Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007868.1 Hibiscus syriacus cultivar Beakdansim tig00110241_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: 250609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:16711 original size:10 final size:10
Alignment explanation
Indices: 16696--16727 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
16686 TAATTCCCAA
16696 TTTTCTTCTT
1 TTTTCTTCTT
16706 TTTTCTTCTT
1 TTTTCTTCTT
16716 TTTTCTT-TT
1 TTTTCTTCTT
16725 TTT
1 TTT
16728 CCCTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTCTTCTT
Found at i:16756 original size:22 final size:21
Alignment explanation
Indices: 16717--16762 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
16707 TTTCTTCTTT
*
16717 TTTCTTTTTTTCCCTTTTTTA
1 TTTCTTTTTTTCCATTTTTTA
*
16738 TTTCTTTATTTTCTATTTTTTA
1 TTTCTTT-TTTTCCATTTTTTA
16760 TTT
1 TTT
16763 GCCCTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTCTTTTTTTCCATTTTTTA
Found at i:18744 original size:10 final size:10
Alignment explanation
Indices: 18729--18753 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18719 GTAACATAAC
18729 CTAAATGCAA
1 CTAAATGCAA
18739 CTAAATGCAA
1 CTAAATGCAA
18749 CTAAA
1 CTAAA
18754 ATGTTGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
CTAAATGCAA
Found at i:30926 original size:32 final size:33
Alignment explanation
Indices: 30890--30952 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
30880 ACTTATGTGG
*
30890 ATTCTACCTAGT-TTCTCTCGAACACTAAGGAT
1 ATTCTACCTAGTAATCTCTCGAACACTAAGGAT
*
30922 ATTCTACTTAGTCAATCTCTCGAACACTAAG
1 ATTCTACCTAGT-AATCTCTCGAACACTAAG
30953 CAATCTCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 11 0.41
34 16 0.59
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (33 bp):
ATTCTACCTAGTAATCTCTCGAACACTAAGGAT
Found at i:34748 original size:14 final size:13
Alignment explanation
Indices: 34729--34786 Score: 62
Period size: 13 Copynumber: 4.2 Consensus size: 13
34719 AAGGAATTTA
34729 AAATTAATGAAAAT
1 AAATTAAT-AAAAT
34743 AAATTAATAAAAT
1 AAATTAATAAAAT
*
34756 AAATAAATAAATATT
1 AAATTAATAAA-A-T
*
34771 GAATTAATAATAAT
1 AAATTAATAA-AAT
34785 AA
1 AA
34787 TAATGGGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
13 15 0.41
14 11 0.30
15 10 0.27
16 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
AAATTAATAAAAT
Found at i:36920 original size:24 final size:24
Alignment explanation
Indices: 36876--36921 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
36866 AGTTTACCTA
*
36876 AAAATATAAAGAAAAATAAATACC
1 AAAATATAAAGAAAAAAAAATACC
*
36900 AAAATA-AAATAAATAAAAAATA
1 AAAATATAAAGAAA-AAAAAATA
36922 ATAAAATGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (24 bp):
AAAATATAAAGAAAAAAAAATACC
Found at i:56677 original size:12 final size:12
Alignment explanation
Indices: 56660--56694 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
56650 TACCTCCTTA
56660 TTCTTTTCTTCC
1 TTCTTTTCTTCC
56672 TTCTTTT-TGTCC
1 TTCTTTTCT-TCC
56684 TTCTTTTCTTC
1 TTCTTTTCTTC
56695 ATCATCTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.05
12 19 0.90
13 1 0.05
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.69
Consensus pattern (12 bp):
TTCTTTTCTTCC
Found at i:58975 original size:81 final size:81
Alignment explanation
Indices: 58830--59648 Score: 976
Period size: 81 Copynumber: 10.1 Consensus size: 81
58820 CTATTCCAAA
* * * ** * *
58830 AGTAAAAAATTAATAGTCTAGTTGTGCATTTGATAGAGAGGTGTCAATTATGCCAGTTATATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
58895 AGGTTAAATACCTTTG
66 CGGTTAAATACCTTTG
* * * * ** *
58911 AGCAAAATATTAATAGCCTAGTTGTACATTTGATAGAAAGGTGTCAATTATGCCAATTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
58976 TGGTTAAATAACGTTG
66 CGGTTAAATACCTTTG
*
58992 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
** * *
59057 CAATTAAATATCGTTG
66 CGGTTAAATACCTTTG
* *
59073 AGTAAAATATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
59138 CGGTTAAATA-TTGTTG
66 CGGTTAAATACCT-TTG
59154 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
59219 TGATTAAATACCATTG
66 CGGTTAAATACCTTTG
* * * *
59235 AGTAAAAGATTAATGGCCTAGTTGTGTATTTGGAAGAAAAGTGTCAATTATGGCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
59300 CGGTTAAATACCATTG
66 CGGTTAAATACCTTTG
* ** * * * *
59316 AGTAAAATATTAATAACCTAGTTGTGCATTTGGGAGATATGTGTTAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
59381 CGATTAAATATCATTG
66 CGGTTAAATACCTTTG
* * * ** *
59397 AGTAAAAGATTAATGGTCTAGCTGTGCATTTGGTAGAAAAATGTAAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
59462 TGATTAAATA-CTGTTG
66 CGGTTAAATACCT-TTG
* * * *
59478 AGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
59543 CGGTTAAATATCGTTG
66 CGGTTAAATACCTTTG
* * ** * * * *
59559 AGTAAAAGATTAATGGTCGAGAAGTGCATTTGGCAGAAAAGTGTCAATCATGCAAGTTGGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
59624 AGGCTAAATGCCTTTG
66 CGGTTAAATACCTTTG
*
59640 GGTAAAAGA
1 AGTAAAAGA
59649 GTAAAGGTAT
Statistics
Matches: 646, Mismatches: 88, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
80 1 0.00
81 644 1.00
82 1 0.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
CGGTTAAATACCTTTG
Found at i:61390 original size:81 final size:81
Alignment explanation
Indices: 61245--61901 Score: 758
Period size: 81 Copynumber: 8.1 Consensus size: 81
61235 CTATTCCAAA
* * * * ** * *
61245 AGTAAAAAATTAATAGTCTAGTTGTGCATTTGATAGAGAGGTGTCAATTATGCCAGTTATATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
61310 AGGTTAAATACCTTTG
66 AGGTTAAATACCGTTG
* * * * * ** *
61326 AGCAAAATATTAATAGCCTAGTTGTACATTTGATAGAAAGGTGTCAATTATGCCAATTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
61391 TGGTTAAATAACGTTG
66 AGGTTAAATACCGTTG
61407 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
61472 CA-ATTAAATATCGTTG
66 -AGGTTAAATACCGTTG
*
61488 AGTAAAATATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
61553 CGGTTAAATACCATTG
66 AGGTTAAATACCGTTG
* ** * * * * *
61569 AGTAAAATATTAATAACCTAGTTGTGCATTTGGGAGATATGTGTTAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
61634 CGGTTAAATATCATTG
66 AGGTTAAATACCGTTG
* * ** *
61650 AGTAAAAGATTAATGGTCTAGCTGTGCATTTGGTAGAAAAATGTAAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
61715 TGATTAAATACTGTTG
66 AGGTTAAATACCGTTG
* * *
61731 AGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
61796 CGGTTAAATATCGTTG
66 AGGTTAAATACCGTTG
* * ** * * * *
61812 AGTAAAAGATTAATGGTCGAGAAGTGCATTTGGCAGAAAAGTGTCAATCATGCAAGTTGGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
61877 AGGCTAAATGCCTTTG
66 AGGTTAAATACCGTTG
*
61893 GGTAAAAGA
1 AGTAAAAGA
61902 GTAAAGGTAT
Statistics
Matches: 498, Mismatches: 76, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
81 498 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCGTTG
Found at i:61841 original size:243 final size:243
Alignment explanation
Indices: 61245--61885 Score: 836
Period size: 243 Copynumber: 2.6 Consensus size: 243
61235 CTATTCCAAA
* * * * *
61245 AGTAAAAAATTAAT-AGTCTAGTTGTGCATTTGATAGAGAGGTGTCAATTATGCCAGTTATATGA
1 AGTAAAAAATTAATGA-CCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGA
* * * * ** *
61309 AAGGTTAAATACCTTTGAGCAAAATATTAATAGCCTAGTTGTACATTTGATAGAAAGGTGTCAAT
65 ACGGTTAAATACCATTGAGTAAAATATTAATAGCCTAGTTGTGCATTTGGCAGAAAAGTGTCAAT
* * *
61374 TATGCCAATTAGATGAATGGTTAAATAACGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTG
130 TATGCCAGTTAGATGAAAGGTTAAATAACATTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTG
** *
61439 GCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAATTAAATATCGTTG
195 GCAGAAAAATGTAAATTATGCCAGTTAGATGAACAATTAAATATCGTTG
* * *
61488 AGTAAAATATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAAATTAATGACCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * * * *
61553 CGGTTAAATACCATTGAGTAAAATATTAATAACCTAGTTGTGCATTTGGGAGATATGTGTTAATT
66 CGGTTAAATACCATTGAGTAAAATATTAATAGCCTAGTTGTGCATTTGGCAGAAAAGTGTCAATT
* * *
61618 ATGCCAGTTAGATGAACGGTTAAATATCATTGAGTAAAAGATTAATGGTCTAGCTGTGCATTTGG
131 ATGCCAGTTAGATGAAAGGTTAAATAACATTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
* **
61683 TAGAAAAATGTAAATTATGCCAGTTAGATGAATGATTAAATA-CTGTTG
196 CAGAAAAATGTAAATTATGCCAGTTAGATGAACAATTAAATATC-GTTG
* *
61731 AGTAAAAGATTAATGACCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAAATTAATGACCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * * * * * ** *
61796 CGGTTAAATATCGTTGAGTAAAAGATTAATGGTCGAGAAGTGCATTTGGCAGAAAAGTGTCAATC
66 CGGTTAAATACCATTGAGTAAAATATTAATAGCCTAGTTGTGCATTTGGCAGAAAAGTGTCAATT
* * *
61861 ATGCAAGTTGGATGAAAGGCTAAAT
131 ATGCCAGTTAGATGAAAGGTTAAAT
61886 GCCTTTGGGT
Statistics
Matches: 345, Mismatches: 51, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
242 1 0.00
243 344 1.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (243 bp):
AGTAAAAAATTAATGACCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
CGGTTAAATACCATTGAGTAAAATATTAATAGCCTAGTTGTGCATTTGGCAGAAAAGTGTCAATT
ATGCCAGTTAGATGAAAGGTTAAATAACATTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
CAGAAAAATGTAAATTATGCCAGTTAGATGAACAATTAAATATCGTTG
Found at i:69141 original size:17 final size:17
Alignment explanation
Indices: 69121--69226 Score: 77
Period size: 17 Copynumber: 6.1 Consensus size: 17
69111 ATTAACTAAG
*
69121 TAGTTCATTGATTAAAC
1 TAGTTCATTCATTAAAC
* *
69138 TAGTTCATTCAATATTAC
1 TAGTTCATTCATTA-AAC
* * * *
69156 AAGTTCATTGAATAAAGT
1 TAGTTCATTCATTAAA-C
* *
69174 TAGTCCATTAATTAAAC
1 TAGTTCATTCATTAAAC
* *
69191 TAGTTCAATCATCAAAC
1 TAGTTCATTCATTAAAC
* *
69208 TAGTTGATTTATTAAAC
1 TAGTTCATTCATTAAAC
69225 TA
1 TA
69227 AATCTTAATT
Statistics
Matches: 67, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
17 41 0.61
18 26 0.39
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (17 bp):
TAGTTCATTCATTAAAC
Found at i:74262 original size:7 final size:7
Alignment explanation
Indices: 74248--74277 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
74238 GAAATGAATG
74248 TAAAGAA
1 TAAAGAA
*
74255 TGAAGAA
1 TAAAGAA
74262 TAAAGAA
1 TAAAGAA
74269 TAAAGAA
1 TAAAGAA
74276 TA
1 TA
74278 TGGTGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (7 bp):
TAAAGAA
Found at i:79872 original size:38 final size:38
Alignment explanation
Indices: 79830--79946 Score: 234
Period size: 38 Copynumber: 3.1 Consensus size: 38
79820 ATATAGTAGG
79830 TAAGCATTAAAAGAATGTAATTTAGATTACAACTCTTT
1 TAAGCATTAAAAGAATGTAATTTAGATTACAACTCTTT
79868 TAAGCATTAAAAGAATGTAATTTAGATTACAACTCTTT
1 TAAGCATTAAAAGAATGTAATTTAGATTACAACTCTTT
79906 TAAGCATTAAAAGAATGTAATTTAGATTACAACTCTTT
1 TAAGCATTAAAAGAATGTAATTTAGATTACAACTCTTT
79944 TAA
1 TAA
79947 TTGGTATATA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 79 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (38 bp):
TAAGCATTAAAAGAATGTAATTTAGATTACAACTCTTT
Found at i:88678 original size:4 final size:4
Alignment explanation
Indices: 88611--88689 Score: 63
Period size: 4 Copynumber: 19.5 Consensus size: 4
88601 TGAGAAAAGA
* * * * *
88611 AAAT AAAT TAAT TAAT AAAT TAAT AAAT CAAT -AAT AATAT TAAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT
*
88658 ACTAAT AAAT TAAT AAAT AAAT AAAT AAAT AA
1 A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AA
88690 TACTATATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
3 6 0.10
4 49 0.79
5 3 0.05
6 4 0.06
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (4 bp):
AAAT
Found at i:88688 original size:12 final size:12
Alignment explanation
Indices: 88611--88689 Score: 81
Period size: 12 Copynumber: 6.5 Consensus size: 12
88601 TGAGAAAAGA
88611 AAATAAATTAAT
1 AAATAAATTAAT
*
88623 TAATAAATTAAT
1 AAATAAATTAAT
*
88635 AAATCAA-TAAT
1 AAATAAATTAAT
*
88646 AATATTAA-TAAT
1 AA-ATAAATTAAT
88658 ACTAATAAATTAAT
1 A--AATAAATTAAT
*
88672 AAATAAATAAAT
1 AAATAAATTAAT
88684 AAATAA
1 AAATAA
88690 TACTATATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
11 6 0.11
12 41 0.72
13 4 0.07
14 6 0.11
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATAAATTAAT
Found at i:89720 original size:2 final size:2
Alignment explanation
Indices: 89713--89737 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89703 TTAAAATTCC
89713 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 T
89738 TCTAAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90991 original size:10 final size:10
Alignment explanation
Indices: 90971--91002 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
90961 CCTTTTATCA
90971 AAATA-AAAT
1 AAATATAAAT
90980 AAATATAAAT
1 AAATATAAAT
90990 AAATATAAAT
1 AAATATAAAT
91000 AAA
1 AAA
91003 ATTTGATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAATATAAAT
Found at i:91344 original size:182 final size:182
Alignment explanation
Indices: 91081--91573 Score: 587
