanation
Indices: 138819--138971 Score: 193
Period size: 55 Copynumber: 2.8 Consensus size: 54
138809 TAGCTCATGA
* * *
138819 AATATAA-ATTATTTTTAGAATAAAATTATTGAAATGCAACATTTAGTTCATAG
1 AATATAAGATTATTTTTAGAATAAGATTATTGAAATACAATATTTAGTTCATAG
* * * *
138872 AGTATAAGATTAATTATTAGAATAAGATTATTGAAATACAATATTTA-TCTTATGG
1 AATATAAGATT-ATTTTTAGAATAAGATTATTGAAATACAATATTTAGT-TCATAG
*
138927 AATATAAGATTATTTTTTAGAATAAGATTATTGAGATACAATATT
1 AATATAAGATTA-TTTTTAGAATAAGATTATTGAAATACAATATT
138972 ATTTGAGAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
53 6 0.07
54 5 0.06
55 75 0.87
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (54 bp):
AATATAAGATTATTTTTAGAATAAGATTATTGAAATACAATATTTAGTTCATAG
Found at i:139354 original size:16 final size:16
Alignment explanation
Indices: 139320--139355 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
139310 AAAATATTAG
139320 TTTAAATAATTACATT
1 TTTAAATAATTACATT
139336 TTTACAATAATTACATT
1 TTTA-AATAATTACATT
139353 TTT
1 TTT
139356 CACCTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAATAATTACATT
Found at i:148956 original size:22 final size:19
Alignment explanation
Indices: 148927--148966 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 19
148917 TACAAGAGAG
148927 TTTACACTCACTGTTTTTTTA
1 TTTACACT--CTGTTTTTTTA
148948 TTTATCACTCTGTTTTTTT
1 TTTA-CACTCTGTTTTTTT
148967 CCCGGTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.15, C:0.17, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTACACTCTGTTTTTTTA
Found at i:149444 original size:3 final size:3
Alignment explanation
Indices: 149438--149512 Score: 93
Period size: 3 Copynumber: 25.7 Consensus size: 3
149428 AAATTATTAG
* *
149438 TAA TAA TAA TAA TAA T-A TAT TAA T-A TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
149484 TAA TAA AAA TAA TAA TAA TTAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA
149513 TATATTTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
2 6 0.10
3 53 0.85
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:149517 original size:9 final size:8
Alignment explanation
Indices: 149438--149516 Score: 71
Period size: 8 Copynumber: 10.2 Consensus size: 8
149428 AAATTATTAG
149438 TAATAATAA
1 TAATAAT-A
149447 TAATAATA
1 TAATAATA
*
149455 TATTAATA
1 TAATAATA
149463 TAATAATAA
1 TAATAAT-A
149472 TAATAA-A
1 TAATAATA
149479 -AATAATAA
1 TAATAAT-A
149487 TAA-AA-A
1 TAATAATA
149493 TAATAATA
1 TAATAATA
*
149501 -ATTAATA
1 TAATAATA
149508 TAAT-ATA
1 TAATAATA
149515 TA
1 TA
149517 TTTTTAATCC
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
6 9 0.15
7 14 0.24
8 20 0.34
9 16 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TAATAATA
Found at i:149728 original size:14 final size:14
Alignment explanation
Indices: 149709--149737 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
149699 TTTGTTTAGC
149709 AGTGATTGATTTCT
1 AGTGATTGATTTCT
149723 AGTGATTGATTTCT
1 AGTGATTGATTTCT
149737 A
1 A
149738 ATTTTAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (14 bp):
AGTGATTGATTTCT
Found at i:154914 original size:14 final size:15
Alignment explanation
Indices: 154895--154924 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
154885 TAATGTAATT
154895 AATATTTTAT-TTTA
1 AATATTTTATCTTTA
154909 AATATTTTATCTTTA
1 AATATTTTATCTTTA
154924 A
1 A
154925 TTTCTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
AATATTTTATCTTTA
Found at i:156396 original size:2 final size:2
Alignment explanation
Indices: 156389--156470 Score: 164
Period size: 2 Copynumber: 41.0 Consensus size: 2
156379 AATTGGTTAC
156389 AT AT AT AT 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 AT AT AT AT
156431 AT AT AT 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 AT AT AT
156471 GAAGTTAACC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:159402 original size:58 final size:58
Alignment explanation
Indices: 159307--159424 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 58
159297 CACTCCGGTC
159307 ATAACTGATCACACAAGTAACTCATATACAAAGGATCCTGAATACCCCATTTGGTTCA
1 ATAACTGATCACACAAGTAACTCATATACAAAGGATCCTGAATACCCCATTTGGTTCA
* * *
159365 ATAATTGATCATACAAGTAACTCATATGCAAAGGATCCTGAATACCCCATTTGGTTCA