Period size: 181 Copynumber: 2.7 Consensus size: 182
91071 AATATATAAC
* * * * * *
91081 TTTTTTTGTGCCAAAAAATTA-TGGAAAATATTTATGACAATATA-TTTCTCACTATAATTAAAA
1 TTTTTTTGTGCC-AAAAATTAGAGGAAAACATTTGTGACTATACATTTTGTCACTATAATTAAAA
* * * *
91144 TATATAACTACAAACATAATTTTTCACTAAAAATTTAAATTTCAATATTTGGTGTGATAAATTTT
65 TATATAACTACAAACATAATTTGTCACAAAAAATTTAAATCTCAATATTTGTTGTGATAAATTTT
* * * * *
91209 TCAATAATAATAATTATAAGTTATAGTTACAAAACATGTCATTCTATACCTTT
130 TCAATAACAATAATTATAAGATATAGTTACAAAACATATCACTCTATAACTTT
*
91262 TTTTTTTGTGCCAAAAATTAGAGGAAAACATTTGTGACTATACATTTTGTCACTACAATTAAAAT
1 TTTTTTTGTGCCAAAAATTAGAGGAAAACATTTGTGACTATACATTTTGTCACTATAATTAAAAT
* * * * **
91327 ATATAACTACAAACATAATTTGTCTCCAAAAATTTTAATCTCAATATTTTTTGTGAT-AGCTTTT
66 ATATAACTACAAACATAATTTGTCACAAAAAATTTAAATCTCAATATTTGTTGTGATAAATTTTT
* * *
91391 CAGTAACAATAATTATAAGATATAGTTACGAAACATATCACTCTCTAACTTT
131 CAATAACAATAATTATAAGATATAGTTACAAAACATATCACTCTATAACTTT
* * * * * * *
91443 TGTTTTTGCGCCAAAAACTGGAAGAAAAGATTTGTGACTATACATATTGTCACTATAATTAAAAT
1 TTTTTTTGTGCCAAAAATTAGAGGAAAACATTTGTGACTATACATTTTGTCACTATAATTAAAAT
* * * * * * * * *
91508 ACATAACCACAAACAAAACTTGTCACAAAAAAATTGAATCTCATTATTTGTTGTGACAATTTTTT
66 ATATAACTACAAACATAATTTGTCACAAAAAATTTAAATCTCAATATTTGTTGTGATAAATTTTT
91573 C
131 C
91574 TTGTCATAAT
Statistics
Matches: 264, Mismatches: 45, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
180 8 0.03
181 182 0.69
182 74 0.28
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (182 bp):
TTTTTTTGTGCCAAAAATTAGAGGAAAACATTTGTGACTATACATTTTGTCACTATAATTAAAAT
ATATAACTACAAACATAATTTGTCACAAAAAATTTAAATCTCAATATTTGTTGTGATAAATTTTT
CAATAACAATAATTATAAGATATAGTTACAAAACATATCACTCTATAACTTT
Found at i:97402 original size:23 final size:24
Alignment explanation
Indices: 97373--97419 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
97363 CTTGAGATTA
97373 TTTTTCTT-AAAAATAAATTTTGT
1 TTTTTCTTAAAAAATAAATTTTGT
97396 TTTTTCTTAAAAAATAAATTTTGT
1 TTTTTCTTAAAAAATAAATTTTGT
97420 CTTACTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTTTCTTAAAAAATAAATTTTGT
Found at i:97427 original size:23 final size:24
Alignment explanation
Indices: 97381--97430 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
97371 TATTTTTCTT
* *
97381 AAAAATAAATTTTGTTTTTTCTTA
1 AAAAATAAATTTTGTTCTTACTTA
97405 AAAAATAAATTTTG-TCTTACTTA
1 AAAAATAAATTTTGTTCTTACTTA
97428 AAA
1 AAA
97431 TAGTTCCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (24 bp):
AAAAATAAATTTTGTTCTTACTTA
Found at i:98137 original size:163 final size:162
Alignment explanation
Indices: 97852--98748 Score: 876
Period size: 163 Copynumber: 5.5 Consensus size: 162
97842 TAGAAAAAAG
* * * * *
97852 GTGGATCAATATTTACAATGGAGGGGTTCATAATGAGAAGAACTCATTCAAAGAAGAAGAAAAA-
1 GTGGATCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAGGAAGAAAAAG
* * * * * * * *
97916 ATCATAATGTGAAGAACTTGTTCACCTTTTTGCTTGACTCTATCACAGAAGTAGGTAGATTAGCA
66 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAGCA
* * *
97981 TCAA-AGTTTTGGTCAAATCCATCACAGAAGGA
131 TCAATA-TTTTGTTCGATTCCATCACAGAAGGA
* * *
98013 TGTGGATCATCATTTCTAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAGGGAGAAAAA
1 -GTGGATCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAGGAAGAAAAA
* * * ** ** * * *
98078 GTTCATAATGAGAAGAACTTGTTCACCATTTTACTCGTTTCTATCATAGAATGAGGTAGATCAAC
65 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAGC
* * * *
98143 GTCAACATTTTGTTCGATTTCATCACAGAAAGA
130 ATCAATATTTTGTTCGATTCCATCACAGAAGGA
* * * * *
98176 GCTGAATCAACATTTCCAATGG-AGAGATTCATAATTAGAAGATCTCGTCCAAAGA--AAGAGAA
1 G-TGGATCAACATTTCCAATGGAAG-GGTTCATAATGAGAAGAACTCATCCAAAGAGGAAGA-AA
* *
98238 GAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATCGCAGAATGAGATAGATC
63 -AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATCGCAGAAGGAGATAGATC
* * * * *
98303 AACATCAATATTTTATTTGATTCCATCATAGGA-G-
127 AGCATCAATATTTTGTTCGATTCCATCACAGAAGGA
* * * * * * * ** * *
98337 GTGGATCAACATTTTCAATGGAAGGGATCATAATTAGAAAAATTTAACTGAAGAGGGAGAAGAAG
1 GTGGATCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAGGAAGAAAAAG
* * *
98402 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCAATTGTAGAAGGAGATAGATCAGCA
66 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAGCA
*
98467 TC-ATCATTTTGTTCGATTCCATCACAGAAGAA
131 TCAAT-ATTTTGTTCGATTCCATCACAGAAGGA
** * ** *
98499 GATATATCAACATTTCCAATGGAAGGGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAA
1 G-TGGATCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAGGAAGAAAAA
* * * * * * *
98564 GTTCATAATTAGAATAACTTGTTTAAATTTTTTCTCGATTCTATTGCAGAAGGAGATAGATCAGC
65 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAGC
* * *
98629 ATCAATATTTTGTTTGATTTCATCACAGAAAGA
130 ATCAATATTTTGTTCGATTCCATCACAGAAGGA
* * * *
98662 GATAGATCAACATTTCCAATGGAAGGGTTGTTCATAATGAGAAGATCTCACCCGAAA-AGGAATA
1 G-TGGATCAACATTTCCAATGGAA-GG--GTTCATAATGAGAAGAACTCATCC-AAAGAGGAAGA
* *
98726 AGAAGTTCATAATGATAAGAACT
61 AAAAGTTCATAATGAGAAGAACT
98749 CATCTATGAA
Statistics
Matches: 611, Mismatches: 106, Indels: 32
0.82 0.14 0.04
Matches are distributed among these distances:
159 2 0.00
160 122 0.20
161 7 0.01
162 66 0.11
163 361 0.59
164 5 0.01
166 46 0.08
167 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (162 bp):
GTGGATCAACATTTCCAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAGGAAGAAAAAG
TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAGCA
TCAATATTTTGTTCGATTCCATCACAGAAGGA
Found at i:98510 original size:323 final size:322
Alignment explanation
Indices: 97833--98748 Score: 903
Period size: 323 Copynumber: 2.8 Consensus size: 322
97823 TACAAATTTA
* * * * * * *
97833 ATTCCATCATAGAAAAAAGGTGGATCAATATTTACAATGGAGGGGTTCATAATGAGAAGAACTCA
1 ATTCCATCACAG-AAAGAGATGAATCAACATTTCCAATGGAGAGGTTCATAATGAGAAGAACTCA
* * * * * *
97898 TTCAAAGAAGAAGAA-AAAATCATAATGTGAAGAACTTGTTCACCTTTTTGCTTGACTCTATCAC
65 TCCAAAGAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATCGC
* * * ** * * *
97962 AGAAGTAGGTAGATTAGCATCAA-AGTTTTGGTCAAATCCATCACAGAAGGATGTGGATCATCA-
130 AGAAG-AGATAGATCAGCATCAATA-TTTTGTTTGATTCCAT--CA-AAGGAGGTGGATCAACAT
* * *
98025 TTTCTAATGGAAGGGTTCATAATGAGAAGAACTCATCCAAAGAGGGAGAAAAAGTTCATAATGAG
190 TTTC-AATGGAAGGGATCATAATGAGAAAAACTCAACCAAAGAGGGAGAAAAAGTTCATAATGAG
* ** * * * *
98090 AAGAACTTGTTCACCATTTTACTCGTTTCTATCATAGAATGAGGTAGATCAACGTCAACATTTTG
254 AAGAACTTGTTCAACATTTTACTCGACTCAATCATAGAAGGAGATAGATCAACATCAACATTTTG
98155 TTCG
319 TTCG
* * * * * *
98159 ATTTCATCACAGAAAGAGCTGAATCAACATTTCCAATGGAGAGATTCATAATTAGAAGATCTCGT
1 ATTCCATCACAGAAAGAGATGAATCAACATTTCCAATGGAGAGGTTCATAATGAGAAGAACTCAT
98224 CCAAAGAA-AGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATCGC
66 CCAAAGAAGA-AGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATCGC
* * *
98288 AGAATGAGATAGATCAACATCAATATTTTATTTGATTCCATCATAGGAGGTGGATCAACATTTTC
130 AGAA-GAGATAGATCAGCATCAATATTTTGTTTGATTCCATCAAAGGAGGTGGATCAACATTTTC
* * * ** *
98353 AATGGAAGGGATCATAATTAGAAAAATTTAACTGAAGAGGGAGAAGAAGTTCATAATGAGAAGAA
194 AATGGAAGGGATCATAATGAGAAAAACTCAACCAAAGAGGGAGAAAAAGTTCATAATGAGAAGAA
* * ** * *
98418 CTTGTTCAACTTTTTGCTCGACTCAATTGTAGAAGGAGATAGATCAGCATCATCATTTTGTTCG
259 CTTGTTCAACATTTTACTCGACTCAATCATAGAAGGAGATAGATCAACATCAACATTTTGTTCG
*
98482 ATTCCATCACAG-AAGAAGAT-ATATCAACATTTCCAATGGA-AGGGTTCATAATGAGAAAAACT
1 ATTCCATCACAGAAAG-AGATGA-ATCAACATTTCCAATGGAGA-GGTTCATAATGAGAAGAACT
** * * * * * * * * *
98544 CATCTGAAGAGGAAGAAGAAGTTCATAATTAGAATAACTTGTTTAAATTTTTTCTCGATTCTATT
63 CATCCAAAGAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATC
* * * *
98609 GCAGAAGGAGATAGATCAGCATCAATATTTTGTTTGATTTCATCACAGAAAGAGATAGATCAACA
128 GCAGAA-GAGATAGATCAGCATCAATATTTTGTTTGATTCCAT--CA-AAGGAGGTGGATCAACA
* * * * * * * *
98674 TTTCCAATGGAAGGGTTGTTCATAATGAGAAGATCTCACCCGAAA-AGGAATAAGAAGTTCATAA
189 TTTTCAATGGAA-GG--GATCATAATGAGAAAAACTCAACC-AAAGAGGGAGAAAAAGTTCATAA
*
98738 TGATAAGAACT
250 TGAGAAGAACT
98749 CATCTATGAA
Statistics
Matches: 484, Mismatches: 90, Indels: 29
0.80 0.15 0.05
Matches are distributed among these distances:
322 5 0.01
323 259 0.54
324 8 0.02
325 56 0.12
326 107 0.22
327 4 0.01
329 43 0.09
330 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (322 bp):
ATTCCATCACAGAAAGAGATGAATCAACATTTCCAATGGAGAGGTTCATAATGAGAAGAACTCAT
CCAAAGAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGACTCTATCGCA
GAAGAGATAGATCAGCATCAATATTTTGTTTGATTCCATCAAAGGAGGTGGATCAACATTTTCAA
TGGAAGGGATCATAATGAGAAAAACTCAACCAAAGAGGGAGAAAAAGTTCATAATGAGAAGAACT
TGTTCAACATTTTACTCGACTCAATCATAGAAGGAGATAGATCAACATCAACATTTTGTTCG
Found at i:98734 original size:39 final size:38
Alignment explanation
Indices: 98691--98786 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 38
98681 TGGAAGGGTT
*
98691 GTTCATAATGAGAAGATCTCACCCGA-AAAGGA-ATAAGAA
1 GTTCATAATGAGAAGAACTCA-CCGATAAAGGAGA-AA-AA
* * * *
98730 GTTCATAATGATAAGAACTCATCTATGAAGGAGAAAAA
1 GTTCATAATGAGAAGAACTCACCGATAAAGGAGAAAAA
98768 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
98787 TGTTCGACCT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
38 22 0.45
39 26 0.53
40 1 0.02
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (38 bp):
GTTCATAATGAGAAGAACTCACCGATAAAGGAGAAAAA
Found at i:100021 original size:111 final size:111
Alignment explanation
Indices: 99815--100021 Score: 238
Period size: 111 Copynumber: 1.9 Consensus size: 111
99805 ATTCGAATGT
* *
99815 TTATACGACCTTGTGGTGACCCGATCCGGGATACGATCCACAATATTATGGTCTGAACTTTATTA
1 TTATACGACCTTGTGGTGACCCGATCCGGGATACGATCCACAATATTATGGTCTGAACTCTACTA
* * * * * *
99880 ACTCATAACTGTTTATTTATTTATTTTTATTAACTTGTTTTAATTA
66 ACTCATAACTGTCTAATCACTAATTGTTATTAACTTGTTTTAATTA
* * * * * *
99926 TTATACGACCTTGTGGTGACCCGATGCGGGGTGCGATTCACATTATTATGGTCTGGACTCTACTA
1 TTATACGACCTTGTGGTGACCCGATCCGGGATACGATCCACAATATTATGGTCTGAACTCTACTA
* *
99991 ACATC-TAATTG-CTAATCGCTAACTTGTTATT
66 AC-TCATAACTGTCTAATCACTAA-TTGTTATT
100022 TATTTATTTA
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
110 5 0.06
111 71 0.91
112 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (111 bp):
TTATACGACCTTGTGGTGACCCGATCCGGGATACGATCCACAATATTATGGTCTGAACTCTACTA
ACTCATAACTGTCTAATCACTAATTGTTATTAACTTGTTTTAATTA
Found at i:100295 original size:14 final size:14
Alignment explanation
Indices: 100208--100299 Score: 55
Period size: 14 Copynumber: 6.5 Consensus size: 14
100198 TTTTTATTTA
*
100208 TTTAATTGTAGTCC
1 TTTAATTTTAGTCC
* *
100222 TTTAATTTTATTAC
1 TTTAATTTTAGTCC
*
100236 TTTAATTTTCTA-TCA
1 TTTAA-TTT-TAGTCC
*
100251 TTTTATTTT--TCCC
1 TTTAATTTTAGT-CC
* * *
100264 TTCATTTATTAGTAC
1 TTTAATT-TTAGTCC
100279 TTTAATTTTAGTCC
1 TTTAATTTTAGTCC
100293 TTTAATT
1 TTTAATT
100300 ATATGCATGT
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
12 1 0.02
13 6 0.10
14 34 0.59
15 14 0.24
16 3 0.05
ACGTcount: A:0.23, C:0.13, G:0.04, T:0.60
Consensus pattern (14 bp):
TTTAATTTTAGTCC
Found at i:101686 original size:16 final size:16
Alignment explanation
Indices: 101665--101708 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
101655 TTTTTGCTCG
101665 ACTCGTTGCTCGTTAA
1 ACTCGTTGCTCGTTAA
101681 ACTCGTTGCTCG-T--
1 ACTCGTTGCTCGTTAA
101694 -CTCGTTGCTCGTTAA
1 ACTCGTTGCTCGTTAA
101709 GCTCAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 11 0.44
13 1 0.04
15 1 0.04
16 12 0.48
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (16 bp):
ACTCGTTGCTCGTTAA
Found at i:101705 original size:12 final size:12
Alignment explanation
Indices: 101658--101705 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
101648 AAAAAGATTT
*
101658 TTGCTCGACTCG
1 TTGCTCGTCTCG
101670 TTGCTCGTTAAACTCG
1 TTGCTCG-T---CTCG
101686 TTGCTCGTCTCG
1 TTGCTCGTCTCG
101698 TTGCTCGT
1 TTGCTCGT
101706 TAAGCTCAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 19 0.61
15 1 0.03
16 11 0.35
ACGTcount: A:0.08, C:0.29, G:0.23, T:0.40
Consensus pattern (12 bp):
TTGCTCGTCTCG
Found at i:102044 original size:2 final size:2
Alignment explanation
Indices: 102037--102062 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
102027 TTTGGGACTA
102037 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
102063 TTTTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103693 original size:183 final size:183
Alignment explanation
Indices: 103191--103839 Score: 914
Period size: 183 Copynumber: 3.6 Consensus size: 183
103181 CCATTCAAAT
* **
103191 ATGTATCGATACATAACAATATATCAGGTAAAAATAAAACAAAATCGGGTTT-AATATGACAAAA
1 ATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAATC-GGTTTCAATATGACAAAA
* ** ** *
103255 CCGATAAAGCGCTACCGGATATGTTAAAGGTATTAATTTCATTTAAATAAGTATCGATACTTTTG
65 CCGATAAAGCGCTACCGGATATGTTGAAGGTATCGATACCATTCAAATAAGTATCGATACTTTTG
* * * *
103320 GAATTTAAAAGAAAAGCAATAATAGTACTTATAAAGTATTAATACTTTATAAAC
130 GAATTTAAAAGAAAAGCAGTAATAGCACCTATAAAGTATTGATACTTTATAAAC
* * * * *
103374 ATGTATCGATGCATAACAATGTATCAGGTAAAACTATG--AAAATCGGGTTCAATATGA-AAAAC
1 ATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAATCGGTTTCAATATGACAAAAC
*
103436 CTGGTAAAGCGCTACCGGATATGTTGAAGGTATC-ACTACCATTCAAATAAGTATCGATACTTTT
66 C-GATAAAGCGCTACCGGATATGTTGAAGGTATCGA-TACCATTCAAATAAGTATCGATACTTTT
* * *
103500 GGAATTTAAAAGAAAAACAGTAATAGCGCCTATAAAATATTGATACTTTATAAAC
129 GGAATTTAAAAGAAAAGCAGTAATAGCACCTATAAAGTATTGATACTTTATAAAC
* ** *
103555 ATGTATCGATACATAATAATATAACAGGTAAAAATATGACAAAATTAGTTTCATTATGACAAAAC
1 ATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAATCGGTTTCAATATGACAAAAC
103620 CGATAAAGCGCTACCGGATATGTTGAAGGTATCGATACCATTCAAATAAGTATCGATACTTTTGG
66 CGATAAAGCGCTACCGGATATGTTGAAGGTATCGATACCATTCAAATAAGTATCGATACTTTTGG
* * * *
103685 ATTTTAAAATAAAAGCAGTAATCGCACCTATAAAGTATCGATACTTTATAAAC
131 AATTTAAAAGAAAAGCAGTAATAGCACCTATAAAGTATTGATACTTTATAAAC
* * * *
103738 ATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAA-CCGATTCATTATGACAAAAT
1 ATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAATCGGTTTCAATATGACAAAAC
*
103802 CGGTAAAGCGCTACCGGATATGTTGAAGGTATCGATAC
66 CGATAAAGCGCTACCGGATATGTTGAAGGTATCGATAC
103840 TTTAATGAAT
Statistics
Matches: 417, Mismatches: 42, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
180 11 0.03
181 148 0.35
182 53 0.13
183 198 0.47
184 7 0.02
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.29
Consensus pattern (183 bp):
ATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAATCGGTTTCAATATGACAAAAC
CGATAAAGCGCTACCGGATATGTTGAAGGTATCGATACCATTCAAATAAGTATCGATACTTTTGG
AATTTAAAAGAAAAGCAGTAATAGCACCTATAAAGTATTGATACTTTATAAAC
Found at i:106399 original size:66 final size:66
Alignment explanation
Indices: 106268--106402 Score: 153
Period size: 66 Copynumber: 2.0 Consensus size: 66
106258 AAGGGGGAAG
* * * * *
106268 TGGGTGGAAAAATAGATGGAATGGTAAAAGATGTTGTGGAATTGAGGGATGAACTTAAGATGGTG
1 TGGGTGGAAAAATAGAAGGAATGGTAAAAGAAGTTGTGGAATTAAGGGATAAACTTAAGAGGGTG
106333 A
66 A
* * * * * * * *
106334 TGGGTGGGAAAATTGAAGGAGTGGTGAAGGAAGTTGTGGAATTAAGGGGTAAACTTACGGGGGTG
1 TGGGTGGAAAAATAGAAGGAATGGTAAAAGAAGTTGTGGAATTAAGGGATAAACTTAAGAGGGTG
106399 A
66 A
106400 TGG
1 TGG
106403 TAGTGGTTGA
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.33, C:0.02, G:0.41, T:0.24
Consensus pattern (66 bp):
TGGGTGGAAAAATAGAAGGAATGGTAAAAGAAGTTGTGGAATTAAGGGATAAACTTAAGAGGGTG
A
Found at i:111488 original size:128 final size:128
Alignment explanation
Indices: 111248--111510 Score: 299
Period size: 128 Copynumber: 2.1 Consensus size: 128
111238 AATATTAAAA
* * * *
111248 GTATCGATTCTTAAAACATCGAAACCTATTATTTGAAGGTAATCAGTAAATTTACAATGTAAGCG
1 GTATCGATCCTTAAAACATCGAAACCGATTATTTGAACGTAATCAGTAAATTTACAATCTAAGCG
* ** * * *
111313 GTATATTTTTACCGGTTTAATGAGAGAATAGGTATACATAAAGTATCGATAC-TTGTTTAAATT
66 GTAAAAATATACCGGTTTAACGAGAGAATAGGTATACATAAAATATCGATACATT-TTTAAATT
111376 GTATCGATCCTTAAAACATC-AGAACCGATTATTAT-AACGTAAT-AGGTAAATTTACAATCTAA
1 GTATCGATCCTTAAAACATCGA-AACCGATTATT-TGAACGTAATCA-GTAAATTTACAATCTAA
*
111438 -CTGGTAAAAATATATCGGTTTAACGAGAGAATAGGTAATTA-A-AAAATATCGATACATTTTTA
63 GC-GGTAAAAATATACCGGTTTAACGAGAGAATAGGT-A-TACATAAAATATCGATACATTTTTA
*
111500 AGTT
125 AATT
111504 -TATCGAT
1 GTATCGAT
111511 ACTTTTTGTC
Statistics
Matches: 116, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
127 10 0.09
128 99 0.85
129 5 0.04
130 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (128 bp):
GTATCGATCCTTAAAACATCGAAACCGATTATTTGAACGTAATCAGTAAATTTACAATCTAAGCG
GTAAAAATATACCGGTTTAACGAGAGAATAGGTATACATAAAATATCGATACATTTTTAAATT
Found at i:111817 original size:201 final size:199
Alignment explanation
Indices: 111349--112130 Score: 1092
Period size: 200 Copynumber: 3.9 Consensus size: 199
111339 AATAGGTATA
* *
111349 CATAAAGTATCGATACTTGT-TTA-AATTGTATCGATCCTTAAAACATC-AGAACCGATTATTAT
1 CATAAAGTATCGATACATGTATGAGAA--GTATCGATCCTTAAAACATCGA-AACCGATTATTAT
* *
111411 AACGTAATAGGTAAATTTACAATCTAACTGGTAAAAATATATCGGTTTAACGAGAGAATAGGTAA
63 AACGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATATCGGTTTAACGAGAGAATAGGTAA
** * * *
111476 TTAAAAAATATCGATACATTTTTAAGTT-TATCGATACTTTTTGTCCAGTATAAAACCCAAACGA
128 GCAAAAAGTATCGATACATTTTTAAGTTGTATCGATACTTTTTGTCCAGTATGAATCCCAAACG-
***
111540 GATGTTCG
192 GATACACG
* * *
111548 CATAATGTATCAATACATGTAAGAGAAGTATCGATCCTTAAAACATCGAAACCGATTATTATAAC
1 CATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCGAAACCGATTATTATAAC
* * *
111613 GTAATACGTAAATTTAAAATGTAACCGGTAAAAATATATCGGTTTAACGAGAGAATATGTAAGCA
66 GTAATAGGTAAATTTACAATGTAACCGGTAAAAATATATCGGTTTAACGAGAGAATAGGTAAGCA
** *
111678 AAAAGTATTTATACGTTTTTAAGTTGTATCGATACTTTTTGTCCAGTATGAATCCCAAACAGGAT
131 AAAAGTATCGATACATTTTTAAGTTGTATCGATACTTTTTGTCCAGTATGAATCCCAAAC-GGAT
111743 ACACG
195 ACACG
* *
111748 CATAAAATATTCGATACATGTATGAGAAGTATCGATCTTTAAAACATC-AAACCCGATTATTATA
1 CATAAAGTA-TCGATACATGTATGAGAAGTATCGATCCTTAAAACATCGAAA-CCGATTATTATA
* * * * *
111812 ACGTAATAGGTAAATTTACATTGTAACTGGTAAAATTATA-CTGGTTTAACGAGAAAATAAGTAA
64 ACGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATATC-GGTTTAACGAGAGAATAGGTAA
* * *
111876 GCCAAAAGTATCGATACGTTTTTAAGTTATATCGATACTTTTTGTCCAGTATGAATCCCAAACGG
128 GCAAAAAGTATCGATACATTTTTAAGTTGTATCGATACTTTTTGTCCAGTATGAATCCCAAAC-G
*
111941 GATACATG
192 GATACACG
111949 CATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCGAAACCGATTATTATAAC
1 CATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCGAAACCGATTATTATAAC
* * *
112014 GTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAACAAGAGAATAGGTCAGCA
66 GTAATAGGTAAATTTACAATGTAACCGGTAAAAATATATCGGTTTAACGAGAGAATAGGTAAGCA
* *
112079 AAAAGTATCAATA-ATTTTTAAGTTGTATCGATACATTTTTTTCCAGTATGAA
131 AAAAGTATCGATACATTTTTAAGTTGTATCGATAC-TTTTTGTCCAGTATGAA
112131 ATCACTGATA
Statistics
Matches: 519, Mismatches: 53, Indels: 21
0.88 0.09 0.04
Matches are distributed among these distances:
199 151 0.29
200 184 0.35
201 184 0.35
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (199 bp):
CATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCGAAACCGATTATTATAAC
GTAATAGGTAAATTTACAATGTAACCGGTAAAAATATATCGGTTTAACGAGAGAATAGGTAAGCA
AAAAGTATCGATACATTTTTAAGTTGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGGATA
CACG
Found at i:111965 original size:19 final size:21
Alignment explanation
Indices: 111941--111983 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
111931 TCCCAAACGG
111941 GATACATGCAT-A-AAGTATC
1 GATACATGCATGAGAAGTATC
*
111960 GATACATGTATGAGAAGTATC
1 GATACATGCATGAGAAGTATC
111981 GAT
1 GAT
111984 CCTTAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 1 0.05
21 10 0.48
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (21 bp):
GATACATGCATGAGAAGTATC
Found at i:112126 original size:401 final size:400
Alignment explanation
Indices: 111376--112130 Score: 1176
Period size: 401 Copynumber: 1.9 Consensus size: 400
111366 TGTTTAAATT
111376 GTATCGATCCTTAAAACATCAGAACCGATTATTATAACGTAATAGGTAAATTTACAATCTAACTG
1 GTATCGATCCTTAAAACATCAGAACCGATTATTATAACGTAATAGGTAAATTTACAATCTAACTG
* * **
111441 GTAAAAATATATCGGTTTAACGAGAGAATAGGTAATTAAAAAATATCGATACATTTTTAAGTTTA
66 GTAAAAATATATCGGTTTAACGAGAAAATAAGTAAGCAAAAAATATCGATACATTTTTAAGTTTA
** *
111506 TCGATACTTTTTGTCCAGTATAAAACCCAAACGAGATGTTCGCATAATGTATCAATACATGTAAG
131 TCGATACTTTTTGTCCAGTATAAAACCCAAACGAGATCATCGCATAAAGTATCAATACATGTAAG
111571 AGAAGTATCGATCCTTAAAACATCGAAACCGATTATTATAACGTAATACGTAAATTTAAAATGTA
196 AGAAGTATCGATCCTTAAAACATCGAAACCGATTATTATAACGTAATACGTAAATTTAAAATGTA
* * * ** *
111636 ACCGGTAAAAATATATCGGTTTAACGAGAGAATATGTAAGCAAAAAGTATTTATACGTTTTTAAG
261 ACCGGTAAAAATATACCGGTTTAACAAGAGAATAGGTAAGCAAAAAGTATCAATACATTTTTAAG
111701 TTGTATCGATACTTTTTGTCCAGTATGAATCCCAAACAGGATACACGCATAAAATATTCGATACA
326 TTGTATCGATACTTTTTGTCCAGTATGAATCCCAAACAGGATACACGCATAAAATATTCGATACA
111766 TGTATGAGAA
391 TGTATGAGAA
* * *
111776 GTATCGATCTTTAAAACATCA-AACCCGATTATTATAACGTAATAGGTAAATTTACATTGTAACT
1 GTATCGATCCTTAAAACATCAGAA-CCGATTATTATAACGTAATAGGTAAATTTACAATCTAACT
* * * *
111840 GGTAAAATTATA-CTGGTTTAACGAGAAAATAAGTAAGCCAAAAGTATCGATACGTTTTTAAGTT
65 GGTAAAAATATATC-GGTTTAACGAGAAAATAAGTAAGCAAAAAATATCGATACATTTTTAAGTT
* * * *
111904 ATATCGATACTTTTTGTCCAGTATGAATCCCAAACGGGATACAT-GCATAAAGTATCGATACATG
129 -TATCGATACTTTTTGTCCAGTATAAAACCCAAACGAGAT-CATCGCATAAAGTATCAATACATG
* * *
111968 TATGAGAAGTATCGATCCTTAAAACATCGAAACCGATTATTATAACGTAATAGGTAAATTTACAA
192 TAAGAGAAGTATCGATCCTTAAAACATCGAAACCGATTATTATAACGTAATACGTAAATTTAAAA
*
112033 TGTAACCGGTAAAAATATACCGGTTTAACAAGAGAATAGGTCAGCAAAAAGTATCAATA-ATTTT
257 TGTAACCGGTAAAAATATACCGGTTTAACAAGAGAATAGGTAAGCAAAAAGTATCAATACATTTT
*
112097 TAAGTTGTATCGATACATTTTTTTCCAGTATGAA
322 TAAGTTGTATCGATAC-TTTTTGTCCAGTATGAA
112131 ATCACTGATA
Statistics
Matches: 321, Mismatches: 29, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
399 3 0.01
400 132 0.41
401 185 0.58
402 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (400 bp):
GTATCGATCCTTAAAACATCAGAACCGATTATTATAACGTAATAGGTAAATTTACAATCTAACTG
GTAAAAATATATCGGTTTAACGAGAAAATAAGTAAGCAAAAAATATCGATACATTTTTAAGTTTA
TCGATACTTTTTGTCCAGTATAAAACCCAAACGAGATCATCGCATAAAGTATCAATACATGTAAG
AGAAGTATCGATCCTTAAAACATCGAAACCGATTATTATAACGTAATACGTAAATTTAAAATGTA
ACCGGTAAAAATATACCGGTTTAACAAGAGAATAGGTAAGCAAAAAGTATCAATACATTTTTAAG
TTGTATCGATACTTTTTGTCCAGTATGAATCCCAAACAGGATACACGCATAAAATATTCGATACA
TGTATGAGAA
Found at i:115149 original size:24 final size:23
Alignment explanation
Indices: 115098--115156 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
115088 TTTCATGTTC
*
115098 ATTTCATTTTAATTGGAGTTTGA
1 ATTTCATTTTAATTGGAGTTTCA
* * *
115121 TTTTCTTTTTCAATTTGAGTTTCA
1 ATTTCATTTT-AATTGGAGTTTCA
*
115145 ATTTCAATTTAA
1 ATTTCATTTTAA
115157 ATTTCGGCTC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.56
Consensus pattern (23 bp):
ATTTCATTTTAATTGGAGTTTCA
Found at i:119316 original size:118 final size:117
Alignment explanation
Indices: 119109--119366 Score: 369
Period size: 118 Copynumber: 2.2 Consensus size: 117
119099 TAACAAATTA
* *
119109 AGTAATTAACCTATTTTGTTATCGTCAGATTTCCAAAGCCCCATCAGCTTAAAAAGGCGCTACCT
1 AGTAATTAACCGATTATGTTATCGTCAGATTTCCAAAGCCCCATCAGCTTAAAAAGGCGCTACCT
* * *
119174 ATTACGTTATATAAGCGCTACCTAATTTGTTATTATGCTTGATAATGTT-TC
66 ATTACGTTATATAAGCGCTACCTAATATATTATTATGCTTGATAATGTTAAC
**
119225 TAGTAATTAACCGATTATGTTATCGTC-GAATTTCCAAAGCCCCATCCA-CTTTAAAAAGGTTCT
1 -AGTAATTAACCGATTATGTTATCGTCAG-ATTTCCAAAGCCCCAT-CAGC-TTAAAAAGGCGCT
* *
119288 ACCTATTTCGTTATATAAGCGCTACCTAATATATTATTGTGCTTGATAATGTTAAC
62 ACCTATTACGTTATATAAGCGCTACCTAATATATTATTATGCTTGATAATGTTAAC
*
119344 AGTAATTAACCGGTTATGTTATC
1 AGTAATTAACCGATTATGTTATC
119367 ATCTATATTT
Statistics
Matches: 127, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
116 1 0.01
117 41 0.32
118 84 0.66
119 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (117 bp):
AGTAATTAACCGATTATGTTATCGTCAGATTTCCAAAGCCCCATCAGCTTAAAAAGGCGCTACCT
ATTACGTTATATAAGCGCTACCTAATATATTATTATGCTTGATAATGTTAAC
Found at i:122325 original size:98 final size:98
Alignment explanation
Indices: 122165--122651 Score: 705
Period size: 98 Copynumber: 5.0 Consensus size: 98
122155 GCCTACCCGA
* ** * * *
122165 AGGTCTTATGGATGGCCCGAAGGACTTAATTTTCTAAACATTAAATGAGAAACTTTGGTAATCGT
1 AGGTTTTATGGATGGCGTGGAGGACTTAATTTTCTGAACATTAAATGAGAAACTTTGGTAATCGC
122230 TTTCTCATTTTCATGTGAAAACATCCTACCTAG
66 TTTCTCATTTTCATGTGAAAACATCCTACCTAG
*
122263 AGGTTTTACGGATGGCGTGGAGGACTTAATTTTCTGAACATTAAATGAGAAACTTTGGTAATCGC
1 AGGTTTTATGGATGGCGTGGAGGACTTAATTTTCTGAACATTAAATGAGAAACTTTGGTAATCGC
* *
122328 TTTCTCATTTTCATGTGAAAACATTCTACCGA-
66 TTTCTCATTTTCATGTGAAAACATCCTACCTAG
* *
122360 AGGCTTTA-GGAATGGC-TCGGAGGACTTAATTTTATGAACATTAAATGAGAAACTTTGGTAATC
1 AGGTTTTATGG-ATGGCGT-GGAGGACTTAATTTTCTGAACATTAAATGAGAAACTTTGGTAATC
* *
122423 ACTTCCTCATTTTCATGTGAAAACATCCTACCCT-G
64 GCTTTCTCATTTTCATGTGAAAACATCCTA-CCTAG
*
122458 AGGTTTTATGGATGACCG-GGAGGACTTAATTTTCTGAACATTAAATGAGAAACTTTGGTAATCG
1 AGGTTTTATGGATG-GCGTGGAGGACTTAATTTTCTGAACATTAAATGAGAAACTTTGGTAATCG
*
122522 CTTCCTCATTTTCATGTGAAAACATCCTACCTAG
65 CTTTCTCATTTTCATGTGAAAACATCCTACCTAG
* ** * *
122556 AGGTTTTATGGAGGGCCCGTAGGATTTAATTTTCTGAAACATTAAATGAGAAACTTTGGTAATCG
1 AGGTTTTATGGATGGCGTGGAGGACTTAATTTTCTG-AACATTAAATGAGAAACTTTGGTAATCG
*
122621 CTTTCTCATTTTCATGTGAAAACATTCTACC
65 CTTTCTCATTTTCATGTGAAAACATCCTACC
122652 CGAAGGCTTT
Statistics
Matches: 353, Mismatches: 26, Indels: 19
0.89 0.07 0.05
Matches are distributed among these distances:
96 3 0.01
97 87 0.25
98 203 0.58
99 60 0.17
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (98 bp):
AGGTTTTATGGATGGCGTGGAGGACTTAATTTTCTGAACATTAAATGAGAAACTTTGGTAATCGC
TTTCTCATTTTCATGTGAAAACATCCTACCTAG
Found at i:122493 original size:195 final size:197