1 ATAACTGATCACACAAGTAACTCATATACAAAGGATCCTGAATACCCCATTTGGTTCA
159423 AT
1 AT
159425 CAGATTTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (58 bp):
ATAACTGATCACACAAGTAACTCATATACAAAGGATCCTGAATACCCCATTTGGTTCA
Found at i:167962 original size:16 final size:16
Alignment explanation
Indices: 167915--167965 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
167905 GTAAATTAAA
*
167915 TTTGGATTGCTTTCGA
1 TTTGGATTGCTTTCGG
* **
167931 TTTGGGTTATTTTCGG
1 TTTGGATTGCTTTCGG
167947 TTTGGATTGCTTTCGG
1 TTTGGATTGCTTTCGG
167963 TTT
1 TTT
167966 AAATTAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.08, C:0.10, G:0.27, T:0.55
Consensus pattern (16 bp):
TTTGGATTGCTTTCGG
Found at i:167982 original size:32 final size:32
Alignment explanation
Indices: 167910--167992 Score: 76
Period size: 32 Copynumber: 2.6 Consensus size: 32
167900 TTTGAGTAAA
* *** *
167910 TTAAATTTGGATTGCTTTCGATTTGGGTTATT
1 TTAAGTTTGGATTGCTTTCGATTTAAATTAAT
** *
167942 TTCGGTTTGGATTGCTTTCGGTTTAAATTAAT
1 TTAAGTTTGGATTGCTTTCGATTTAAATTAAT
* *
167974 TTAAGTTTGGGTTACTTTC
1 TTAAGTTTGGATTGCTTTC
167993 AGATCGGGTT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.18, C:0.08, G:0.22, T:0.52
Consensus pattern (32 bp):
TTAAGTTTGGATTGCTTTCGATTTAAATTAAT
Found at i:168077 original size:63 final size:65
Alignment explanation
Indices: 167924--168092 Score: 168
Period size: 63 Copynumber: 2.6 Consensus size: 65
167914 ATTTGGATTG
* * * *
167924 CTTTCGATTTGGGTT-ATTTTCGGTTTGGATTGCTTTCGGTT-TAAATTAATTTAAGTTTGGGTT
1 CTTTCGATTAGGGTTAATTTT-GGTTTGGATTGCTTTCGATTCTAAATTAATTTAAGTATGGGCT
167987 A
65 A
* * * * * * *
167988 CTTTCAGA-TCGGGTTAAATTTAGTTTGGGTTGCTTTCGATTCT-TATT-TTTTTAGTATGGGCT
1 CTTTC-GATTAGGGTTAATTTTGGTTTGGATTGCTTTCGATTCTAAATTAATTTAAGTATGGGCT
168050 A
65 A
**
168051 CTTTCGATTAGGGTTAATTTTGGTTTGGATTATTTTCGATTC
1 CTTTCGATTAGGGTTAATTTTGGTTTGGATTGCTTTCGATTC
168093 GAGTCAAATT
Statistics
Matches: 85, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
62 2 0.02
63 45 0.53
64 31 0.36
65 7 0.08
ACGTcount: A:0.17, C:0.09, G:0.22, T:0.51
Consensus pattern (65 bp):
CTTTCGATTAGGGTTAATTTTGGTTTGGATTGCTTTCGATTCTAAATTAATTTAAGTATGGGCTA
Found at i:172430 original size:14 final size:13
Alignment explanation
Indices: 172408--172437 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
172398 AATTATATTT
172408 ATTAAAAATTTTA
1 ATTAAAAATTTTA
172421 ATTAATAAATTTTA
1 ATTAA-AAATTTTA
172435 ATT
1 ATT
172438 TAGTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAAAAATTTTA
Found at i:172633 original size:57 final size:53
Alignment explanation
Indices: 172505--172635 Score: 122
Period size: 54 Copynumber: 2.4 Consensus size: 53
172495 TTTTTATTTT
* * * *
172505 AATAATATATAATAATTTATTAAAATAAGTAATTTTAGTTATTATTTTCTTAAA
1 AATAATATTTTATAA-TTATTAAAATAAGTAATATTAGTTATTATTTTATTAAA
* *
172559 AATAATATTATT-GAATTATTAATAATAAGTAATATTATTTTATGTATTTAATATT-AA
1 AATAATATT-TTATAATTATTAA-AATAAGTAATATTA-GTTAT-TATTT--TATTAAA
*
172616 TATAATATTTTATAATTATT
1 AATAATATTTTATAATTATT
172636 TTAAGAAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
53 7 0.11
54 23 0.37
55 5 0.08
56 7 0.11
57 17 0.27
58 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (53 bp):
AATAATATTTTATAATTATTAAAATAAGTAATATTAGTTATTATTTTATTAAA
Found at i:172704 original size:22 final size:22
Alignment explanation
Indices: 172632--172704 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 22
172622 ATTTTATAAT
*
172632 TATTTTAAGAAAATATTAATTATAA
1 TATTTT-AG-AAATA-TAATTTTAA
* * *
172657 AATATTTA-AAATATACTTATTTA
1 TAT-TTTAGAAATATAATT-TTAA
172680 TATTTTAGAAATATAATTTTAA
1 TATTTTAGAAATATAATTTTAA
172702 TAT
1 TAT
172705 CATATTTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
22 14 0.37
23 18 0.47
25 3 0.08
26 3 0.08
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (22 bp):
TATTTTAGAAATATAATTTTAA
Found at i:172841 original size:32 final size:30
Alignment explanation
Indices: 172804--172883 Score: 81
Period size: 32 Copynumber: 2.6 Consensus size: 30
172794 GTAGGTAATT
172804 AATATAATTAATAATATATGTTATTTCAATAA
1 AATATAATTAATAATATATGTTATTT--ATAA