Alignment explanation
Indices: 122170--122652 Score: 751
Period size: 195 Copynumber: 2.5 Consensus size: 197
122160 CCCGAAGGTC
* *
122170 TTATGGATGGCCCGAAGGACTTAATTTTCTAAACATTAAATGAGAAACTTTGGTAATCGTTTTCT
1 TTATGGATGGCCCGAAGGACTTAATTTTCTGAACATTAAATGAGAAACTTTGGTAATCGCTTTCT
*
122235 CATTTTCATGTGAAAACATCCTA-CCTAGAGGTTTTACGGATGGCGTGGAGGACTTAATTTTCTG
66 CATTTTCATGTGAAAACATCCTACCCTAGAGGTTTTACGGATGCCGTGGAGGACTTAATTTTCTG
* *
122299 AACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAAAACATTCTACCGA-AGG
131 AACATTAAATGAGAAACTTTGGTAATCGCTTCCTCATTTTCATGTGAAAACATCCTACCGAGAGG
122363 CT
196 CT
* * * * *
122365 TTA-GGAATGGCTCGGAGGACTTAATTTTATGAACATTAAATGAGAAACTTTGGTAATCACTTCC
1 TTATGG-ATGGCCCGAAGGACTTAATTTTCTGAACATTAAATGAGAAACTTTGGTAATCGCTTTC
*
122429 TCATTTTCATGTGAAAACATCCTACCCT-GAGGTTTTATGGATGACCG-GGAGGACTTAATTTTC
65 TCATTTTCATGTGAAAACATCCTACCCTAGAGGTTTTACGGATG-CCGTGGAGGACTTAATTTTC
*
122492 TGAACATTAAATGAGAAACTTTGGTAATCGCTTCCTCATTTTCATGTGAAAACATCCTACCTAGA
129 TGAACATTAAATGAGAAACTTTGGTAATCGCTTCCTCATTTTCATGTGAAAACATCCTACCGAGA
*
122557 GGTT
194 GGCT
* * *
122561 TTATGGAGGGCCCGTAGGATTTAATTTTCTGAAACATTAAATGAGAAACTTTGGTAATCGCTTTC
1 TTATGGATGGCCCGAAGGACTTAATTTTCTG-AACATTAAATGAGAAACTTTGGTAATCGCTTTC
*
122626 TCATTTTCATGTGAAAACATTCTACCC
65 TCATTTTCATGTGAAAACATCCTACCC
122653 GAAGGCTTTA
Statistics
Matches: 261, Mismatches: 21, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
194 2 0.01
195 168 0.64
196 32 0.12
197 59 0.23
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (197 bp):
TTATGGATGGCCCGAAGGACTTAATTTTCTGAACATTAAATGAGAAACTTTGGTAATCGCTTTCT
CATTTTCATGTGAAAACATCCTACCCTAGAGGTTTTACGGATGCCGTGGAGGACTTAATTTTCTG
AACATTAAATGAGAAACTTTGGTAATCGCTTCCTCATTTTCATGTGAAAACATCCTACCGAGAGG
CT
Found at i:123175 original size:249 final size:249
Alignment explanation
Indices: 122730--123299 Score: 860
Period size: 249 Copynumber: 2.3 Consensus size: 249
122720 GGAAATCGCT
*
122730 TTCTTACTTTTCAAAAATTTTATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGTTTTCTC
1 TTCTTACTTTTCAAAAATTTCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGTTTTCTC
**
122795 ATTTTCATGCGAAAATCATATGTAAACATTTTACCCAAAGGTCTGACAGATGGCCCTAAAGACTT
66 ATTTTCATGCGAAAATCATATGTAAACATCCTACCCAAAGGTCTGACAGATGGCCCTAAAGACTT
* * * * * * *
122860 ATCATGTTGCTCAAAATACTGACAGATCGCCCTAAGGATTTAAGCGTCATGCTCGAAAGGCTGAC
131 ATCATCTTACACAAAAGACTGACAGATCGCACTAAGGATTTAAGCATCATGCTCGAAAGACTGAC
122925 AGATGACCCAAAGGATTTACAAATTTGTGGGAAATAATTTACTGGGTAAGAAAC
196 AGATGACCCAAAGGATTTACAAATTTGTGGGAAATAATTTACTGGGTAAGAAAC
**
122979 TTCTTACTTTTCAAAAATTTCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCCCTTTCTC
1 TTCTTACTTTTCAAAAATTTCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGTTTTCTC
* * *
123044 ATTTTCATGTGAAAATCATATGTAAACATCCTACCCAAAGGTCTGACGGATGGCCCTAAGGACTT
66 ATTTTCATGCGAAAATCATATGTAAACATCCTACCCAAAGGTCTGACAGATGGCCCTAAAGACTT
* * *
123109 ATTATCTTACACAAAAGACTGACATAT-GACACTAAGGATTTAATCATCATGCTCGAAAGACTGA
131 ATCATCTTACACAAAAGACTGACAGATCG-CACTAAGGATTTAAGCATCATGCTCGAAAGACTGA
* * *
123173 CAGATGACCCGAAGGTTTTACAAATTTGTGGGAAATAATTTATTGGGTAAGAAAC
195 CAGATGACCCAAAGGATTTACAAATTTGTGGGAAATAATTTACTGGGTAAGAAAC
* *
123228 TTCTTAC-TTTCAAAAATTTC-TTTT-TTAGAAAAGATTAAATGAGAAACTTTGGAAATCGTTTT
1 TTCTTACTTTTCAAAAATTTCATTTTCTT-G--AACATTAAATGAGAAACTTTGAAAATCGTTTT
*
123290 CTTATTTTCA
63 CTCATTTTCA
123300 AAACAACTTG
Statistics
Matches: 291, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
246 2 0.01
247 5 0.02
248 14 0.05
249 270 0.93
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (249 bp):
TTCTTACTTTTCAAAAATTTCATTTTCTTGAACATTAAATGAGAAACTTTGAAAATCGTTTTCTC
ATTTTCATGCGAAAATCATATGTAAACATCCTACCCAAAGGTCTGACAGATGGCCCTAAAGACTT
ATCATCTTACACAAAAGACTGACAGATCGCACTAAGGATTTAAGCATCATGCTCGAAAGACTGAC
AGATGACCCAAAGGATTTACAAATTTGTGGGAAATAATTTACTGGGTAAGAAAC
Found at i:124683 original size:41 final size:40
Alignment explanation
Indices: 124600--124701 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 40
124590 GATGTGATCA
*
124600 TTCAAAATGCCCC-ACATGGATCATTTCTGTCTAAAATGGGCC
1 TTCAAAATGCCCCAACAT---TCATTTCTGTCTAAAATAGGCC
124642 TTCAAAATGCCCCAACATTCTATTTCTGGT-TAAAATAGGCC
1 TTCAAAATGCCCCAACATTC-ATTTCT-GTCTAAAATAGGCC
*
124683 TTCAAAATGTCCCAACATT
1 TTCAAAATGCCCCAACATT
124702 TTCATGATGA
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
40 2 0.04
41 34 0.62
42 15 0.27
43 4 0.07
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (40 bp):
TTCAAAATGCCCCAACATTCATTTCTGTCTAAAATAGGCC
Found at i:126883 original size:31 final size:31
Alignment explanation
Indices: 126848--126906 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
126838 AATACTATCC
126848 CACATTGGGTGGAAAATACTACTTGCAATCT
1 CACATTGGGTGGAAAATACTACTTGCAATCT
126879 CACATTGGGTGGAAAATACTACTTGCAA
1 CACATTGGGTGGAAAATACTACTTGCAA
126907 GAGTATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (31 bp):
CACATTGGGTGGAAAATACTACTTGCAATCT
Found at i:135341 original size:22 final size:22
Alignment explanation
Indices: 135316--135398 Score: 57
Period size: 22 Copynumber: 3.9 Consensus size: 22
135306 TTTTTAATAC
** *
135316 TATATTTATTTTTAAATTATAT
1 TATATTTATTTCAAAACTATAT
* *
135338 TATATATGTTTCAAAACTATAT
1 TATATTTATTTCAAAACTATAT
* *
135360 TATA-TTATAT--ATA-TATAT
1 TATATTTATTTCAAAACTATAT
*
135378 ATATATATATTTCAAAACTAT
1 -TATATTTATTTCAAAACTAT
135399 TTTCAAAACT
Statistics
Matches: 44, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
18 5 0.11
19 6 0.14
20 4 0.09
21 3 0.07
22 23 0.52
23 3 0.07
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (22 bp):
TATATTTATTTCAAAACTATAT
Found at i:135357 original size:39 final size:41
Alignment explanation
Indices: 135314--135398 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
135304 TATTTTTAAT
* *
135314 ACTATATT-TATTTTTAAAT-TATAT-TATATATGTTTCAAA
1 ACTATATTATA-TTATAAATATATATATATATATATTTCAAA
*
135353 ACTATATTATATTATATATATATATATATATATATTTCAAA
1 ACTATATTATATTATAAATATATATATATATATATTTCAAA
135394 ACTAT
1 ACTAT
135399 TTTCAAAACT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
39 14 0.35
40 7 0.17
41 19 0.47
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (41 bp):
ACTATATTATATTATAAATATATATATATATATATTTCAAA
Found at i:135372 original size:2 final size:2
Alignment explanation
Indices: 135355--135387 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
135345 GTTTCAAAAC
135355 TA TA T- TA TA T- 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
135388 TTCAAAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:135412 original size:41 final size:40
Alignment explanation
Indices: 135333--135417 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
135323 ATTTTTAAAT
* **
135333 TATATTATATATGTTTCAAAACTATATTATATTATATATA
1 TATATTATATATATTTCAAAACTATATTATAAAATATATA
135373 TATATATATATATATTTCAAAACTAT-TT-TCAAAACTATATA
1 TATAT-TATATATATTTCAAAACTATATTAT-AAAA-TATATA
135414 TATA
1 TATA
135418 ACCAAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
39 1 0.03
40 9 0.23
41 29 0.74
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (40 bp):
TATATTATATATATTTCAAAACTATATTATAAAATATATA
Found at i:135831 original size:89 final size:89
Alignment explanation
Indices: 135596--136279 Score: 1012
Period size: 89 Copynumber: 7.7 Consensus size: 89
135586 TCCACTGCAA
* * * * *
135596 CTTTAAGGGATATCATACTCGAGATTGATTTGCTTTGCTGCTTATTCAGGAAGACCAAATCTGAA
1 CTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAA
135661 ATAAGAAGAATATGCTCCACTACT
66 ATAAGAAGAATATGCTCCACTACT
* *
135685 CTTTA-GGGAGATCAGACTCGAGATTGATTTGCTTCGCTACTTCTTCAGGAAGACCAAATATGAA
1 CTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAA
* * *
135749 ATAAAAAGAATATGCTCAATTACT
66 ATAAGAAGAATATGCTCCACTACT
* * * * *
135773 CTTTAGGGGATATTAGACTCGAGATTGATTTGCTTCACTACTTCTTCAGAAAGACCAAATCTGAA
1 CTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAA
*
135838 ATAAGAAGAATCTGCTCCACTACT
66 ATAAGAAGAATATGCTCCACTACT
*
135862 CTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTTAGGAAGACCAAATCTGAA
1 CTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAA
* * *
135927 ATAAAAAGAATCTACTCCACTACT
66 ATAAGAAGAATATGCTCCACTACT
* * * * *
135951 CTTTAGTGGAGATTAGACTCGAGATTGATTTGCTTCGTTTCTTCTTCAGGAAGACCAAATTTGAA
1 CTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAA
* *
136016 ATAAGAAGAATTTGGTCCACTACT
66 ATAAGAAGAATATGCTCCACTACT
* * * *
136040 CGTTAAGGGAGATTAGTCTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAA
1 CTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAA
* *
136105 ATAAGAAGAATCTGCTCAACTACT
66 ATAAGAAGAATATGCTCCACTACT
* * *
136129 CTTTAGGGGAGATCATACTCGAGATTGATTTGCTAT-GCTACTTCTTCAGGAAGACCAAATCTAA
1 CTTTAGGGGAGATCAGACTCGAGATTGATTTGCT-TCGCTGCTTCTTCAGGAAGACCAAATCTGA
136193 AATAAGAAGAATATGCTCCACTACT
65 AATAAGAAGAATATGCTCCACTACT
*
136218 CTTTAGGAGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCT
1 CTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCT
136280 AAAAGATTGA
Statistics
Matches: 534, Mismatches: 58, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
88 80 0.15
89 453 0.85
90 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (89 bp):
CTTTAGGGGAGATCAGACTCGAGATTGATTTGCTTCGCTGCTTCTTCAGGAAGACCAAATCTGAA
ATAAGAAGAATATGCTCCACTACT
Found at i:136317 original size:29 final size:29
Alignment explanation
Indices: 136285--136411 Score: 92
Period size: 29 Copynumber: 4.1 Consensus size: 29
136275 AATCTAAAAG
* *
136285 ATTGACTTCTCTTCATAAGGAAGTCAAGA
1 ATTGACTCCTCTTCACAAGGAAGTCAAGA
* *
136314 ATTGACTCCTCTTCACGAGGGAGTCAAGAATAAAAAA
1 ATTGACTCCTCTTCACAAGGAAGTCAAG--------A
* * *
136351 GATTGACTTCTCTTCACGAGGAAGTCAAGG
1 -ATTGACTCCTCTTCACAAGGAAGTCAAGA
* *
136381 ATTGACTCCTCTTCGCAAGGGAGTCAAGA
1 ATTGACTCCTCTTCACAAGGAAGTCAAGA
136410 AT
1 AT
136412 AACAAAGATT
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
29 50 0.65
37 1 0.01
38 26 0.34
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (29 bp):
ATTGACTCCTCTTCACAAGGAAGTCAAGA
Found at i:136364 original size:67 final size:67
Alignment explanation
Indices: 136280--136491 Score: 327
Period size: 67 Copynumber: 3.2 Consensus size: 67
136270 GACCAAATCT
** *
136280 AAAAGATTGACTTCTCTTCATAAGGAAGTCAAGAATTGACTCCTCTTCACGAGGGAGTCAAGAAT
1 AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCCTCTTCACGAGGGAGTCAAGAAT
136345 AA
66 AA
* *
136347 AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCCTCTTCGCAAGGGAGTCAAGAAT
1 AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCCTCTTCACGAGGGAGTCAAGAAT
136412 AA
66 AA
* * *
136414 CAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACT-CTCTTCACGAGGGAGTTAGGAAT
1 AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCCTCTTCACGAGGGAGTCAAGAAT
136478 AA
66 AA
* *
136480 CAAAGGTTGACT
1 AAAAGATTGACT
136492 AGATTGAGTC
Statistics
Matches: 134, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
66 32 0.24
67 102 0.76
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (67 bp):
AAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCCTCTTCACGAGGGAGTCAAGAAT
AA
Found at i:136365 original size:38 final size:37
Alignment explanation
Indices: 136314--136446 Score: 138
Period size: 38 Copynumber: 3.8 Consensus size: 37
136304 GAAGTCAAGA
*
136314 ATTGACTCCTCTTCACGAGGGAGTCAAGAATAAAAAAG
1 ATTGACTCCTCTTCACGAGGAAGTCAAGAAT-AAAAAG
*
136352 ATTGACTTCTCTTCACGAGGAAGTCAAG--------G
1 ATTGACTCCTCTTCACGAGGAAGTCAAGAATAAAAAG
* * *
136381 ATTGACTCCTCTTCGCAAGGGAGTCAAGAATAACAAAG
1 ATTGACTCCTCTTCACGAGGAAGTCAAGAATAA-AAAG
*
136419 ATTGACTTCTCTTCACGAGGAAGTCAAG
1 ATTGACTCCTCTTCACGAGGAAGTCAAG
136447 GATTGACTCT
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
29 25 0.33
38 51 0.67
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (37 bp):
ATTGACTCCTCTTCACGAGGAAGTCAAGAATAAAAAG
Found at i:137140 original size:42 final size:41
Alignment explanation
Indices: 137032--137144 Score: 100
Period size: 42 Copynumber: 2.7 Consensus size: 41
137022 CTTCTACATC
* * * * * *
137032 CGAAAGTCTTACGGATGGCTCGAAAGACTTATTATCTTGCT
1 CGAAAGACTTACAGATGGCCCGAAGGACTTATCATCATGCT
* * ** * *
137073 CTAAAGACTTACAAATGAACTGAAGGATTTAATCATCATGCT
1 CGAAAGACTTACAGATGGCCCGAAGGACTT-ATCATCATGCT
*
137115 CGAAAGACTTACTGATGGCCCGAAGGACTT
1 CGAAAGACTTACAGATGGCCCGAAGGACTT
137145 CCCAATTTGG
Statistics
Matches: 52, Mismatches: 19, Indels: 1
0.72 0.26 0.01
Matches are distributed among these distances:
41 20 0.38
42 32 0.62
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (41 bp):
CGAAAGACTTACAGATGGCCCGAAGGACTTATCATCATGCT
Found at i:140761 original size:17 final size:17
Alignment explanation
Indices: 140739--140774 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
140729 ATTGGCTTTC
*
140739 ATCCTTATTCTTTGAAG
1 ATCCTTATGCTTTGAAG
*
140756 ATCCTTATGCTTTGGAG
1 ATCCTTATGCTTTGAAG
140773 AT
1 AT
140775 AAGCCTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (17 bp):
ATCCTTATGCTTTGAAG
Found at i:145014 original size:22 final size:25
Alignment explanation
Indices: 144977--145042 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
144967 AAAATAAAAT
*
144977 AATAATACTAATTAAAATA-TTAAAC
1 AATAATA-AAATTAAAATATTTAAAC
145002 -AT-ATAAAATTAAAATATATTTAAAC
1 AATAATAAAATT-AAA-ATATTTAAAC
145027 AATAATAAAATTAAAA
1 AATAATAAAATTAAAA
145043 CTAAATATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
22 4 0.11
23 6 0.17
24 5 0.14
25 7 0.20
26 5 0.14
27 8 0.23
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (25 bp):
AATAATAAAATTAAAATATTTAAAC
Found at i:145039 original size:27 final size:28
Alignment explanation
Indices: 144991--145064 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
144981 ATACTAATTA
144991 AAATATTAAAC-AT-ATAAAATTAAAA-T
1 AAAT-TTAAACAATAATAAAATTAAAACT
*
145017 ATATTTAAACAATAATAAAATTAAAACT
1 AAATTTAAACAATAATAAAATTAAAACT
*
145045 AAATATAAA-AAGTAATAAAA
1 AAATTTAAACAA-TAATAAAA
145065 CTTGTAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.15
26 5 0.12
27 14 0.34
28 16 0.39
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (28 bp):
AAATTTAAACAATAATAAAATTAAAACT
Found at i:145318 original size:16 final size:16
Alignment explanation
Indices: 145297--145328 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
145287 ACTAAAACAT
145297 ATTAAAATAAATAAAA
1 ATTAAAATAAATAAAA
*
145313 ATTAAAATAATTAAAA
1 ATTAAAATAAATAAAA
145329 TTTACAACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATTAAAATAAATAAAA
Found at i:146232 original size:18 final size:17
Alignment explanation
Indices: 146206--146239 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
146196 TTTCTATCCT
*
146206 CGTTTCTCTCGTGTTCTC
1 CGTTGCTCTC-TGTTCTC
146224 CGTTGCTCTCTGTTCT
1 CGTTGCTCTCTGTTCT
146240 TTGCTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.00, C:0.32, G:0.18, T:0.50
Consensus pattern (17 bp):
CGTTGCTCTCTGTTCTC
Found at i:146654 original size:3 final size:3
Alignment explanation
Indices: 146646--146686 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
146636 TTTATTTATT
146646 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
146687 AACAAAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:146670 original size:17 final size:17
Alignment explanation
Indices: 146648--146682 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
146638 TATTTATTTA
146648 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
146665 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
146682 A
1 A
146683 ATAAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:146671 original size:20 final size:20
Alignment explanation
Indices: 146646--146685 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
146636 TTTATTTATT
146646 TAATAATAATAATAATAATA
1 TAATAATAATAATAATAATA
146666 TAATAATAATAATAATAATA
1 TAATAATAATAATAATAATA
146686 AAACAAAAAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TAATAATAATAATAATAATA
Found at i:147006 original size:28 final size:28
Alignment explanation
Indices: 146970--147024 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
146960 TCCCGAAGGC
146970 TTTTTGGAAACATCATGCACTGAAGGGA
1 TTTTTGGAAACATCATGCACTGAAGGGA
146998 TTTTTGGAAACATCATGCACTGAAGGG
1 TTTTTGGAAACATCATGCACTGAAGGG
147025 CTTACAGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (28 bp):
TTTTTGGAAACATCATGCACTGAAGGGA
Found at i:147037 original size:104 final size:104
Alignment explanation
Indices: 146894--147099 Score: 385
Period size: 104 Copynumber: 2.0 Consensus size: 104
146884 TCCCGAAGGC
**
146894 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGCTTTGAAAACATCAAAAAG
1 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAG
146959 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGA
66 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGA
*
146998 TTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAG
1 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAG
147063 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGG
66 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGG
147100 ACTTACAGAT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 99 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (104 bp):
TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAG
CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGA
Found at i:147086 original size:76 final size:76
Alignment explanation
Indices: 146998--147338 Score: 655
Period size: 76 Copynumber: 4.5 Consensus size: 76
146988 ACTGAAGGGA
* *
146998 TTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAG
1 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAG
147063 CTCCCGAAGGC
66 CTCCCGAAGGC
*
147074 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAG
1 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAG
147139 CTCCCGAAGGC
66 CTCCCGAAGGC
147150 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAG
1 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAG
147215 CTCCCGAAGGC
66 CTCCCGAAGGC
147226 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAG
1 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAG
147291 CTCCCGAAGGC
66 CTCCCGAAGGC
147302 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
1 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
147339 TGAGAAATAA
Statistics
Matches: 263, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 263 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (76 bp):
TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAG
CTCCCGAAGGC
Found at i:147154 original size:180 final size:180
Alignment explanation
Indices: 146852--147175 Score: 587
Period size: 180 Copynumber: 1.8 Consensus size: 180
146842 GGTCTTATGA
*
146852 ATGACCCCGAGGGTTTAAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCCGAGGCTTTAAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
**
146917 AGGACTTACAGATGACCTTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
66 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
146982 TCATGCACTGAAGGGATTTTTGGAAACATCATGCACTGAAGGGCTTACAG
131 TCATGCACTGAAGGGATTTTTGGAAACATCATGCACTGAAGGGCTTACAG
* *
147032 ATGA-CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGACCCCG-AGGCTTTAAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTG
147096 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
65 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
147161 ATCATGCACTGAAGG
130 ATCATGCACTGAAGG
147176 ACTTACAGAT
Statistics
Matches: 138, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
179 4 0.03
180 134 0.97
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (180 bp):
ATGACCCCGAGGCTTTAAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
TCATGCACTGAAGGGATTTTTGGAAACATCATGCACTGAAGGGCTTACAG
Found at i:148039 original size:22 final size:22
Alignment explanation
Indices: 148014--148093 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
148004 CATAAAGCTT
*
148014 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
* * *
148036 TCATCTTTAAAAAGAAAATTTG
1 TCATCTTTAAAAAGAGAATCTA
* * **
148058 TCATCTCTGAAGTGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
*
148080 TTATCTTTAAAAAG
1 TCATCTTTAAAAAG
148094 TGCAGATGTA
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:148527 original size:54 final size:54
Alignment explanation
Indices: 148445--148556 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
148435 CGAATAGCAG
***
148445 GTTCGTAAAACATTTAACAGTGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* **
148499 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
148553 GTTC
1 GTTC
148557 TCAATCATTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:150849 original size:93 final size:93
Alignment explanation
Indices: 150690--151087 Score: 383
Period size: 93 Copynumber: 4.0 Consensus size: 93
150680 CCTATTTCTA
* * * *
150690 CTATGAGCAAAATTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAG
1 CTATGAGCAACATTCATCTTCCAAATTCAATGATTGATTTTGGAGTTCATACCAAACCAGATCAG
150755 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* *
150783 CTATGAGC-ACATTCATCTTCCAAATTCAATGATTGGTTCTGTGG-TTTCATACCAAACCAGATC
1 CTATGAGCAACATTCATCTTCCAAATTCAATGATTGATT-T-TGGAGTTCATACCAAACCAGATC
150846 AGATAACTCAAAGAACACTTCCAGAAGATG
64 AGATAACTCAAAGAACACTTCCAGAAGATG
* * ** *
150876 TTATTGGGTCTTCTTATTTC-TACTATGAGCAAAATTCATCTTTCAAATCCAATGATTGATTTTG
1 CTA-TGAG-CAAC--A-TTCAT-CT-T---C-CAA---A----T----T-CAATGATTGATTTTG
* *
150940 GAGTTCATACCAAATCAGATCAGATAATTCAAAGAACACTTCCAGAAGATG
43 GAGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
*
150991 CTATGAGC-ACATTCATCTTCCAAATTCAATGATTGATTCTGTGG-TTTCATACCAAACCAGATC
1 CTATGAGCAACATTCATCTTCCAAATTCAATGATTGATT-T-TGGAGTTCATACCAAACCAGATC
*
151054 AAATAACTCAAAGAACACTTCCAGAAGATG
64 AGATAACTCAAAGAACACTTCCAGAAGATG
151084 CTAT
1 CTAT
151088 TGGGTCTTCT
Statistics
Matches: 253, Mismatches: 22, Indels: 60
0.76 0.07 0.18
Matches are distributed among these distances:
92 38 0.15
93 109 0.43
94 9 0.04
95 1 0.00
96 1 0.00
97 1 0.00
98 2 0.01
99 5 0.02
100 1 0.00
101 1 0.00
103 1 0.00
104 4 0.02
105 1 0.00
107 1 0.00
108 1 0.00
109 5 0.02
110 2 0.01
111 1 0.00
112 1 0.00
113 1 0.00
114 6 0.02
115 50 0.20
116 11 0.04
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (93 bp):
CTATGAGCAACATTCATCTTCCAAATTCAATGATTGATTTTGGAGTTCATACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATG
Found at i:150944 original size:208 final size:208
Alignment explanation
Indices: 150589--151114 Score: 898
Period size: 208 Copynumber: 2.5 Consensus size: 208
150579 GATCATGCAG
* * * * * *
150589 TTCATCTTTC-AATTCCAATGATCGGTTCTG-GGGTTCTTACCGAATCAGATCAGATAACTCAAA
1 TTCATCTTCCAAATT-CAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAA
* * *
150652 GAACACTTCCAGAAGATGCTA-TGAG-CCTCCTATTTCTACTATGAGCAAAATTCATCTTTCAAA
65 GAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAAATTCATCTTTCAAA
150715 TCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAG
130 TCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAG
150780 ATGCTATGAGCACA
195 ATGCTATGAGCACA
150794 TTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
*
150859 AACACTTCCAGAAGATGTTATTGGGTCTTCTTATTTCTACTATGAGCAAAATTCATCTTTCAAAT
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAAATTCATCTTTCAAAT
*
150924 CCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGAACACTTCCAGAAGA
131 CCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
150989 TGCTATGAGCACA
196 TGCTATGAGCACA
* *
151002 TTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAAATAACTCAAAG
1 TTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
151067 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCA
151115 CATGGCACTT
Statistics
Matches: 303, Mismatches: 14, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
205 23 0.08
206 53 0.17
207 3 0.01
208 224 0.74
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (208 bp):
TTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAAATTCATCTTTCAAAT
CCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
TGCTATGAGCACA
Found at i:150985 original size:115 final size:115
Alignment explanation
Indices: 150783--150990 Score: 321
Period size: 115 Copynumber: 1.8 Consensus size: 115
150773 CCAGAAGATG
* * * *
150783 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAG
1 CTATGAGCAAATTCATCTTCCAAATCCAATGATTGATTCTGTGGGTTCATACCAAACCAGATCAG
150848 ATAACTCAAAGAACACTTCCAGAAGATGTTATTGGGTCTTCTTATTTCTA
66 ATAACTCAAAGAACACTTCCAGAAGATGTTATTGGGTCTTCTTATTTCTA
* *
150898 CTATGAGCAAAATTCATCTTTCAAATCCAATGATTGATT-T-TGGAGTTCATACCAAATCAGATC
1 CTATGAGC-AAATTCATCTTCCAAATCCAATGATTGATTCTGTGG-GTTCATACCAAACCAGATC
*
150961 AGATAATTCAAAGAACACTTCCAGAAGATG
64 AGATAACTCAAAGAACACTTCCAGAAGATG
150991 CTATGAGCAC
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
114 3 0.04
115 55 0.65
116 26 0.31
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (115 bp):
CTATGAGCAAATTCATCTTCCAAATCCAATGATTGATTCTGTGGGTTCATACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATGTTATTGGGTCTTCTTATTTCTA
Found at i:158458 original size:22 final size:25
Alignment explanation
Indices: 158421--158486 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
158411 AAAATAAAAT
*
158421 AATAATACTAATTAAAATA-TTAAAC
1 AATAATA-AAATTAAAATATTTAAAC
158446 -AT-ATAAAATTAAAATATATTTAAAC
1 AATAATAAAATT-AAA-ATATTTAAAC
158471 AATAATAAAATTAAAA
1 AATAATAAAATTAAAA
158487 CTAAATATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
22 4 0.11
23 6 0.17
24 5 0.14
25 7 0.20
26 5 0.14