** *
172836 AATAT-ATTAATTTTAATATTTTATTTATAA
1 AATATAATTAATAAT-ATATGTTATTTATAA
*
172866 AATTATAAATAATAATAT
1 AA-TATAATTAATAATAT
172884 TTTAATAGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
30 6 0.15
31 12 0.31
32 21 0.54
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AATATAATTAATAATATATGTTATTTATAA
Found at i:172886 original size:29 final size:31
Alignment explanation
Indices: 172805--172887 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 31
172795 TAGGTAATTA
*
172805 ATATAATTAATAATATATGTTATTTCAATAAAAT
1 ATATAAATAATAATAT-T-TTATTT-AATAAAAT
* **
172839 ATATTAATTTTAATATTTTATTT-ATAAAAT
1 ATATAAATAATAATATTTTATTTAATAAAAT
172869 -TATAAATAATAATATTTTA
1 ATATAAATAATAATATTTTA
172888 ATAGTAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 16 0.38
30 7 0.17
32 6 0.14
33 1 0.02
34 12 0.29
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
ATATAAATAATAATATTTTATTTAATAAAAT
Found at i:173394 original size:30 final size:30
Alignment explanation
Indices: 173359--173415 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
173349 ATACAATTTT
* *
173359 TAAATTTGACACTTCAAAATAAATTTTCTC
1 TAAATTTAACACTACAAAATAAATTTTCTC
173389 TAAATTTAACACTACAAAATAAATTTT
1 TAAATTTAACACTACAAAATAAATTTT
173416 TTAACTATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.39
Consensus pattern (30 bp):
TAAATTTAACACTACAAAATAAATTTTCTC
Found at i:173630 original size:16 final size:16
Alignment explanation
Indices: 173609--173644 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
173599 ACATCCAAAT
173609 TATTTTTTCAATTTAA
1 TATTTTTTCAATTTAA
**
173625 TATTTTTTTTATTTAA
1 TATTTTTTCAATTTAA
173641 TATT
1 TATT
173645 AAAAATTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTTTTCAATTTAA
Found at i:178868 original size:8 final size:8
Alignment explanation
Indices: 178855--178888 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
178845 ACCGCAAAGA
178855 TTAATATG
1 TTAATATG
178863 TTAATATG
1 TTAATATG
*
178871 TTAATTTG
1 TTAATATG
178879 TTAATATG
1 TTAATATG
178887 TT
1 TT
178889 TTTCAATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (8 bp):
TTAATATG
Found at i:183158 original size:14 final size:14
Alignment explanation
Indices: 183139--183165 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
183129 GGAGTTAAGA
183139 TCTATAGAGATAGG
1 TCTATAGAGATAGG
183153 TCTATAGAGATAG
1 TCTATAGAGATAG
183166 ATCAAGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (14 bp):
TCTATAGAGATAGG
Found at i:185199 original size:88 final size:89
Alignment explanation
Indices: 185030--185202 Score: 296
Period size: 88 Copynumber: 2.0 Consensus size: 89
185020 TCCCGAATAT
*
185030 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTTAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTTAAATAATAAAATCCCTAATATGATTAG
185095 GGTAACTTAGATATAAAAGGATTA
66 GGTAACTTAGATATAAAAGGATTA
185119 TTAAATTCTAATTAATTAAATATAGATTTAATTAA-TTTAAATAATAAAA-CCCTAATATGATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTTAAATAATAAAATCCCTAATATGATTA
* *
185182 GGGTAACTTGGCTATAAAAGG
65 GGGTAACTTAGATATAAAAGG
185203 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
88 33 0.41
89 21 0.26
90 26 0.32
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTTAAATAATAAAATCCCTAATATGATTAG
GGTAACTTAGATATAAAAGGATTA
Found at i:191781 original size:12 final size:13
Alignment explanation
Indices: 191764--191796 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
191754 ATGGGCAAAA
*
191764 TTTGAAAAC-AAT
1 TTTGAAAACTAAG
191776 TTTGAAAACTAAG
1 TTTGAAAACTAAG
191789 TTTGAAAA
1 TTTGAAAA
191797 ATAATAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (13 bp):
TTTGAAAACTAAG
Found at i:201011 original size:3 final size:3
Alignment explanation
Indices: 201005--201046 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
200995 ACCCATTTTT
**
201005 TTA TTA TTGA -TA TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
201047 CAAACAGGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.03
3 31 0.94
4 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:201812 original size:34 final size:34
Alignment explanation
Indices: 201743--201812 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