27 8 0.23
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (25 bp):
AATAATAAAATTAAAATATTTAAAC
Found at i:158508 original size:28 final size:27
Alignment explanation
Indices: 158430--158497 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
158420 TAATAATACT
158430 AATTAAAAT--AT-TAAAC-AT-ATAA
1 AATTAAAATAAATATAAACAATAATAA
* *
158452 AATTAAAATATATTTAAACAATAATAA
1 AATTAAAATAAATATAAACAATAATAA
158479 AATTAAAACTAAATATAAA
1 AATTAAAA-TAAATATAAA
158498 AGGTAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.24
24 2 0.05
25 5 0.13
26 2 0.05
27 12 0.32
28 8 0.21
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (27 bp):
AATTAAAATAAATATAAACAATAATAA
Found at i:158762 original size:16 final size:16
Alignment explanation
Indices: 158741--158772 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
158731 ACTAAAACAT
158741 ATTAAAATAAATAAAA
1 ATTAAAATAAATAAAA
*
158757 ATTAAAATAATTAAAA
1 ATTAAAATAAATAAAA
158773 TTTACAGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATTAAAATAAATAAAA
Found at i:159674 original size:18 final size:17
Alignment explanation
Indices: 159648--159681 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
159638 TTTCTGTCCT
*
159648 CGTTTCTCTCGTGTTCTC
1 CGTTACTCTC-TGTTCTC
159666 CGTTACTCTCTGTTCT
1 CGTTACTCTCTGTTCT
159682 TTGCTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.03, C:0.32, G:0.15, T:0.50
Consensus pattern (17 bp):
CGTTACTCTCTGTTCTC
Found at i:160097 original size:3 final size:3
Alignment explanation
Indices: 160089--160133 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
160079 TTTATTTATT
* *
160089 TAA TAA TAA TAA TAA TAC TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
160134 AACAAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:160979 original size:15 final size:15
Alignment explanation
Indices: 160959--160990 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
160949 CCATTATCAC
160959 TATTAATGATTAAAA
1 TATTAATGATTAAAA
*
160974 TATTAATTATTAAAA
1 TATTAATGATTAAAA
160989 TA
1 TA
160991 GAAACCACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TATTAATGATTAAAA
Found at i:161399 original size:23 final size:23
Alignment explanation
Indices: 161373--161420 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
161363 AACCGATCAT
161373 CGTACATTGGCACCGGTGACCAC
1 CGTACATTGGCACCGGTGACCAC
161396 CGTACATTGGCACCGGTGACCAC
1 CGTACATTGGCACCGGTGACCAC
161419 CG
1 CG
161421 CAAGCCACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.35, G:0.27, T:0.17
Consensus pattern (23 bp):
CGTACATTGGCACCGGTGACCAC
Found at i:161612 original size:3 final size:3
Alignment explanation
Indices: 161604--161685 Score: 91
Period size: 3 Copynumber: 28.0 Consensus size: 3
161594 CGATTGTTTG
* *
161604 GTT GTT GTT GTT GTT GTT GTC GTT GTT G-T GTT -TG GTT GTT GTT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
*
161650 GTT GTT GTC GTT GTT G-T GCTT GTT -TT AGTT GTT GTT
1 GTT GTT GTT GTT GTT GTT G-TT GTT GTT -GTT GTT GTT
161686 AATGGTTATT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
2 7 0.10
3 56 0.84
4 4 0.06
ACGTcount: A:0.01, C:0.04, G:0.33, T:0.62
Consensus pattern (3 bp):
GTT
Found at i:161641 original size:34 final size:34
Alignment explanation
Indices: 161598--161685 Score: 144
Period size: 34 Copynumber: 2.6 Consensus size: 34
161588 TTCTCGCGAT
161598 TGTTTGGTTGTTGTTGTTGTTGTTGTCGTTGTTG
1 TGTTTGGTTGTTGTTGTTGTTGTTGTCGTTGTTG
161632 TGTTTGGTTGTTGTTGTTGTTGTTGTCGTTGTTG
1 TGTTTGGTTGTTGTTGTTGTTGTTGTCGTTGTTG
*
161666 TGCTT-GTT-TTAGTTGTTGTT
1 TGTTTGGTTGTT-GTTGTTGTT
161686 AATGGTTATT
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
32 2 0.04
33 12 0.23
34 38 0.73
ACGTcount: A:0.01, C:0.03, G:0.33, T:0.62
Consensus pattern (34 bp):
TGTTTGGTTGTTGTTGTTGTTGTTGTCGTTGTTG
Found at i:162246 original size:20 final size:18
Alignment explanation
Indices: 162222--162287 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 18
162212 AAAACCATAA
162222 ATTATATTTTTAATACTAT
1 ATTATATTTTTAA-ACTAT
*
162241 ATT-TATTTTTAAATTAT
1 ATTATATTTTTAAACTAT
162258 ATTATATATGTTTCAAAACTAT
1 ATTATAT-T-TTT--AAACTAT
162280 ATTATATT
1 ATTATATT
162288 ATATTATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.17
18 12 0.30
19 4 0.10
20 3 0.08
21 1 0.03
22 13 0.32
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTATATTTTTAAACTAT
Found at i:162263 original size:22 final size:22
Alignment explanation
Indices: 162238--162378 Score: 72
Period size: 23 Copynumber: 6.2 Consensus size: 22
162228 TTTTTAATAC
** *
162238 TATATTTATTTTTAAATTATAT
1 TATATTTATTTCAAAACTATAT
* *
162260 TATATATGTTTCAAAACTATAT
1 TATATTTATTTCAAAACTATAT
*
162282 TATA-TTATATT-ATATA-TATATT
1 TATATTTAT-TTCA-AAACTATA-T
* ** *
162304 TCAAAACTATTTTCAAAACTATAC
1 T-ATATTTA-TTTCAAAACTATAT
* *
162328 TATATATATTTTCAAAACTATAC
1 TATATTTA-TTTCAAAACTATAT
*
162351 TATATATATTTTCAAAACTATAT
1 TATATTTA-TTTCAAAACTATAT
162374 ATATA
1 -TATA
162379 ACCAAAATAA
Statistics
Matches: 94, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
21 7 0.07
22 27 0.29
23 43 0.46
24 11 0.12
25 6 0.06
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.48
Consensus pattern (22 bp):
TATATTTATTTCAAAACTATAT
Found at i:162306 original size:34 final size:33
Alignment explanation
Indices: 162253--162360 Score: 121
Period size: 32 Copynumber: 3.2 Consensus size: 33
162243 TTATTTTTAA
*
162253 ATTATATTATATAT-GTTTCAAAACTATATTAT
1 ATTATATTATATATATTTTCAAAACTATATTAT
* *
162285 ATTATATTATATATATATTTCAAAACTATTTTCAAA
1 ATTATATTATATATAT-TTTCAAAACTATATT--AT
* * *
162321 ACTATACTATATATATTTTCAAAACTATACTAT
1 ATTATATTATATATATTTTCAAAACTATATTAT
162354 A-TATATT
1 ATTATATT
162361 TTCAAAACTA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
32 19 0.30
33 2 0.03
34 14 0.22
35 13 0.21
36 15 0.24
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.47
Consensus pattern (33 bp):
ATTATATTATATATATTTTCAAAACTATATTAT
Found at i:162332 original size:36 final size:33
Alignment explanation
Indices: 162260--162349 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 33
162250 TAAATTATAT
* * *
162260 TATATATGTTTCAAAACTATATTATATTATATTA
1 TATATAT-TTTCAAAACTATATTAAACTATACTA
*
162294 TATATATATTTCAAAACTATTTTCAAAACTATACTA
1 TATATAT-TTTCAAAACTATATT--AAACTATACTA
162330 TATATATTTTCAAAACTATA
1 TATATATTTTCAAAACTATA
162350 CTATATATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 21 0.44
35 12 0.25
36 15 0.31
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (33 bp):
TATATATTTTCAAAACTATATTAAACTATACTA
Found at i:162337 original size:23 final size:23
Alignment explanation
Indices: 162311--162378 Score: 129
Period size: 23 Copynumber: 3.0 Consensus size: 23
162301 ATTTCAAAAC
162311 TATTTTCAAAACTATACTATATA
1 TATTTTCAAAACTATACTATATA
162334 TATTTTCAAAACTATACTATATA
1 TATTTTCAAAACTATACTATATA
162357 TATTTTCAAAACTATA-TATATA
1 TATTTTCAAAACTATACTATATA
162379 ACCAAAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 6 0.13
23 39 0.87
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (23 bp):
TATTTTCAAAACTATACTATATA
Found at i:164059 original size:60 final size:60
Alignment explanation
Indices: 163958--164093 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 60
163948 CATATAATTT
* * * * * * *
163958 GAGATAAAATTGGAATGTTCAAAAAGTTTGGGGAGTAATTTAGAATGA-AGGTCATAGTTTA
1 GAGATGAAATTGAAATGCTC-ATAAGTTTGAGGAGTAATTTAGAATGATA-GTCATAATTGA
* *
164019 GGGATGAAATTGAAATGCTCATAAGTTTGAGG-GTAAATTTAGAATGATAGTCGTAATTGA
1 GAGATGAAATTGAAATGCTCATAAGTTTGAGGAGT-AATTTAGAATGATAGTCATAATTGA
164079 GAGATGAAATTGAAA
1 GAGATGAAATTGAAA
164094 CATTTAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
59 2 0.03
60 44 0.70
61 17 0.27
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.30
Consensus pattern (60 bp):
GAGATGAAATTGAAATGCTCATAAGTTTGAGGAGTAATTTAGAATGATAGTCATAATTGA
Found at i:166914 original size:14 final size:15
Alignment explanation
Indices: 166895--166927 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
166885 TTAAATTTGA
166895 ATTTGGGA-TTTATC
1 ATTTGGGATTTTATC
166909 ATTT-GGATTTTATC
1 ATTTGGGATTTTATC
166923 ATTTG
1 ATTTG
166928 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (15 bp):
ATTTGGGATTTTATC
Found at i:166957 original size:24 final size:25
Alignment explanation
Indices: 166913--166959 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
166903 TTTATCATTT
*
166913 GGATTTTATCATTTGATTATTTTTA
1 GGATTTTATCATTTGACTATTTTTA
*
166938 GGATTTTATC-TTTGGCTATTTT
1 GGATTTTATCATTTGACTATTTT
166960 CACTTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.19, C:0.06, G:0.15, T:0.60
Consensus pattern (25 bp):
GGATTTTATCATTTGACTATTTTTA
Found at i:169649 original size:20 final size:20
Alignment explanation
Indices: 169624--169743 Score: 70
Period size: 23 Copynumber: 5.7 Consensus size: 20
169614 AAGAAAAAAC
169624 ATAAAA-AAGTAAAAATAATA
1 ATAAAATAA-TAAAAATAATA
169644 ATAAAATAATAAAAATAA-A
1 ATAAAATAATAAAAATAATA
*
169663 GA-AAAATAATAAAAAATCAAAA
1 -ATAAAATAAT-AAAAAT-AATA
* *
169685 GATAAAAAAAGAAGACAAATAA-A
1 -ATAAAATAA-TA-A-AAATAATA
169708 ATAGAAATAATAAATTAAATAATA
1 ATA-AAATAAT-AA--AAATAATA
169732 ATAAAA-AATAAA
1 ATAAAATAATAAA
169744 TCAAAGGAGA
Statistics
Matches: 82, Mismatches: 5, Indels: 27
0.72 0.04 0.24
Matches are distributed among these distances:
19 10 0.12
20 22 0.27
21 6 0.07
22 10 0.12
23 23 0.28
24 7 0.09
25 4 0.05
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (20 bp):
ATAAAATAATAAAAATAATA
Found at i:169657 original size:19 final size:19
Alignment explanation
Indices: 169633--169677 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
169623 CATAAAAAAG
169633 TAAAAATAATA-ATAAAATAA
1 TAAAAATAA-AGA-AAAATAA
169653 TAAAAATAAAGAAAAATAA
1 TAAAAATAAAGAAAAATAA
169672 TAAAAA
1 TAAAAA
169678 ATCAAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (19 bp):
TAAAAATAAAGAAAAATAA
Found at i:169684 original size:27 final size:25
Alignment explanation
Indices: 169618--169694 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 25
169608 AAATCAAAGA
*
169618 AAAAACATAAAAAAGTAAAAATAATAAT
1 AAAAA-AT-AAAAA-TAAAAAAAATAAT
169646 AAAATAATAAAAATAAAGAAAAATAAT
1 AAAA-AATAAAAATAAA-AAAAATAAT
169673 AAAAAATCAAAAGATAAAAAAA
1 AAAAAAT-AAAA-ATAAAAAAA
169695 GAAGACAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
26 7 0.16
27 25 0.57
28 11 0.25
29 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.16
Consensus pattern (25 bp):
AAAAAATAAAAATAAAAAAAATAAT
Found at i:169685 original size:22 final size:20
Alignment explanation
Indices: 169624--169691 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 20
169614 AAGAAAAAAC
169624 ATAAAA-AAGTAAAAATAATA-
1 ATAAAATAA-TAAAAATAA-AG
169644 ATAAAATAATAAAAATAAAG
1 ATAAAATAATAAAAATAAAG
169664 A-AAAATAATAAAAAATCAAAAG
1 ATAAAATAAT-AAAAAT--AAAG
169686 ATAAAA
1 ATAAAA
169692 AAAGAAGACA
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
19 9 0.21
20 22 0.52
21 2 0.05
22 5 0.12
23 4 0.10
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (20 bp):
ATAAAATAATAAAAATAAAG
Found at i:169691 original size:7 final size:7
Alignment explanation
Indices: 169618--169743 Score: 55
Period size: 7 Copynumber: 17.4 Consensus size: 7
169608 AAATCAAAGA
169618 AAAAACAT
1 AAAAA-AT
169626 AAAAAAGT
1 AAAAAA-T
169634 -AAAAAT
1 AAAAAAT
*
169640 -AATAAT
1 AAAAAAT
169646 AAAATAAT
1 AAAA-AAT
169654 -AAAAAT
1 AAAAAAT
*
169660 AAAGAA-
1 AAAAAAT
*
169666 AAATAAT
1 AAAAAAT
169673 AAAAAAT
1 AAAAAAT
*
169680 CAAAAGAT
1 -AAAAAAT
*
169688 AAAAAAAG
1 -AAAAAAT
169696 AAGACAAAT
1 AA-A-AAAT
* *
169705 AAAATAG
1 AAAAAAT
*
169712 AAATAAT
1 AAAAAAT
169719 AAATTAAAT
1 AAA--AAAT
*
169728 -AATAAT
1 AAAAAAT
169734 AAAAAAT
1 AAAAAAT
169741 AAA
1 AAA
169744 TCAAAGGAGA
Statistics
Matches: 89, Mismatches: 18, Indels: 23
0.68 0.14 0.18
Matches are distributed among these distances:
6 17 0.19
7 40 0.45
8 24 0.27
9 8 0.09
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:169721 original size:65 final size:65
Alignment explanation
Indices: 169636--169757 Score: 158
Period size: 65 Copynumber: 1.9 Consensus size: 65
169626 AAAAAAGTAA
* *
169636 AAATAATAATAAAATAATAAAAATAAAGAAAAATAATAAA-AAATCAAAAGATAAAAAAAGAAGA
1 AAATAATAATAAAATAAT-AAAATAAAGAAAAATAAAAAATAAATCAAAAGAGAAAAAAAGAAGA
169700 C
65 C
* * * *
169701 AAATAA-AATAGAAATAATAAATTAAATAATAATAAAAAATAAATCAAAGGAGAAAAA
1 AAATAATAATA-AAATAATAAAATAAAGAAAAATAAAAAATAAATCAAAAGAGAAAAA
169758 GATTAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
64 21 0.43
65 28 0.57
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (65 bp):
AAATAATAATAAAATAATAAAATAAAGAAAAATAAAAAATAAATCAAAAGAGAAAAAAAGAAGAC
Found at i:169770 original size:65 final size:62
Alignment explanation
Indices: 169626--169790 Score: 142
Period size: 65 Copynumber: 2.6 Consensus size: 62
169616 GAAAAAACAT
* * *
169626 AAAA-AAGTAAAAATAATAATAAAATAATAAAAATAAAGAAAAATAATAAAAAATCAAAAGATAA
1 AAAAGAAG-AAAAATAA-AATAAAATAAT--AAATAAATAAAAATAAAAAAAAATCAAAAGAGAA
169690 A
62 A
* * *
169691 AAAAGAAGACAAATAAAATAGAAATAATAAATTAAATAATAATAAAAAATAAATCAAAGGAGAAA
1 AAAAGAAGAAAAATAAAATA-AAATAATAAA-TAAATAAAAATAAAAAA-AAATCAAAAGAGAAA
** *
169756 AAGATTAA-AAAAAT-AGAT-AAA-AATAAATAAATAAA
1 AA-AAGAAGAAAAATAAAATAAAATAATAAATAAATAAA
169791 TCAAAGAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
60 7 0.08
61 6 0.07
62 3 0.04
63 3 0.04
64 21 0.25
65 38 0.45
66 6 0.07
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.18
Consensus pattern (62 bp):
AAAAGAAGAAAAATAAAATAAAATAATAAATAAATAAAAATAAAAAAAAATCAAAAGAGAAA
Found at i:169842 original size:11 final size:11
Alignment explanation
Indices: 169634--169678 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
169624 ATAAAAAAGT
169634 AAAAATAATAA
1 AAAAATAATAA
*
169645 TAAAATAAT--
1 AAAAATAATAA
*
169654 AAAAATAA-AG
1 AAAAATAATAA
169664 AAAAATAATAA
1 AAAAATAATAA
169675 AAAA
1 AAAA
169679 TCAAAAGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 7 0.25
10 8 0.29
11 13 0.46
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:171680 original size:85 final size:85
Alignment explanation
Indices: 171487--172684 Score: 1325
Period size: 85 Copynumber: 14.1 Consensus size: 85
171477 AAGCTAAGCA
* * * * *
171487 GTAAATTTGATATGCCCTTGAGCTGAATCG-AATCGAACTCGAAGGGTTTTTTTTGTTCACAAAT
1 GTAAATTTGATATGCCTTTGAGCTGAAT-GTAATCGAACTCGAA-GG---TCTTGGTTGACAGAT
* *
171551 AGCTCTTCTCGCCTTGAGCTATGTT
61 AACCCTTCTCGCCTTGAGCTATGTT
** * * ** * *
171576 GCGAATTTGATATGTCTTTGAGTTGAATGTAATCGAACTCGAAGGTCTTTATTGACATATAAACC
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCC
*
171641 TTCTCGCCTTGAGTTATGTT
66 TTCTCGCCTTGAGCTATGTT
* * * ** *
171661 GTAAAGTTGATATGCCTTTGAGTTGAATGTAATCAAACTCGAAGGTCTTTATTGACAGAT-AGCC
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCC
171725 --CTCGCCTTGAGCTATGTT
66 TTCTCGCCTTGAGCTATGTT
* * *
171743 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGATGGTCTTGGTCGACAGATAACCC
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCC
* *
171808 TTCTCTCCTTGAGTTATGTT
66 TTCTCGCCTTGAGCTATGTT
* * *
171828 GTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGCTGACAGATAACCC
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCC
**
171893 TTCTTACCTTGAGCTATGCTT
66 TTCTCGCCTTGAGCTATG-TT
* * ** *
171914 -TAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTATTTTATTGACAGATAGCC
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGT-CTTGGTTGACAGATAACC
171978 CTTCTCGCCTTGAGCTATGTT
65 CTTCTCGCCTTGAGCTATGTT
* * *
171999 GTAAATTTGATGA-GCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCATGGTT-ACAGATAACC
1 GTAAATTTGAT-ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACC
* *
172062 CTTCTCGCCTTGAGTTATGCT
65 CTTCTCGCCTTGAGCTATGTT
* * * * ** * *
172083 GTAAATTTGATGTGCCTTTGAGTTGAGTGTAATCAAACTCGAAGGTCTTTATTGACAGATAGCCT
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCC
* * * *
172148 TTATCTCCTTGAGTTATGCT
66 TTCTCGCCTTGAGCTATGTT
* * * * *
172168 GCAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTATTTTGTTGACAGATAGCC
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGT-CTTGGTTGACAGATAACC
* *
172233 CTTCTCGCCTTGAACTATGCT
65 CTTCTCGCCTTGAGCTATGTT
* * * * ** * * *
172254 GTAAATTTTATGTGTCTTTTAGCTGAGCGTAATCGAACTCGAAAGTCTTGGTTAACAGATAGCCC
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCC
*
172319 TTCTCGCCTTGAGCTATGCT
66 TTCTCGCCTTGAGCTATGTT
** * * * * * *
172339 ACAAATTTGATGTTCCTTTGAGTTGAATGTAATCGAACTCAAAGGTCTTGGTTGACATATATCCC
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCC
*
172404 TTCTCTCCTTGAGCTATGTT
66 TTCTCGCCTTGAGCTATGTT
* * * * * *
172424 GCAAGTTTGATATGCATTTGAGCTGAATGTAATCGAGCTCGAAGGTCTTTTGTTGACAGATAGCC
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAACC
*
172489 CTTCTCGCCTTGAGCTATGCT
65 CTTCTCGCCTTGAGCTATGTT
* ** * * *
172510 GCAAATTTGAGGTGTCGTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCC
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCC
* * *
172575 TTCTCACCTTGAG-TTTGCT
66 TTCTCGCCTTGAGCTATGTT
* * * *
172594 GTAAATTTGATATGTCTTTGAGCTAAATGTAATCGATCAT-GATGGTCTTGGTTGACAGATAACC
1 GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAAC-TCGAAGGTCTTGGTTGACAGATAACC
*
172658 CTTCTCGCCTTGAGTTATGTT
65 CTTCTCGCCTTGAGCTATGTT
172679 GTAAAT
1 GTAAAT
172685 AGTTCCTTTA
Statistics
Matches: 957, Mismatches: 138, Indels: 32
0.85 0.12 0.03
Matches are distributed among these distances:
82 71 0.07
83 3 0.00
84 150 0.16
85 477 0.50
86 217 0.23
88 3 0.00
89 36 0.04
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.36
Consensus pattern (85 bp):
GTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCC
TTCTCGCCTTGAGCTATGTT
Found at i:172021 original size:171 final size:170
Alignment explanation
Indices: 171487--172684 Score: 1363
Period size: 171 Copynumber: 7.0 Consensus size: 170
171477 AAGCTAAGCA
* * * * * *
171487 GTAAATTTGATATGCCCTTGAGCTGAATCG-AATCGAACTCGAAGGGTTTTTTTTGTTCACAAAT
1 GTAAATTTGATGTGCCTTTGAGCTGAAT-GTAATCGAACTCGAA-GG---TCTTGGTTGACAGAT
* ** * *
171551 AGCTCTTCTCGCCTTGAGCTATG-TTGCGAATTTGATATGTCTTTGAGTTGAATGTAATCGAACT
61 AGCCCTTCTCGCCTTGAGCTATGCTT-TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACT
* * **
171615 CGAAGGTCTTTATTGACATATAAACCTTCTCGCCTTGAGTTATGTT
125 CGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGTT
* * * * **
171661 GTAAAGTTGATATGCCTTTGAGTTGAATGTAATCAAACTCGAAGGTCTTTATTGACAGATAG-CC
1 GTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCC
* *
171725 --CTCGCCTTGAGCTATG-TTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCAAACTCGATG
66 TTCTCGCCTTGAGCTATGCTT-TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAG
* * * *
171787 GTCTTGGTCGACAGATAACCCTTCTCTCCTTGAGTTATGTT
130 GTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGTT
* * *
171828 GTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGCTGACAGATAACCC
1 GTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCC
** *
171893 TTCTTACCTTGAGCTATGCTTTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
66 TTCTCGCCTTGAGCTATGCTTTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
* * *
171958 TATTTTATTGACAGATAGCCCTTCTCGCCTTGAGCTATGTT
131 T-CTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGTT
* * * * *
171999 GTAAATTTGATGAGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCATGGTT-ACAGATAACCC
1 GTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCC
* * * * * *
172063 TTCTCGCCTTGAGTTATGCTGTAAATTTGATGTGCCTTTGAGTTGAGTGTAATCAAACTCGAAGG
66 TTCTCGCCTTGAGCTATGCTTTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
* * * * *
172128 TCTTTATTGACAGATAGCCTTTATCTCCTTGAGTTATGCT
131 TCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGTT
* * *
172168 GCAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTATTTTGTTGACAGATAGCC
1 GTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGT-CTTGGTTGACAGATAGCC
* * * * * * ** *
172233 CTTCTCGCCTTGAACTATGCTGTAAATTTTATGTGTCTTTTAGCTGAGCGTAATCGAACTCGAAA
65 CTTCTCGCCTTGAGCTATGCTTTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAG
* * * *
172298 GTCTTGGTTAACAGATAGCCCTTCTCGCCTTGAGCTATGCT
130 GTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGTT
** * * * * *
172339 ACAAATTTGATGTTCCTTTGAGTTGAATGTAATCGAACTCAAAGGTCTTGGTTGACATATATCCC
1 GTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCC
* * * * *
172404 TTCTCTCCTTGAGCTATG-TTGCAAGTTTGATATGCATTTGAGCTGAATGTAATCGAGCTCGAAG
66 TTCTCGCCTTGAGCTATGCTT-TAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAG
* *
172468 GTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCT
130 GTC-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGTT
* * * *
172510 GCAAATTTGAGGTGTCGTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCC
1 GTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCC
* * * * * * *
172575 TTCTCACCTTGAG-TTTGCTGTAAATTTGATATGTCTTTGAGCTAAATGTAATCGATCAT-GATG
66 TTCTCGCCTTGAGCTATGCTTTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAAC-TCGAAG
* *
172638 GTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTT
130 GTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGTT
172679 GTAAAT
1 GTAAAT
172685 AGTTCCTTTA
Statistics
Matches: 881, Mismatches: 131, Indels: 29
0.85 0.13 0.03
Matches are distributed among these distances:
167 144 0.16
168 2 0.00
169 116 0.13
170 249 0.28
171 330 0.37
173 3 0.00
174 37 0.04
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.36
Consensus pattern (170 bp):
GTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCC
TTCTCGCCTTGAGCTATGCTTTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
TCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGTTATGTT
Found at i:172627 original size:511 final size:506
Alignment explanation
Indices: 171555--172676 Score: 1478
Period size: 511 Copynumber: 2.2 Consensus size: 506
171545 ACAAATAGCT
* * * **
171555 CTTCTCGCCTTGAGCTATGTTGCGAATTTGATATGTCTTTGAGTTGAATGTAATCGAACTCGAAG
1 CTTCTCACCTTGAGTTATGCTGTAAATTTGATATGTCTTTGAGTTGAATGTAATCGAACTCGAAG
* * * *
171620 GTCTTTATTGACATATAAACCTTCTCGCCTTGAGTTATGTTGTAAAGTTGATATGCCTTTGAGTT
66 GTCTTTATTGACAGAT-AACCTTCTCGCCTTGAGTTATGCTGCAAAGTTGATATGCCTTTGAGCT
* *
171685 GAATGTAATCAAACTCGAAGGTCTTTATTGACAGATAGCCCTCGCCTTGAGCTATGTTGTAAATT
130 GAATGTAATCAAACTCGAAGGTCTTTATTGACAGATAGCCCTCGCCTTGAACTATGCTGTAAATT
* ** * *
171750 TGATATGCCTTTGAGCTGAATGTAATCAAACTCGATGGTCTTGGTCGACAGATAACCCTTCTCTC
195 TGATATGCCTTTGAGCTGAACGTAATCAAACTCGAAAGTCTTGGTCAACAGATAACCCTTCTCGC
* * ** * *
171815 CTTGAGTTATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGC
260 CTTGAGCTATGCTACAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTTGGC
* * *
171880 TGACAGATAACCCTTCTTACCTTGAGCTATGCTTTAAATTTGATGTGCCTTTGAGCTGAATGTAA
325 TGACAGATAACCCTTCTTACCTTGAGCTATGCTTCAAATTTGATATGCATTTGAGCTGAATGTAA
* * *
171945 TCGAACTCGAAGGTATTTTATTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGAT
390 TCGAACTCGAAGGTATTTTATTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATTTGAG
* *
172010 GAGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCATGGTTACAGATAACC
455 GAGCCGTTGAGCTGAATGTAATCAAACTCGAAGGTCATGGTTACAGATAACC
* * * * *
172062 CTTCTCGCCTTGAGTTATGCTGTAAATTTGATGTGCCTTTGAGTTGAGTGTAATCAAACTCGAAG
1 CTTCTCACCTTGAGTTATGCTGTAAATTTGATATGTCTTTGAGTTGAATGTAATCGAACTCGAAG
* * * * *
172127 GTCTTTATTGACAGATAGCCTTTATCTCCTTGAGTTATGCTGCAAATTTGATGTGCCTTTGAGCT
66 GTCTTTATTGACAGATAACC-TTCTCGCCTTGAGTTATGCTGCAAAGTTGATATGCCTTTGAGCT
* * *
172192 GAATGTAATCGAACTCGAAGGTATTTTGTTGACAGATAGCCCTTCTCGCCTTGAACTATGCTGTA
130 GAATGTAATCAAACTCGAAGGT-CTTTATTGACAGATAG-CC--CTCGCCTTGAACTATGCTGTA
* * * * * * * *
172257 AATTTTATGTGTCTTTTAGCTGAGCGTAATCGAACTCGAAAGTCTTGGTTAACAGATAGCCCTTC
191 AATTTGATATGCCTTTGAGCTGAACGTAATCAAACTCGAAAGTCTTGGTCAACAGATAACCCTTC
* *
172322 TCGCCTTGAGCTATGCTACAAATTTGATGTTCCTTTGAGTTGAATGTAATCGAACTCAAAGGTCT
256 TCGCCTTGAGCTATGCTACAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCAAAGGTCT
* * * *
172387 TGGTTGACATATATCCCTTCTCT-CCTTGAGCTATG-TTGCAAGTTTGATATGCATTTGAGCTGA
321 TGGCTGACAGATAACCCTTCT-TACCTTGAGCTATGCTT-CAAATTTGATATGCATTTGAGCTGA
* * *
172450 ATGTAATCGAGCTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAA
384 ATGTAATCGAACTCGAAGGTATTTTATTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAA
* * * * *
172515 TTTGAGGTGTCGTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCC
449 TTTGAGGAGCCGTTGAGCTGAATGTAATCAAACTCGAAGGTCATGGTT-ACAGATAACC
* * * *
172574 CTTCTCACCTTGAGTT-TGCTGTAAATTTGATATGTCTTTGAGCTAAATGTAATCGATCAT-GAT
1 CTTCTCACCTTGAGTTATGCTGTAAATTTGATATGTCTTTGAGTTGAATGTAATCGAAC-TCGAA
**
172637 GGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
65 GGTCTTTATTGACAGATAA-CCTTCTCGCCTTGAGTTATG
172677 TTGTAAATAG
Statistics
Matches: 528, Mismatches: 77, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
506 3 0.01
507 130 0.25
508 14 0.03
509 2 0.00
510 2 0.00
511 349 0.66
512 28 0.05
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (506 bp):
CTTCTCACCTTGAGTTATGCTGTAAATTTGATATGTCTTTGAGTTGAATGTAATCGAACTCGAAG
GTCTTTATTGACAGATAACCTTCTCGCCTTGAGTTATGCTGCAAAGTTGATATGCCTTTGAGCTG
AATGTAATCAAACTCGAAGGTCTTTATTGACAGATAGCCCTCGCCTTGAACTATGCTGTAAATTT
GATATGCCTTTGAGCTGAACGTAATCAAACTCGAAAGTCTTGGTCAACAGATAACCCTTCTCGCC
TTGAGCTATGCTACAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTTGGCT
GACAGATAACCCTTCTTACCTTGAGCTATGCTTCAAATTTGATATGCATTTGAGCTGAATGTAAT
CGAACTCGAAGGTATTTTATTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATTTGAGG
AGCCGTTGAGCTGAATGTAATCAAACTCGAAGGTCATGGTTACAGATAACC