201733 GTGGCCGGCA
* * *
201743 GTGGTTGCCGACGCCGGAGCACGGCTGCCGACCG
1 GTGGTTGCCAACGCCAGAGCACGACTGCCGACCG
* * *
201777 GTGGTTGCCAACGCCAGAGCATGACTGTCGGCCG
1 GTGGTTGCCAACGCCAGAGCACGACTGCCGACCG
201811 GT
1 GT
201813 TTTCTCTCTC
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:0.14, C:0.31, G:0.39, T:0.16
Consensus pattern (34 bp):
GTGGTTGCCAACGCCAGAGCACGACTGCCGACCG
Found at i:202694 original size:119 final size:115
Alignment explanation
Indices: 202553--202788 Score: 276
Period size: 119 Copynumber: 2.0 Consensus size: 115
202543 ATTTTAATCC
* * * * *
202553 TGTTTTAATATTTATTTATTTTTCAATAT-TAAGAAAGGGCAGTCTTAAAACAACTGGATGTCCA
1 TGTTTTAATATTTATTTATTTTT-AATATCAAAAAAAGAGCAGTCTTAAAACAACTAGAAGT-CA
* * *
202617 TTTTTTGATATTTTTAAATAAATAAATATCCTATTTTATAAATTATATATTAAT
64 TTTTCTGATATTTCTAAATAAATAAATATCCTA-TTTATAAATT-TATATAAAT
* * ** *
202671 TGTTTTAATTATTTATTTGTTTTTAATATCGAAAAAAAGAGCTGTCTTAAGGCACCTAGAAGTCA
1 TGTTTTAA-TATTTATTTATTTTTAATATC-AAAAAAAGAGCAGTCTTAAAACAACTAGAAGTCA
**
202736 TTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATTTATATAAAT
64 TTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATTTATATAAAT
202788 T
1 T
202789 AATAAATTTA
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
117 9 0.09
118 23 0.23
119 45 0.45
120 23 0.23
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (115 bp):
TGTTTTAATATTTATTTATTTTTAATATCAAAAAAAGAGCAGTCTTAAAACAACTAGAAGTCATT
TTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATTTATATAAAT
Found at i:204873 original size:8 final size:7
Alignment explanation
Indices: 204849--204890 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
204839 TTTTCATACA
204849 TGCA-TT
1 TGCATTT
204855 TGCATTT
1 TGCATTT
204862 TGCATCTT
1 TGCAT-TT
204870 TGCATTT
1 TGCATTT
* *
204877 TTCATTG
1 TGCATTT
204884 TGCATTT
1 TGCATTT
204891 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:204873 original size:15 final size:14
Alignment explanation
Indices: 204849--204890 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
204839 TTTTCATACA
204849 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
204862 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
204877 TTCATTGTGCATTT
1 TGCATTTTGCATTT
204891 ATACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:204986 original size:27 final size:27
Alignment explanation
Indices: 204950--205009 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
204940 CATTCACATA
204950 TTTACATTTGCATTTACATTTGCATTT
1 TTTACATTTGCATTTACATTTGCATTT
* * *
204977 TTTACGTTTGTATTTACATTTTCA-TT
1 TTTACATTTGCATTTACATTTGCATTT
205003 TTTACAT
1 TTTACAT
205010 AATTACATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTACATTTGCATTTACATTTGCATTT
Found at i:205003 original size:12 final size:12
Alignment explanation
Indices: 204949--204976 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
204939 ACATTCACAT
204949 ATTTACATTTGC
1 ATTTACATTTGC
204961 ATTTACATTTGC
1 ATTTACATTTGC
204973 ATTT
1 ATTT
204977 TTTACGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:206631 original size:2 final size:2
Alignment explanation
Indices: 206624--206654 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
206614 ATCCTTTTAA
206624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
206655 ATTTGTTGTC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:206966 original size:16 final size:16
Alignment explanation
Indices: 206945--207021 Score: 99
Period size: 16 Copynumber: 4.9 Consensus size: 16
206935 TCTAGCAAAG
206945 AAAGAAGAAGGAAAAA
1 AAAGAAGAAGGAAAAA
206961 AAAGAAGAA-GAAAAA
1 AAAGAAGAAGGAAAAA
*
206976 AAA-AAGAAAAGAAAAA
1 AAAGAAG-AAGGAAAAA
206992 AACA-AA-AAGGAAAAA
1 AA-AGAAGAAGGAAAAA
207007 AAAGAAGAAGGAAAA
1 AAAGAAGAAGGAAAA
207022 TTGAATCAAG
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
14 4 0.07
15 23 0.42
16 25 0.45
17 3 0.05
ACGTcount: A:0.79, C:0.01, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAGGAAAAA
Found at i:206974 original size:11 final size:11
Alignment explanation
Indices: 206945--206991 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
206935 TCTAGCAAAG
*
206945 AAAGAAGAAGGA
1 AAAGAA-AAGAA
206957 AAA-AAAAGAA
1 AAAGAAAAGAA
* *
206967 GAAGAAAAAAA
1 AAAGAAAAGAA
206978 AAAGAAAAGAA
1 AAAGAAAAGAA
206989 AAA
1 AAA
206992 AACAAAAAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
10 6 0.21
11 20 0.69
12 3 0.10
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:209488 original size:114 final size:114
Alignment explanation
Indices: 209287--209510 Score: 403
Period size: 114 Copynumber: 2.0 Consensus size: 114
209277 GTGCCATGTT
209287 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * *
209352 GTTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTG
66 GTTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTG
209401 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* *
209466 GTTCGGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GTTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
209511 CTGCATGATC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
GTTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTG
Found at i:212154 original size:22 final size:22
Alignment explanation
Indices: 212126--212205 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
212116 TACATCTACA
* *
212126 CTCTTCAAAGATGATAGATTTT
1 CTCTTCAAAGATGATAAATTCT
212148 CTCTTCAAAGATGATAAATTCT
1 CTCTTCAAAGATGATAAATTCT
* * *
212170 CTTTTTAAAGATGATATATTCT
1 CTCTTCAAAGATGATAAATTCT
* *
212192 CTTTTCGAAGATGA
1 CTCTTCAAAGATGA
212206 AAGCTTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (22 bp):
CTCTTCAAAGATGATAAATTCT
Found at i:213120 original size:113 final size:113
Alignment explanation
Indices: 212922--213782 Score: 1187
Period size: 113 Copynumber: 7.7 Consensus size: 113
212912 TTCCAGAAGG
* *
212922 GTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
*
212987 ACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAA
* **
213035 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
* ** * * * * * * *
213100 ACCTTTTGTTTGAATTCATCATTTAATGGATCAACATTGCCAG-GTAGA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAA
*
213148 GTTCATAATGAGAAGAACTCGTCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
213213 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAA
*
213260 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTCTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
213325 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAA
213373 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
* * * * * *
213438 ACCTTTTGCTCCAATACATCACTCGATGGATTAGCTTTTCTAGAGATA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAA
** *
213486 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTGA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
* ** * * * * * * *
213551 ACCTTTTGTTTGAATTCATCATTTAATGGATCAACATTGCCAG-GTAGA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAA
* * * **
213599 GTTCATAAT--G-AGAACTCGTCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
* ** * * *
213661 A-CTTTTAGTTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAA
66 ACCTTTT-GCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAA
* * *
213709 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCG
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
213774 ACCTTTTGC
66 ACCTTTTGC
213783 ATGACTCTAT
Statistics
Matches: 664, Mismatches: 74, Indels: 20
0.88 0.10 0.03
Matches are distributed among these distances:
109 5 0.01
110 91 0.14
111 2 0.00
112 112 0.17
113 448 0.67
114 6 0.01
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAA
Found at i:213527 original size:338 final size:339
Alignment explanation
Indices: 212922--213782 Score: 1241
Period size: 338 Copynumber: 2.6 Consensus size: 339
212912 TTCCAGAAGG
*
212922 GTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCA
212987 ACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
66 ACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
* ** * ** *
213052 CTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTC
131 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCCAATAC
* * *
213117 ATCATTTAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAA
196 ATCACTCAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
213182 GAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAG
261 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTAATGGATCAA
* *
213247 CTTTTCCA-G-AGAA
326 CATTGCCAGGTAG-A
* *
213260 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTCTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCA
*
213325 ACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
66 ACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
213390 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCCAATAC
131 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCCAATAC
* * * * * * *
213455 ATCACTCGATGGATTAGCTTTTCTAGAG-ATAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
196 ATCACTCAATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * ** * *
213519 AGAAGAAGTTCATAATGAGAAGAATTTGTTGAACCTTTTGTTTGAATTCATCATTTAATGGATCA
260 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTAATGGATCA
213584 ACATTGCCAGGTAGA
325 ACATTGCCAGGTAGA
* * **
213599 GTTCATAAT--G-AGAACTCGTCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCA
* ** * *
213661 A-CTTTTAGTTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGA
66 ACCTTTT-GCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGA
* * *
213725 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAAAAGAGCTTGTTCGACCTTTTGC
130 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
213783 ATGACTCTAT
Statistics
Matches: 471, Mismatches: 48, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
335 5 0.01
336 153 0.32
337 1 0.00
338 298 0.63
339 12 0.03
340 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (339 bp):
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCA
ACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCCAATAC
ATCACTCAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTAATGGATCAA
CATTGCCAGGTAGA
Found at i:214127 original size:3 final size:3
Alignment explanation
Indices: 214121--214162 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
214111 ACCCATTTTT
**
214121 TTA TTA TTGA -TA TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
214163 CAAACAGGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.03
3 31 0.94
4 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:215758 original size:20 final size:19
Alignment explanation
Indices: 215733--215774 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
215723 CTATTTTATA
215733 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
215753 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
215772 AAT
1 AAT
215775 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:215770 original size:119 final size:117
Alignment explanation
Indices: 215628--215865 Score: 309
Period size: 120 Copynumber: 2.0 Consensus size: 117
215618 TATTTTAATC
* * * *
215628 TTGTTTTAATATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAAAACAACTGGATGTC
1 TTGTTTTAATATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTC
* *
215691 CATTTTCTGATATTTTTAAATAAATAAATATCCTATTTTATAAATTATATATTAA
66 C-TTTTCTGATATTTCTAAATAAATAAATATCCTA-TTTATAAATT-TATATAAA
* * ** *
215746 TTGTTTTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGT
1 TTGTTTTAA-TATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGT
**
215811 CCTTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATTTATATAAA
65 CCTTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATTTATATAAA
215864 TT
1 TT
215866 AATAAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
118 18 0.17
119 30 0.29
120 33 0.32
121 23 0.22
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (117 bp):
TTGTTTTAATATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTC
CTTTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATTTATATAAA
Found at i:218811 original size:20 final size:21
Alignment explanation
Indices: 218772--218811 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
218762 GAGGCTTTAA
* *
218772 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
218793 GATCAT-AATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
218812 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Done.