Found at i:174041 original size:88 final size:86
Alignment explanation
Indices: 173892--174069 Score: 293
Period size: 88 Copynumber: 2.0 Consensus size: 86
173882 TATATATATA
* * *
173892 TATTATAATCACCTTTATCAAGCTAGCTGAATATTATCCATAAAGTCGGGGCGTTTAACCAATTG
1 TATTATAATCACCTTTATCAAGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTCAACCAATTG
173957 CTCTAGAGGGACAACTCAAGCTT
66 --CTAGAGGGACAACTCAAGCTT
*
173980 TATTATAATCACCTTTATCAAGCTAGCTGAATCTTATCCATAAAGCCAGGGCGTTCAACCAATTG
1 TATTATAATCACCTTTATCAAGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTCAACCAATTG
*
174045 CTAGAGGGACAGCTCAAGCTT
66 CTAGAGGGACAACTCAAGCTT
174066 TATT
1 TATT
174070 GTATATATAT
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
86 24 0.28
88 61 0.72
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (86 bp):
TATTATAATCACCTTTATCAAGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTCAACCAATTG
CTAGAGGGACAACTCAAGCTT
Found at i:176678 original size:3 final size:3
Alignment explanation
Indices: 176670--176731 Score: 88
Period size: 3 Copynumber: 20.0 Consensus size: 3
176660 AAAATAAAAG
* *
176670 TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA CAA TAAA GAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
176717 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
176732 ATCAAAAGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
3 48 0.91
4 5 0.09
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:176740 original size:25 final size:23
Alignment explanation
Indices: 176656--176733 Score: 97
Period size: 22 Copynumber: 3.4 Consensus size: 23
176646 AAGAAAAAAC
*
176656 ATAAAAAATAAAAGTAATAATAATA
1 ATAATAAAT-AAAG-AATAATAATA
*
176681 ATAATAAAT-AATAATAATAATA
1 ATAATAAATAAAGAATAATAATA
*
176703 ATAA-CAATAAAGAATAATAATA
1 ATAATAAATAAAGAATAATAATA
176725 ATAATAAAT
1 ATAATAAAT
176734 CAAAAGATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
21 3 0.07
22 30 0.65
23 5 0.11
25 8 0.17
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (23 bp):
ATAATAAATAAAGAATAATAATA
Found at i:177013 original size:13 final size:12
Alignment explanation
Indices: 176991--177033 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
176981 AAATCAAAGG
176991 AAAAAAAGATAA
1 AAAAAAAGATAA
177003 AAAAAATAGATAA
1 AAAAAA-AGATAA
177016 TAAAATAAA-ATAA
1 -AAAA-AAAGATAA
177029 AAAAA
1 AAAAA
177034 TCAATCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
11 1 0.04
12 10 0.36
13 10 0.36
14 5 0.18
15 2 0.07
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAAAAAGATAA
Found at i:177083 original size:35 final size:34
Alignment explanation
Indices: 177018--177096 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 34
177008 ATAGATAATA
* *
177018 AAATAAAATAAAAAAATCAATCAAAGAAAAACAT
1 AAATAAAATAAAAAAATCAATCAAAAAAAAAAAT
177052 GAAATAAAATAAAAAAAT-AAT-AATACAAAAAAAAT
1 -AAATAAAATAAAAAAATCAATCAA-A-AAAAAAAAT
*
177087 AAAAAAAATA
1 AAATAAAATA
177097 TTAAATAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
33 2 0.05
34 13 0.33
35 24 0.62
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (34 bp):
AAATAAAATAAAAAAATCAATCAAAAAAAAAAAT
Found at i:181904 original size:16 final size:17
Alignment explanation
Indices: 181883--181915 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
181873 TTGTTTTACT
181883 TAAATTTTA-TTTCTTC
1 TAAATTTTACTTTCTTC
181899 TAAATTTTACTTTCTTC
1 TAAATTTTACTTTCTTC
181916 AATTTCCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (17 bp):
TAAATTTTACTTTCTTC
Found at i:182163 original size:29 final size:29
Alignment explanation
Indices: 182117--182173 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
182107 ATTTGACAGT
182117 AAACGGTGGTGGAACCAAGCCCATGCAGC
1 AAACGGTGGTGGAACCAAGCCCATGCAGC
*
182146 AAACGGTGGTGGAGCCAAGCCCATGCAG
1 AAACGGTGGTGGAACCAAGCCCATGCAG
182174 GATGTTAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.33, T:0.11
Consensus pattern (29 bp):
AAACGGTGGTGGAACCAAGCCCATGCAGC
Found at i:185906 original size:24 final size:25
Alignment explanation
Indices: 185876--185940 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
185866 ACCCATTAGT
185876 ACTAATAC-GAGAGTGCAGAATTT-C
1 ACTAATACAGA-AGTGCAGAATTTGC
* *
185900 ACTAATACAGAAGTAC-GTATTTGC
1 ACTAATACAGAAGTGCAGAATTTGC
185924 ACTAATACAGAAGTGCA
1 ACTAATACAGAAGTGCA
185941 CGAAGGCACT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 5 0.14
24 28 0.80
25 2 0.06
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (25 bp):
ACTAATACAGAAGTGCAGAATTTGC
Found at i:185985 original size:24 final size:22
Alignment explanation
Indices: 185822--185985 Score: 58
Period size: 24 Copynumber: 6.8 Consensus size: 22
185812 CAAGTGCAAG
* *
185822 ATTGCACTGATACATGAGTGCAC
1 ATTGCACTAATACA-GAGTACAC
* * *
185845 AGATGCACTAATAACATAAGTACCC
1 A-TTGCACTAAT-ACA-GAGTACAC
* * *
185870 ATTAGTACTAATACGAGAGTGCAGA
1 ATT-GCACTAATAC-AGAGTACA-C
* **
185895 ATTTCACTAATACAGAAGTACGT
1 ATTGCACTAATACAG-AGTACAC
*
185918 ATTTGCACTAATACAGAAGTGCAC
1 A-TTGCACTAATACAG-AGTACAC
** * *
185942 GAAGGCACTTATATAGGAGTACAC
1 -ATTGCACTAATACA-GAGTACAC
185966 ACTTGCACTAATACATGAGT
1 A-TTGCACTAATACA-GAGT
185986 GCATGTTTCC
Statistics
Matches: 101, Mismatches: 30, Indels: 19
0.67 0.20 0.13
Matches are distributed among these distances:
23 5 0.05
24 73 0.72
25 23 0.23
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (22 bp):
ATTGCACTAATACAGAGTACAC
Found at i:192350 original size:27 final size:27
Alignment explanation
Indices: 192283--192335 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
192273 TGGATAACAT
192283 AAAAAATAACAAAGAAATAAGAGACAC
1 AAAAAATAACAAAGAAATAAGAGACAC
192310 AAAAAATAACAAAGAAATAAGAGACA
1 AAAAAATAACAAAGAAATAAGAGACA
192336 TAAAGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.72, C:0.09, G:0.11, T:0.08
Consensus pattern (27 bp):
AAAAAATAACAAAGAAATAAGAGACAC
Found at i:193527 original size:17 final size:17
Alignment explanation
Indices: 193444--193531 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 17
193434 AATAGGGACC
*
193444 GAAAAGGTTAGGGAAGCA
1 GAAAAGGTTAGGGAA-AA
*
193462 GAAAAGGTTGGGGAAAA
1 GAAAAGGTTAGGGAAAA
*
193479 TAAAAGGTGAGATCAGCGGAAAACA
1 GAAAAGGT----T-AG-GG-AAA-A
193504 GAAAAGGTTAGGGAAAA
1 GAAAAGGTTAGGGAAAA
*
193521 TAAAAGGTTAG
1 GAAAAGGTTAG
193532 ATCGAGTTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
17 19 0.34
18 17 0.30
19 2 0.04
20 2 0.04
21 2 0.04
22 1 0.02
23 2 0.04
24 3 0.05
25 8 0.14
ACGTcount: A:0.48, C:0.05, G:0.34, T:0.14
Consensus pattern (17 bp):
GAAAAGGTTAGGGAAAA
Found at i:193764 original size:83 final size:83
Alignment explanation
Indices: 193654--193840 Score: 227
Period size: 83 Copynumber: 2.3 Consensus size: 83
193644 CGTTTGTTAT
* * * * *
193654 AAAACGCCACTATATATGAACCCTATTGTGGCATTTGTATAAAAATC-CCGCTAAAGTACTACT-
1 AAAAAGCCACTATAGATGAACCCTATTGTGACATTTGTAT-AAAAGCGCCACTAAAGTACTACTC
*
193717 TTATTGAGACATTTGTTGAA
65 TT-TTGAGACATTTATTGAA
*
193737 AAAATA-CCACTATAGATGAATCCTATTGTGACATTTGTATAAAAGCGCCACTAAAGTACTACTC
1 AAAA-AGCCACTATAGATGAACCCTATTGTGACATTTGTATAAAAGCGCCACTAAAGTACTACTC
* ***
193801 TTTTGCGGTGTTTATTGAA
65 TTTTGAGACATTTATTGAA
193820 AAAAAGCCACTATAGATGAAC
1 AAAAAGCCACTATAGATGAAC
193841 TTTATTGCGG
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
82 6 0.07
83 80 0.91
84 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (83 bp):
AAAAAGCCACTATAGATGAACCCTATTGTGACATTTGTATAAAAGCGCCACTAAAGTACTACTCT
TTTGAGACATTTATTGAA
Found at i:197165 original size:12 final size:12
Alignment explanation
Indices: 197150--197174 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
197140 TTTTATTTTC
197150 TCTTTTTTTCTT
1 TCTTTTTTTCTT
197162 TCTTTTTTTCTT
1 TCTTTTTTTCTT
197174 T
1 T
197175 TTTCCTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TCTTTTTTTCTT
Found at i:197173 original size:20 final size:20
Alignment explanation
Indices: 197145--197182 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
197135 CCCTTTTTTA
*
197145 TTTTCTCTTTTTTTCTTTCT
1 TTTTCTCTTTTTTCCTTTCT
*
197165 TTTTTTCTTTTTTCCTTT
1 TTTTCTCTTTTTTCCTTT
197183 TCTTCAAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTCTCTTTTTTCCTTTCT
Found at i:197183 original size:14 final size:14
Alignment explanation
Indices: 197137--197183 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
197127 GCAAGATCCC
*
197137 CTTTTTTATTTTCT
1 CTTTTTTTTTTTCT
*
197151 CTTTTTTTCTTTCT
1 CTTTTTTTTTTTCT
*
197165 TTTTTTCTTTTTTC-
1 CTTTTT-TTTTTTCT
197179 CTTTT
1 CTTTT
197184 CTTCAAGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 21 0.78
15 6 0.22
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTTTTTTTTTCT
Found at i:206998 original size:14 final size:15
Alignment explanation
Indices: 206963--206991 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
206953 TAATAGTAAT
206963 ATTAAAAGTATTAAA
1 ATTAAAAGTATTAAA
206978 ATTAAAAG-ATTAAA
1 ATTAAAAGTATTAAA
206992 TTGAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
ATTAAAAGTATTAAA
Found at i:207416 original size:29 final size:29
Alignment explanation
Indices: 207381--207530 Score: 282
Period size: 29 Copynumber: 5.2 Consensus size: 29
207371 CCTCTCTTGG
207381 CTTCTATCTCTTAGAGAGAGAAGTTCTCC
1 CTTCTATCTCTTAGAGAGAGAAGTTCTCC
*
207410 ATTCTATCTCTTAGAGAGAGAAGTTCTCC
1 CTTCTATCTCTTAGAGAGAGAAGTTCTCC
*
207439 ATTCTATCTCTTAGAGAGAGAAGTTCTCC
1 CTTCTATCTCTTAGAGAGAGAAGTTCTCC
207468 CTTCTATCTCTTAGAGAGAGAAGTTCTCC
1 CTTCTATCTCTTAGAGAGAGAAGTTCTCC
207497 CTTCTATCTCTTAGAGAGAGAAGTTCTCC
1 CTTCTATCTCTTAGAGAGAGAAGTTCTCC
207526 CTTCT
1 CTTCT
207531 CTCTAAGTTT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 119 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (29 bp):
CTTCTATCTCTTAGAGAGAGAAGTTCTCC
Found at i:208362 original size:3 final size:3
Alignment explanation
Indices: 208356--208396 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
208346 GTATTATTTG
* * *
208356 TAA TAA TAA TAA TAA TAA TAA TAA TGA TGA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
208397 GGATTGGGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:210058 original size:2 final size:2
Alignment explanation
Indices: 210051--210077 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
210041 TTTTTATAAT
210051 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
210078 TTTAAATCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:210846 original size:13 final size:13
Alignment explanation
Indices: 210828--210855 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
210818 ATATACTTTA
210828 TAATATAAAATTT
1 TAATATAAAATTT
210841 TAATATAAAATTT
1 TAATATAAAATTT
210854 TA
1 TA
210856 CGTTATTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATATAAAATTT
Found at i:218069 original size:2 final size:2
Alignment explanation
Indices: 218062--218094 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
218052 AGTTAGGTTA
218062 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
218095 AATTTTACGT
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:218126 original size:16 final size:16
Alignment explanation
Indices: 218105--218151 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
218095 AATTTTACGT
218105 TTTAAATTTATTTATA
1 TTTAAATTTATTTATA
*
218121 TTTAAAATTATTT-TA
1 TTTAAATTTATTTATA
*
218136 TAT-AATTTAATTTATA
1 TTTAAATTT-ATTTATA
218152 ATATAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 14 0.54
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAAATTTATTTATA
Found at i:218284 original size:27 final size:27
Alignment explanation
Indices: 218253--218305 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
218243 AGAAAATAAC
218253 TTTATTAATCTAATAATTATAATTAAA
1 TTTATTAATCTAATAATTATAATTAAA
*
218280 TTTATTAATCTAATGATTATAATTAA
1 TTTATTAATCTAATAATTATAATTAA
218306 TAAATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (27 bp):
TTTATTAATCTAATAATTATAATTAAA
Found at i:218312 original size:14 final size:14
Alignment explanation
Indices: 218258--218313 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
218248 ATAACTTTAT
218258 TAATCTAATAATTA
1 TAATCTAATAATTA
*
218272 TAAT-TAA-ATTTA
1 TAATCTAATAATTA
*
218284 TTAATCTAATGATTA
1 -TAATCTAATAATTA
218299 TAAT-TAATAAATTA
1 TAATCTAAT-AATTA
218313 T
1 T
218314 TTTAAATTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 4 0.12
13 11 0.32
14 16 0.47
15 3 0.09
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (14 bp):
TAATCTAATAATTA
Found at i:219326 original size:3 final size:3
Alignment explanation
Indices: 219318--219346 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
219308 ATCCCTCCTT
219318 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
219347 ACAAGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Done.